Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1623
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: 93724
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Found at i:1154 original size:22 final size:22
Alignment explanation
Indices: 1128--1169 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1118 TATTTTTATT
1128 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
1150 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
1170 ATTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:1817 original size:29 final size:29
Alignment explanation
Indices: 1785--1845 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
1775 AATATTATAA
*
1785 TATTTTTATAATTAAATATA-AATAA-AAAT
1 TATTTTT-T-ATTAAATAAATAATAATAAAT
*
1814 TATTTTTTATTCAATAAATAATAATAAAT
1 TATTTTTTATTAAATAAATAATAATAAAT
1843 TAT
1 TAT
1846 ATTAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 6 0.21
29 14 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
TATTTTTTATTAAATAAATAATAATAAAT
Found at i:1856 original size:25 final size:25
Alignment explanation
Indices: 1828--1876 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1818 TTTTATTCAA
*
1828 TAAATAATAATAA-ATTATATTAATT
1 TAAATAATAA-AATATCATATTAATT
*
1853 TAAATAGTAAAATATCATATTAAT
1 TAAATAATAAAATATCATATTAAT
1877 ATTTAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
TAAATAATAAAATATCATATTAATT
Found at i:2128 original size:17 final size:18
Alignment explanation
Indices: 2108--2168 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
2098 ATTTTTTACA
*
2108 ATAAAAAT-AATTAAAAT
1 ATAAAAATAAAATAAAAT
2125 AT-AAAATAAAATAAAAT
1 ATAAAAATAAAATAAAAT
*
2142 AT-AATATAAAA-AATAAT
1 ATAAAAATAAAATAA-AAT
*
2159 ATAAATATAA
1 ATAAAAATAA
2169 TAATTATGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.18
17 25 0.64
18 7 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATAAAATAAAAT
Found at i:2133 original size:22 final size:22
Alignment explanation
Indices: 2111--2170 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
2101 TTTTACAATA
*
2111 AAAAT-AATTAAAATATAAAAT
1 AAAATAAAATAAAATATAAAAT
*
2132 AAAATAAAATATAATATAAAA-
1 AAAATAAAATAAAATATAAAAT
*
2153 AATAATATAAATATAATA
1 AA-AATA-AAATAAAATA
2171 ATTATGTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 7 0.21
22 17 0.50
23 10 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATAAAATAAAATATAAAAT
Found at i:2136 original size:12 final size:12
Alignment explanation
Indices: 2107--2168 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
2097 CATTTTTTAC
2107 AATAAAA-AT-A
1 AATAAAATATAA
*
2117 ATTAAAATATAA
1 AATAAAATATAA
2129 AAT-AAA-ATAA
1 AATAAAATATAA
*
2139 AATATAATATAA
1 AATAAAATATAA
2151 AA-AATAATATAA
1 AATAA-AATATAA
2163 ATATAA
1 A-ATAA
2169 TAATTATGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 13 0.32
11 8 0.20
12 17 0.41
13 1 0.02
14 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAAAATATAA
Found at i:2664 original size:18 final size:18
Alignment explanation
Indices: 2602--2669 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 18
2592 ATAATATTAA
2602 TATATAAATATCTTAAAATT
1 TATATAAATA--TTAAAATT
2622 TATAT-AATATT--AA-T
1 TATATAAATATTAAAATT
2636 TAT-TAACATATTAAAATT
1 TATATAA-ATATTAAAATT
2654 TATATAAATA-TAAAAT
1 TATATAAATATTAAAAT
2670 ATTTTAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.02
14 5 0.12
15 7 0.17
17 10 0.24
18 7 0.17
19 7 0.17
20 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATAAATATTAAAATT
Found at i:2664 original size:33 final size:33
Alignment explanation
Indices: 2592--2660 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
2582 AAAACATAAC
* *
2592 ATAATATTAATATATAAATATCTTAAAATTTAT
1 ATAATATTAATATATAAACATATTAAAATTTAT
*
2625 ATAATATTAAT-TATTAACATATTAAAATTTAT
1 ATAATATTAATATATAAACATATTAAAATTTAT
2657 ATAA
1 ATAA
2661 ATATAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAATATTAATATATAAACATATTAAAATTTAT
Found at i:2701 original size:21 final size:21
Alignment explanation
Indices: 2675--2716 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2665 AAAATATTTT
*
2675 AAATATA-ATTATAATATAATA
1 AAATATATATTAAAATA-AATA
2696 AAATATATATTAAAATAAATA
1 AAATATATATTAAAATAAATA
2717 TATAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATATATATTAAAATAAATA
Found at i:2717 original size:16 final size:16
Alignment explanation
Indices: 2649--2720 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
2639 TAACATATTA
*
2649 AAATTTATA-TAAATAT
1 AAATATATATTAAA-AT
*
2665 AAA-ATAT-TTTAAAT
1 AAATATATATTAAAAT
* *
2679 ATAAT-TATAATATAAT
1 A-AATATATATTAAAAT
2695 AAAATATATATTAAAAT
1 -AAATATATATTAAAAT
2712 AAATATATA
1 AAATATATA
2721 AATGATGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
14 3 0.07
15 11 0.26
16 19 0.44
17 10 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATATATTAAAAT
Found at i:5624 original size:5 final size:5
Alignment explanation
Indices: 5610--5729 Score: 123
Period size: 5 Copynumber: 24.0 Consensus size: 5
5600 TGCATGAAAC
* * * * * *
5610 CAATG CAATG TAATG AAATG CAATG CATTG AAATG CAATG CAATA AAATG
1 CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG
* * * * *
5660 AAATG CAATG TAATG AAATG CAATG CAATG AAATG CAATG CAATG AAATG
1 CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG
* *
5710 AAATG AAATG CAATG CAATG
1 CAATG CAATG CAATG CAATG
5730 AAAATTATGC
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
5 97 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (5 bp):
CAATG
Found at i:5631 original size:15 final size:15
Alignment explanation
Indices: 5611--5732 Score: 145
Period size: 15 Copynumber: 8.1 Consensus size: 15
5601 GCATGAAACC
*
5611 AATGCAATGTAATGA
1 AATGCAATGCAATGA
*
5626 AATGCAATGCATTGA
1 AATGCAATGCAATGA
*
5641 AATGCAATGCAATAA
1 AATGCAATGCAATGA
* *
5656 AATGAAATGCAATGT
1 AATGCAATGCAATGA
* *
5671 AATGAAATGCAATGC
1 AATGCAATGCAATGA
* *
5686 AATGAAATGCAATGC
1 AATGCAATGCAATGA
* *
5701 AATGAAATGAAATGA
1 AATGCAATGCAATGA
5716 AATGCAATGCAATGA
1 AATGCAATGCAATGA
5731 AA
1 AA
5733 ATTATGCATG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 95 1.00
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (15 bp):
AATGCAATGCAATGA
Found at i:5730 original size:20 final size:20
Alignment explanation
Indices: 5610--5732 Score: 140
Period size: 20 Copynumber: 6.7 Consensus size: 20
5600 TGCATGAAAC
*
5610 CAATGCAATGTAATGAAATG
1 CAATGCAATGAAATGAAATG
5630 CAATGC-AT----TGAAATG
1 CAATGCAATGAAATGAAATG
*
5645 CAATGCAATAAAATGAAATG
1 CAATGCAATGAAATGAAATG
5665 CAATG---T--AATGAAATG
1 CAATGCAATGAAATGAAATG
*
5680 CAATGCAATGAAATGCAATG
1 CAATGCAATGAAATGAAATG
*
5700 CAATGAAATGAAATGAAATG
1 CAATGCAATGAAATGAAATG
5720 CAATGCAATGAAA
1 CAATGCAATGAAA
5733 ATTATGCATG
Statistics
Matches: 89, Mismatches: 4, Indels: 20
0.79 0.04 0.18
Matches are distributed among these distances:
15 27 0.30
16 2 0.02
17 1 0.01
18 1 0.01
19 2 0.02
20 56 0.63
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (20 bp):
CAATGCAATGAAATGAAATG
