Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012894.1 Kokia drynarioides strain JFW-HI SEQ_127908, 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: 72657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 9 characters in sequence are not A, C, G, or T
Found at i:701 original size:23 final size:24
Alignment explanation
Indices: 671--715 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
661 ATTGGTTTTC
671 AATTTA-TTTTAAATTAAAATTAA
1 AATTTATTTTTAAATTAAAATTAA
*
694 AATTTATTTTTAAATTTAAATT
1 AATTTATTTTTAAATTAAAATT
716 TGTTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTATTTTTAAATTAAAATTAA
Found at i:708 original size:18 final size:17
Alignment explanation
Indices: 687--749 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
677 TTTTAAATTA
*
687 AAATTAAAATTTATTTTT
1 AAATTTAAATTTA-TTTT
*
705 AAATTTAAATTTGTTTT
1 AAATTTAAATTTATTTT
*
722 AAATTTAAATTTAGTTT
1 AAATTTAAATTTATTTT
739 AAATTTGAAAT
1 AAATTT-AAAT
750 GGTTTTAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 25 0.62
18 15 0.38
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
AAATTTAAATTTATTTT
Found at i:711 original size:6 final size:6
Alignment explanation
Indices: 678--749 Score: 58
Period size: 6 Copynumber: 12.2 Consensus size: 6
668 TTCAATTTAT
* * ** **
678 TTTAAA TTAAAA TTAAAA TTTATT TTTAAA TTTAAA TTT-GT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
725 TTTAAA TTT-AG TTTAAA TTTGAAA T
1 TTTAAA TTTAAA TTTAAA TTT-AAA T
750 GGTTTTAAAC
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
5 7 0.14
6 40 0.78
7 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:755 original size:34 final size:35
Alignment explanation
Indices: 687--768 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 35
677 TTTTAAATTA
* * *
687 AAATTAAAATTTATTTTTAAATTTAAATTTGTTTT
1 AAATTTAAATTTATGTTTAAATTTAAATTGGTTTT
722 AAATTTAAATTTA-GTTTAAATTTGAAA-TGGTTTT
1 AAATTTAAATTTATGTTTAAATTT-AAATTGGTTTT
* *
756 AAACTTAATTTTA
1 AAATTTAAATTTA
769 AAATTTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 26 0.63
35 15 0.37
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.52
Consensus pattern (35 bp):
AAATTTAAATTTATGTTTAAATTTAAATTGGTTTT
Found at i:756 original size:17 final size:15
Alignment explanation
Indices: 701--776 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 15
691 TAAAATTTAT
701 TTTTAAATTTAAATTTG
1 TTTTAAATTTAAA--TG
*
718 TTTTAAATTTAAATT
1 TTTTAAATTTAAATG
733 TAGTTTAAATTTGAAATGG
1 T--TTTAAATTT-AAAT-G
*
752 TTTTAAACTT-AAT-
1 TTTTAAATTTAAATG
*
765 TTTAAAATTTAA
1 TTTTAAATTTAA
777 TTTAAAAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
13 8 0.16
14 1 0.02
15 5 0.10
17 30 0.61
18 4 0.08
19 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTTAAATTTAAATG
Found at i:844 original size:40 final size:40
Alignment explanation
Indices: 800--875 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
790 AAATAAAAAA
*
800 AAGGCCCAATTACAGGTTTAACTAGACAAACCCAAACACT
1 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAACACT
*
840 AAGGCCCAATTACAAGTTTAACTAGACAGACCCAAA
1 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAA
876 ACCTGACCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.17
Consensus pattern (40 bp):
AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAACACT
Found at i:2431 original size:30 final size:30
Alignment explanation
Indices: 2362--2431 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
2352 GGTCCTTAAA
* *
2362 TTTTCCAAAA-TATGATTTGACCCCCAAAC
1 TTTTCCAAAATTATAATTTAACCCCCAAAC
* * *
2391 -TTTCTAAAAATTATAATTTAACCCCTACAC
1 TTTTC-CAAAATTATAATTTAACCCCCAAAC
2421 TTTTCCAAAAT
1 TTTTCCAAAAT
2432 CACATATTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 4 0.12
29 4 0.12
30 20 0.62
31 4 0.12
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTTCCAAAATTATAATTTAACCCCCAAAC
Found at i:2458 original size:29 final size:29
Alignment explanation
Indices: 2426--2600 Score: 178
Period size: 30 Copynumber: 5.9 Consensus size: 29
2416 TACACTTTTC
* * * *
2426 CAAAATCACATATTGACCCTTGAACTTCA
1 CAAAATTACATTTTTACCCTCGAACTTCA
*
2455 CAAAAATTACATTTTTACCCTCGAACTTTA
1 C-AAAATTACATTTTTACCCTCGAACTTCA
2485 CAAAATTTACATTTTTACCCTCGAACTTCA
1 CAAAA-TTACATTTTTACCCTCGAACTTCA
* *
2515 CAAAAATTATATTTTTACCATCGAACTTTC-
1 C-AAAATTACATTTTTACCCTCGAAC-TTCA
2545 CAAAAATTACA-TTTTACCCTCGAACTTC-
1 C-AAAATTACATTTTTACCCTCGAACTTCA
* *
2573 CAAAAATATCATTCTTGA-CCTCGAACTT
1 CAAAATTA-CATT-TTTACCCTCGAACTT
2601 TTCAAAAATT
Statistics
Matches: 127, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
27 6 0.05
28 6 0.05
29 29 0.23
30 79 0.62
31 7 0.06
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (29 bp):
CAAAATTACATTTTTACCCTCGAACTTCA
Found at i:2460 original size:60 final size:60
Alignment explanation
Indices: 2396--2579 Score: 180
Period size: 60 Copynumber: 3.1 Consensus size: 60
2386 CAAACTTTCT
* * *
2396 AAAAATTATAATTTAACCC-CTACACTTTTCCAAAA-TCACATATTGACCCTTGAACTTCAC
1 AAAAATTATAATTTAACCCTCGA-AC-TTTACAAAATTCACATATTGACCCTCGAACTTCAC
* * * * * *
2456 AAAAATTACATTTTTACCCTCGAACTTTACAAAATTTACATTTTTACCCTCGAACTTCAC
1 AAAAATTATAATTTAACCCTCGAACTTTACAAAATTCACATATTGACCCTCGAACTTCAC
* * * * *
2516 AAAAATTATATTTTTACCATCGAACTTTCCAAAAATT-ACAT-TTTACCCTCGAACTTC-C
1 AAAAATTATAATTTAACCCTCGAACTTTAC-AAAATTCACATATTGACCCTCGAACTTCAC
2574 AAAAAT
1 AAAAAT
2580 ATCATTCTTG
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
58 7 0.06
59 24 0.22
60 70 0.64
61 8 0.07
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (60 bp):
AAAAATTATAATTTAACCCTCGAACTTTACAAAATTCACATATTGACCCTCGAACTTCAC
Found at i:2475 original size:30 final size:29
Alignment explanation
Indices: 2423--3024 Score: 298
Period size: 29 Copynumber: 20.7 Consensus size: 29
2413 CCCTACACTT
* * * *
2423 TTCC-AAAATCACATATTGACCCTTGAAC
1 TTCCAAAAATTACATTTTTACCCTCGAAC
2451 TTCACAAAAATTACATTTTTACCCTCGAAC
1 TTC-CAAAAATTACATTTTTACCCTCGAAC
* *
2481 TTTACAAAATTTACATTTTTACCCTCGAAC
1 -TTCCAAAAATTACATTTTTACCCTCGAAC
* *
2511 TTCACAAAAATTATATTTTTACCATCGAAC
1 TTC-CAAAAATTACATTTTTACCCTCGAAC
2541 TTTCCAAAAATTACA-TTTTACCCTCGAAC
1 -TTCCAAAAATTACATTTTTACCCTCGAAC
*
2570 TTCCAAAAA-TATCATTCTTGA-CCTCGAAC
1 TTCCAAAAATTA-CATT-TTTACCCTCGAAC
* ** * * *
2599 TTTTCAAAAATTACCGTTTTGCTCTCGAAT
1 -TTCCAAAAATTACATTTTTACCCTCGAAC
* * *
2629 TTCCAAAATTTATC-GTTTT-CCCTCAGAAT
1 TTCCAAAAATTA-CATTTTTACCCTC-GAAC
* * * *
2658 TTCCAAAGATTCCATTTTTGACCAT-AAAC
1 TTCCAAAAATTACATTTTT-ACCCTCGAAC
* * *
2687 TTTCGAAAAATTACCA-TTTTACCCT-TAAA
1 -TTCCAAAAATTA-CATTTTTACCCTCGAAC
* **
2716 TGTCCAAAAATTGCATTTTTTA-CCTTAAAC
1 T-TCCAAAAATTACA-TTTTTACCCTCGAAC
* *
2746 TTTCCAAAAATTACATTTTTACCATTGAAC
1 -TTCCAAAAATTACATTTTTACCCTCGAAC
* * * *
2776 TAT-AAAAAATCACATTTTTACCCCCAAAC
1 T-TCCAAAAATTACATTTTTACCCTCGAAC
* * * * *
2805 TTTCAAAAATGACAATTTTACCCCCAAAC
1 TTCCAAAAATTACATTTTTACCCTCGAAC
* *
2834 TTCCAAAAATATA-ATTTTAACCCTAG-A-
1 TTCCAAAAAT-TACATTTTTACCCTCGAAC
2861 TTCTCTAAAAATTACCA-TTTTACCCTC-AAGC
1 TTC-C-AAAAATTA-CATTTTTACCCTCGAA-C
* * * * * *
2892 TTCTAGAAATTGCTTTTCTTACCCCCG-AG
1 TTCCAAAAATTACATTT-TTACCCTCGAAC
* * * *
2921 TGT-TAAAAATT---TATTTACCCCCGAAG
1 T-TCCAAAAATTACATTTTTACCCTCGAAC
*
2947 TGTCC-AAAATTACCA-TTTTACTCTCGAAC
1 T-TCCAAAAATTA-CATTTTTACCCTCGAAC
*
2976 TTCCAAAAATTACCA-TTTTACCCTCGAGC
1 TTCCAAAAATTA-CATTTTTACCCTCGAAC
* * *
3005 ATCCAAAAATCATATTTTTA
1 TTCCAAAAATTACATTTTTA
3025 ACTCCATTTG
Statistics
