Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168278.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_506, 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: 24590
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Found at i:1091 original size:26 final size:26
Alignment explanation
Indices: 1061--1113 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
1051 CCGATCTGAT
*
1061 CTTAGACTAGGAATCAATTCCGTATG
1 CTTAGACTAGGAATCAACTCCGTATG
* *
1087 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTAGGAATCAACTCCGTATG
1113 C
1 C
1114 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTAGGAATCAACTCCGTATG
Found at i:1481 original size:19 final size:19
Alignment explanation
Indices: 1454--1497 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
1444 GCAATTTTTA
1454 CTTTGTATTATTTTTTTCTTT
1 CTTT-TATTA-TTTTTTCTTT
1475 -TTTTATTATTTTTTCTTT
1 CTTTTATTATTTTTTCTTT
1493 CTTTT
1 CTTTT
1498 TTTTTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (19 bp):
CTTTTATTATTTTTTCTTT
Found at i:1493 original size:22 final size:22
Alignment explanation
Indices: 1457--1509 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
1447 ATTTTTACTT
1457 TGTATTATTTTTTTCTTTTTTTA
1 TGTATT-TTTTTTTCTTTTTTTA
*
1480 T-TATTTTTTCTTTCTTTTTTTT
1 TGTATTTTTT-TTTCTTTTTTTA
1502 TGTATTTT
1 TGTATTTT
1510 ATGTGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 4 0.15
22 16 0.59
23 7 0.26
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (22 bp):
TGTATTTTTTTTTCTTTTTTTA
Found at i:1497 original size:11 final size:10
Alignment explanation
Indices: 1464--1502 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
1454 CTTTGTATTA
1464 TTTTTTTCTT
1 TTTTTTTCTT
*
1474 TTTTTATTATT
1 TTTTT-TTCTT
1485 TTTTCTTTCTT
1 TTTT-TTTCTT
1496 TTTTTTT
1 TTTTTTT
1503 GTATTTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 8 0.32
11 16 0.64
12 1 0.04
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:1610 original size:14 final size:14
Alignment explanation
Indices: 1574--1665 Score: 52
Period size: 13 Copynumber: 6.7 Consensus size: 14
1564 TGTTAATATG
* *
1574 TATATGTATTTTTA
1 TATATTTATTATTA
*
1588 TATAGTTATATATT-
1 TATATTTAT-TATTA
*
1602 TATTATTATATTATAA
1 TA-TATT-TATTATTA
*
1618 TTTATTTATTATTA
1 TATATTTATTATTA
1632 T-TATTT-TATATT-
1 TATATTTAT-TATTA
1644 T-TATTTATT-TTA
1 TATATTTATTATTA
*
1656 TATTTTTATT
1 TATATTTATT
1666 TATCTAATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
11 2 0.03
12 9 0.15
13 17 0.27
14 17 0.27
15 13 0.21
16 4 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TATATTTATTATTA
Found at i:1616 original size:25 final size:23
Alignment explanation
Indices: 1596--1668 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 23
1586 TATATAGTTA
1596 TATATTTATTATTATATTATAATT
1 TATATTTATTATTATATTAT-ATT
* *
1620 TATTTATTATTATTATTTTATATT
1 TATAT-TTATTATTATATTATATT
*
1644 T-TATTTATT-TTATATTTTTATT
1 TATATTTATTATTATA-TTATATT
1666 TAT
1 TAT
1669 CTAATTATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 4 0.10
22 12 0.29
23 3 0.07
24 8 0.20
25 14 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TATATTTATTATTATATTATATT
Found at i:1623 original size:22 final size:22
Alignment explanation
Indices: 1598--1696 Score: 85
Period size: 22 Copynumber: 4.3 Consensus size: 22
1588 TATAGTTATA
1598 TATTTATTATTATATTATAATT
1 TATTTATTATTATATTATAATT
*
1620 TATTTATTATTATTATTTTATATTT
1 TATTTATTATTA-TA--TTATAATT
* *
1645 TATTTATT-TTATATTTTTATT
1 TATTTATTATTATATTATAATT
* *
1666 TATCTAATTATATATATGT-TATTT
1 TAT-TTATTAT-TATAT-TATAATT
1690 TATTTAT
1 TATTTAT
1697 CCTATAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
21 8 0.13
22 16 0.26
23 8 0.13
24 14 0.23
25 16 0.26
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (22 bp):
TATTTATTATTATATTATAATT
Found at i:1690 original size:28 final size:24
Alignment explanation
Indices: 1658--1723 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 24
1648 TTATTTTATA
*
1658 TTTTTATTTATCTAATTATATATATGT
1 TTTTTATTTATCT-A-TA-ATATATCT
1685 TATTTTATTTATCCTATAATATATCT
1 T-TTTTATTTAT-CTATAATATATCT
1711 TTTTTATTTATCT
1 TTTTTATTTATCT
1724 GTTCTAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 2 0.06
25 10 0.28
26 8 0.22