Found at i:5776 original size:14 final size:15
Alignment explanation
Indices: 5757--5791 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
5747 GAATGTTACG
5757 TGAAAA-GCATGAAA
1 TGAAAATGCATGAAA
5771 TGAAAATGCATGAAA
1 TGAAAATGCATGAAA
5786 TGAAAA
1 TGAAAA
5792 ATATGTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (15 bp):
TGAAAATGCATGAAA
Found at i:6260 original size:14 final size:15
Alignment explanation
Indices: 6241--6273 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6231 AAAGTCTAAG
*
6241 AGGAAAAA-AAATGC
1 AGGAAAAACAAAAGC
6255 AGGAAAAACAAAAGC
1 AGGAAAAACAAAAGC
6270 AGGA
1 AGGA
6274 CCACACAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.64, C:0.09, G:0.24, T:0.03
Consensus pattern (15 bp):
AGGAAAAACAAAAGC
Found at i:7207 original size:42 final size:42
Alignment explanation
Indices: 6404--7310 Score: 1267
Period size: 42 Copynumber: 21.6 Consensus size: 42
6394 TCTAAGGTCA
* * * ** *
6404 AAGCCGACAGGCAGAATGAGGAAATAAAAGTCTCCA-GGATCA
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGA-CG
* *
6446 AAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * * * * *
6488 AAGCCGACAGGCATACTAAGGGTAGAAAAGTCTCCGGGGTCA
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
*
6530 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCTAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * *
6572 AAGCCGACAGGTAGACTAAGGGAAGGAAAGTCTTCAGGGACA
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * * *
6614 AAGCCGATAGGCAGACTAAGGGAAAGAAAGTCTCCAGGAATG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * *
6656 AAGCCGACAGGCAGACTAAGGGAAAGAAAGTCTCCAGGAACA
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
** *
6698 AAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCCAGGAACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * *
6740 AAGTCGACAGGCAGACTAAGGGAAAGAAAGTCTCCAGGAACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * * * *
6782 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCGGGGTCA
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
6824 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
*
6866 AAGCCGACAGGCAGACTAAGGGAAAGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* *
6908 AAGCCGACAGGCAGACTAAGGGAAAGAAAGTCTCCAAGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* *
6950 AAGCCGATAGGTAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* *
6992 AAGCCGACAAGTAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* *
7034 AAGCCGACAGGTAGACTAAGGGAAAGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* *
7076 AAGCCGACAGGCAGACTAAGGGAAAGAAAGTCTCCAGGAACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * * * *
7118 AAGCCGACAGACAGACTAAGGGAAAGAAAGGTCTCCGGGGTCA
1 AAGCCGACAGGCAGACTAAGGGAAGGAAA-GTCTCCAGGGACG
*
7161 AAGCCGACAGGCAGACTAAGGGAAGGAGAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
*
7203 AAGCCGACAGGTAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
* * * *
7245 AAGCCGACAGGTAAACTAAGGGAAGGAAAGTCTCCAGAGATG
1 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
7287 AAGCCGACAGGCAGACTAAGGGAA
1 AAGCCGACAGGCAGACTAAGGGAA
7311 AACAAAAAAG
Statistics
Matches: 783, Mismatches: 80, Indels: 4
0.90 0.09 0.00
Matches are distributed among these distances:
42 745 0.95
43 38 0.05
ACGTcount: A:0.38, C:0.20, G:0.33, T:0.09
Consensus pattern (42 bp):
AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
Found at i:9394 original size:28 final size:28
Alignment explanation
Indices: 9359--9430 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
9349 GGAGTAAAGC
** *
9359 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
9387 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
9415 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
9431 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:9488 original size:52 final size:51
Alignment explanation
Indices: 9418--9640 Score: 223
Period size: 52 Copynumber: 4.3 Consensus size: 51
9408 GAAATAACGA
* * **
9418 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAACCGG
* * *
9470 AGTTGGAGTATCCCCGATTAAAG-GGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * *
9523 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAACCGG
* *** * * ** *
9575 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGAAAATAAAGTCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
9626 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
9641 TTGAAAATAA
Statistics
Matches: 143, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.01
51 36 0.25
52 62 0.43
53 33 0.23
54 10 0.07
55 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:9677 original size:17 final size:17
Alignment explanation
Indices: 9655--9719 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
9645 AAATAACGGA
9655 GTTGGAATATCCCCGGG
1 GTTGGAATATCCCCGGG
* **
9672 GTTGGAGTATCCCCGATC
1 GTTGGAATATCCCCG-GG
9690 G-TGGAATATCCCCGGG
1 GTTGGAATATCCCCGGG
*
9706 GTTGGAGTATCCCC
1 GTTGGAATATCCCC
9720 TTGGAAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 1 0.03
17 37 0.95
18 1 0.03
ACGTcount: A:0.17, C:0.26, G:0.32, T:0.25
Consensus pattern (17 bp):
GTTGGAATATCCCCGGG
Found at i:12056 original size:20 final size:20
Alignment explanation
Indices: 12029--12083 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
12019 TAAAATTTCC
*
12029 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
12049 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
12069 AAATGTATCGATACA
1 AAATGTATCGATACA
12084 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:12127 original size:19 final size:18
Alignment explanation
Indices: 12103--12172 Score: 78
Period size: 19 Copynumber: 4.1 Consensus size: 18
12093 CAGTAGCTAA
12103 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
12122 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
12137 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
12154 TTATGTATCGTTACAAAC
1 TTATGTATCGATACAAAC
12172 T
1 T
12173 GTTGAATTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.25
14 1 0.02
16 2 0.05
18 6 0.14
19 24 0.55
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:12143 original size:13 final size:13
Alignment explanation
Indices: 12125--12149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12115 ACAATACTTA
12125 TGTATCGATACAT
1 TGTATCGATACAT
12138 TGTATCGATACA
1 TGTATCGATACA
12150 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:12147 original size:32 final size:32
Alignment explanation
Indices: 12106--12168 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
12096 TAGCTAATTA
*
12106 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
12138 TGTATCGATACAAAACTTATGTATCGTTACA
1 TGTATCGATACAAAACTTATGTATCGATACA
12169 AACTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:23995 original size:16 final size:15
Alignment explanation
Indices: 23969--23999 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
23959 AAAAAAAAGA
23969 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
23984 ATTTTGTTATTATTTT