Matches: 449, Mismatches: 79, Indels: 91
0.73 0.13 0.15
Matches are distributed among these distances:
25 9 0.02
26 13 0.03
27 5 0.01
28 32 0.07
29 226 0.50
30 148 0.33
31 16 0.04
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTTACCCTCGAAC
Found at i:2626 original size:59 final size:59
Alignment explanation
Indices: 2441--2636 Score: 215
Period size: 60 Copynumber: 3.3 Consensus size: 59
2431 TCACATATTG
* *
2441 ACCCTTGAACTTCACAAAAAT-TACATTTTTACCCTCGAACTTTACAAAATTTA-CATTTTT
1 ACCCTCGAACTTCACAAAAATAT-CATTTTTA-CCTCGAACTTTACAAAAATTACCA-TTTT
*
2501 ACCCTCGAACTTCACAAAAATTAT-ATTTTTACCATCGAACTTTCCAAAAATTA-CATTTT
1 ACCCTCGAACTTCACAAAAA-TATCATTTTTACC-TCGAACTTTACAAAAATTACCATTTT
* * *
2560 ACCCTCGAACTTC-CAAAAATATCATTCTTGACCTCGAACTTTTCAAAAATTACCGTTTT
1 ACCCTCGAACTTCACAAAAATATCATT-TTTACCTCGAACTTTACAAAAATTACCATTTT
* * *
2619 GCTCTCGAATTTC-CAAAA
1 ACCCTCGAACTTCACAAAA
2637 TTTATCGTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
57 3 0.02
58 27 0.22
59 44 0.36
60 45 0.37
61 1 0.01
62 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (59 bp):
ACCCTCGAACTTCACAAAAATATCATTTTTACCTCGAACTTTACAAAAATTACCATTTT
Found at i:2627 original size:88 final size:87
Alignment explanation
Indices: 2447--2884 Score: 251
Period size: 88 Copynumber: 5.0 Consensus size: 87
2437 ATTGACCCTT
* * *
2447 GAAC-TTCACAAAAATTACATTTTTACCCTCGAACTTTACAAAATTTACATTTTTACCCTCGAAC
1 GAACTTTC-CAAAAATTACA-TTTTACCCTCGAAC-TTCCAAAAATTACATTTTGA-CCTCGAAC
** *
2511 TTCACAAAAATTA-TATTTTTACCATC
62 TTTTCAAAAATTACCA-TTTTACCATC
2537 GAACTTTCCAAAAATTACATTTTACCCTCGAACTTCCAAAAA-TATCATTCTTGACCTCGAACTT
1 GAACTTTCCAAAAATTACATTTTACCCTCGAACTTCCAAAAATTA-CATT-TTGACCTCGAACTT
* *
2601 TTCAAAAATTACCGTTTTGCTC-TC
64 TTCAAAAATTACCATTTTAC-CATC
* * * * * *
2625 GAA-TTTCCAAAATTTATCGTTTT-CCCTCAGAATTTCCAAAGATTCCATTTTTGACCAT-AAAC
1 GAACTTTCCAAAAATTA-CATTTTACCCTC-GAACTTCCAAAAATTACA-TTTTGACC-TCGAAC
*
2687 -TTTCGAAAAATTACCATTTTACCCT-
62 TTTTC-AAAAATTACCATTTTACCATC
* * * * ** * *
2712 TAAATGTCCAAAAATTGCATTTTTTA-CCTTAAACTTTCCAAAAATTACATTTTTACCATTGAAC
1 GAACTTTCCAAAAATTACA--TTTTACCCTCGAAC-TTCCAAAAATTACATTTTGACC-TCGAAC
* * * **
2776 -TATAAAAAATCA-CATTTTTACCCCC
62 TTTTCAAAAATTACCA-TTTTACCATC
* * * * * *
2801 AAACTTT-CAAAAATGACAATTTTACCCCCAAACTTCCAAAAATATA-ATTTTAACC-CTAGA-T
1 GAACTTTCCAAAAATTAC-ATTTTACCCTCGAACTTCCAAAAAT-TACATTTTGACCTCGA-ACT
*
2862 TCTCTAAAAATTACCATTTTACC
63 TTTC-AAAAATTACCATTTTACC
2885 CTCAAGCTTC
Statistics
Matches: 276, Mismatches: 45, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 66 0.24
88 137 0.50
89 51 0.18
90 15 0.05
91 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (87 bp):
GAACTTTCCAAAAATTACATTTTACCCTCGAACTTCCAAAAATTACATTTTGACCTCGAACTTTT
CAAAAATTACCATTTTACCATC
Found at i:2645 original size:29 final size:29
Alignment explanation
Indices: 2455--2664 Score: 153
Period size: 30 Copynumber: 7.1 Consensus size: 29
2445 TTGAACTTCA
* *
2455 CAAAAATTA-CATTTTTACCCTCGAACTTTA
1 CAAAAATTATCA-TTTTGCCCTCGAA-TTTC
* * *
2485 CAAAATTTA-CATTTTTACCCTCGAACTTC
1 CAAAAATTATCA-TTTTGCCCTCGAATTTC
* *
2514 ACAAAAATTAT-ATTTTTACCATCGAACTTTC
1 -CAAAAATTATCA-TTTTGCCCTCGAA-TTTC
* *
2545 CAAAAATTA-CATTTTACCCTCGAACTTC
1 CAAAAATTATCATTTTGCCCTCGAATTTC
* *
2573 CAAAAA-TATCATTCTTGACCTCGAACTTTT
1 CAAAAATTATCATT-TTGCCCTCGAA-TTTC
* * *
2603 CAAAAATTACCGTTTTGCTCTCGAATTTC
1 CAAAAATTATCATTTTGCCCTCGAATTTC
* *
2632 CAAAATTTATCGTTTT-CCCTCAGAATTTC
1 CAAAAATTATCATTTTGCCCTC-GAATTTC
2661 CAAA
1 CAAA
2665 GATTCCATTT
Statistics
Matches: 151, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
27 2 0.01
28 17 0.11
29 51 0.34
30 73 0.48
31 8 0.05
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (29 bp):
CAAAAATTATCATTTTGCCCTCGAATTTC
Found at i:2727 original size:29 final size:28
Alignment explanation
Indices: 2659--2764 Score: 88
Period size: 30 Copynumber: 3.6 Consensus size: 28
2649 CCTCAGAATT
* * * *
2659 TCCAAAGATTCCATTTTTGACCATAAACTT
1 TCCAAAAATTACA-TTTT-ACCTTAAACTG
*
2689 TCGAAAAATTACCATTTTACCCTTAAA-TG
1 TCCAAAAATTA-CATTTTA-CCTTAAACTG
* *
2718 TCCAAAAATTGCATTTTTTACCTTAAACTT
1 TCCAAAAATTACA--TTTTACCTTAAACTG
2748 TCCAAAAATTACATTTT
1 TCCAAAAATTACATTTT
2765 TACCATTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
28 6 0.10
29 18 0.29
30 36 0.58
31 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.39
Consensus pattern (28 bp):
TCCAAAAATTACATTTTACCTTAAACTG
Found at i:2784 original size:59 final size:58
Alignment explanation
Indices: 2670--2826 Score: 140
Period size: 59 Copynumber: 2.7 Consensus size: 58
2660 CCAAAGATTC
* * * * * **
2670 CATTTTTGACCATAAACTTTCGAAAAATTACCATTTTACCCTTAAATGTCCAAAAATTG
1 CATTTTTTACCATAAACTTTCCAAAAATTA-CATTTTACCATTAAATATCAAAAAATCA
* *
2729 CATTTTTTACCTTAAACTTTCCAAAAATTACATTTTTACCATTGAACTAT-AAAAAATCA
1 CATTTTTTACCATAAACTTTCCAAAAATTACA-TTTTACCATT-AAATATCAAAAAATCA
** *
2788 CA-TTTTTACCCCCAAACTTT-CAAAAATGACAATTTTACC
1 CATTTTTTA-CCATAAACTTTCCAAAAATTAC-ATTTTACC
2827 CCCAAACTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
58 24 0.29
59 54 0.66
60 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (58 bp):
CATTTTTTACCATAAACTTTCCAAAAATTACATTTTACCATTAAATATCAAAAAATCA
Found at i:6310 original size:6 final size:6
Alignment explanation
Indices: 6299--6353 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
6289 TTAAATTGCT
* ** *
6299 TTTAAA TTTAAA TTTAAA ATTATT TTTAAA TTTAAA TTT-AG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6346 TTTGAAA T
1 TTT-AAA T
6354 GGTTTTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
5 4 0.10
6 31 0.79
7 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:6328 original size:18 final size:17
Alignment explanation
Indices: 6305--6367 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
6295 TGCTTTTAAA
6305 TTTAAATTTAAAATTATT
1 TTTAAATTTAAAATTA-T
* *
6323 TTTAAATTTAAATTTAG
1 TTTAAATTTAAAATTAT
* **
6340 TTTAAATTTGAAATGGT
1 TTTAAATTTAAAATTAT
6357 TTTAAATTTAA
1 TTTAAATTTAA
6368 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 22 0.59
18 15 0.41
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAAATTAT
Found at i:6343 original size:17 final size:18
Alignment explanation
Indices: 6305--6353 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
6295 TGCTTTTAAA
* *
6305 TTTAAATTTAAAATTATT
1 TTTAAATTTAAATTTATG
6323 TTTAAATTTAAATTTA-G
1 TTTAAATTTAAATTTATG
6340 TTTAAATTTGAAAT
1 TTTAAATTT-AAAT
6354 GGTTTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
TTTAAATTTAAATTTATG
Found at i:6378 original size:13 final size:12
Alignment explanation
Indices: 6298--6382 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 12
6288 TTTAAATTGC
6298 TTTTAAATTTAA
1 TTTTAAATTTAA
* * *
6310 ATTTAAAATTAT
1 TTTTAAATTTAA
6322 TTTTAAATTTAA
1 TTTTAAATTTAA
* *
6334 ATTT-AGTTTAAA
1 TTTTAAATTT-AA
* **
6346 TTTGAAA--TGG
1 TTTTAAATTTAA
6356 TTTTAAATTTAA
1 TTTTAAATTTAA
6368 TTTTAAAATTTAA
1 TTTT-AAATTTAA
6381 TT
1 TT
6383 AAAAAAGTTA
Statistics
Matches: 52, Mismatches: 16, Indels: 9
0.68 0.21 0.12
Matches are distributed among these distances:
10 6 0.12
11 5 0.10
12 30 0.58
13 11 0.21
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (12 bp):
TTTTAAATTTAA
Found at i:6447 original size:40 final size:40
Alignment explanation
Indices: 6403--6478 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
6393 AAAATACAAA
*
6403 AAGGCCCAATTACAGGTTTAACTAGACAAACCCAAACACT