27 3 0.08
28 11 0.31
29 2 0.06
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTATTTATCTATAATATATCT
Found at i:2674 original size:15 final size:14
Alignment explanation
Indices: 2651--2719 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
2641 GTTTATTTAA
*
2651 TATTCTTTTCATCTT
1 TATT-TTTTTATCTT
*
2666 TATTTTTTTTATTTT
1 TA-TTTTTTTATCTT
*
2681 TGTTTTACTTT-TCTT
1 TATTTT--TTTATCTT
*
2696 TATTTTTTTATTTT
1 TATTTTTTTATCTT
2710 TATTTATTTT
1 TATTT-TTTT
2720 TTTTATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 3 0.07
14 12 0.28
15 23 0.53
16 5 0.12
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (14 bp):
TATTTTTTTATCTT
Found at i:2678 original size:9 final size:9
Alignment explanation
Indices: 2664--2726 Score: 74
Period size: 10 Copynumber: 6.7 Consensus size: 9
2654 TCTTTTCATC
2664 TTTATTTTT
1 TTTATTTTT
2673 TTTATTTTTGT
1 TTTA-TTTT-T
*
2684 TTTACTTTTC
1 TTTA-TTTTT
2694 TTTA-TTTT
1 TTTATTTTT
2702 TTTATTTTT
1 TTTATTTTT
2711 ATTTATTTTT
1 -TTTATTTTT
2721 TTTATT
1 TTTATT
2727 ATTCTATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.15
9 14 0.30
10 17 0.36
11 9 0.19
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTATTTTT
Found at i:2692 original size:21 final size:20
Alignment explanation
Indices: 2664--2720 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
2654 TCTTTTCATC
*
2664 TTTATTTTTTTTATTTTTGT
1 TTTATTTTCTTTATTTTTGT
2684 TTTACTTTTCTTTATTTTT-T
1 TTTA-TTTTCTTTATTTTTGT
* *
2704 TAT-TTTTATTTATTTTT
1 TTTATTTTCTTTATTTTT
2721 TTTATTATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 13 0.39
20 7 0.21
21 13 0.39
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTATTTTCTTTATTTTTGT
Found at i:2698 original size:30 final size:28
Alignment explanation
Indices: 2662--2726 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
2652 ATTCTTTTCA
*
2662 TCTTTATTTTTTTTATTTTTGTTTTACTTT
1 TCTTTATTTTTTTTATTTTT-ATTTA-TTT
2692 TCTTTA-TTTTTTTATTTTTATTTATTT
1 TCTTTATTTTTTTTATTTTTATTTATTT
*
2719 TTTTTATT
1 TCTTTATT
2727 ATTCTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 8 0.25
28 5 0.16
29 13 0.41
30 6 0.19
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.82
Consensus pattern (28 bp):
TCTTTATTTTTTTTATTTTTATTTATTT
Found at i:2704 original size:18 final size:18
Alignment explanation
Indices: 2672--2722 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
2662 TCTTTATTTT
*
2672 TTTTATTT-TTGTTTTAC
1 TTTTATTTATTTTTTTAC
* *
2689 TTTTCTTTATTTTTTTAT
1 TTTTATTTATTTTTTTAC
2707 TTTTATTTATTTTTTT
1 TTTTATTTATTTTTTT
2723 TATTATTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTATTTATTTTTTTAC
Found at i:2734 original size:17 final size:16
Alignment explanation
Indices: 2664--2741 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 16
2654 TCTTTTCATC
2664 TTTATTTTTTTTATT-
1 TTTATTTTTTTTATTA
* *
2679 TTTGTTTTACTTTTCTTTA
1 TTTATTTT--TTTT-ATTA
*
2698 TTT-TTTTATTT-TTA
1 TTTATTTTTTTTATTA
2712 TTTATTTTTTTTATTA
1 TTTATTTTTTTTATTA
*
2728 TTCTATTTTCTTTA
1 TT-TATTTTTTTTA
2742 AATGAAAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.12
15 14 0.27
16 8 0.16
17 14 0.27
18 6 0.12
19 3 0.06
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (16 bp):
TTTATTTTTTTTATTA
Found at i:2908 original size:60 final size:60
Alignment explanation
Indices: 2763--3100 Score: 508
Period size: 60 Copynumber: 5.7 Consensus size: 60
2753 AAACTTTCAA
* * *
2763 AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAAT-AAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAATTTTC
*** *
2822 -AAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAATTTTC
*
2881 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTGGAAATCAAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAATTTTC
2941 AAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATC-ATTTTCCTTGGAAATCAAATTTTC
1 AAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAATTTTC
* * *
3000 AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAAT-AAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAATTTTC
* *
3059 AAAAAATAT-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
3101 CTACACAAAA
Statistics
Matches: 255, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
58 74 0.29