1 ATTTT-TTATTATTTT
24000 TATGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:25344 original size:5 final size:5
Alignment explanation
Indices: 25330--25424 Score: 100
Period size: 5 Copynumber: 19.0 Consensus size: 5
25320 TGCATGAAAC
* * * * *
25330 CAATG CAATG TAATG AAATG CAATG CAATG AAATG AAATG AAATG CAATG
1 CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG
* * * * *
25380 CAATG AAATG CAATG CAATA AAATG AAATG AAATG CAATG CAATG
1 CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG CAATG
25425 AAAATTATGC
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 79 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (5 bp):
CAATG
Found at i:25355 original size:20 final size:20
Alignment explanation
Indices: 25330--25427 Score: 142
Period size: 20 Copynumber: 4.9 Consensus size: 20
25320 TGCATGAAAC
*
25330 CAATGCAATGTAATGAAATG
1 CAATGCAATGAAATGAAATG
25350 CAATGCAATGAAATGAAATG
1 CAATGCAATGAAATGAAATG
* *
25370 AAATGCAATGCAATGAAATG
1 CAATGCAATGAAATGAAATG
*
25390 CAATGCAATAAAATGAAATG
1 CAATGCAATGAAATGAAATG
* *
25410 AAATGCAATGCAATGAAA
1 CAATGCAATGAAATGAAA
25428 ATTATGCATG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.20
Consensus pattern (20 bp):
CAATGCAATGAAATGAAATG
Found at i:25471 original size:14 final size:15
Alignment explanation
Indices: 25452--25486 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
25442 GAATGTTACG
25452 TGAAAA-GCATGAAA
1 TGAAAATGCATGAAA
25466 TGAAAATGCATGAAA
1 TGAAAATGCATGAAA
25481 TGAAAA
1 TGAAAA
25487 ATATGTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (15 bp):
TGAAAATGCATGAAA
Found at i:25598 original size:39 final size:39
Alignment explanation
Indices: 25547--25622 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
25537 AATACAATTC
*
25547 ATTTCATTTTTTTTTTTTTAAAAAAAATTATTTTTATTT
1 ATTTCATTTTTTTTTGTTTAAAAAAAATTATTTTTATTT
* * *
25586 ATTT-ATTATTTTTTTGTTTAATAATAATTTTTTTTAT
1 ATTTCATT-TTTTTTTGTTTAAAAAAAATTATTTTTAT
25623 AAACTTTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (39 bp):
ATTTCATTTTTTTTTGTTTAAAAAAAATTATTTTTATTT
Found at i:25599 original size:19 final size:19
Alignment explanation
Indices: 25555--25619 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
25545 TCATTTCATT
* * *
25555 TTTTTTTTTTTAAAAAAAA
1 TTTTTTTATTTAATAATAA
* * *
25574 TTATTTTTATTTATTTATTA
1 TT-TTTTTATTTAATAATAA
*
25594 TTTTTTTGTTTAATAATAA
1 TTTTTTTATTTAATAATAA
25613 TTTTTTT
1 TTTTTTT
25620 TATAAACTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
19 22 0.63
20 13 0.37
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTTTATTTAATAATAA
Found at i:27848 original size:2 final size:2
Alignment explanation
Indices: 27836--27866 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27826 AGCTAGAGAC
*
27836 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27867 TAAATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:27994 original size:2 final size:2
Alignment explanation
Indices: 27982--28011 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27972 TATTTTTATG
*
27982 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28012 ATAAAAGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:29873 original size:2 final size:2
Alignment explanation
Indices: 29866--29905 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
29856 AGCATTCTGG
29866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29906 GCGGGCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31010 original size:11 final size:12
Alignment explanation
Indices: 30986--31023 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
30976 ATATGTTCGT
30986 ATATATATTTAA
1 ATATATATTTAA
30998 ATATATA-TTAA
1 ATATATATTTAA
31009 ATATAAATATTTAA
1 ATAT--ATATTTAA
31023 A
1 A
31024 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 8 0.35
12 7 0.30
13 3 0.13
14 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATATATTTAA
Found at i:31032 original size:17 final size:18
Alignment explanation
Indices: 31007--31049 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
30997 AATATATATT
*
31007 AAATATAAATATTTAAAA
1 AAATATAAAAATTTAAAA
31025 AAAT-TAAAAATTT-AAA
1 AAATATAAAAATTTAAAA
*
31041 TAATATAAA
1 AAATATAAA
31050 TTACATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAAAAATTTAAAA
Found at i:31608 original size:36 final size:36
Alignment explanation
Indices: 31564--31662 Score: 98
Period size: 36 Copynumber: 2.8 Consensus size: 36
31554 GAAATGACTC
31564 AAAATTTATTTTATTATTTAAAATAATA-TTAAA-A
1 AAAATTTATTTTATTATTTAAAATAATATTTAAATA
* * *
31598 AAATATTTTATATTAATATTTATAATTAA-ATTTAAATA
1 AAA-A-TTTATTTTATTATTTA-AAATAATATTTAAATA
**
31636 AAAATAAATTTTATTATTT-AAATAATA
1 AAAATTTATTTTATTATTTAAAATAATA
31663 ATTCAAATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
34 8 0.16
35 2 0.04
36 26 0.51
37 11 0.22
38 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
AAAATTTATTTTATTATTTAAAATAATATTTAAATA
Found at i:39152 original size:2 final size:2
Alignment explanation
Indices: 39145--39173 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39135 TTTACATGCT
39145 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
39174 ACTTACAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:39709 original size:26 final size:23
Alignment explanation
Indices: 39680--39727 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
39670 TTACAAAAAA
39680 TTTATAAATTATATATTTATATTATG
1 TTTATAAATT-T-TATTT-TATTATG
*
39706 TTTATATATTTTATTTTATTAT
1 TTTATAAATTTTATTTTATTAT
39728 AATTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 1 0.05
26 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATAAATTTTATTTTATTATG
Found at i:40005 original size:11 final size:12
Alignment explanation
Indices: 39981--40018 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
39971 GATATCATAA
*
39981 AATATAAAAAAT
1 AATATAAAATAT
39993 AAT-TAAAATAT
1 AATATAAAATAT
40004 AATATAAATATAT
1 AATATAAA-ATAT
40017 AA
1 AA
40019 ATTTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 7 0.30
13 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAAAATAT
Found at i:40013 original size:29 final size:28
Alignment explanation
Indices: 39972--40033 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
39962 ACATGATATG
*
39972 ATATCATAAAATATAAAAAATAATTAAA
1 ATATAATAAAATATAAAAAATAATTAAA
* * *
40000 ATATAATATAAATATATAAATTTATTAAA
1 ATATAATA-AAATATAAAAAATAATTAAA
40029 ATATA
1 ATATA
40034 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAATAAAATATAAAAAATAATTAAA
Found at i:40019 original size:20 final size:18
Alignment explanation
Indices: 39972--40019 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 18
39962 ACATGATATG
39972 ATATCATAAAATATAAAAA
1 ATAT-ATAAAATATAAAAA
39991 ATA-ATTAAAATATAATATAA
1 ATATA-TAAAATATAA-A-AA
40011 ATATATAAA
1 ATATATAAA
40020 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 1 0.04
18 10 0.40
19 4 0.16
20 9 0.36
21 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATATAAAATATAAAAA
Found at i:40707 original size:13 final size:14
Alignment explanation
Indices: 40653--40707 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 14
40643 ATAAATTATC
40653 AAAATATATATAATAT
1 AAAA-ATAT-TAATAT
*
40669 -AAATTATTAATAT
1 AAAAATATTAATAT
*
40682 AAAAA-ATTTATAT
1 AAAAATATTAATAT
40695 AAAAATA-TAATAT
1 AAAAATATTAATAT
40708 CTTAAATGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 23 0.70
14 7 0.21
15 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAATATTAATAT
Found at i:40887 original size:18 final size:20
Alignment explanation
Indices: 40866--40913 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 20
40856 TTATTTAAAA
40866 ATATTAAAA-TAT-TATTTT
1 ATATTAAAATTATATATTTT
40884 ATATTAAAATTTATATATTTT
1 ATATTAAAA-TTATATATTTT
40905 ATAATTAAA
1 AT-ATTAAA
40914 TTTTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.35
20 3 0.12
21 8 0.31
22 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTAAAATTATATATTTT
Found at i:40899 original size:22 final size:22
Alignment explanation
Indices: 40878--40918 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
40868 ATTAAAATAT
40878 TATTTTAT-ATTAAAATTTATA
1 TATTTTATAATTAAAATTTATA
*
40899 TATTTTATAATTAAATTTTA
1 TATTTTATAATTAAAATTTA
40919 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTTATAATTAAAATTTATA
Found at i:40902 original size:21 final size:20
Alignment explanation
Indices: 40866--40918 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
40856 TTATTTAAAA
40866 ATATTAAAA--TATTATTTT
1 ATATTAAAATTTATTATTTT
40884 ATATTAAAATTTATATATTTT
1 ATATTAAAATTTAT-TATTTT
*
40905 ATAATTAAATTTTA
1 AT-ATTAAAATTTA
40919 ATAAAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 9 0.30
20 3 0.10
21 8 0.27
22 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTAAAATTTATTATTTT
Found at i:41781 original size:15 final size:16
Alignment explanation
Indices: 41729--41781 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
41719 AATAACTTAA
* *
41729 AACTTAAAATGATCAA
1 AACTCAAAATGATCAG
*
41745 AACTCGAAATGATCAG
1 AACTCAAAATGATCAG
41761 AA-TCAAAATGATC-G
1 AACTCAAAATGATCAG
41775 AACTCAA
1 AACTCAA
41782 TAAACCCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 3 0.09
15 14 0.44
16 15 0.47
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.21
Consensus pattern (16 bp):
AACTCAAAATGATCAG
Found at i:43195 original size:16 final size:16
Alignment explanation
Indices: 43171--43202 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43161 GTTTTGGTTC
43171 ATTAAAATAAAATAAT
1 ATTAAAATAAAATAAT
*
43187 ATTATAATAAAATAAT
1 ATTAAAATAAAATAAT
43203 CAATTTGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAAATAAAATAAT
Found at i:43986 original size:2 final size:2
Alignment explanation
Indices: 43979--44009 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43969 CTAAGGAGGT
43979 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
44010 ATTCATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45247 original size:17 final size:16
Alignment explanation
Indices: 45219--45258 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
45209 ATTTGAATAA
* *
45219 AAAATGATCAAAACTT
1 AAAATAATCCAAACTT
45235 AAAATAATCCAAACTT
1 AAAATAATCCAAACTT
45251 AAAATAAT
1 AAAATAAT
45259 TTAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATAATCCAAACTT
Found at i:46316 original size:12 final size:13
Alignment explanation
Indices: 46275--46316 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
46265 GGGCTGGGAG
*
46275 AAAGAGAAGGAATA
1 AAAGAGAAAGAA-A
*
46289 AAAGAGAAAGGAA
1 AAAGAGAAAGAAA
46302 AAAG-GAAAGAAA
1 AAAGAGAAAGAAA
46314 AAA
1 AAA
46317 AGCAACAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 5 0.20
14 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAGAAA
Found at i:47805 original size:449 final size:450
Alignment explanation
Indices: 46604--49567 Score: 4173
Period size: 449 Copynumber: 6.6 Consensus size: 450
46594 AGTTAGGGAT
* * * * ** ** * *
46604 TGAAATTCTTGCCCACCTTTCACCATGTCTCATGTTGTTTCTATTATTAATATCTTATCGAACCG
1 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
* **
46669 GTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAGAACTTACTCAAATTTTTTCAAAAAAAAT
66 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTC-AATTTTTTTTAAAAAAAT
* **
46734 TATAAAGAAAAATA-GAAAAGGGAAAAGCATTGCTGTATCTTTAATCCTTCCATGACCAACTATT
130 TATAAAGAAAAAGAGGAAAA-GGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTATT
* *
46798 ATAAATATTATCTCAAAAACTATATCTTGGAATCTTTACATCAATGAAAAACTTGAGCCCAATTA
194 ATAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCC-ATTA
*
46863 TAAACAAATCAAGAATTAAACTACTTGATTATTATTT-GGGGAAAATATAAATAAAAGAAATTAA
258 TAAACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATATAAAAGAAATTAA
* *
46927 ATTGACTACTTACCTTAATTTTTTCAAGATAATCGACATCATTTTTCAATATCATAATCATATTT
323 ATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATATTT
* * *
46992 TCTTGAATTTAAATACTTTTGTAATTTAAATCGAAAATTTTGAAGTAAAAACGAGTTG-GGAC
388 TCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
* * * * *
47054 TGAACTTTTTG-CCACCTTTCACCATGTCTCGTGCTGTTTCTGCTATCGATATCTTGTCAAACCA
1 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
* *
47118 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACT-TATTTTTTTAAAAAAAAAT
66 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTTTTTT-TAAAAAAAT
* * *
47182 TGTAAA-AGAAAAGA-GAAAAGGGAAAAGCATTATTATATCTTTAATCCTTCCATGGCCAACTAT
130 TATAAAGA-AAAAGAGGAAAA-GGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTAT
* *
47245 TATAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAACCTCGAGCCCATTA
193 TATAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCCATTA
* * * * *
47310 TAAATAAATCAGGAATTAAACTAGTTGATTATTATTTA-GAGAAAATATATATAAAAGAAAATAA
258 TAAACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATATAAAAGAAATTAA
* *
47374 ATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTTAATATCATAATCATATTT
323 ATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATATTT
* * * * * *
47439 TCTTGAACTTAACTACTTTAGTAATTTAAATCGAAAATTTTGAAATAAAAACGAGTAGTAGAT
388 TCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
* *
47502 TGAACTTCTTTCCCACCTTTGACCATGTCTCTTGCTATTTCTGCTATCGATATCTTGTCGAACCA
1 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
*
47567 GTGAGGTTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTTTTTTTAAAAAAATT
66 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTTTTTTTAAAAAAATT
* * * * *
47632 ATAAAGAAAAAGAGGAAAAAGAAAAGCATTACTGTATCTTTAATCCTTTCATTACCAAGTATTAT
131 ATAAAGAAAAAGAGGAAAAGGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTATTAT
* * *
47697 AGATACTATCTCAAAAACTATATCTT-GAATCTCTACATCAATGAAAAACTTGAGCCCATTATAA
196 AAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCCATTATAA
* *
47761 ACAAATCAAGAATTAAACTACTTAATTATTATTTAGGGGAAAATATATATAAAAGAAACTAAATT
261 ACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATATAAAAGAAATTAAATT
* *
47826 GACTACTTATCTTAATTTTTTCATGATAATCGACATTATTTTTCAATGTCATAATCATATTTTCT