1 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAACACT
* *
6443 AAGGCCTAATTACAAGTTTAACTAGACAGACCCAAA
1 AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAA
6479 ACCTAACCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.18
Consensus pattern (40 bp):
AAGGCCCAATTACAAGTTTAACTAGACAAACCCAAACACT
Found at i:9540 original size:23 final size:23
Alignment explanation
Indices: 9511--9564 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
9501 CGTCCATCCT
*
9511 TGCTGACTAGACCTTCTAGAAGC
1 TGCTGACTAGACATTCTAGAAGC
*
9534 TGTTGACTAGACATTCTAGAAGC
1 TGCTGACTAGACATTCTAGAAGC
9557 TGCTGACT
1 TGCTGACT
9565 GGATGCTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
TGCTGACTAGACATTCTAGAAGC
Found at i:10297 original size:11 final size:11
Alignment explanation
Indices: 10259--10297 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
10249 TAAGCAACCA
10259 TTTTTTT-CTT
1 TTTTTTTCCTT
*
10269 CTTTTTCTCCTT
1 -TTTTTTTCCTT
10281 TTTTTTTCCTT
1 TTTTTTTCCTT
10292 TTTTTT
1 TTTTTT
10298 CTTTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 22 0.88
12 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTCCTT
Found at i:10301 original size:20 final size:20
Alignment explanation
Indices: 10259--10308 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10249 TAAGCAACCA
10259 TTTTTTTCTT-CTTTTTCTCC
1 TTTTTTT-TTCCTTTTTCTCC
* *
10279 TTTTTTTTTCCTTTTTTTTC
1 TTTTTTTTTCCTTTTTCTCC
*
10299 TTTTCTTTTC
1 TTTTTTTTTC
10309 GAACATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTCCTTTTTCTCC
Found at i:10352 original size:40 final size:43
Alignment explanation
Indices: 10278--10370 Score: 111
Period size: 41 Copynumber: 2.2 Consensus size: 43
10268 TCTTTTTCTC
* * * *
10278 CTTTTTTTTTCCTTTTTTTTCTTTTCTTTTCGAAC-ATTTT-G
1 CTTTTTTTTTACTTTTTTTTCTATTCTGTACGAACAATTTTCG
* *
10319 CTTTTTTTTTATTTTTTTTTCTATTC-GTACGAACAATTTTCT
1 CTTTTTTTTTACTTTTTTTTCTATTCTGTACGAACAATTTTCG
10361 CTTTTTTTTT
1 CTTTTTTTTT
10371 GCTGTTCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 6 0.14
41 28 0.64
42 10 0.23
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (43 bp):
CTTTTTTTTTACTTTTTTTTCTATTCTGTACGAACAATTTTCG
Found at i:12870 original size:15 final size:16
Alignment explanation
Indices: 12838--12871 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12828 TGGGGTGGAT
12838 TTTATTATTTTATGAG
1 TTTATTATTTTATGAG
12854 TTTATTATTTT-TGAG
1 TTTATTATTTTATGAG
12869 TTT
1 TTT
12872 CTTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTATGAG
Found at i:13277 original size:29 final size:28
Alignment explanation
Indices: 13236--13308 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
13226 TTAAATTACC
13236 AAAAATAAA-AAATAAATAGAA-ATAAAAT
1 AAAAA-AAATAAATAAAT-GAAGATAAAAT
13264 AAAAAAAATGAAAT-AATGAAGTATAAAAT
1 AAAAAAAAT-AAATAAATGAAG-ATAAAAT
* *
13293 TAAATAAATAAATAAA
1 AAAAAAAATAAATAAA
13309 AAACAATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 6 0.16
28 12 0.32
29 20 0.53
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (28 bp):
AAAAAAAATAAATAAATGAAGATAAAAT
Found at i:25436 original size:39 final size:39
Alignment explanation
Indices: 25382--26482 Score: 561
Period size: 39 Copynumber: 28.3 Consensus size: 39
25372 GAAGATCCCG
*
25382 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * *
25421 ATCTCTTACCCCGAGCCTAGGGTAGAT--TGA--AGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * ** * * *
25456 TTCGATCTTTTACCCCGAGCTTGGGGCAGATCAAAACCAACAA
1 ----ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * ** * * *
25499 ATCTCTTACCCCGAGTC-GAGGGCAAATTGT-AGCCATCCG
1 ATCTCTTACCCCGAGCCTG-GGGCAGATCATCA-TCAGCCA
* *
25538 ATCTCTTACCCCGAGCCTGGGGTAGATCATCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * ** * ** *
25577 ATCTCTTACCCCAAGCCTGGAGCAGATTGT-AGCCATACG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCA-TCAGCCA
* * * * *
25616 ATCTCTTACACCGACCCTAGGGAAGATCATCAAT-AGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATC-ATCAGCCA
* * * ** *
25655 ATCTCTTACCCCGAGCCTAGGGTAGAT--TGCAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCAGCCA
* * * *
25694 ATCTCTTACCCCGAGGCTGGGGAAGATCATCATTAGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
** * * ** *
25733 ATCTCTTACCCTAAGCCT-GGGTAGAT--TGCAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCAGCCA
* * * * *
25771 ATCTCTTACCTCGAACTTGGGGAAGATCATCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * *
25810 ATCTCTTACCCCGAG-CTTGGGCTAGATTCAGCCAT-A--CG
1 ATCTCTTACCCCGAGCCTGGGGC-AGA-TCA-TCATCAGCCA
* * * **
25848 ATCTCTTACCCCAAGCTTGGGGCAGATCACCATCAATCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * **
25887 ATCTCTTACCCCAAGTCTGGGGCAGATTGCAGTCATTTG---
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-TCATCAGCCA
* * * *
25926 ATCTCTTACCCCGAGCCTAGGGTAGATCACCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * *
25965 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * * ** *
26004 ATCTCTTACCCCAAGCCTGGGGTAGAT--TGCAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCAGCCA
* * * *
26043 ATCTCTTACCCCAAGCCTGAGGCAGATAACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* ** * *
26082 ATCTCTTACCCCGAGCCTGAGGCAGATTGT-AGTC-GTTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCA-TCAG-CCA
* * **
26121 ATCTCTTACCTCGAGCTTAAGGCAGATCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * ** * * * *
26160 ATCTCTTACCCTGAGCCTGGGGTAGATTGT-AGCCGTTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAG-CCA
* * * * *
26199 ATCTTTTACCCCGAGCTTGGGGCAGATTACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * ** ** *
26238 ATCTCTTACCTCGAGCCTGGGGTAGATTGT-AGTCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCA-TCAGCCA
* * *
26277 ATCTCTTACCCCAAGCTTGGGGCAGATCATCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* * **
26316 ATCTCTTACCCCGAGCCTGGGGTAGAT--TGCAACCATTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-C-ATCAGCCA
* * * * *
26355 ATCTCTTACCTCAAGGCTGAGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
* ** *
26394 ATCTCTTACACCGAGCCTGGGGCAGAT--TGCAGTCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCAGCCA
*
26433 ATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
*
26472 ATCTCTCACCC
1 ATCTCTTACCC
26483 TATCATGGGA
Statistics
Matches: 784, Mismatches: 220, Indels: 116
0.70 0.20 0.10
Matches are distributed among these distances:
35 4 0.01
36 9 0.01
37 13 0.02
38 58 0.07
39 663 0.85
40 21 0.03
41 10 0.01
42 3 0.00
43 3 0.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGCCA
Found at i:25502 original size:78 final size:78
Alignment explanation
Indices: 25380--25991 Score: 714
Period size: 78 Copynumber: 7.9 Consensus size: 78
25370 TTGAAGATCC
* * * *
25380 CGATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCAATCTCTTACCCCGAGCCTAGGGTA
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGGGCA
*
25445 GATTGAAGCCATT
66 GATTGCAGCCATT
* * * ** * * * *
25458 CGATCTTTTACCCCGAGCTTGGGGCAGATCAAAACCAACAAATCTCTTACCCCGAGTCGAGGGCA
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGGGCA
* * *
25523 AATTGTAGCCATC
66 GATTGCAGCCATT
* *
25536 CGATCTCTTACCCCGAGCCTGGGGTAGATCATCATCAGCAAATCTCTTACCCCAAGCCT-GGAGC
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGG-GC
* *
25600 AGATTGTAGCCATA
65 AGATTGCAGCCATT
* * * *
25614 CGATCTCTTACACCGACCCTAGGGAAGATCATCAAT-AGCAAATCTCTTACCCCGAGCCTAGGGT