59 80 0.31
60 101 0.40
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAATTTTC
Found at i:3134 original size:119 final size:118
Alignment explanation
Indices: 2763--3100 Score: 545
Period size: 119 Copynumber: 2.9 Consensus size: 118
2753 AAACTTTCAA
2763 AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAATAAATTTTCAAAAAG
1 AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAATAAATTTTCAAAAA-
** *
2828 GGA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
65 AAATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
* ** *
2881 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTGGAAATCAAATTTTCAAAAA
1 AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAAT-AAATTTTCAAAAA
* *
2946 AAATATTTTTAGGGAAAAGTTGAAAGTATC-ATTTTCCTTGGAAATCAAATTTTC
65 AAAT-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
3000 AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
*
3065 TATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
66 AATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
3101 CTACACAAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
117 24 0.12
118 71 0.35
119 83 0.41
120 23 0.11
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (118 bp):
AAAAAAAATATTTTTAAGGAAAAGTTGAAAATATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
AATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
Found at i:6297 original size:10 final size:11
Alignment explanation
Indices: 6280--6305 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6270 AATGGATGAT
6280 GAAAAAAAAAA
1 GAAAAAAAAAA
6291 GAAAAAAAAAA
1 GAAAAAAAAAA
6302 GAAA
1 GAAA
6306 TGAGAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:7612 original size:41 final size:40
Alignment explanation
Indices: 7567--7659 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 40
7557 ATGATTGTCA
*
7567 AGGAGCATTTTACTTTTCAAAGTTTCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG--TCGTGTGCCTCTGTTTAG
7608 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
7649 AGGAGC-ATTTA
1 AGGAGCAATTTA
7660 GAGGAGCAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
39 4 0.08
40 5 0.10
41 40 0.82
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (40 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAG
Found at i:7661 original size:12 final size:13
Alignment explanation
Indices: 7644--7672 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7634 GGTGCCTCTG
7644 TTTAGAGGAGC-A
1 TTTAGAGGAGCAA
7656 TTTAGAGGAGCAA
1 TTTAGAGGAGCAA
7669 TTTA
1 TTTA
7673 CTTTCCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (13 bp):
TTTAGAGGAGCAA
Found at i:7683 original size:53 final size:54
Alignment explanation
Indices: 7603--7713 Score: 206
Period size: 53 Copynumber: 2.1 Consensus size: 54
7593 GTTGCCTCTG
*
7603 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC-A
1 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
7656 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
7710 TTTA
1 TTTA
7714 CTTTCTCAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
53 51 0.91
54 5 0.09
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (54 bp):
TTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
Found at i:7737 original size:42 final size:42
Alignment explanation
Indices: 7656--7875 Score: 329
Period size: 42 Copynumber: 5.3 Consensus size: 42
7646 TAGAGGAGCA
7656 TTTAGAGGAGCAATTTACTTTC-CAAAGTCGTGGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTG
*
7697 TTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTA
1 TTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTG
* * *
7739 CTTAGAGGACCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTG
*
7780 TTTAGAGGAGCAATTTACTTT-TCCAAAGTCATGGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTCT-CAAAGTCGTGGTGCCTCTG
* * *
7822 TTTAGAGGAGCAATTTAGGTTTCTCAAAGTCGTTGAGCCTCTG
1 TTTAGAGGAGCAATTTA-CTTTCTCAAAGTCGTGGTGCCTCTG
7865 TTTAGAGGAGC
1 TTTAGAGGAGC
7876 TTTGGTAAAA
Statistics
Matches: 162, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
41 60 0.37
42 71 0.44
43 30 0.19
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTG
Found at i:7796 original size:83 final size:83
Alignment explanation
Indices: 7657--7875 Score: 323