326 GACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATATTTTCT
*
47891 TGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAATGAGTTGTGGAC
391 TGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
* *
47951 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTTTGCTATCAATATCTTGTCGAACCA
1 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
* * * ** *
48016 GTAAAGCTGCATAAATAGAAT-TAAAGATTAAGCAAGAACTTATTTTATTTATTTTTTAAAAAAT
66 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTT-TTTTTAAAAAAAT
* * *
48080 TATAAAGAAAAAAAGAGGAAAGGGAAAAGAATTATTGTATCTTTAATCCTTACATGACCAACTAT
130 TATAAAG--AAAAAGAGGAAAAGGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTAT
*
48145 TATAAATATTATCTC-AAAA--ACATCTT-GAATCTCTACATTAATGAAAAACTTGAGCCCATTA
193 TATAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCCATTA
* * *
48206 TAAACAAATCAAGAATTAAACTAATTCATTATTATTTAGGGGAAAATATATAT-AAATAAATTAA
258 TAAACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATATAAAAGAAATTAA
* *
48270 ATTGACTATTTACCTTAATTTTTTCGTGATAATCGACATCATTTTTCAATGTCATAATCATATTT
323 ATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATATTT
*
48335 TCATGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
388 TCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
* * *
48398 TTAACTTCTTGCCCATCTTTGACCATGTCTTATGCTATTTCTGCTATCGATATCTTGTCGAACCA
1 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
* * * **
48463 GTAAGGCTGTATAAATAGAATATAAAGATTAAGTAAGAACTTACTTTATTTTTTTTGAAAAAAAA
66 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTTTTTTT---AAAAAA
* * *
48528 ATTATAAAGGAAAAGAGGAAAGGGAAAAGCATTATTGTATCTTTAATCCTTACATGACCAACTAT
128 ATTATAAAGAAAAAGAGGAAAAGGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTAT
* * * *
48593 TATAAATATTATCTCAAAAACTATATCTTGGAATCTCTA-ATCAATAAAAAACCTAAGCCCATTA
193 TATAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCCATTA
* *
48657 TAAACAAATCAACAATTAAACTA-TCTGATTATTATTTAAGGGAAAATATATAT-AAAGAAATTA
258 TAAACAAATCAAGAATTAAACTACT-TGATTATTATTTAGGGGAAAATATATATAAAAGAAATTA
* * * *
48720 AATTAACTATTTACCTTAATTTTTTTCATGATGATCGACATCATTTTT-AATGTCGTAATCATAT
322 AATTGACTACTTACCTTAA-TTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATAT
* * * * *
48784 TTTCTTAAACTTAAACACTTTTGTCATTTAAATCGAAAATTCTGAAATAAAAACAAGTTGGGGAC
386 TTTCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
* * ** * *
48849 TGAACTTCTTGGCCACCTTTCACCATGTCTC--G---TTT-AACTATCGATATCCTGTCAAACCA
1 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
* * * *
48908 ATGAGGTTGCATAAATAGAATATAAAAATTAAGCAAGAACTTACTCAATTTTTTTAAAAAAAATT
66 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTTTTTTTAAAAAAATT
* * *
48973 ATAAAGAAAAAGAGGTAAAA-GAAAAGCATTATTTTATCTTTAATCGTTCCATGACCAAGTATTA
131 ATAAAGAAAAAGAGG-AAAAGGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTATTA
* * *
49037 TAGATATTATCTCAAAAACTACATCTTGGAATCTCTACGTAAATGAAAAACTTGAGCCCATTATA
195 TAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCCATTATA
*
49102 AACAAATCAAGAATTAAACTATTTGATTATTATTT--GGGAGAAATATATATAAAAGAAATTAAA
260 AACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGA-AAATATATATAAAAGAAATTAAA
* * *
49165 TTGACTGCTTACCTTAATTTTTTCATGATGATCGACATTATTTTTCAATGTCATAATCATATTTT
324 TTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATATTTT
* *
49230 CTTGAACTTAAACACTTTTGTAATTTAAATTGAAAATTCTGAAATAAAAACGAGTTGTGGAC
389 CTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
* * *
49292 TAAACTTCTTGCCCACCTTTGACCATGTCTCCTGC-A-----GTTAT-GATATCTTGTCGAACCA
1 TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
* * **
49350 GTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAAAACTTACTCAATTTTTTTTTTTAAAAAT
66 GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAA-TTTTTTTTAAAAAAAT
* * * * **
49415 TATAAAGGAAAAGAGGAAAGGGAAAAGAATTACTGTATCTTTAATCCTTTTATGACCAACTATTA
130 TATAAAGAAAAAGAGGAAAAGGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTATTA
* ** * *
49480 TAGATGCTATCTCAAAAACTACATCTT-GAATGTCTACATCAATGAAAAACTTGAGCACATTATA
195 TAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCCATTATA
*
49544 AACAAATAAAGAATTAAACTACTT
260 AACAAATCAAGAATTAAACTACTT
49568 CAAAAATGAA
Statistics
Matches: 2265, Mismatches: 215, Indels: 76
0.89 0.08 0.03
Matches are distributed among these distances:
441 4 0.00
442 251 0.11
443 279 0.12
444 1 0.00
445 68 0.03
446 3 0.00
447 400 0.18
448 412 0.18
449 506 0.22
450 42 0.02
451 264 0.12
452 35 0.02
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (450 bp):
TGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTCTGCTATCGATATCTTGTCGAACCA
GTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTTTTTTTAAAAAAATT
ATAAAGAAAAAGAGGAAAAGGAAAAGCATTATTGTATCTTTAATCCTTCCATGACCAACTATTAT
AAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAAACTTGAGCCCATTATAA
ACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATATAAAAGAAATTAAATT
GACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATATTTTCT
TGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGTTGTGGAC
Found at i:48334 original size:896 final size:895
Alignment explanation
Indices: 46592--49567 Score: 4229
Period size: 896 Copynumber: 3.3 Consensus size: 895
46582 AATTAATGTT
* * * * * ** **
46592 CGAGTTAG-GGATTGAAATTCTTGCCCACCTTTCACCATGTCTCATGTTGTTTCTATTATTAATA
1 CGAGTT-GTGGATTGAACTTCTTGCCCACCTTTGACCATGTCTCTTGCTATTTCTGCTATCGATA
* *
46656 TCTTATCGAACCGGTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAGAACTTACTCAAATTT
65 TCTTGTCGAACCAGTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAGAACTTACTC-AATTT
** * * *
46721 TTTCAAAAAAAATTATAAAGAAAAATA-GAAAAGGGAAAAGCATTGCTGTATCTTTAATCCTTCC
129 TTTTTAAAAAAATTATAAAGAAAAAGAGGAAAA-GGAAAAGCATTACTGTATCTTTAATCCTTTC
* *
46785 ATGACCAACTATTATAAATATTATCTCAAAAACTATATCTTGGAATCTTTACATCAATGAAAAAC
193 ATGACCAACTATTATAAATACTATCTCAAAAACTATATCTTGGAATCTCTACATCAATGAAAAAC
*
46850 TTGAGCCCAATTATAAACAAATCAAGAATTAAACTACTTGATTATTATTT-GGGGAAAATATAAA
258 TTGAGCCC-ATTATAAACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATA
* *
46914 TAAAAGAAATTAAATTGACTACTTACCTTAATTTTTTCAAGATAATCGACATCATTTTTCAATAT
322 TAAAAGAAATTAAATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGT
* * *
46979 CATAATCATATTTTCTTGAATTTAAATACTTTTGTAATTTAAATCGAAAATTTTGAAGTAAAAAC
387 CATAATCATATTTTCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAAC
* *
47044 GAGTTGGGACTGAACTTTTTGCCACCTTTCACCATGTCTCGTGCTGTTTCTGCTATCGATATCTT
452 GAGTTGGGACTGAACTTCTTGCCACCTTTCACCATGTCTC-TGCT-TTTTTGCTATCGATATCTT
*
47109 GTCAAACCAGTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTTATTTTTTTAA
515 GTCAAACCAGTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTATTTATTTTTTT-A
* * * *
47174 AAAAAAATTGT-AA-AAGAAAAGAGAAAAGGGAAAAGCATTATTATATCTTTAATCCTTCCATGG
579 AAAAAAATTATAAAGAAAAAAAGAGGAAAGGGAAAAGCATTATTATATCTTTAATCCTTCCATGA
* * *
47237 CCAACTATTATAAATATTATCTCAAAAACTACATCTTGGAATCTCTACATCAATGAAAACCTCGA
644 CCAACTATTATAAATATTATCTCAAAAAC-ACATCTTGGAATCTCTACATAAATGAAAAACTTGA
* * * *
