Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3713
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: 61614
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:2501 original size:10 final size:10
Alignment explanation
Indices: 2485--2542 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
2475 CAACTCCGAC
2485 CAGCTCAATT
1 CAGCTCAATT
* *
2495 GAGCTCATTT
1 CAGCTCAATT
2505 CAGCTCAA-T
1 CAGCTCAATT
2514 CGAGCTCAATT
1 C-AGCTCAATT
*
2525 TAGCTACAATT
1 CAGCT-CAATT
2536 CAGCTCA
1 CAGCTCA
2543 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:2508 original size:20 final size:20
Alignment explanation
Indices: 2485--2545 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
2475 CAACTCCGAC
2485 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
2505 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
2526 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
2546 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:12284 original size:16 final size:16
Alignment explanation
Indices: 12263--12293 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12253 ATCATATGCA
12263 TATGGTATATTTAGTG
1 TATGGTATATTTAGTG
12279 TATGGTATATTTAGT
1 TATGGTATATTTAGT
12294 ATGATGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (16 bp):
TATGGTATATTTAGTG
Found at i:13695 original size:22 final size:22
Alignment explanation
Indices: 13667--13710 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13657 TTTTTAACCA
13667 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
13689 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
13711 AAATACCAAA
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:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:14024 original size:12 final size:12
Alignment explanation
Indices: 14007--14052 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
13997 ATAGGTACGT
14007 AAAAAAAATTTG
1 AAAAAAAATTTG
14019 AAAAAAAATTTTG
1 AAAAAAAA-TTTG
*
14032 AAAAAAAAAATTG
1 -AAAAAAAATTTG
14045 AAAAAAAA
1 AAAAAAAA
14053 AATTGCATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 16 0.52
13 7 0.23
14 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:14025 original size:13 final size:13
Alignment explanation
Indices: 14007--14053 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
13997 ATAGGTACGT
14007 AAAAAAAATTTGA
1 AAAAAAAATTTGA
*
14020 AAAAAAATTTTGA
1 AAAAAAAATTTGA
*
14033 AAAAAAAAATTGA
1 AAAAAAAATTTGA
14046 AAAAAAAA
1 AAAAAAAA
14054 ATTGCATACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:16399 original size:14 final size:13
Alignment explanation
Indices: 16370--16408 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
16360 ATCGTAGCTT
*
16370 CAAAAAAAAA-AG
1 CAAAAAAAAATTG
16382 -AAAAAAAAATTG
1 CAAAAAAAAATTG
16394 CAAAAAAAAATTG
1 CAAAAAAAAATTG
16407 CA
1 CA
16409 TACGGTCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 9 0.38
12 1 0.04
13 14 0.58
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.10
Consensus pattern (13 bp):
CAAAAAAAAATTG
Found at i:18687 original size:24 final size:25
Alignment explanation
Indices: 18660--18713 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
18650 ATGAGTGATA
*
18660 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
18684 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
18708 AAAAAA
1 AAAAAA
18714 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:25890 original size:20 final size:19
Alignment explanation
Indices: 25867--25912 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
25857 AGGTTAAGAT
25867 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGC-TGAA
* * *
25887 TGAGTTGACTTGAGCTGAG
1 TGAGCTGAATTGAGCTGAA
25906 TGAGCTG
1 TGAGCTG
25913 GAAATAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.24, C:0.11, G:0.35, T:0.30
Consensus pattern (19 bp):
TGAGCTGAATTGAGCTGAA
Found at i:27632 original size:48 final size:48
Alignment explanation
Indices: 27577--27682 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
27567 TTGTCTTTTC
*
27577 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
27625 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
27673 TTTCTTTTTC
1 TTTCTTTTTC
27683 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:28745 original size:23 final size:24