Period size: 83 Copynumber: 2.6 Consensus size: 83
7647 AGAGGAGCAT
* *
7657 TTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCTC
1 TTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-C
*
7721 AAAGTCGTGGTGCCTCTAC
65 AAAGTCATGGTGCCTCTAC
*
7740 TTAGAGGACCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCA
1 TTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCA
**
7805 AAGTCATGGTGCCTCTGT
66 AAGTCATGGTGCCTCTAC
* * *
7823 TTAGAGGAGCAATTTAGGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 TTAGAGGAGCAATTTA--TTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
7876 TTTGGTAAAA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
83 87 0.71
84 4 0.03
85 32 0.26
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (83 bp):
TTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCA
AAGTCATGGTGCCTCTAC
Found at i:7917 original size:11 final size:11
Alignment explanation
Indices: 7883--7911 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
7873 AGCTTTGGTA
7883 AAAAAAAAAAC
1 AAAAAAAAAAC
7894 AAAAAAAAAAC
1 AAAAAAAAAAC
7905 AAAAAAA
1 AAAAAAA
7912 TGACAATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:8211 original size:12 final size:12
Alignment explanation
Indices: 8194--8301 Score: 56
Period size: 11 Copynumber: 9.8 Consensus size: 12
8184 TATATAGTTA
8194 TATATTTATTAT
1 TATATTTATTAT
*
8206 TATA-TTATAAT
1 TATATTTATTAT
8217 T-TATTTATTA-
1 TATATTTATTAT
*
8227 T-T-GTTATTAT
1 TATATTTATTAT
8237 TAT-TTTA-TAT
1 TATATTTATTAT
* *
8247 TTTATTTATTTT
1 TATATTTATTAT
*
8259 TGTATTT-TTAT
1 TATATTTATTAT
*
8270 T-TATCTAATTA-
1 TATAT-TTATTAT
* *
8281 TATATCTGTTAT
1 TATATTTATTAT
*
8293 TTTATTTAT
1 TATATTTAT
8302 CCTATAATAT
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
9 6 0.08
10 13 0.18
11 29 0.40
12 24 0.33
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (12 bp):
TATATTTATTAT
Found at i:8213 original size:19 final size:18
Alignment explanation
Indices: 8178--8283 Score: 78
Period size: 18 Copynumber: 5.8 Consensus size: 18
8168 TATGTATATG
8178 TATTT-TTA-TATAGTTAT
1 TATTTATTATTATA-TTAT
8195 ATATTTATTATTATATTAT
1 -TATTTATTATTATATTAT
* *
8214 AATTTATTTATTATTGTTAT
1 TATTTA-TTATTA-TATTAT
8234 TA-TTATT-TTATATT-T
1 TATTTATTATTATATTAT
* * *
8249 TATTTATTTTTGTATTTT
1 TATTTATTATTATATTAT
8267 TATTTATCTAATTATAT
1 TATTTAT-T-ATTATAT
8284 ATCTGTTATT
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.04
16 8 0.11
17 9 0.12
18 20 0.28
19 17 0.24
20 15 0.21
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (18 bp):
TATTTATTATTATATTAT
Found at i:8237 original size:31 final size:30
Alignment explanation
Indices: 8199--8273 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 30
8189 AGTTATATAT
8199 TTATTATTATATTATAATTTATTTATTATTG
1 TTATTATTAT-TTATAATTTATTTATTATTG
* *
8230 TTATTATTATTTTATATTTTATTTATTTTTG
1 TTATTATTA-TTTATAATTTATTTATTATTG
*
8261 -TATTTTTATTTAT
1 TTATTATTATTTAT
8274 CTAATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.12
30 7 0.17
31 27 0.68
32 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.71
Consensus pattern (30 bp):
TTATTATTATTTATAATTTATTTATTATTG
Found at i:8302 original size:28 final size:26
Alignment explanation
Indices: 8264--8330 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
8254 ATTTTTGTAT
*
8264 TTTTATTTATCTAATTATATATCTGTTA
1 TTTTATTTATCT-ATAATATATCT-TTA
*
8292 TTTTATTTATCCTATAATATATCTTTT
1 TTTTATTTAT-CTATAATATATCTTTA
8319 TTTTATTTATCT
1 TTTTATTTATCT
8331 GTTCTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 12 0.33
28 20 0.56
29 2 0.06
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTTATTTATCTATAATATATCTTTA
Found at i:9632 original size:26 final size:26
Alignment explanation
Indices: 9596--9648 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
9586 CTGATTTGAT
9596 CTTAGACTGGGAAAGAACTCCATATG
1 CTTAGACTGGGAAAGAACTCCATATG
* *
9622 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAAAGAACTCCATATG
9648 C
1 C
9649 CTAAGTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
CTTAGACTGGGAAAGAACTCCATATG
Found at i:11413 original size:27 final size:26
Alignment explanation
Indices: 11367--11420 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
11357 TCATTCTGAT
* *