47302 GCCCATTATAAATAAATCAGGAATTAAACTAGTTGATTATTATTTAGAGAAAATATATATAAAAG
708 GCCCATTATAAACAAATCAAGAATTAAACTAATTGATTATTATTTAGGGAAAATATATATAAAAG
* * *
47367 AAAATAAATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTTAATATCATAAT
773 AAATTAAATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAAT
* *
47432 CATATTTTCTTGAACTTAACTACTTTAGTAATTTAAATCGAAAATTTTGAAATAAAAA
838 CATATTTTCTTGAACTTAACTACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAA
* * *
47490 CGAGTAGTAGATTGAACTTCTTTCCCACCTTTGACCATGTCTCTTGCTATTTCTGCTATCGATAT
1 CGAGTTGTGGATTGAACTTCTTGCCCACCTTTGACCATGTCTCTTGCTATTTCTGCTATCGATAT
* *
47555 CTTGTCGAACCAGTGAGGTTGCATAAATAGAATATAAAGATTAAGCAAGAACTTACTCAATTTTT
66 CTTGTCGAACCAGTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAGAACTTACTCAATTTTT
* *
47620 TTTAAAAAAATTATAAAGAAAAAGAGGAAAAAGAAAAGCATTACTGTATCTTTAATCCTTTCATT
131 TTTAAAAAAATTATAAAGAAAAAGAGGAAAAGGAAAAGCATTACTGTATCTTTAATCCTTTCATG
* *
47685 ACCAAGTATTATAGATACTATCTCAAAAACTATATCTT-GAATCTCTACATCAATGAAAAACTTG
196 ACCAACTATTATAAATACTATCTCAAAAACTATATCTTGGAATCTCTACATCAATGAAAAACTTG
*
47749 AGCCCATTATAAACAAATCAAGAATTAAACTACTTAATTATTATTTAGGGGAAAATATATATAAA
261 AGCCCATTATAAACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATATAAA
* * *
47814 AGAAACTAAATTGACTACTTATCTTAATTTTTTCATGATAATCGACATTATTTTTCAATGTCATA
326 AGAAATTAAATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATA
*
47879 ATCATATTTTCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAATGAGT
391 ATCATATTTTCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGT
* *
47944 TGTGGACTGAACTTCTTGCCCACCTTTGACCATGTCTCATGCTATTTTTGCTATCAATATCTTGT
456 TG-GGACTGAACTTCTTG-CCACCTTTCACCATGTCTC-TGCT-TTTTTGCTATCGATATCTTGT
* * * **
48009 CGAACCAGTAAAGCTGCATAAATAGAAT-TAAAGATTAAGCAAGAACTTATTTTATTTATTTTTT
517 CAAACCAGTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTA-TTTATTT-TTTTAA
* * *
48073 AAAAAATTATAAAGAAAAAAAGAGGAAAGGGAAAAGAATTATTGTATCTTTAATCCTTACATGAC
580 AAAAAATTATAAAGAAAAAAAGAGGAAAGGGAAAAGCATTATTATATCTTTAATCCTTCCATGAC
*
48138 CAACTATTATAAATATTATCTC-AAAA-ACATCTT-GAATCTCTACATTAATGAAAAACTTGAGC
645 CAACTATTATAAATATTATCTCAAAAACACATCTTGGAATCTCTACATAAATGAAAAACTTGAGC
* *
48200 CCATTATAAACAAATCAAGAATTAAACTAATTCATTATTATTTAGGGGAAAATATATAT-AAATA
710 CCATTATAAACAAATCAAGAATTAAACTAATTGATTATTATTTA-GGGAAAATATATATAAAAGA
* *
48264 AATTAAATTGACTATTTACCTTAATTTTTTCGTGATAATCGACATCATTTTTCAATGTCATAATC
774 AATTAAATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATC
* *
48329 ATATTTTCATGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAA
839 ATATTTTCTTGAACTTAACTACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAA
*
48386 CGAGTTGTGGACTT-AACTTCTTGCCCATCTTTGACCATGTCT-TATGCTATTTCTGCTATCGAT
1 CGAGTTGTGGA-TTGAACTTCTTGCCCACCTTTGACCATGTCTCT-TGCTATTTCTGCTATCGAT
* * * * **
48449 ATCTTGTCGAACCAGTAAGGCTGTATAAATAGAATATAAAGATTAAGTAAGAACTTACTTTATTT
64 ATCTTGTCGAACCAGTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAGAACTTACTCAATTT
* * *
48514 TTTTTGAAAAAAAAATTATAAAGGAAAAGAGGAAAGGGAAAAGCATTATTGTATCTTTAATCCTT
129 TTTTT---AAAAAAATTATAAAGAAAAAGAGGAAAAGGAAAAGCATTACTGTATCTTTAATCCTT
* * *
48579 ACATGACCAACTATTATAAATATTATCTCAAAAACTATATCTTGGAATCTCTA-ATCAATAAAAA
191 TCATGACCAACTATTATAAATACTATCTCAAAAACTATATCTTGGAATCTCTACATCAATGAAAA
* * * *
48643 ACCTAAGCCCATTATAAACAAATCAACAATTAAACTA-TCTGATTATTATTTAAGGGAAAATATA
256 ACTTGAGCCCATTATAAACAAATCAAGAATTAAACTACT-TGATTATTATTTAGGGGAAAATATA
* * *
48707 TAT-AAAGAAATTAAATTAACTATTTACCTTAATTTTTTTCATGATGATCGACATCATTTTT-AA
320 TATAAAAGAAATTAAATTGACTACTTACCTTAA-TTTTTTCATGATAATCGACATCATTTTTCAA
* * * *
48770 TGTCGTAATCATATTTTCTTAAACTTAAACACTTTTGTCATTTAAATCGAAAATTCTGAAATAAA
384 TGTCATAATCATATTTTCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAA
* **
48835 AACAAGTTGGGGACTGAACTTCTTGGCCACCTTTCACCATGTCTC-G---TTTAACTATCGATAT
449 AACGAGTT-GGGACTGAACTTCTT-GCCACCTTTCACCATGTCTCTGCTTTTTTGCTATCGATAT
* * * * **
48896 CCTGTCAAACCAATGAGGTTGCATAAATAGAATATAAAAATTAAGCAAGAACTTACTCAATTTTT
512 CTTGTCAAACCAGTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTA-TTTATTTTT
* * *
48961 TTAAAAAAAATTATAAAG--AAAAAGAGGTAAA-AGAAAAGCATTATTTTATCTTTAATCGTTCC
576 TTAAAAAAAATTATAAAGAAAAAAAGAGG-AAAGGGAAAAGCATTATTATATCTTTAATCCTTCC
* * *
49023 ATGACCAAGTATTATAGATATTATCTCAAAAACTACATCTTGGAATCTCTACGTAAATGAAAAAC
640 ATGACCAACTATTATAAATATTATCTCAAAAAC-ACATCTTGGAATCTCTACATAAATGAAAAAC
*
49088 TTGAGCCCATTATAAACAAATCAAGAATTAAACTATTTGATTATTATTT-GGGAGAAATATATAT
704 TTGAGCCCATTATAAACAAATCAAGAATTAAACTAATTGATTATTATTTAGGGA-AAATATATAT
* * *
49152 AAAAGAAATTAAATTGACTGCTTACCTTAATTTTTTCATGATGATCGACATTATTTTTCAATGTC
768 AAAAGAAATTAAATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTC
*
49217 ATAATCATATTTTCTTGAACTTAAAC-ACTTTTGTAATTTAAATTGAAAATTCTGAAATAAAAA
833 ATAATCATATTTTCTTGAACTT-AACTACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAA
* * * *
49280 CGAGTTGTGGACTAAACTTCTTGCCCACCTTTGACCATGTCTCCTGC-A-----GTTAT-GATAT
1 CGAGTTGTGGATTGAACTTCTTGCCCACCTTTGACCATGTCTCTTGCTATTTCTGCTATCGATAT
*
49338 CTTGTCGAACCAGTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAAAACTTACTCAATTTTT
66 CTTGTCGAACCAGTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAGAACTTACTCAA-TTTT
** * * * *
49403 TTTTTTAAAAATTATAAAGGAAAAGAGGAAAGGGAAAAGAATTACTGTATCTTTAATCCTTTTAT
130 TTTTAAAAAAATTATAAAGAAAAAGAGGAAAAGGAAAAGCATTACTGTATCTTTAATCCTTTCAT
* * * *
49468 GACCAACTATTATAGATGCTATCTCAAAAACTACATCTT-GAATGTCTACATCAATGAAAAACTT
195 GACCAACTATTATAAATACTATCTCAAAAACTATATCTTGGAATCTCTACATCAATGAAAAACTT
* *
49532 GAGCACATTATAAACAAATAAAGAATTAAACTACTT
260 GAGCCCATTATAAACAAATCAAGAATTAAACTACTT
49568 CAAAAATGAA
Statistics
Matches: 1868, Mismatches: 176, Indels: 81
0.88 0.08 0.04
Matches are distributed among these distances:
884 8 0.00
885 133 0.07
886 1 0.00
887 58 0.03
888 12 0.01
890 60 0.03
891 7 0.00
892 61 0.03
893 44 0.02
894 224 0.12
895 43 0.02
896 472 0.25
897 152 0.08
898 318 0.17
899 199 0.11
900 76 0.04
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (895 bp):
CGAGTTGTGGATTGAACTTCTTGCCCACCTTTGACCATGTCTCTTGCTATTTCTGCTATCGATAT
CTTGTCGAACCAGTGAGGCTGCATAAATAAAATATAAAGATTAAGCAAGAACTTACTCAATTTTT
TTTAAAAAAATTATAAAGAAAAAGAGGAAAAGGAAAAGCATTACTGTATCTTTAATCCTTTCATG
ACCAACTATTATAAATACTATCTCAAAAACTATATCTTGGAATCTCTACATCAATGAAAAACTTG
AGCCCATTATAAACAAATCAAGAATTAAACTACTTGATTATTATTTAGGGGAAAATATATATAAA
AGAAATTAAATTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATA
ATCATATTTTCTTGAACTTAAATACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAACGAGT
TGGGACTGAACTTCTTGCCACCTTTCACCATGTCTCTGCTTTTTTGCTATCGATATCTTGTCAAA
CCAGTGAGGCTGCATAAATAGAATATAAAGATTAAGCAAGAACTTATTTATTTTTTTAAAAAAAA
TTATAAAGAAAAAAAGAGGAAAGGGAAAAGCATTATTATATCTTTAATCCTTCCATGACCAACTA
TTATAAATATTATCTCAAAAACACATCTTGGAATCTCTACATAAATGAAAAACTTGAGCCCATTA
TAAACAAATCAAGAATTAAACTAATTGATTATTATTTAGGGAAAATATATATAAAAGAAATTAAA
TTGACTACTTACCTTAATTTTTTCATGATAATCGACATCATTTTTCAATGTCATAATCATATTTT
CTTGAACTTAACTACTTTTGTAATTTAAATCGAAAATTCTGAAATAAAAA
Found at i:55537 original size:24 final size:24