Alignment explanation
Indices: 28699--28745 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
28689 ACTCGCAATA
*
28699 CTTTTCACTTTTTTTTGTTCTTTT
1 CTTTTCACTTTTTTTTCTTCTTTT
*
28723 CTTTT-ACTTTTTTTTCTTTTTTT
1 CTTTTCACTTTTTTTTCTTCTTTT
28746 GCTCACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (24 bp):
CTTTTCACTTTTTTTTCTTCTTTT
Found at i:32607 original size:22 final size:22
Alignment explanation
Indices: 32579--32622 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32569 TTTTGAACCA
32579 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
32601 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
32623 AAATACCAAA
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:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:32935 original size:12 final size:12
Alignment explanation
Indices: 32918--32962 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
32908 ATAGGTACGT
32918 AAAAAAAATTTG
1 AAAAAAAATTTG
32930 AAAAAAAAATTTG
1 -AAAAAAAATTTG
32943 AAAAAAGAA-TTG
1 AAAAAA-AATTTG
32955 AAAAAAAA
1 AAAAAAAA
32963 AATTGCATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.06
12 15 0.48
13 14 0.45
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:32936 original size:13 final size:13
Alignment explanation
Indices: 32918--32963 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
32908 ATAGGTACGT
32918 AAAAAAAATTTGA
1 AAAAAAAATTTGA
32931 AAAAAAAATTTGA
1 AAAAAAAATTTGA
*
32944 AAAAAGAA-TTGA
1 AAAAAAAATTTGA
32956 AAAAAAAA
1 AAAAAAAA
32964 ATTGCATACG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:33768 original size:15 final size:15
Alignment explanation
Indices: 33736--33769 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33726 GTTCAACGAA
*
33736 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
33751 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
33766 GAGG
1 GAGG
33770 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:37466 original size:22 final size:22
Alignment explanation
Indices: 37438--37481 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37428 TTTTGAACCA
37438 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
37460 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
37482 AAATACCAAA
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:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:39464 original size:18 final size:20
Alignment explanation
Indices: 39423--39464 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
39413 ATAGTCCATT
*
39423 CATGAACTTAATATTAAGTA
1 CATGAACCTAATATTAAGTA
39443 -ATGAACCTAA-ATTAAG-A
1 CATGAACCTAATATTAAGTA
39460 CATGA
1 CATGA
39465 CCTTCTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 1 0.05
18 10 0.50
19 9 0.45
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (20 bp):
CATGAACCTAATATTAAGTA
Found at i:39925 original size:13 final size:13
Alignment explanation
Indices: 39907--39931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39897 CGGCTAACCT
39907 ACATAATTAAATA
1 ACATAATTAAATA
39920 ACATAATTAAAT
1 ACATAATTAAAT
39932 TGATACGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:47549 original size:15 final size:15
Alignment explanation
Indices: 47529--47581 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
47519 TAGCTTCTTC
47529 TTTTTTTCACGAAAT
1 TTTTTTTCACGAAAT
47544 TTTTTTTCACG-AAT
1 TTTTTTTCACGAAAT
*
47558 TTTTTTTCACGAATT
1 TTTTTTTCACGAAAT
47573 TTTTTTTCA
1 TTTTTTTCA
47582 ACTTGATATC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 14 0.39
15 22 0.61
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (15 bp):
TTTTTTTCACGAAAT
Found at i:47578 original size:14 final size:14
Alignment explanation
Indices: 47529--47578 Score: 91
Period size: 14 Copynumber: 3.5 Consensus size: 14
47519 TAGCTTCTTC
47529 TTTTTTTCACGAAAT
1 TTTTTTTCACG-AAT
47544 TTTTTTTCACGAAT
1 TTTTTTTCACGAAT
47558 TTTTTTTCACGAAT
1 TTTTTTTCACGAAT
47572 TTTTTTT
1 TTTTTTT
47579 TCAACTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.20, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTTTTCACGAAT
Found at i:47638 original size:12 final size:11
Alignment explanation
Indices: 47619--47675 Score: 98
Period size: 11 Copynumber: 5.2 Consensus size: 11
47609 ATGGAAACCA
47619 AATTTTTTTTG