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATC-ATCAGCAAATCTCTTACCCCGAGCCTAGGGC
25678 AGATTGCAGCCATT
65 AGATTGCAGCCATT
* * ** *
25692 CGATCTCTTACCCCGAGGCTGGGGAAGATCATCATTAGCAAATCTCTTACCCTAAGCCT-GGGTA
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGGGCA
25756 GATTGCAGCCATT
66 GATTGCAGCCATT
* * * *
25769 CGATCTCTTACCTCGAACTTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAG-CTTGGGCT
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGGGC-
*
25833 AGATT-CAGCCATA
65 AGATTGCAGCCATT
* * * * * * * *
25846 CGATCTCTTACCCCAAGCTTGGGGCAGATCACCATCAATC-AATCTCTTACCCCAAGTCTGGGGC
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATC-AGCAAATCTCTTACCCCGAGCCTAGGGC
*
25910 AGATTGCAGTCATT
65 AGATTGCAGCCATT
* * * *
25924 TGATCTCTTACCCCGAGCCTAGGGTAGATCACCATCAGCAAATCTCTTACCCCGAGCCTAGGGCA
1 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGGGCA
25989 GAT
66 GAT
25992 CACCATCAGC
Statistics
Matches: 458, Mismatches: 66, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
76 2 0.00
77 134 0.29
78 318 0.69
79 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (78 bp):
CGATCTCTTACCCCGAGCCTGGGGAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGGGCA
GATTGCAGCCATT
Found at i:26086 original size:156 final size:154
Alignment explanation
Indices: 25848--26482 Score: 670
Period size: 156 Copynumber: 4.1 Consensus size: 154
25838 CAGCCATACG
* * * *
25848 ATCTCTTACCCCAAGCTTGGGGCAGA-T-CA-CCATCAATCAATCTCTTACCCCAAGTCTGGGGC
1 ATCTCTTACCCCAAGCCTGGGGTAGATTGCAGCCAT---TCAATCTCTTACCCCAAGCCTGAGGC
** **** * * ** *
25910 AGATTGCAGTCATTTGATCTCTTACCCCGAGCCTAGGGTAGATCACCA-TCAGCAAATCTCTTAC
63 AGATACCA-TCAGCCAATCTCTTACCCCGAGCCTGGGGCAGAT-TGCAGTCAGC-GATCTCTTAC
*
25974 CCCGAGCCTAGGGCAGATCACCATCAGCAA
125 CCCGAGCCTAGGGCAGATCATCATCAGCAA
*
26004 ATCTCTTACCCCAAGCCTGGGGTAGATTGCAGCCATTCGATCTCTTACCCCAAGCCTGAGGCAGA
1 ATCTCTTACCCCAAGCCTGGGGTAGATTGCAGCCATTCAATCTCTTACCCCAAGCCTGAGGCAGA
* * *
26069 TAACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGATTGTAGTC-GTTCGATCTCTTACCTC
66 T-ACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCAG--CGATCTCTTACCCC
* * *
26133 GAGCTTAAGGCAGATCATCATCAGCCA
128 GAGCCTAGGGCAGATCATCATCAGCAA
** * * * * * * *
26160 ATCTCTTACCCTGAGCCTGGGGTAGATTGTAGCCGTTCGATCTTTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCAAGCCTGGGGTAGATTGCAGCCATTCAATCTCTTACCCCAAGCCTGAGGCAGA
* * * * * *
26225 TTACCATCAACCAATCTCTTACCTCGAGCCTGGGGTAGATTGTAGTCATTCGATCTCTTACCCCA
66 -TACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCA-GCGATCTCTTACCCCG
* *
26290 AGCTTGGGGCAGATCATCATCAGCAA
129 AGCCTAGGGCAGATCATCATCAGCAA
* * * *
26316 ATCTCTTACCCCGAGCCTGGGGTAGATTGCAACCATTCAATCTCTTACCTCAAGGCTGAGGCAGA
1 ATCTCTTACCCCAAGCCTGGGGTAGATTGCAGCCATTCAATCTCTTACCCCAAGCCTGAGGCAGA
* *
26381 TCACCATCAGCCAATCTCTTACACCGAGCCTGGGGCAGATTGCAGTCATTCGATCTCTTACCCCG
66 T-ACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCA-GCGATCTCTTACCCCG
*
26446 AGCCT-GAGGCAGATCATCATCAGCCA
129 AGCCTAG-GGCAGATCATCATCAGCAA
*
26472 ATCTCTCACCC
1 ATCTCTTACCC
26483 TATCATGGGA
Statistics
Matches: 406, Mismatches: 61, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
155 4 0.01
156 391 0.96
157 5 0.01
158 2 0.00
159 4 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (154 bp):
ATCTCTTACCCCAAGCCTGGGGTAGATTGCAGCCATTCAATCTCTTACCCCAAGCCTGAGGCAGA
TACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCAGCGATCTCTTACCCCGAG
CCTAGGGCAGATCATCATCAGCAA
Found at i:26975 original size:18 final size:17
Alignment explanation
Indices: 26952--26994 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
26942 TTAAATTGGT
*
26952 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-GTTTAAA
26970 TTTAAATTTAGTTTAAA
1 TTTAAATTTAGTTTAAA
26987 TTTGAAAT
1 TTT-AAAT
26995 GGTTTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAAATTTAGTTTAAA
Found at i:26998 original size:46 final size:47
Alignment explanation
Indices: 26924--27025 Score: 122
Period size: 46 Copynumber: 2.2 Consensus size: 47
26914 AACTTTTGAT
* * * *
26924 TTTAAATTTATATTAAGTTTAAATTGGTTTTAAATTTATTTTTAAA-
1 TTTAAATTTATATTAAATTTAAATTGGTTTTAAACTTAATTTAAAAC
26970 TTTAAATTTAGT-TTAAATTTGAAA-TGGTTTTAAACTTAATTTAAAAC
1 TTTAAATTTA-TATTAAATTT-AAATTGGTTTTAAACTTAATTTAAAAC
27017 TTT-AATTTA
1 TTTAAATTTA
27026 AAAAGTCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 42 0.86
47 7 0.14
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (47 bp):
TTTAAATTTATATTAAATTTAAATTGGTTTTAAACTTAATTTAAAAC
Found at i:27095 original size:40 final size:40
Alignment explanation
Indices: 27046--27151 Score: 194
Period size: 40 Copynumber: 2.6 Consensus size: 40
27036 AATACAAAAA
27046 GGCCTAATTACAAGTTTAACTAGACAAACCCAAACACTAT
1 GGCCTAATTACAAGTTTAACTAGACAAACCCAAACACTAT
* *
27086 GGCCCAATTACAAGTTTAACTAGACAAACCCTAACACTAT
1 GGCCTAATTACAAGTTTAACTAGACAAACCCAAACACTAT
27126 GGCCTAATTACAAGTTTAACTAGACA
1 GGCCTAATTACAAGTTTAACTAGACA
27152 GACACAAAAC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.24
Consensus pattern (40 bp):
GGCCTAATTACAAGTTTAACTAGACAAACCCAAACACTAT
Found at i:27708 original size:23 final size:22
Alignment explanation
Indices: 27673--27733 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
27663 GTTTTAAATG
*
27673 AATATTATTAAT-AGTAAT-A-
1 AATATTATTAATAAATAATAAT
27692 AATATT-TTAAATAAATAATAAT
1 AATATTATT-AATAAATAATAAT
27714 AATATTATTAATAAA-AATAA
1 AATATTATTAATAAATAATAA
27734 AAGAGAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 2 0.06
19 9 0.25
20 5 0.14
21 6 0.17
22 12 0.33
23 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATTATTAATAAATAATAAT
Found at i:28655 original size:29 final size:28
Alignment explanation
Indices: 28534--29079 Score: 267
Period size: 29 Copynumber: 18.6 Consensus size: 28
28524 TCCCTAATTT
* *
28534 TTCCAAAAATCACAATTTCACCCTCAAAC
1 TTCCAAAAATTAC-ATTTTACCCTCAAAC
*
28563 TTTCCAAAAATTATAATTTGT-CTCC-CAAAC
1 -TTCCAAAAATTA-CATTT-TAC-CCTCAAAC
** * *
28593 TTAAAAAAATCACATTTTGACCCTCGAAC
1 TTCCAAAAATTACATTTT-ACCCTCAAAC
*
28622 TTCACAAAAATTACATTTTACCCTCGAAC
1 TTC-CAAAAATTACATTTTACCCTCAAAC
* * *
28651 TTCACACAAATTATATTTTTACCCAT-GAAC
1 TTC-CAAAAATTACA-TTTTACCC-TCAAAC
* ** *
28681 TTTCTAAAAATTGTATTTTACCC-CTAAAT
1 -TTCCAAAAATTACATTTTACCCTC-AAAC
* *
28710 TTCCAAAAAATCACATTTTTACCCTTAAAC
1 TTCC-AAAAATTACA-TTTTACCCTCAAAC
28740 TTCCAAAAATTACCATTTTACCAC-CAAAC
1 TTCCAAAAATTA-CATTTTACC-CTCAAAC
*
28769 TTCCAAAAA-TATCATTCTTGACCC-CAAATT
1 TTCCAAAAATTA-CATT-TT-ACCCTCAAA-C
* * ** * *
28799 TTTCAAAAATTACTGTTTTACAATCGAAT
1 TTCCAAAAATTAC-ATTTTACCCTCAAAC
*
28828 TTCC-AAAATATACCATTTTA-CCTCCAAAT
1 TTCCAAAAAT-TA-CATTTTACCCT-CAAAC
* * *
28857 TTCCAAAAATTCCATTTTTAACCTCGAAC
1 TTCCAAAAATTACA-TTTTACCCTCAAAC
* * **
28886 TTTCAAAAAATTACCATTTTACCCT-TATT
1 -TTCCAAAAATTA-CATTTTACCCTCAAAC
*
28915 TGTCCAAAAATTCCATTTTTAACCCT-AAAC
1 T-TCCAAAAATTACA-TTTT-ACCCTCAAAC
* *
28945 TTTCAAAAAATTACATTTTACCC-CTGAAC
1 -TTCCAAAAATTACATTTTACCCTC-AAAC
* * *
28974 TACCAAAAATCACATTTTTACCCTTAAAC
1 TTCCAAAAATTACA-TTTTACCCTCAAAC
*
29003 TTCCAAAAATTACGATTTTACCCCCAAAC
1 TTCCAAAAATTAC-ATTTTACCCTCAAAC
*
29032 TTTCAAAAA-TATCATTTTTAACCCT-AAA-
1 TTCCAAAAATTA-CA-TTTT-ACCCTCAAAC
*
29060 TTCTCTAAAATTATCATTTT
1 TTC-CAAAAATTA-CATTTT
29080 CAAATAATTA
Statistics
Matches: 403, Mismatches: 68, Indels: 91
0.72 0.12 0.16
Matches are distributed among these distances:
27 1 0.00
28 46 0.11
29 200 0.50
30 143 0.35
31 13 0.03