Alignment explanation
Indices: 55504--55553 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
55494 TAGCATAGCC
*
55504 AATAAGCTCGAATTATTATTAAAA
1 AATAAGCTCGAATTATCATTAAAA
*
55528 AATAATCTCGAATTATCATTAAAA
1 AATAAGCTCGAATTATCATTAAAA
55552 AA
1 AA
55554 CAATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (24 bp):
AATAAGCTCGAATTATCATTAAAA
Found at i:55844 original size:17 final size:17
Alignment explanation
Indices: 55822--55855 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
55812 ACTCTTGTTC
55822 AACTGTGCCAAAAAAAA
1 AACTGTGCCAAAAAAAA
55839 AACTGTGCCAAAAAAAA
1 AACTGTGCCAAAAAAAA
55856 TATACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (17 bp):
AACTGTGCCAAAAAAAA
Found at i:56188 original size:16 final size:16
Alignment explanation
Indices: 56169--56199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56159 AATGACTAAT
*
56169 TAAACTTAAAATGATC
1 TAAACTCAAAATGATC
56185 TAAACTCAAAATGAT
1 TAAACTCAAAATGAT
56200 TCAAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (16 bp):
TAAACTCAAAATGATC
Found at i:59346 original size:15 final size:15
Alignment explanation
Indices: 59326--59374 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
59316 TTCGGGTCAC
59326 TTTGGGTTTGAGTAA
1 TTTGGGTTTGAGTAA
* *
59341 TTTGGGTTCGAGTTA
1 TTTGGGTTTGAGTAA
* *
59356 TTTAGGATTTGAGTCA
1 TTT-GGGTTTGAGTAA
59372 TTT
1 TTT
59375 CAGGTTCGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.49
Consensus pattern (15 bp):
TTTGGGTTTGAGTAA
Found at i:59678 original size:45 final size:45
Alignment explanation
Indices: 59619--59704 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
59609 TGCTTGAGTC
* *
59619 ATATTTATTAAAATTTT-ATTAAAATATAAAATAAAGATATTTTAA
1 ATATATATAAAAATTTTAATTAAAATA-AAAATAAAGATATTTTAA
** *
59664 ATATATATAAAAATTTTAATTTTAATAAAAATAAATATATT
1 ATATATATAAAAATTTTAATTAAAATAAAAATAAAGATATT
59705 CTACTTGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 28 0.80
46 7 0.20
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (45 bp):
ATATATATAAAAATTTTAATTAAAATAAAAATAAAGATATTTTAA
Found at i:59681 original size:19 final size:18
Alignment explanation
Indices: 59657--59695 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
59647 AAATAAAGAT
59657 ATTTTAAATATATATAAAA
1 ATTTTAAATATA-ATAAAA
* *
59676 ATTTTAATTTTAATAAAA
1 ATTTTAAATATAATAAAA
59694 AT
1 AT
59696 AAATATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAAATATAATAAAA
Found at i:61562 original size:14 final size:14
Alignment explanation
Indices: 61518--61562 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
61508 TTTTTATAGC
*
61518 TTAAATTAAAAATT
1 TTAAATTAAAAAAT
*
61532 TTAAAATAAAAAA-
1 TTAAATTAAAAAAT
61545 -TAAATTAAAAAAT
1 TTAAATTAAAAAAT
61558 TTAAA
1 TTAAA
61563 CTATCATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 11 0.42
14 15 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAATTAAAAAAT
Found at i:62187 original size:5 final size:5
Alignment explanation
Indices: 62155--62206 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
62145 TGTTTCAAAA
* * * * *
62155 ATTTT ATCTT ATTTT GTTTT -TATG ATTTC ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
62204 ATT
1 ATT
62207 AATTTTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
4 2 0.05
5 36 0.95
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:62211 original size:29 final size:29
Alignment explanation
Indices: 62155--62211 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
62145 TGTTTCAAAA
* *
62155 ATTTTATCTTATTTTGTTTTTATGATTTC
1 ATTTTATCTTATTTTATTTTTATAATTTC
*
62184 ATTTTATTTTATTTTA-TTTTATTAATTT
1 ATTTTATCTTATTTTATTTTTA-TAATTT
62212 TAATTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (29 bp):
ATTTTATCTTATTTTATTTTTATAATTTC
Found at i:65056 original size:20 final size:20
Alignment explanation
Indices: 65007--65056 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
64997 TATTTAATAT
*
65007 TTATTTAAAAATTAAAATTC
1 TTATTTAAATATTAAAATTC
*
65027 TT-TTTAAAATATATGAAA-TC
1 TTATTT-AAATAT-TAAAATTC
65047 TTATTTAAAT
1 TTATTTAAAT
65057 GAATCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.12
20 15 0.60
21 7 0.28
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (20 bp):
TTATTTAAATATTAAAATTC
Found at i:65809 original size:143 final size:147
Alignment explanation
Indices: 65633--65909 Score: 355
Period size: 146 Copynumber: 1.9 Consensus size: 147
65623 AGCATAGGAA
* * *
65633 TTTTTTTAAAAAAATAATATCTGAGTTGGGTTTAAAATTTTGGATATTCCGTGTTAGGTACT-GA
1 TTTTTTTAAAAAAATAATATCTGAATTGGGTTTAAAATTTTGGATATTCCGTATTAGGCACTAGA
** * * ** * * *
65697 -AG-TGTTAACATGGAATGTTGCCTTATAAATTTTATTGGAAAACGAATTTTTAAAACATGAATG
66 GAGATGCCAACACGAAAAATTACCTTATAAATTTTATTGAAAAACAAATTTTTAAAACATGAATG
65760 CACATAAGAATTTTCCT
131 CACATAAGAATTTTCCT
* * * *
65777 TTTTTTTTAAAAAA-AATGTTTGAATTGGGTTTAAAATTTTGGATATTCTGTATTAGGCACTAGA
1 TTTTTTTAAAAAAATAATATCTGAATTGGGTTTAAAATTTTGGATATTCCGTATTAGGCACTAGA
* * *
65841 GAGATGCCAACACGAAAAATTACCTTGTAAATTTTATTGAAAAATAAATTTTTAAAATATGAATG
66 GAGATGCCAACACGAAAAATTACCTTATAAATTTTATTGAAAAACAAATTTTTAAAACATGAATG
65906 CACA
131 CACA
65910 ATAATCACTT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
143 41 0.37
144 15 0.14
145 2 0.02
146 53 0.48
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (147 bp):
TTTTTTTAAAAAAATAATATCTGAATTGGGTTTAAAATTTTGGATATTCCGTATTAGGCACTAGA
GAGATGCCAACACGAAAAATTACCTTATAAATTTTATTGAAAAACAAATTTTTAAAACATGAATG
CACATAAGAATTTTCCT
Found at i:66488 original size:89 final size:88
Alignment explanation
Indices: 66383--66645 Score: 253
Period size: 89 Copynumber: 2.9 Consensus size: 88
66373 ACGGGGTTGG
*
66383 AGTATCTCCTCGGAGTAGTGAGGATGGAGTTTCTCCAAGGATAAAATCATACAAGAGAAAATTTG
1 AGTATCTCCTCGGAGTAGTGAGGATGGAGTTTC-CCAAAGATAAAATCATACAAGAGAAAATTTG
*
66448 AACTTTTTTGAAGACTGAAGCTAA
65 AATTTTTTTGAAGACTGAAGCTAA
** * * * *
66472 AGTAT-TCTCTCGGAGTAGTGAGG-TCAAAATATCCCCAAAGATAAAATTATACAAAAGGAAAAT
1 AGTATCTC-CTCGGAGTAGTGAGGAT-GGAGT-TTCCCAAAGATAAAATCATACAAGA-GAAAAT
* * ** * *
66535 TTGAAATTGTTTTTGGTAGAATGGGGTTGA
62 TTG-AATT-TTTTT-GAAGACTGAAGCTAA
* * * *
66565 AGTATCTCCTCAGAGTAAT-AGAGATGGAGTTTCCCTAAAGATAAAATCATATAAGAGAAATTTT
1 AGTATCTCCTCGGAGTAGTGAG-GATGGAGTTTCCC-AAAGATAAAATCATACAAGAGAAAATTT
66629 GAATTTTTTTGAAGACT
64 GAATTTTTTTGAAGACT
66646 AGGCCTGGAA
Statistics
Matches: 137, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
88 3 0.02
89 46 0.34
90 16 0.12
91 7 0.05
92 19 0.14
93 43 0.31
94 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (88 bp):
AGTATCTCCTCGGAGTAGTGAGGATGGAGTTTCCCAAAGATAAAATCATACAAGAGAAAATTTGA
ATTTTTTTGAAGACTGAAGCTAA
Found at i:66624 original size:182 final size:181
Alignment explanation
Indices: 66318--66645 Score: 473
Period size: 182 Copynumber: 1.8 Consensus size: 181
66308 GTGGGGTTGG
* *
66318 AATATCCCAAAAGATAAAATTATAAGAAGGGAAAATTTAAAATTATTTTCATAGAACGGGGTTGG
1 AATATCCCAAAAGATAAAATTATAAGAAAGGAAAATTTAAAATTATTTTCATAGAACGGGGTTGA
* * *
66383 AGTATCTCCTCGGAGTAGTGAGGATGGAGTTTCTCCAAGGATAAAATCATACAAGAGAAAATTTG