1 AATTTTTTTTG
47630 AATTTTTTTTG
1 AATTTTTTTTG
47641 AA-TTTTTTTG
1 AATTTTTTTTG
47651 AATTTTTTTTG
1 AATTTTTTTTG
47662 AAATTTTTTTTG
1 -AATTTTTTTTG
47674 AA
1 AA
47676 GAAACTACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.23
11 23 0.52
12 11 0.25
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:47648 original size:21 final size:22
Alignment explanation
Indices: 47622--47671 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
47612 GAAACCAAAT
47622 TTTTTTTGAATTTTTTTTG-AA
1 TTTTTTTGAATTTTTTTTGAAA
47643 TTTTTTTGAATTTTTTTTGAAA
1 TTTTTTTGAATTTTTTTTGAAA
47665 TTTTTTT
1 TTTTTTT
47672 TGAAGAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (22 bp):
TTTTTTTGAATTTTTTTTGAAA
Found at i:48709 original size:21 final size:23
Alignment explanation
Indices: 48664--48710 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
48654 TCACCTGCAA
* *
48664 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
48687 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
48708 TAA
1 TAA
48711 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:54445 original size:13 final size:13
Alignment explanation
Indices: 54427--54457 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
54417 AATAGGTACG
54427 TAAAAAAAAGAGT
1 TAAAAAAAAGAGT
54440 TAAAAAAAAGAGT
1 TAAAAAAAAGAGT
*
54453 CAAAA
1 TAAAA
54458 TCGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.13, T:0.13
Consensus pattern (13 bp):
TAAAAAAAAGAGT
Found at i:54493 original size:18 final size:19
Alignment explanation
Indices: 54472--54512 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
54462 AAAAAAAATT
54472 AAAAAAAATTG-AAAGAAA
1 AAAAAAAATTGAAAAGAAA
**
54490 AAAAAATTTTGAAAAGAAA
1 AAAAAAAATTGAAAAGAAA
54509 AAAA
1 AAAA
54513 CATTGCATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
AAAAAAAATTGAAAAGAAA
Found at i:54505 original size:19 final size:16
Alignment explanation
Indices: 54472--54517 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 16
54462 AAAAAAAATT
54472 AAAAAAAATTGAAAGA
1 AAAAAAAATTGAAAGA
54488 AAAAAAAATTTTGAAAAGA
1 AAAAAAAA--TTG-AAAGA
*
54507 AAAAAACATTG
1 AAAAAAAATTG
54518 CATACGGTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
18 3 0.12
19 12 0.46
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (16 bp):
AAAAAAAATTGAAAGA
Found at i:54936 original size:20 final size:20
Alignment explanation
Indices: 54890--54936 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
54880 AGCTCGTTTC
*
54890 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
54910 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
54930 CAGCTCA
1 CAGCTCA
54937 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:56472 original size:10 final size:9
Alignment explanation
Indices: 56436--56470 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
56426 AGAAGTGAGC
56436 AAAAAAAGA
1 AAAAAAAGA
56445 AAAAAAAGTA
1 AAAAAAAG-A
56455 AAAAAAAGA
1 AAAAAAAGA
56464 AAAAAAA
1 AAAAAAA
56471 AGTGAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:56478 original size:10 final size:10
Alignment explanation
Indices: 56436--56478 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
56426 AGAAGTGAGC
56436 AAAAAAAG-A
1 AAAAAAAGTA
56445 AAAAAAAGTA
1 AAAAAAAGTA
*
56455 AAAAAAAGAA
1 AAAAAAAGTA
56465 AAAAAAAGTGA
1 AAAAAAAGT-A
56476 AAA
1 AAA
56479 GTCTTGCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.27
10 18 0.60
11 4 0.13
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (10 bp):
AAAAAAAGTA
Found at i:57557 original size:48 final size:47
Alignment explanation
Indices: 57478--57583 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
57468 GAGTGTCATG
*
57478 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
57526 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
57574 GAAAAAGAAA
1 GAAAAAGAAA
57584 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:59301 original size:20 final size:20
Alignment explanation
Indices: 59255--59301 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
59245 AGCTCGTTTC
*
59255 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
59275 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
59295 CAGCTCA
1 CAGCTCA
59302 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Done.