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (28 bp):
TTCCAAAAATTACATTTTACCCTCAAAC
Found at i:28761 original size:88 final size:85
Alignment explanation
Indices: 28533--29079 Score: 300
Period size: 88 Copynumber: 6.2 Consensus size: 85
28523 GTCCCTAATT
* * * * ** * **
28533 TTTCCAAAAATCACAATTTCACCCTCAAACTTTCCAAAAATTATAATTTGTCTCCCAAAC-TTAA
1 TTTCCAAAAATTACATTTTTACCCTTAAAC-TTCCAAAAATTACCATTT-T-ACCCAAACTTTCC
* * *
28597 AAAAATCACATTTTGA-CCCTCGAA
63 AAAAAT-TCATTTTAACCCCT-AAA
* ** * *
28621 CTTCACAAAAATTACA-TTTTACCCTCGAACTTCACACAAATTA-TATTTTTACCCATGAACTTT
1 TTTC-CAAAAATTACATTTTTACCCTTAAACTTC-CAAAAATTACCA-TTTTACCCA--AACTTT
* *
28684 CTAAAAATTGTATTTT-ACCCCTAAA
61 CCAAAAATT-CATTTTAACCCCTAAA
*
28709 TTTCCAAAAAATCACATTTTTACCCTTAAACTTCCAAAAATTACCATTTTACCACCAAAC-TTCC
1 TTTCC-AAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACCATTTTA-C-CCAAACTTTCC
*
28773 AAAAATATCATTCTTGACCCC-AAA
63 AAAAAT-TCATT-TTAACCCCTAAA
* ** ** *
28797 TTTTTCAAAAATTAC-TGTTTTACAATCGAATTTCC-AAAATATACCATTTTACCTCCAAA-TTT
1 -TTTCCAAAAATTACAT-TTTTACCCTTAAACTTCCAAAAAT-TACCATTTTA-C-CCAAACTTT
* * *
28859 CCAAAAATTCCATTTTTAACCTCGAAC
61 CCAAAAATT-CA-TTTTAACCCCTAAA
* **
28886 TTTCAAAAAATTACCA-TTTTACCCTT-ATTTGTCCAAAAATT-CCATTTTTAACCCTAAACTTT
1 TTTCCAAAAATTA-CATTTTTACCCTTAAACT-TCCAAAAATTACCA-TTTT-ACCC-AAACTTT
* *
28948 CAAAAAATTACATTTT-ACCCCTGAA
61 CCAAAAATT-CATTTTAACCCCTAAA
* * * *
28973 CTACCAAAAATCACATTTTTACCCTTAAACTTCCAAAAATTACGATTTTACCCCCAAACTTT-CA
1 TTTCCAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACCATTTTA--CCCAAACTTTCCA
29037 AAAATATCATTTTTAA-CCCTAAA
64 AAAAT-TCA-TTTTAACCCCTAAA
*
29060 -TTCTCTAAAATTATCATTTT
1 TTTC-CAAAAATTA-CATTTT
29080 CAAATAATTA
Statistics
Matches: 363, Mismatches: 55, Indels: 82
0.73 0.11 0.16
Matches are distributed among these distances:
86 17 0.05
87 96 0.26
88 170 0.47
89 77 0.21
90 3 0.01
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (85 bp):
TTTCCAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACCATTTTACCCAAACTTTCCAAA
AATTCATTTTAACCCCTAAA
Found at i:28981 original size:58 final size:58
Alignment explanation
Indices: 28596--29059 Score: 234
Period size: 59 Copynumber: 7.9 Consensus size: 58
28586 CCCAAACTTA
* * * *
28596 AAAAAATCACATTTTGA-CCCTCGAACTTCACAAAAATTACA-TTTT-ACCCTCGAAC-TTC
1 AAAAAATTACATTTT-ACCCCT-AAACTTC-CAAAAATTCCATTTTTAACCCT-AAACTTTC
* * * * * ** *
28654 ACACAAATTATATTTTTACCCATGAACTTTCTAAAAATTGTA-TTTTACCCCTAAA-TTTCC
1 A-AAAAATTACA-TTTTACCCCTAAAC-TTCCAAAAATTCCATTTTTAACCCTAAACTTT-C
* * *
28714 AAAAAATCACATTTTTACCCTTAAACTTCCAAAAATTACCA-TTTT-ACCACCAAAC-TTC
1 AAAAAATTACA-TTTTACCCCTAAACTTCCAAAAATT-CCATTTTTAACC-CTAAACTTTC
* * * * ** *
28772 CAAAAA-TATCATTCTTGACCCC-AAATTTTTCAAAAATTAC-TGTTTT-ACAATCGAA-TTTC
1 AAAAAATTA-CATT-TT-ACCCCTAAA-CTTCCAAAAATTCCAT-TTTTAACCCT-AAACTTTC
* * *
28831 -CAAAATATACCATTTTACCTCC-AAATTTCCAAAAATTCCATTTTTAA-CCTCGAACTTTC
1 AAAAAAT-TA-CATTTTACC-CCTAAACTTCCAAAAATTCCATTTTTAACCCT-AAACTTTC
* **
28890 AAAAAATTACCATTTTA-CCCTTATTTGTCCAAAAATTCCATTTTTAACCCTAAACTTTC
1 AAAAAATTA-CATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAACCCTAAACTTTC
* *
28949 AAAAAATTACATTTTACCCCTGAACTACCAAAAA-TCACATTTTT-ACCCTTAAAC-TTC
1 AAAAAATTACATTTTACCCCTAAACTTCCAAAAATTC-CATTTTTAACCC-TAAACTTTC
* * *
29006 CAAAAATTACGATTTTACCCCCAAACTTTCAAAAATAT-CATTTTTAACCCTAAA
1 AAAAAATTAC-ATTTTACCCCTAAACTTCCAAAAAT-TCCATTTTTAACCCTAAA
29060 TTCTCTAAAA
Statistics
Matches: 323, Mismatches: 48, Indels: 70
0.73 0.11 0.16
Matches are distributed among these distances:
57 23 0.07
58 116 0.36
59 153 0.47
60 31 0.10
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAAAATTACATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACTTTC
Found at i:29172 original size:29 final size:29
Alignment explanation
Indices: 29085--29276 Score: 108
Period size: 29 Copynumber: 6.6 Consensus size: 29
29075 ATTTTCAAAT
* * *
29085 AATTACCATTTTACCCCCGAACT-TCCAAA
1 AATTACCATTTTACCCTC-AAGTGTCTAAA
** * * *
29114 AATTATAATTTTTAACCCTAAATTATCTAAA
1 AATTACCA-TTTT-ACCCTCAAGTGTCTAAA
*
29145 AATTACCATTTTGCCCTCAAGAT-TCTAAA
1 AATTACCATTTTACCCTCAAG-TGTCTAAA
* *
29174 AATTA-CTTTCTTACCCTCGAGTGTCTAAA
1 AATTACCATT-TTACCCTCAAGTGTCTAAA
* * *
29203 AATTACCATTTTCCCCCCGAAGTGTC-CAA
1 AATTACCATTTTACCCTC-AAGTGTCTAAA
** **
29232 AATTACTGTTTTACCCTCGAA-CCTCTTAAA
1 AATTACCATTTTACCCTC-AAGTGTC-TAAA
29262 AATT-CCATTTTACCC
1 AATTACCATTTTACCC
29277 CCTAGCATCC
Statistics
Matches: 125, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
28 6 0.05
29 77 0.62
30 27 0.22
31 15 0.12
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.35
Consensus pattern (29 bp):
AATTACCATTTTACCCTCAAGTGTCTAAA
Found at i:29292 original size:58 final size:59
Alignment explanation
Indices: 29085--29292 Score: 155
Period size: 58 Copynumber: 3.6 Consensus size: 59
29075 ATTTTCAAAT
* * * **
29085 AATTACCATTTTACCCCCGAA-CTTCCAAAAATTA-TAATTTTTAACCCT-AAATTATCTAAA
1 AATTACCATTTTACCCCCGAAGCATCCAAAAATTACT--TTCTT-ACCCTCGAA-CCTCTAAA
* * * ***
29145 AATTACCATTTTGCCCTC-AAG-ATTCTAAAAATTACTTTCTTACCCTCGAGTGTCTAAA
1 AATTACCATTTTACCCCCGAAGCA-TCCAAAAATTACTTTCTTACCCTCGAACCTCTAAA
* **
29203 AATTACCATTTTCCCCCCGAAGTGTCC-AAAATTACTGTT-TTACCCTCGAACCTCTTAAA
1 AATTACCATTTTACCCCCGAAGCATCCAAAAATTACT-TTCTTACCCTCGAACCTC-TAAA
*
29262 AATT-CCATTTTACCCCC-TAGCATCCAAAAAT
1 AATTACCATTTTACCCCCGAAGCATCCAAAAAT
29293 CGTATTTTTG
Statistics
Matches: 120, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
57 5 0.04
58 66 0.55
59 22 0.18
60 26 0.22
61 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.34
Consensus pattern (59 bp):
AATTACCATTTTACCCCCGAAGCATCCAAAAATTACTTTCTTACCCTCGAACCTCTAAA
Found at i:31854 original size:17 final size:17
Alignment explanation
Indices: 31832--31865 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31822 CTAAGAATTT
31832 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
31849 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
31866 GTATCAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:32756 original size:26 final size:23
Alignment explanation
Indices: 32687--32743 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
32677 TGTCTATCCT
*
32687 TGCTGACTAGACCTTCTAGAAGC
1 TGCTGACTGGACCTTCTAGAAGC
32710 TGCTGACTGGACCTTCTAGAAGC
1 TGCTGACTGGACCTTCTAGAAGC
*
32733 TGCTGATTGGA
1 TGCTGACTGGA
32744 TGCCATGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (23 bp):
TGCTGACTGGACCTTCTAGAAGC
Found at i:33510 original size:11 final size:11
Alignment explanation
Indices: 33494--33541 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
33484 AACCTTTTAC
33494 TTTTTTTTCTT
1 TTTTTTTTCTT
33505 TTTTTTTTGCTGT
1 TTTTTTTT-CT-T
33518 TCTTTTTTTCTT
1 T-TTTTTTTCTT
*
33530 TATTTTTTCTT
1 TTTTTTTTCTT
33541 T
1 T
33542 ATTCGAACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 18 0.55
12 4 0.12
13 4 0.12
14 7 0.21
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:47708 original size:30 final size:30
Alignment explanation
Indices: 47672--47788 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 30
47662 CCCTGGAGGT
*
47672 CCTTAAACTTTCCAAAAATCACATTTTGAC
1 CCTTAAACTTTCCAAAAATCACATTTTAAC
* *
47702 CCTTAAACTTCTCTAAAAAT-ATATTTTAAC
1 CCTTAAACTT-TCCAAAAATCACATTTTAAC
* * * *
47732 CCCTAAACTTTCTAAAAATTACATTTTTTAC
1 CCTTAAACTTTCCAAAAATCACA-TTTTAAC
* * *
47763 CCGTGAACTTTCCAAAATTC-CATTTT
1 CCTTAAACTTTCCAAAAATCACATTTT
47789 TGGCCTCGAT