11367 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGAAATGAACTCCATATG
11393 CTTAGACTGAGAAATGAACTCCATATG
1 CTTAGACTG-GAAATGAACTCCATATG
11420 C
1 C
11421 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGAAATGAACTCCATATG
Found at i:13183 original size:26 final size:27
Alignment explanation
Indices: 13145--13198 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
13135 CCGGTCCGAT
*
13145 CTTATGACAGGGAATGAACTCTGTATG
1 CTTATGACAGGGAATGAACTCCGTATG
*
13172 CTTA-GACTGGGAATGAACTCCGTATG
1 CTTATGACAGGGAATGAACTCCGTATG
13198 C
1 C
13199 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (27 bp):
CTTATGACAGGGAATGAACTCCGTATG
Found at i:14933 original size:26 final size:25
Alignment explanation
Indices: 14883--14934 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
14873 CCGGTCTGAT
**
14883 CTTAGACTGGAATGAATTCCATATG
1 CTTAGACTGGAATGAACACCATATG
*
14908 CTTAGACTTGGAATGAACACCGTATG
1 CTTAGAC-TGGAATGAACACCATATG
14934 C
1 C
14935 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
CTTAGACTGGAATGAACACCATATG
Found at i:16397 original size:869 final size:865
Alignment explanation
Indices: 13950--19193 Score: 5013
Period size: 872 Copynumber: 6.0 Consensus size: 865
13940 TTTCTCCGGT
* * * * * *
13950 GAAG-AAAATGTGGCACCAGCACATGCCCGAGCCCATCTTCACGCGCTGTCGCAACCCTCTGTCC
1 GAAGAAAAATGCGGCACCAGCACATGCCCGAGCCCA---GCATGTGCTGTCGCAACCCTCGGTCT
* * * ** * * * **
14014 AG-TCTGATATTAGGCTGGGAATGAACTCCGTATGCCTAAGTTAACCCACGAAATGAGCGTGTAG
63 GGTTCGGATCTTAGATTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCGG
* * * * *
14078 GCGCTCAGTCAGCCAGAGGGGCGGGATGCGCAAGTCGGGGATCGATCGGATCCCCTCTACGTGCT
128 GCGCTCAGCCGGCCAGAGGGGCGGGATGCGCAAGCCGGGGATCGGTCGGGT-CCC-CT-C-TGCT
* * * * * **
14143 ACCGATCCTGTTGCTGTAA-CCTTGGTCCTATCTGATCTTAGACTGGGAATGAAACTCCGTATGC
189 GCC--TGCTG-T-CCGCAACCCTCGGTCCGGTCT-ATCTTAGACTGGGAATG-AACTCCGTATGC
* * * *
14207 AT-AGGCAACCGACGAAACGAGCGGGCGG-GGGACGGGC-GGCAACTACGTCGGCCAAAGAGACG
248 CTAAGCCAACCGACGAAACGAGCGGGCGGCGGG-CGGGCGGGC-ACTACGCCGGCCAGAGAGACG
*
14269 GGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACTT
311 GGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACGT
* * * * *
14334 GCCAATGCCAATTTTTTTGGCTTGTAAATTCATACGACGGT-CCTTAAG-CTTCATGCGAAGTTT
376 GCCAATGCC-ATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCACGTGAAGTTT
* * * *
14397 AATGGCGAGACGACTCGTTTTCTATTTTT--C-A------AAACTTTTTGGCGGTTCAAGGATTT
440 CATGGCAAGACGACTCGTTTTCTATTTTTCACGATTTTTGAAACTTTTT-ACGGTTCGA-GATTT
* *
14453 TTTAAAATTTTTT-GGAAGGACTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTA-CTTTGTT
503 TTTAAAATTTTTTCGGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTT
*
14516 GGCGTGCATAAAAAAATT-AGCT-AAAACTCGAAGTGTACAAGATTTTGTGACCATTTGAAAAAA
568 GGCATGCAT-AAAAAATTCAGCTAAAAACTCGAAGTGTACAAGATTTTGTGACCATTTGAAAAAA
* *
14579 GTGTCTCCA-TTCAAACACTTTAATGGCTACTGGCAGCAAACCTGTAAAA-CTCAAATGCTC-TT
632 GTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTT
* * *
14641 ATGGGGTTGTGAGTTCTCGAGGTTTGATGAGGGATAGAGGGCCAATATAAGGGCCAAGTACCAGC
697 AAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGC
* * ** *
14706 ACCAATCGCACATCATGTGCGCACACCACCCCCAGGCCCCTCGATCGTCGGAACCCCAATCCCGC
762 ACCCATCGCACATCATGTGCGCACA-C-CCCCC-GGCCCCCCGATCGTCGGAACCCCAATGTCGT
** *
14771 CGGTCAGGTTCTCCGGTGATGCTCCGACGATGGTGCCCCGGC
824 CGGTCAGGTTCTCCGACGATGCTCCGACGATGGTGCCCCGAC
* * * *
14813 AAAGAAAAATGCAGCACCAGCACATGCCTGAGCCCAGCATGTGCTGCCGCAACCCTCGGTCCGGT
1 GAAGAAAAATGCGGCACCAGCACATGCCCGAGCCCAGCATGTGCTGTCGCAA-CC-C--T-CGGT
* *
14878 CTGATCTTAGACTGGAATGAATTCCATATGCTTAGACTT-GGAATGAACACCGTATGCCTAAGTC
61 CTG--GTT---C--G---G--------AT-CTTAGA-TTGGGAATGAACTCCGTATGCCTAAGTC
* * * * * *
14942 AACCCACAAAATGAGCGTGCAGGCCCTAAGCCGGCCAGAGGGG-TGGATGCGCAAGCAGGGGATT
106 AACCCACAAAACGAGCGTGCGGGCGCTCAGCCGGCCAGAGGGGCGGGATGCGCAAGCCGGGGA-T
* * * * * * * *
15006 CGATCGGGCCCCCCTCTGTGTGCTGCCGATCCTGCTGCTGTAACTCTCGGTCTGGTCCAATTCTT
170 CGGTCGGG-TCCCCTC----TGCTGCC--TGCTG-T-CCGCAACCCTCGGTCCGGT-CTA-TCTT
* * *
15071 AGACTGGGAATGAACTCCGTATACCAAAGCCAACCGATGAATA--A-------GCGGGCGGGCGG
224 AGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAA-ACGAGCGGGCGGCGGGCGGGCGG
*
15127 GCACTACGCCGGCCAGAGAGACGGGATGCGCAAGCCATGGATCGATAGGGTGGTAGGTGGGTTTA