66 AGTATCTCCTCAGAGTAATGAGGATGGAGTTTCTCCAAAGATAAAATCATACAAGAGAAAATTTG
66448 AACTTTTTTGAAGACTGAAGCTAAAGTATTCTCTCGGAGTAGTGAGGTCAA
131 AACTTTTTTGAAGACTGAAGCTAAAGTATTCTCTCGGAGTAGTGAGGTCAA
* * * ** *
66499 AATATCCCCAAAGATAAAATTATACA-AAAGGAAAATTTGAAATTGTTTTTGGTAGAATGGGGTT
1 AATATCCCAAAAGATAAAATTATA-AGAAAGGAAAATTTAAAATT-ATTTTCATAGAACGGGGTT
* *
66563 GAAGTATCTCCTCAGAGTAAT-AGAGATGGAGTTTC-CCTAAAGATAAAATCATATAAGAGAAAT
64 GAAGTATCTCCTCAGAGTAATGAG-GATGGAGTTTCTCC-AAAGATAAAATCATACAAGAGAAAA
*
66626 TTTGAATTTTTTTGAAGACT
127 TTTGAACTTTTTTGAAGACT
66646 AGGCCTGGAA
Statistics
Matches: 129, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
181 43 0.33
182 86 0.67
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (181 bp):
AATATCCCAAAAGATAAAATTATAAGAAAGGAAAATTTAAAATTATTTTCATAGAACGGGGTTGA
AGTATCTCCTCAGAGTAATGAGGATGGAGTTTCTCCAAAGATAAAATCATACAAGAGAAAATTTG
AACTTTTTTGAAGACTGAAGCTAAAGTATTCTCTCGGAGTAGTGAGGTCAA
Found at i:66690 original size:182 final size:179
Alignment explanation
Indices: 66306--66698 Score: 436
Period size: 182 Copynumber: 2.2 Consensus size: 179
66296 CTCATCGGAA
* *
66306 TAGTGGGGTTGGAATATCCCAAAAGATAAAATTATAAGAAGGGAAAATTTAAAATTATTTTCATA
1 TAGT-GGG-TGGAATATCCCCAAAGATAAAATTATAAGAAAGGAAAATTTAAAATTATTTTCATA
* * * *
66371 GAACGGGGTTGGAGTATCTCCTCGGAGTAGTGAGGATGGAGTTTCTCCAAGGATAAAATCATACA
64 GAACGGGGTTGAAGTATCTCCTCAGAGTAATGAGGATGGAGTTTCTCCAAAGATAAAATCATACA
* **
66436 AGAGAAAATTTGAACTTTTTTGAAGACTGAAGCTAAAGTATTCTCTCGGAG
129 AGAGAAAATTTGAACTTTTTTGAAGACTGAAGCTAAAGTATTCCCTCAAAG
** * * **
66487 TAGTGAGGTCAAAATATCCCCAAAGATAAAATTATACA-AAAGGAAAATTTGAAATTGTTTTTGG
1 TAGTG-GGT-GGAATATCCCCAAAGATAAAATTATA-AGAAAGGAAAATTTAAAATT-ATTTTCA
*
66551 TAGAATGGGGTTGAAGTATCTCCTCAGAGTAAT-AGAGATGGAGTTTC-CCTAAAGATAAAATCA
62 TAGAACGGGGTTGAAGTATCTCCTCAGAGTAATGAG-GATGGAGTTTCTCC-AAAGATAAAATCA
* * * * *
66614 TATAAGAGAAATTTTGAATTTTTTTGAAGACT-AGGCCTGGAA-TATTCCCCTCAAAG
125 TACAAGAGAAAATTTGAACTTTTTTGAAGACTGAAG-CT-AAAGTATT-CCCTCAAAG
* *
66670 TAGTGGGATGGAACATCCCCAAGGATAAA
1 TAGTGGG-TGGAATATCCCCAAAGATAAA
66699 TAAAAATTTG
Statistics
Matches: 177, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
180 2 0.01
181 51 0.29
182 110 0.62
183 14 0.08
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (179 bp):
TAGTGGGTGGAATATCCCCAAAGATAAAATTATAAGAAAGGAAAATTTAAAATTATTTTCATAGA
ACGGGGTTGAAGTATCTCCTCAGAGTAATGAGGATGGAGTTTCTCCAAAGATAAAATCATACAAG
AGAAAATTTGAACTTTTTTGAAGACTGAAGCTAAAGTATTCCCTCAAAG
Found at i:68908 original size:19 final size:18
Alignment explanation
Indices: 68883--68950 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
68873 AATTCAACGA
68883 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
68901 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
68917 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
68933 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
68951 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 27 0.63
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:68921 original size:32 final size:32
Alignment explanation
Indices: 68885--68947 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
68875 TTCAACGATT
*
68885 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
68917 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
68948 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:68922 original size:13 final size:13
Alignment explanation
Indices: 68904--68928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68894 ACATAAGTGT
68904 TGTATCGATACAA
1 TGTATCGATACAA
68917 TGTATCGATACA
1 TGTATCGATACA
68929 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:74388 original size:20 final size:20
Alignment explanation
Indices: 74365--74491 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 20
74355 GGTACGTAGG
*
74365 TGTATTGATACATTCTTCAA
1 TGTATCGATACATTCTTCAA
* * *
74385 TGTATCAATACATGT-ATGAA
1 TGTATCGATACAT-TCTTCAA
74405 TGTATCGATACATTCTTCAA
1 TGTATCGATACATTCTTCAA
*
74425 TATATCGATACATTCTATCCTTTTACCCAGA
1 TGTATCGATACA---T-T-C--TT---CA-A
74456 TGTATCGATACATTCTTCAA
1 TGTATCGATACATTCTTCAA
74476 TGTATCGATACATTCT
1 TGTATCGATACATTCT
74492 GTCTTTTTAC
Statistics
Matches: 85, Mismatches: 9, Indels: 26
0.71 0.08 0.22
Matches are distributed among these distances:
19 1 0.01
20 57 0.67
21 3 0.04
23 1 0.01
24 3 0.04
25 1 0.01
26 1 0.01
27 3 0.04
28 1 0.01
30 2 0.02
31 12 0.14
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTCTTCAA
Found at i:74482 original size:51 final size:51
Alignment explanation
Indices: 74402--74539 Score: 224
Period size: 51 Copynumber: 2.7 Consensus size: 51
74392 ATACATGTAT
*
74402 GAATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTTTACCC
1 GAATGTATCGATACATTCTTCAATGTATCGATACATTCTATCCTTTTACCC
* *
74453 -AGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCC
1 GA-ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCCTTTTACCC
*
74504 GAATGTATCGATACATTTTTCAATGTATCGATACAT
1 GAATGTATCGATACATTCTTCAATGTATCGATACAT
74540 CTAGTTAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
50 1 0.01
51 79 0.98
52 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (51 bp):
GAATGTATCGATACATTCTTCAATGTATCGATACATTCTATCCTTTTACCC
Found at i:75044 original size:23 final size:23
Alignment explanation
Indices: 75017--75073 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
75007 AGCCTTTGAC
75017 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
75040 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
75063 CATGCATTTTT
1 CATGCATTTTT
75074 AATATGTCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.63
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:80276 original size:40 final size:40
Alignment explanation
Indices: 80221--80304 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
80211 ATTTTTACCC
*
80221 ACATGTATGAATGTATTGATATATTTTTCAATATATCGAT
1 ACATGTATGAATGTATTGATATATTCTTCAATATATCGAT
*
80261 ACATGTATGAATGTATTGATATATTCTTCAATGTATCGAT
1 ACATGTATGAATGTATTGATATATTCTTCAATATATCGAT
80301 ACAT
1 ACAT
80305 TCTATCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (40 bp):
ACATGTATGAATGTATTGATATATTCTTCAATATATCGAT
Found at i:80293 original size:20 final size:20
Alignment explanation
Indices: 80230--80307 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
80220 CACATGTATG
* * *
80230 AATGTATTGATATATTTTTC
1 AATGTATCGATACATTCTTC
* * *
80250 AATATATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
* *
80270 AATGTATTGATATATTCTTC
1 AATGTATCGATACATTCTTC
80290 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
80308 ATCTTTTTAC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:84574 original size:21 final size:21
Alignment explanation
Indices: 84534--84574 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
84524 GAATGGCCAC
*
84534 TTTTTTTTTATTGATGTTCAA
1 TTTTTTTTTATTGATATTCAA
* *
84555 TTTTTTTTTCTTGCTATTCA
1 TTTTTTTTTATTGATATTCA
84575 TTCCCGTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTTTTTTATTGATATTCAA
Done.