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 13 0.18
30 31 0.42
31 29 0.40
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (30 bp):
CCTTAAACTTTCCAAAAATCACATTTTAAC
Found at i:47788 original size:60 final size:60
Alignment explanation
Indices: 47675--47788 Score: 131
Period size: 60 Copynumber: 1.9 Consensus size: 60
47665 TGGAGGTCCT
* * *
47675 TAAACTTTCCAAAAATCACATTTTGACCCTTAAACTTCTCTAAAAATATATTTTAACCCC
1 TAAACTTTCCAAAAATCACATTTTGACCCGTAAACTTCTCCAAAAATACATTTTAACCCC
* * * * * *
47735 TAAACTTTCTAAAAATTACATTTTTTACCCGTGAACTT-TCCAAAATTCCATTTT
1 TAAACTTTCCAAAAATCACA-TTTTGACCCGTAAACTTCTCCAAAAATACATTTT
47789 TGGCCTCGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
60 30 0.68
61 14 0.32
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (60 bp):
TAAACTTTCCAAAAATCACATTTTGACCCGTAAACTTCTCCAAAAATACATTTTAACCCC
Found at i:47893 original size:30 final size:30
Alignment explanation
Indices: 47676--48046 Score: 124
Period size: 29 Copynumber: 12.6 Consensus size: 30
47666 GGAGGTCCTT
* * *
47676 AAACTTTCCAAAAATCACATTTTGACCCTT
1 AAACTTTCCAAAAATTACATTTTTACCCTC
* * *
47706 AAACTTCTCTAAAAA-TATATTTTAACCC-C
1 AAACTT-TCCAAAAATTACATTTTTACCCTC
*
47735 TAAACTTTCTAAAAATTACATTTTTTACCCGT-
1 -AAACTTTCCAAAAATTACA-TTTTTACCC-TC
* * **
47767 GAACTTTCC-AAAATTCCATTTTTGGCCTC
1 AAACTTTCCAAAAATTACATTTTTACCCTC
* * *
47796 -GATTTTCCCAAAAAATTGCA-TTTTACACC-C
1 AAACTTT-CC-AAAAATTACATTTTTAC-CCTC
* * *
47826 AAAC-TTCC-CAGATTCCATTTTTGACCC-C
1 AAACTTTCCAAAAATTACATTTTT-ACCCTC
* * *
47854 -GATTATTCCAAAAATTATATTTTTACCCTC
1 AAACT-TTCCAAAAATTACATTTTTACCCTC
* **
47884 AAACTTTCC-AAAATTCCATTTTTGGCCTC
1 AAACTTTCCAAAAATTACATTTTTACCCTC
* *
47913 -GA-TTTCACCAAAAGTTACCA-TTTTACCCTC
1 AAACTTT--CCAAAAATTA-CATTTTTACCCTC
* * * *
47943 AAACTCT-CTAAAATTATATTTTTA-CATC
1 AAACTTTCCAAAAATTACATTTTTACCCTC
47971 -AA-TTTCACCAAAAATTACCA-TTTTACCC-C
1 AAACTTT--CCAAAAATTA-CATTTTTACCCTC
* *
48000 TAAAC-TTCCTAAAATTCCATTTTTTACCC-C
1 -AAACTTTCCAAAAATTACA-TTTTTACCCTC
**
48030 AATTTTTCC-AAAATTAC
1 AAACTTTCCAAAAATTAC
48047 CATTCTTGCC
Statistics
Matches: 250, Mismatches: 54, Indels: 75
0.66 0.14 0.20
Matches are distributed among these distances:
26 2 0.01
27 12 0.05
28 19 0.08
29 90 0.36
30 83 0.33
31 42 0.17
32 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (30 bp):
AAACTTTCCAAAAATTACATTTTTACCCTC
Found at i:47924 original size:59 final size:58
Alignment explanation
Indices: 47745--48023 Score: 250
Period size: 58 Copynumber: 4.7 Consensus size: 58
47735 TAAACTTTCT
* *
47745 AAAAATTACATTTTTTACCCGT-GAACTTTCCAAAATTCCATTTTTGGCCTCGATTTTC-CC
1 AAAAATTACA--TTTTACCC-TCAAACTTTCCAAAATTCCATTTTTGACCTCGA-TTTCACC
* * * * *
47805 AAAAAATTGCATTTTACACC-CAAAC-TTCCCAGATTCCATTTTTGACCCCGATTAT-TCC
1 -AAAAATTACATTTTAC-CCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATT-TCACC
* *
47863 AAAAATTATATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGGCCTCGATTTCACC
1 AAAAATTACA-TTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACC
* * * ** * *
47922 AAAAGTTACCATTTTACCCTCAAACTCTCTAAAATTATATTTTT-ACATCAATTTCACC
1 AAAAATTA-CATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACC
47980 AAAAATTACCATTTTACCC-CTAAAC-TTCCTAAAATTCCATTTTT
1 AAAAATTA-CATTTTACCCTC-AAACTTTCC-AAAATTCCATTTTT
48024 TACCCCAATT
Statistics
Matches: 180, Mismatches: 27, Indels: 25
0.78 0.12 0.11
Matches are distributed among these distances:
57 15 0.08
58 82 0.46
59 71 0.39
60 3 0.02
61 9 0.05
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (58 bp):
AAAAATTACATTTTACCCTCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACC
Found at i:47982 original size:117 final size:117
Alignment explanation
Indices: 47745--48023 Score: 288
Period size: 117 Copynumber: 2.4 Consensus size: 117
47735 TAAACTTTCT
*
47745 AAAAATTACATTTTTTACCCGT-GAACTTTCCAAAATTCCATTTTTGGCCTCGATTTTCCCAAAA
1 AAAAATTACA-TTTTTACCC-TCAAACTTTCCAAAATTCCATTTTTGGCCTCGATTTTCCCAAAA
* * * * * * *
47809 AATTGCATTTTACACCCAAACTTCCCAGATTCCATTTTTGACCCCGATTATTCC
64 AATTCCATTTTACACCCAAACTTCCAAAATTACATTTTTGACACCAATTATACC
*
47863 AAAAATTATATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGGCCTCGA-TTTCACC-AAAA
1 AAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGGCCTCGATTTTC-CCAAAAA
* * * *
47926 GTTACCATTTTAC-CCTCAAACTCTCTAAAATTATATTTTT-ACATCAATT-TCACC
65 ATT-CCATTTTACACC-CAAACT-TCCAAAATTACATTTTTGACACCAATTAT-ACC
47980 AAAAATTACCA-TTTTACCC-CTAAAC-TTCCTAAAATTCCATTTTT
1 AAAAATTA-CATTTTTACCCTC-AAACTTTCC-AAAATTCCATTTTT
48024 TACCCCAATT
Statistics
Matches: 138, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
116 19 0.14
117 97 0.70
118 22 0.16
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (117 bp):
AAAAATTACATTTTTACCCTCAAACTTTCCAAAATTCCATTTTTGGCCTCGATTTTCCCAAAAAA
TTCCATTTTACACCCAAACTTCCAAAATTACATTTTTGACACCAATTATACC
Found at i:48013 original size:29 final size:29
Alignment explanation
Indices: 47981--48086 Score: 78
Period size: 29 Copynumber: 3.7 Consensus size: 29
47971 AATTTCACCA
47981 AAAATTACCATTTTACCCCTAAACTTCCT
1 AAAATTACCATTTTACCCCTAAACTTCCT
**
48010 AAAATT-CCATTTTTTACCCC-AATTTTTCC-
1 AAAATTACCA--TTTTACCCCTAA-ACTTCCT
* ** *
48039 AAAATTACCATTCTT-GCCCTCGAGTGT-CT
1 AAAATTACCATT-TTACCCCTAAACT-TCCT
48068 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
48087 CAAGTACCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
28 12 0.20
29 32 0.53
30 16 0.27
ACGTcount: A:0.30, C:0.29, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAAACTTCCT
Found at i:48050 original size:30 final size:31
Alignment explanation
Indices: 47981--48050 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
47971 AATTTCACCA
47981 AAAATTACCA--TTTTACCCCTAAACTTCCT
1 AAAATTACCATTTTTTACCCCTAAACTTCCT
**
48010 AAAATT-CCATTTTTTACCCC-AATTTTTCC-
1 AAAATTACCATTTTTTACCCCTAA-ACTTCCT
48039 AAAATTACCATT
1 AAAATTACCATT
48051 CTTGCCCTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 3 0.09
29 14 0.40
30 18 0.51
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (31 bp):
AAAATTACCATTTTTTACCCCTAAACTTCCT
Found at i:52854 original size:39 final size:39
Alignment explanation
Indices: 52800--53627 Score: 358
Period size: 39 Copynumber: 21.3 Consensus size: 39
52790 GAAGATCCCG
* * * **
52800 ATCTCTTACCTCGAGCTTAGGGCAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
* ** *
52839 ATCTCTTACCCCGAGCCTGGGGTAGATTGT-AGCCATTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCA-TCATTCA
* * * * * ** * * *
52878 ATCTCTTACACCAAGCTTCGGGCAAATCAAAACCAGTAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
* * * *
52917 ATCTCTTA-CCCAAGTC-GAGGGCAGAT--TGCAGCCATTCG
1 ATCTCTTACCCCGAGCCTG-GGGCAGATCAT-CA-TCATTCA
* * * *
52955 ATCTCTTACCCCGAGCCT-AGGCTAGATCGTTATCA-GCAA
1 ATCTCTTACCCCGAGCCTGGGGC-AGATCATCATCATTC-A
* *
52994 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAACCATT-A
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATC-ATCATTCA
* * *
53032 GATCTCTTACCCTGAGCCTAGGGAAGATCATCATCA-TCAA
1 -ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTC-A
* * * *
53072 ATCTCTTACCCCGAGCCTGGGGTAGAT--TGCAACCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-C-ATCATTCA
* * * *
53111 ATCTCTTACCCCGAGCCTGGGGAAGATCATCGTTA-GCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTC-A
* * * * *
53150 ATCTTTTTCCCCGAGCCT-AGGCAGAT--TGCAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCATTCA
* * ** *