288 GCACTACGCCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTA
* * * * *
15192 GACACATCTTCATATTTCTACCTGCTAGTGCCATTTTTATGGCTTGTAAATTCAAACAATGG-CC
353 GGCACATCTTCATATTTCTACGTGCCAATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCC
* * *
15256 TTTAAGCCTTCACGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCATGATTTTTGACA
418 CTTAAGCCTTCACGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCACGATTTTTGAAA
* * * *
15321 CTTTTTGCGGTTCGAGATTTTTTAAAATTTTTTTGAAAAGAG--TT---------C----T----
483 CTTTTTACGGTTCGAGATTTTTTAAAATTTTTTCGGAAGGAGTTTTGGCCCCAAACTTGGTAGAC
* * **
15367 -TGATCCTTGTATTTTTGTTAGCATGCAAAAAAAAATTCATTTAAAAACTCGAAGTGTACAAGAT
548 GTGATCCTTGTATTTTTGTTGGCATGC-ATAAAAAATTCAGCTAAAAACTCGAAGTGTACAAGAT
15431 TTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTG
612 TTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTG
* * * * *
15496 TAAAATCTAAAATGCTCTTTAAGGGCGTGTGAGTTCTCGAGGTTTGGTGAGGCATAAGGGGCCCA
677 TAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGAT-AGGGGGCCA
* *
15561 ATATAAGGGCCAAGTACCAGCACCCATCGCACATCATTTACGCCACACCCCCCGGCCACCCCGAT
741 ATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGCG-CACACCCCCCGGCC-CCCCGAT
* * * * * *
15626 CATCGGAACCCCAATATCGTCGGTCAGGTTCTCCGACGATACTCTGGCGATGGTGCCCCGAT
804 CGTCGGAACCCCAATGTCGTCGGTCAGGTTCTCCGACGATGCTCCGACGATGGTGCCCCGAC
* * * *
15688 GAAGAAAAATGCGGCACCAGCACATGCCCGAGCCCAGCATGTGTTGCCACAACCCTCGGTTTGGT
1 GAAGAAAAATGCGGCACCAGCACATGCCCGAGCCCAGCATGTGCTGTCGCAACCCTCGGTCTGGT
* ** ** *
15753 TC-GATCTAAGATTACGAATGAACTCCGTATGCCTAATGTCAACCTGCAAAACGAGCGTGCGGGT
66 TCGGATCTTAGATTGGGAATGAACTCCGTATGCCTAA-GTCAACCCACAAAACGAGCGTGCGGGC
* * * *
15817 GCTCAGCTGGCCGGGATGGGTGGGATGCAG-AA-CCGGGGATCGGTCGGGTCCCC-CT-CTGCCT
130 GCTCAGCCGGCC-AGAGGGGCGGGATGC-GCAAGCCGGGGATCGGTCGGGTCCCCTCTGCTGCCT
* *
15878 GCTGT-CGCAACCCTCGGTCCAGTGCTATCTTAGAATGGGAATGAACTCCGTATGCCTAAGCCAA
193 GCTGTCCGCAACCCTCGGTCCGGT-CTATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAA
* * * *
15942 CCGACGAAACGAGCGGGTGGACAGGCAGGCGGGCACTACGTCGGCCAGAGAGACGGGATGCGCAA
257 CCGACGAAACGAGCGGGCGG-CGGGCGGGCGGGCACTACGCCGGCCAGAGAGACGGGATGCGCAA
*
16007 GCCGTGGATGGA-AGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACGTGCCAATGCCA
321 GCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACGTGCCAATGCCA
* *
16071 -TTTTAGAGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCTCGTGAAGTTTCATGGCAAGA
386 TTTTTA-TGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCACGTGAAGTTTCATGGCAAGA
* * *
16135 CGACTCATTTTTTATTTTTCCACAATTTTTGAAACTTTTTTACGGTTCGAGATTTTTTTAAAATT
450 CGACTCGTTTTCTATTTTT-CACGATTTTTGAAAC-TTTTTACGGTTCGAGA-TTTTTTAAAATT
* *
16200 TTTTCGGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTTTTGGTA-GCAT
512 TTTTCGGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCAT
* *
16264 AAAGAAATTCAGCTAAAAACTCGAAGTATACAAGATTTTGTGACCATTTGAAAAAACTGTCCCCA
577 AAA-AAATTCAGCTAAAAACTCGAAGTGTACAAGATTTTGTGACCATTTGAAAAAAGTGTCCCCA
*
16329 TTTCAGGCACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTG
641 TTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTG
*
16394 TGAGTTCTCGAGGTTTGATAAGGGATAGGGCGGCCAATATAAGGGCCAAGTACCAGCACCCCATC
706 TGAGTTCTCGAGGTTTGATGAGGGATAGGG-GGCCAATATAAGGGCCAAGTACCAGCA-CCCATC
* ** *
16459 GCACATCATGTGCGCACACCCTCCCCCGGCCCCCCTGATCGTCGGAACCCCAATGCCACCGATCA
769 GCACATCATGTGCGCACA--C-CCCCCGGCCCCCC-GATCGTCGGAACCCCAATGTCGTCGGTCA
* * * * *
16524 GGTTCTTCGGCAATGCTTCGACGATGGTGACCCGAC
830 GGTTCTCCGACGATGCTCCGACGATGGTGCCCCGAC
* * * *
16560 GAAGAAAAATTCAGAACCGGCACATGCCCGAGCCCAGCATGTGCTGTCGCAACCCTCGGTCAAGT
1 GAAGAAAAATGCGGCACCAGCACATGCCCGAGCCCAGCATGTGCTGTCGCAACCCTCGGTC----
* *
16625 TCGATCTTAGACTGGGAATGAACTCCATATGCTTAGACTAGGAATGAACTCCGTATGCCTAAGTC
62 T-G--GTT---C--GG-AT---CT---TA-GATT-G----GGAATGAACTCCGTATGCCTAAGTC
* * * * * * *
16690 AACCCACGAAATGAGCGTGCGGGTGCTCAGCCGGCCAAAGGGGCAGGATGCGCACGCCAGGGATC
106 AACCCACAAAACGAGCGTGCGGGCGCTCAGCCGGCCAGAGGGGCGGGATGCGCAAGCCGGGGATC
* * ** * * *
16755 GGTCGGGTCCCCCTCTGCGTGTTGCCAATCCTATTATTGCAACACTCGGTCTGGTCGAATCTT-G
171 GGTCGGGT-CCCCTCTGC----TGCC--TGCT-GT-CCGCAACCCTCGGTCCGGTC-TATCTTAG
*
16819 CACTGGAAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGC--G-GGCGGGCGGGC-GGC
226 -ACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGCGGGCGGCGGGCGGGCGGGC
* * ** * *
16880 ACTACGCCGGCAAGAGATA-TAGATGCGCAAGCTGTGGATCGATAGGGTGGTAGGTGGGATTAGG
290 ACTACGCCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGG
* * * *
16944 CACATCTTCATATTTCTGCATGCCAATGCAATTTTTATGGCTTGTAAATTCATACATTGGT-CCT
355 CACATCTTCATATTTCTACGTGCCAATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCCCT
* **
17008 TAAGCCTTCACGTGAAGTTTAATGGCAAGACGACTCGTTTTCTATTTTTCACGATTTTCAAAACT
420 TAAGCCTTCACGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCACGATTTTTGAAACT
* *
17073 TTTTGCGGTTCGAGATTTTTTAAAATTTTTTCGGAAGGAGTTTTGGCCCCAAACTTGGTAGACAT
485 TTTTACGGTTCGAGATTTTTTAAAATTTTTTCGGAAGGAGTTTTGGCCCCAAACTTGGTAGACGT
* * *
17138 GATCCTTGTGTTTTTGTTGTCATGCATATAAAAATTCAGCTAAAAACTTGAAGTGTACAAGA-TT
550 GATCCTTGTATTTTTGTTGGCATGCATA-AAAAATTCAGCTAAAAACTCGAAGTGTACAAGATTT
* *
17202 T-TGACCATTTGAAAAAAGTGT-TCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACTTGTA
614 TGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTA
* *
17265 AATTCTCAAATGCTCTTTAAAGGGGTGCT-AGTTCTCGAGGTTTGATGAGGGATAGGGGGCCAAT
679 AAATCTCAAATGCTCTTTAAGGGGGTG-TGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCAAT
* * *
17329 ATAAGGGCCAAGTACCCAGCACCCATCACACATCATGTGCGCACACCTCCCGG-CCCCTGATCGT
743 ATAAGGGCCAAGTA-CCAGCACCCATCGCACATCATGTGCGCACACCCCCCGGCCCCCCGATCGT
* * ** * **
17393 CGGAACCCCCATTGCCGTCGGTCAGGTTCTCCGGTGATGCTCTGACGATGGTGCCCCGGT
807 CGGAA-CCCCAATGTCGTCGGTCAGGTTCTCCGACGATGCTCCGACGATGGTGCCCCGAC
* * * * * *
17453 GAAGAAAAATGCGGCACCAGCACATGCCCAAGCCCAGCATTTGCTATTGCAACACTCGGTCT-GA
1 GAAGAAAAATGCGGCACCAGCACATGCCCGAGCCCAGCATGTGCTGTCGCAACCCTCGGTCTGGT
* * * ** * *
17517 TCCGATCTTAGACTGGGAATTAACTCCGTATGCCTAAGTCAAACCCATGAAATGACCGTGCGGGC
66 TCGGATCTTAGATTGGGAATGAACTCCGTATGCCTAAGTC-AACCCACAAAACGAGCGTGCGGGC
* * ** * * *
17582 GCTCAGCCGACTAG-GTTCGCGTGATGCGCAAGCCGGGGATCGGCCAAGGTCCCCTCTGCGTGCT
130 GCTCAGCCGGCCAGAG-GGGCGGGATGCGCAAGCCGGGGATCGGTC-GGGTCCCCTCTGC-TGC-
* * * *
17646 ACTGATCCTACTTCCACAACCTTCAGTCCGGTCTGATCTTAGA-TGGGAATGAACTCCGTATGCC
191 -CTG---CT--GTCCGCAACCCTCGGTCCGGTCT-ATCTTAGACTGGGAATGAACTCCGTATGCC
* * * *
17710 TAAG-CAACCGACGAAATGA-------ACGGGCGGGCGGGCACTACAACCAGACCAGAGAGACGG
249 TAAGCCAACCGACGAAACGAGCGGGCGGCGGGCGGGCGGGCACTAC-GCC-GGCCAGAGAGACGG
* * * **
17767 GATGTGCAAACCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTTTTGTGT
312 GATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATA-TTTCTACGT
* * * *
17832 GCCAATGCCAATTTTTGTGGCTTGTAATTTTCATGCAACGGT-CCTGTAGAGCCTTCACGTGAAG
376 GCCAATGCC-ATTTTTATGGCTTGTAA-ATTCATACAATGGTCCCT-TA-AGCCTTCACGTGAAG
* * *
17896 TTTCATGGCAAGGCGACTCGTTTTCTATTTTTCATGATTTTTGAAACTTTTTACGGTTCCGA-TT
437 TTTCATGGCAAGACGACTCGTTTTCTATTTTTCACGATTTTTGAAACTTTTTACGGTT-CGAGAT
* * *
17960 TTTTTTAAATTTTTTCGGAAGGCGTTTTGGCCCCCAAACTTGGTAGACGTGATACTTGTATTTTT
501 TTTTTAAAATTTTTTCGGAAGGAGTTTTGG-CCCCAAACTTGGTAGACGTGATCCTTGTATTTTT
* * *
18025 GTTGACATGAACAAAAAATTTCAGCTAAAAACTCGAAGTGTACAAGATTTTGTGAACCATTTG-A
565 GTTGGCATGCATAAAAAA-TTCAGCTAAAAACTCGAAGTGTACAAGATTTTGTG-ACCATTTGAA
*
18089 AAAAGTGTCCCCATTTCAGACACTTTTAATGGCTACTGCCAGCAAACCTGTAAAATCTCAAATGC
628 AAAAGTGTCCCCATTTCAGACAC-TTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGC
18154 TCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAAGT
692 TCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCC-AAGT
* * * *
18219 ACCA-CACCCATCGCACATCATGTGTGCATACCCCCCGG-CCCCCGATCGTTGGAA-CCCAATGC
756 ACCAGCACCCATCGCACATCATGTGCGCACACCCCCCGGCCCCCCGATCGTCGGAACCCCAATGT
* * * **
18281 CGCCGGTCAGGTTCTCCGATGATGCCCCGACGATGGTGCCCCGGT
821 CGTCGGTCAGGTTCTCCGACGATGCTCCGACGATGGTGCCCCGAC
* * * * * *
18326 AAAGAAAAATACCG-ATCCCAGCACATGCTCGAGCGCAGCATGTGTTG-C-CACACCGGTCGATC
1 GAAGAAAAATGCGGCA--CCAGCACATGCCCGAGCCCAGCATGTGCTGTCGCA-ACC---C--T-
*
18388 CGGTCTGATCTTAGGTTGGGAATGACTCGGTATGCTTAGATTGGGAATGAACTCCGTATGCCTAG
57 C-G---G-TC------T-GG--T---TCGG-AT-CTTAGATTGGGAATGAACTCCGTATGCCTAA
* * * * * *
18453 GTCAACGCACGAAACGAGCGTGCGGGCGCT-AACCGGCAAGAGGGGCGGGGATGCGCAAGCTGAG
103 GTCAACCCACAAAACGAGCGTGCGGGCGCTCAGCCGGCCAGAGGGGC-GGGATGCGCAAGCCGGG
* * * ** * *
18517 GATC-GACGGGTCCCTTCTGCGTGCTGCC-GATCTACTGCCGCAACCTTCTATCAGGTTCGATCT