53188 ATCTCTTACCCCGAACCTAGGAAAGATCATCATCA-GCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTC-A
* * * *
53227 ATCTCTTACCCAGAGCTTGGGGAAGAT--TGCAGTCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCATTCA
* * * * *
53266 ATCTCTTACCCCAAGCTTGGGGCAGATTA-CAGTCGTTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCA-TCATTCA
* * * * * * **
53305 ATCTTTTACCCTGAGCTTGGGGTAGATCACCGTCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
* * **
53344 ATCTCTTACCCCGAGCCTGGGGAAAATTGT-AGTCATTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCA-TCATTCA
* *
53383 ATCTCTTACCCCGAGCTTGGGGCAGATCATCATCA-GCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTC-A
* * * * *
53422 ATATCTTACCCCGAGCTTGGGGTAGATCATCATCAGTAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
* * * *
53461 ACCTCTTACCCCTAGCCTAGGGCAGAT--TGCAACCATTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-C-ATCATTCA
* * * ** * **
53500 ATCTCTTACCTCAAGGCTAAGGCAGACCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
* * *
53539 ATCTTTTACCCCTAGCCTGGGGCAGAT--TGCAGTCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCATTCA
* * * * **
53578 ATCACTTACCTCAAGCCTGAGGCAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
*
53617 ATCTCTCACCC
1 ATCTCTTACCC
53628 GATCATGGGG
Statistics
Matches: 581, Mismatches: 159, Indels: 98
0.69 0.19 0.12
Matches are distributed among these distances:
36 1 0.00
37 6 0.01
38 62 0.11
39 490 0.84
40 17 0.03
41 5 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCATTCA
Found at i:53039 original size:78 final size:78
Alignment explanation
Indices: 52798--53627 Score: 587
Period size: 78 Copynumber: 10.7 Consensus size: 78
52788 TTGAAGATCC
* * * * *
52798 CGATCTCTTACCTCGAGCTTAGGGC-AGATCATCATCAACCAATCTCTTACCCCGAGCCTGGGGT
1 CGATCTCTTACCCCGAGCCTA-GGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGC
*
52862 AGATTGTAGCCATT
65 AGATTGCAGCCATT
* * * * * ** * * * *
52876 CAATCTCTTACACCAAGCTTCGGGCAA-ATCAAAACCAGTAAATCTCTTA-CCCAAGTC-GAGGG
1 CGATCTCTTACCCCGAGCCT-AGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTG-GGG
52938 CAGATTGCAGCCATT
64 CAGATTGCAGCCATT
* * *
52953 CGATCTCTTACCCCGAGCCTAGGCTAGATCGTTATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCCTAGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
* *
53018 GATTACAACCATT
66 GATTGCAGCCATT
* * * * *
53031 AGATCTCTTACCCTGAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCCCGAGCCTGGGGTA
1 CGATCTCTTACCCCGAGCCTAGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
* *
53096 GATTGCAACCATC
66 GATTGCAGCCATT
* * * * * * *
53109 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCGTTAGCAAATCTTTTTCCCCGAGCCT-AGGCA
1 CGATCTCTTACCCCGAGCCTAGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
53173 GATTGCAGCCATT
66 GATTGCAGCCATT
* * * * *
53186 CGATCTCTTACCCCGAACCTAGGAAAGATCATCATCAGCAAATCTCTTACCCAGAGCTTGGGGAA
1 CGATCTCTTACCCCGAGCCTAGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
*
53251 GATTGCAGTCATT
66 GATTGCAGCCATT
* * * * * * * *
53264 CGATCTCTTACCCCAAGCTTGGGGC-AGATTA-CAGTC-GTTC-GATCTTTTACCCTGAGCTTGG
1 CGATCTCTTACCCCGAGCCT-AGGCAAGATCATCA-TCAG--CAAATCTCTTACCCCGAGCCTGG
* ** * * **
53325 GGTAGATCACCGTCAAC
62 GGCAGATTGCAGCCATT
* * * * ** * *
53342 CAATCTCTTACCCCGAGCCTGGGGAAAATTGT-AGTCATTC-AATCTCTTACCCCGAGCTTGGGG
1 CGATCTCTTACCCCGAGCCTAGGCAAGATCATCA-TCA-GCAAATCTCTTACCCCGAGCCTGGGG
*
53405 CAGA-T-CA-TCA-T
64 CAGATTGCAGCCATT
* * * ** * * * *
53416 CAGCAAATATCTTACCCCGAGCTTGGGGTAGATCATCATCAGTAAACCTCTTACCCCTAGCCTAG
1 C-G---ATCTCTTACCCCGAGCCTAGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGG
*
53481 GGCAGATTGCAACCATT
62 GGCAGATTGCAGCCATT
* * * * * * * *
53498 CAATCTCTTACCTCAAGGCTAAGGC-AGACCATCATCAGCCAATCTTTTACCCCTAGCCTGGGGC
1 CGATCTCTTACCCCGAGCCT-AGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGC
*
53562 AGATTGCAGTCATT
65 AGATTGCAGCCATT
* * * * * *
53576 CGATCACTTACCTCAAGCCTGAGGC-AGATCATCATCAACCAATCTCTCACCC
1 CGATCTCTTACCCCGAGCCT-AGGCAAGATCATCATCAGCAAATCTCTTACCC
53628 GATCATGGGG
Statistics
Matches: 595, Mismatches: 131, Indels: 52
0.76 0.17 0.07
Matches are distributed among these distances:
74 1 0.00
75 3 0.01
76 6 0.01
77 125 0.21
78 445 0.75
79 9 0.02
80 2 0.00
81 2 0.00
82 2 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (78 bp):
CGATCTCTTACCCCGAGCCTAGGCAAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
GATTGCAGCCATT
Found at i:53080 original size:155 final size:152
Alignment explanation
Indices: 52798--53277 Score: 491
Period size: 155 Copynumber: 3.1 Consensus size: 152
52788 TTGAAGATCC
* * * * *
52798 CGATCTCTTACCTCGAGCTTAGGGCAGATCATCATCAACCAATCTCTTACCCCGAGCCTGGGGTA
1 CGATCTCTTACCCCGAGCCTA-GGCAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
* * * * ** *
52863 GATTGTAGCCATTCA-ATCTCTTACACCAAGCTTCGGGCAA-ATCAAAACCAGT-AAATCTCTTA
65 GATTGCAGCCATT-AGATCTCTTAC-CCGAGCCTAGGG-AAGATCATCATCA-TCAAATCTCTTA
*
52925 CCCAAGTCGAGGGCAGATTGCAGCCATT
126 CCCAAGTCG-GGGAAGATTGCAGCCATT
* *
52953 CGATCTCTTACCCCGAGCCTAGGCTAGATCGTTATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTCTTACCCCGAGCCTAGGC-AGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
* *
53018 GATTACAACCATTAGATCTCTTACCCTGAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCC
65 GATTGCAGCCATTAGATCTCTTACCC-GAGCCTAGGGAAGATCATCATCATCAAATCTCTTA-CC
* * * * *
53083 CGAGCCTGGGGTAGATTGCAACCATC
128 CAAGTC-GGGGAAGATTGCAGCCATT
* * * * * * *
53109 CGATCTCTTACCCCGAGCCTGGGGAAGATCATCGTTAGCAAATCTTTTTCCCCGAGCCT-AGGCA
1 CGATCTCTTACCCCGAGCCT-AGGCAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCA
* * * *
53173 GATTGCAGCCATTCGATCTCTTACCCCGAACCTAGGAAAGATCATCATCAGCAAATCTCTTACCC
65 GATTGCAGCCATTAGATCTCTTA-CCCGAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCC
* *
53238 AGAGCTTGGGGAAGATTGCAGTCATT
129 A-AG-TCGGGGAAGATTGCAGCCATT
53264 CGATCTCTTACCCC
1 CGATCTCTTACCCC
53278 AAGCTTGGGG
Statistics
Matches: 271, Mismatches: 43, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
154 12 0.04
155 184 0.68
156 72 0.27
157 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (152 bp):
CGATCTCTTACCCCGAGCCTAGGCAGATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCAG
ATTGCAGCCATTAGATCTCTTACCCGAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCCAA
GTCGGGGAAGATTGCAGCCATT
Found at i:53397 original size:233 final size:233
Alignment explanation
Indices: 52799--53569 Score: 619
Period size: 233 Copynumber: 3.3 Consensus size: 233
52789 TGAAGATCCC
* * * * * *
52799 GATCTCTTACCTCGAGCTTAGGGCAGATCATCATCAACCAATCTCTTACCCCGAGCCTGGGGTAG
1 GATCTCTTACCCCAAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCCCGAGCCTGGGGTAG
* * ** * * * * * * ** *
52864 ATTGTAGCCATTCAATCTCTTACACCAAGCTTCGGGCAAATCAAAACCAGTAAATCTCTTA-CCC
66 ATTGCAACCAACCAATCTCTTACCCCGAGCCTGGGGAAAATCATAGTCAGCAAATCTCTTACCCC
* * * * ** * *
52928 AAGTCGAGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTAGGCTAGATCGTTATCAGCA
131 GAGCCTA-GGCAGATTGCAGCCATTCGATCTCTTACCCCGAACCTAGGAAAGATCATCATCAGCA
* *
52993 AATCTCTTACCCCGAGCCTGGGGCAGATTACAACCATTA
195 AATCTCTTACCCAGAGCCTGGGGAAGATTACAACCATTA
**
53032 GATCTCTTACCCTGAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCCCGAGCCTGGGGTAG
1 GATCTCTTACCCCAAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCCCGAGCCTGGGGTAG
* * * * * * *
53097 ATTGCAACCATCCGATCTCTTACCCCGAGCCTGGGGAAGATCATCGTTAGCAAATCTTTTTCCCC
66 ATTGCAACCAACCAATCTCTTACCCCGAGCCTGGGGAAAATCATAGTCAGCAAATCTCTTACCCC
53162 GAGCCTAGGCAGATTGCAGCCATTCGATCTCTTACCCCGAACCTAGGAAAGATCATCATCAGCAA
131 GAGCCTAGGCAGATTGCAGCCATTCGATCTCTTACCCCGAACCTAGGAAAGATCATCATCAGCAA
* * ** *
53227 ATCTCTTACCCAGAGCTTGGGGAAGATTGCAGTCATTC
196 ATCTCTTACCCAGAGCCTGGGGAAGATTACAACCATTA
* * * * * * * * *
53265 GATCTCTTACCCCAAGCTTGGGGCAGATTA-CAGTCGTTC-GATCTTTTACCCTGAGCTTGGGGT
1 GATCTCTTACCCCAAGCCTAGGGAAGATCATCA-TC-ATCAAATCTCTTACCCCGAGCCTGGGGT
* ** *
53328 AGA-T-CACCGTCAACCAATCTCTTACCCCGAGCCTGGGGAAAATTGTAGTCATTC-AATCTCTT
64 AGATTGCAAC--CAACCAATCTCTTACCCCGAGCCTGGGGAAAATCATAGTCA-GCAAATCTCTT
* * * * * * * **
53390 ACCCCGAGCTTGGGGCAGA-T-CA-TCA-TCAGCAAATATCTTACCCCGAGCTTGGGGTAGATCA
126 ACCCCGAGCCT-AGGCAGATTGCAGCCATTC-G---ATCTCTTACCCCGAACCTAGGAAAGATCA
* * ** * * *
53451 TCATCAGTAAACCTCTTACCCCTAGCCTAGGGCAGATTGCAACCATTCA
186 TCATCAGCAAATCTCTTACCCAGAGCCTGGGGAAGATTACAACCATT-A
* * * * * * * * * *
53500 -ATCTCTTACCTCAAGGCTAAGGCAGACCATCATCAGCCAATCTTTTACCCCTAGCCTGGGGCAG
1 GATCTCTTACCCCAAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCCCGAGCCTGGGGTAG
53564 ATTGCA
66 ATTGCA
53570 GTCATTCGAT
Statistics
Matches: 428, Mismatches: 94, Indels: 29
0.78 0.17 0.05
Matches are distributed among these distances:
230 2 0.00
231 6 0.01
232 5 0.01
233 287 0.67
234 123 0.29
235 3 0.01
236 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (233 bp):
GATCTCTTACCCCAAGCCTAGGGAAGATCATCATCATCAAATCTCTTACCCCGAGCCTGGGGTAG
ATTGCAACCAACCAATCTCTTACCCCGAGCCTGGGGAAAATCATAGTCAGCAAATCTCTTACCCC
GAGCCTAGGCAGATTGCAGCCATTCGATCTCTTACCCCGAACCTAGGAAAGATCATCATCAGCAA
ATCTCTTACCCAGAGCCTGGGGAAGATTACAACCATTA
Found at i:54095 original size:17 final size:17
Alignment explanation
Indices: 54073--54148 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 17
54063 AACTTTTGAT
* *
54073 TTTAAATTTATATTAAG
1 TTTAAATTTATTTTAAA
**
54090 TTTAAATTGGTTTTAAA
1 TTTAAATTTATTTTAAA
*
54107 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
54124 TTTAAATTTAGTTTAAA
1 TTTAAATTTATTTTAAA
54141 TTTGAAAT
1 TTT-AAAT
54149 AGTTTTAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 47 0.92
18 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:54155 original size:17 final size:17
Alignment explanation
Indices: 54085--54162 Score: 88
Period size: 17 Copynumber: 4.6 Consensus size: 17
54075 TAAATTTATA
* *
54085 TTAAGTTTAAATTGGTT
1 TTAAATTTAAATTAGTT
*
54102 TTAAATTTAAATTTGTT
1 TTAAATTTAAATTAGTT
54119 TTAAATTTAAATTTAG-T
1 TTAAATTTAAA-TTAGTT
54136 TTAAATTTGAAA-TAGTT
1 TTAAATTT-AAATTAGTT
*
54153 TTAAACTTAA
1 TTAAATTTAA
54163 TTTTAAAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.09
17 43 0.80
18 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.51
Consensus pattern (17 bp):
TTAAATTTAAATTAGTT
Found at i:55847 original size:31 final size:31
Alignment explanation
Indices: 55811--55991 Score: 161
Period size: 30 Copynumber: 6.1 Consensus size: 31
55801 AACTTTTTCC
* *
55811 AAATTCACATATTGACCCTCGAACTTCACAA
1 AAATTCACATTTTTACCCTCGAACTTCACAA
*
55842 TAATTC-CATTTTTACCCTCGAACTTCACAA
1 AAATTCACATTTTTACCCTCGAACTTCACAA
*
55872 AAATT-ATATTTTTACCCTCGAACTTTC-CAA
1 AAATTCACATTTTTACCCTCGAAC-TTCACAA
*
55902 AAATT-ACA-TTTTACCC-CTAAACTTCA-AA
1 AAATTCACATTTTTACCCTC-GAACTTCACAA
* * * *
55930 AAA-TCACATTTTTGCCCCCAAACATC-CAA
1 AAATTCACATTTTTACCCTCGAACTTCACAA
*
55959 AAATT-ACCA-TTTTACCCTCGAACCTC-CAA
1 AAATTCA-CATTTTTACCCTCGAACTTCACAA
55988 AAAT
1 AAAT
55992 ATTATTCTTG
Statistics
Matches: 127, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.01
28 12 0.09
29 50 0.39
30 56 0.44
31 8 0.06
ACGTcount: A:0.37, C:0.29, G:0.03, T:0.31
Consensus pattern (31 bp):
AAATTCACATTTTTACCCTCGAACTTCACAA
Found at i:55914 original size:29 final size:29
Alignment explanation
Indices: 55825--56356 Score: 208
Period size: 29 Copynumber: 18.1 Consensus size: 29
55815 TCACATATTG
* *
55825 ACCCTCGAACTTCACAATAATT-CCATTTTT
1 ACCCTCGAACTTC-CAAAAATTATCA-TTTT
55855 ACCCTCGAACTTCACAAAAATTAT-ATTTTT
1 ACCCTCGAACTTC-CAAAAATTATCA-TTTT
55885 ACCCTCGAACTTTCCAAAAATTA-CATTTT
1 ACCCTCGAAC-TTCCAAAAATTATCATTTT
* * *
55914 ACCC-CTAAACTTCAAAAAATCA-CATTTTT
1 ACCCTC-GAACTTCCAAAAATTATCA-TTTT
* * * * *
55943 GCCCCCAAACATCCAAAAATTACCATTTT
1 ACCCTCGAACTTCCAAAAATTATCATTTT
* *
55972 ACCCTCGAACCTCCAAAAA-TATTATTCTT
1 ACCCTCGAACTTCCAAAAATTATCATT-TT
* * *
56001 GA-TCTTGAACTTTCCAAAAATTATCGTTTT
1 -ACCCTCGAAC-TTCCAAAAATTATCATTTT
* * * *** * *
56031 GCTCTCGAATTTATGAAATTTACCATTTT
1 ACCCTCGAACTTCCAAAAATTATCATTTT
* ** * *
56060 ACCTTTTAATTTCCAAAAAAT-TCATTTTT
1 ACCCTCGAACTTCCAAAAATTATCA-TTTT
* *
56089 GACCCT-AAACATTCCAAAAATTACCATTTTT
1 -ACCCTCGAAC-TTCCAAAAATTATCA-TTTT
* *
56120 ACCC-CTGAACTACCAAAAAATCA-CATTTTT
1 ACCCTC-GAACTTCC-AAAAATTATCA-TTTT
* **
56150 ACCC-CTAAACTTTTAAAAATTATCATTTT
1 ACCCTC-GAACTTCCAAAAATTATCATTTT
56179 ACCCTCGAACTTCCAAAAA-TATCATTTTT
1 ACCCTCGAACTTCCAAAAATTATCA-TTTT
*
56208 AACCCT--AAATTCCTTAAAAATTATCATTTT
1 -ACCCTCGAACTTCC--AAAAATTATCATTTT
* * *
56238 ACCC-CCAAGCTTCTAGAAATTA-C-TTCTT
1 ACCCTCGAA-CTTCCAAAAATTATCATT-TT
** * * *
56266 ACCGC-CG-TGTGTTCGAAAATTATCAATTT
1 ACC-CTCGAACT-TCCAAAAATTATCATTTT
* * *
56295 GCCCTCGAAGTGTCC-AAAATTATCGTTTT
1 ACCCTCGAACT-TCCAAAAATTATCATTTT
* * *
56324 AGTCCT-GAACTTCCAAAATTTACCATTTT
1 A-CCCTCGAACTTCCAAAAATTATCATTTT
56353 ACCC
1 ACCC
56357 CCGGGCATCC
Statistics
Matches: 384, Mismatches: 80, Indels: 78
0.71 0.15 0.14
Matches are distributed among these distances:
27 3 0.01
28 50 0.13
29 165 0.43
30 133 0.35
31 33 0.09
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (29 bp):
ACCCTCGAACTTCCAAAAATTATCATTTT
Found at i:56105 original size:30 final size:29
Alignment explanation
Indices: 56070--56241 Score: 140
Period size: 30 Copynumber: 5.8 Consensus size: 29
56060 ACCTTTTAAT
56070 TTCCAAAAAAT-TCATTTTTGACCCTAAAC
1 TTCCAAAAAATATCATTTTT-ACCCTAAAC
* * *
56099 ATTCCAAAAATTACCATTTTTACCCCTGAAC
1 -TTCCAAAAAATATCATTTTTA-CCCTAAAC
*
56130 TACCAAAAAATCA-CATTTTTACCCCTAAAC
1 TTCCAAAAAAT-ATCATTTTTA-CCCTAAAC
** * *
56160 TTTTAAAAATTATCA-TTTTACCCTCGAAC
1 TTCCAAAAAATATCATTTTTACCCT-AAAC
56189 TTCC-AAAAATATCATTTTTAACCCTAAA-
1 TTCCAAAAAATATCATTTTT-ACCCTAAAC
*
56217 TTCCTTAAAAATTATCA-TTTTACCC
1 TTCC--AAAAAATATCATTTTTACCC
56242 CCAAGCTTCT
Statistics
Matches: 116, Mismatches: 16, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
28 17 0.15
29 21 0.18
30 54 0.47
31 24 0.21
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
TTCCAAAAAATATCATTTTTACCCTAAAC
Found at i:56116 original size:59 final size:59
Alignment explanation
Indices: 56050--56241 Score: 189
Period size: 59 Copynumber: 3.2 Consensus size: 59
56040 TTTATGAAAT
* * *
56050 TTACCATTTTACCTTTTAATTTCCAAAAAAT-TCATTTTTGACCCTAAACATTCCAAAAA
1 TTACCATTTTACCCTTGAACTTCCAAAAAATATCATTTTT-ACCCTAAACATTCCAAAAA
* * **
56109 TTACCATTTTTACCCCTGAACTACCAAAAAATCA-CATTTTTACCCCTAAAC-TTTTAAAAA
1 TTACCA-TTTTACCCTTGAACTTCCAAAAAAT-ATCATTTTTA-CCCTAAACATTCCAAAAA
* *
56169 TTATCATTTTACCCTCGAACTTCC-AAAAATATCATTTTTAACCCT-AA-ATTCCTTAAAAA
1 TTACCATTTTACCCTTGAACTTCCAAAAAATATCATTTTT-ACCCTAAACATTCC--AAAAA
*
56228 TTATCATTTTACCC
1 TTACCATTTTACCC
56242 CCAAGCTTCT
Statistics
Matches: 111, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
57 5 0.05
58 17 0.15
59 41 0.37
60 33 0.30
61 15 0.14
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (59 bp):
TTACCATTTTACCCTTGAACTTCCAAAAAATATCATTTTTACCCTAAACATTCCAAAAA
Done.