167 GATCGGTCGGGTCCC--CT-C-TGCTGCCTG--CT-GT-CCGCAACCCTCGGTCCGG-TCTATCT
* * * * * *
18580 TAGACTGGGAATGAACTCCGTATG-CTAAGCCTATCAATGAAACGAGCGGACGG-GTAGGCGGGT
223 TAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGCGGGCGGCG--GGCGGGC
* * * ** *
18643 GGGCACTAACGCCAGCCA-AGAGA-GGGATGCTCAAGTCACGGATCGATAGGATGGTAGGTGGGT
286 GGGCACT-ACGCCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGG-
* * * * * * *
18706 TTTAGGCACATCTTTCATATTTTTGCATGCCAATGCCAATTTCATGGCTTGTAAATT-GTAAAAT
349 TTTAGGCACATC-TTCATATTTCTACGTGCCAATGCCATTTTTATGGCTTGTAAATTCATACAAT
* * * * *
18770 GGT-CCTTAAGCCTACATGTGAAGTTTCATGGCTAGATGACTCGTTTTCTATTTTTCATGATTTT
413 GGTCCCTTAAGCCTTCACGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCACGA-TTT
* * * * ** * *
18834 TTGAAACTTTTTTGCAGTTCGGGA-TTTTTAAAATTTTTTTTGGAAGG-GTTTTCACCCCCAACC
477 TTGAAAC-TTTTTACGGTTCGAGATTTTTTAAAA-TTTTTTCGGAAGGAGTTTTGGCCCCAAACT
* ** * * *
18897 TGGTACAAATTATCCTTGCA-TTTTATTGGCATGCATAAAAAATTCAGCTAAAAACTCGAAGTGT
540 TGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCATAAAAAATTCAGCTAAAAACTCGAAGTGT
*
18961 ACAAGATTTTGTGACCATTTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCAACTGGCAG
605 ACAAGATTTTGTGACCA-TTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAG
19026 CAAACCTGTAAAATCTC-AATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAG
669 CAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAG
* *
19090 GGGGCCAATATAAGGGCCAAGTACCAGCAACCCATCGCACATCATGTGTTGCACACCCCCTCAGC
734 GGGGCCAATATAAGGGCCAAGTACCAGC-ACCCATCGCACATCATGTG-CGCACACCCCC-CGGC
* * * * *
19155 TCCTCGATCTTCAGAACCCCAATGCCGTC-GTCAGGTTCT
796 CCCCCGATCGTCGGAACCCCAATGTCGTCGGTCAGGTTCT
19194 TCGATCTGAT
Statistics
Matches: 3665, Mismatches: 466, Indels: 465
0.80 0.10 0.10
Matches are distributed among these distances:
837 1 0.00
838 41 0.01
839 16 0.00
841 1 0.00
842 4 0.00
844 5 0.00
845 6 0.00
846 70 0.02
847 100 0.03
848 12 0.00
849 18 0.00
850 51 0.01
851 41 0.01
852 13 0.00
853 8 0.00
854 1 0.00
859 1 0.00
861 13 0.00
862 11 0.00
863 12 0.00
864 30 0.01
865 15 0.00
866 69 0.02
867 64 0.02
868 110 0.03
869 205 0.06
870 65 0.02
871 111 0.03
872 238 0.06
873 106 0.03
874 52 0.01
875 207 0.06
876 149 0.04
877 11 0.00
878 2 0.00
879 5 0.00
880 34 0.01
881 134 0.04
882 8 0.00
883 1 0.00
884 4 0.00
885 22 0.01
886 77 0.02
887 25 0.01
888 38 0.01
889 45 0.01
890 10 0.00
892 13 0.00
893 109 0.03
894 77 0.02
895 122 0.03
896 101 0.03
897 179 0.05
898 216 0.06
899 98 0.03
900 76 0.02
901 95 0.03
902 48 0.01
903 76 0.02
904 108 0.03
905 14 0.00
906 5 0.00
907 2 0.00
908 2 0.00
909 62 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (865 bp):
GAAGAAAAATGCGGCACCAGCACATGCCCGAGCCCAGCATGTGCTGTCGCAACCCTCGGTCTGGT
TCGGATCTTAGATTGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCGGGCG
CTCAGCCGGCCAGAGGGGCGGGATGCGCAAGCCGGGGATCGGTCGGGTCCCCTCTGCTGCCTGCT
GTCCGCAACCCTCGGTCCGGTCTATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGA
CGAAACGAGCGGGCGGCGGGCGGGCGGGCACTACGCCGGCCAGAGAGACGGGATGCGCAAGCCGT
GGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACGTGCCAATGCCATTTTT
ATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCACGTGAAGTTTCATGGCAAGACGACTC
GTTTTCTATTTTTCACGATTTTTGAAACTTTTTACGGTTCGAGATTTTTTAAAATTTTTTCGGAA
GGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCATAAAAAATTC
AGCTAAAAACTCGAAGTGTACAAGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACAC
TTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCG
AGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTG
CGCACACCCCCCGGCCCCCCGATCGTCGGAACCCCAATGTCGTCGGTCAGGTTCTCCGACGATGC
TCCGACGATGGTGCCCCGAC
Found at i:16668 original size:26 final size:26
Alignment explanation
Indices: 16630--16682 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
16620 CAAGTTCGAT
*
16630 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTAGGAATGAACTCCATATG
*
16656 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCATATG
16682 C
1 C
16683 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCATATG
Found at i:18425 original size:25 final size:26
Alignment explanation
Indices: 18397--18454 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
18387 CCGGTCTGAT
*
18397 CTTAGGTTGGGAATG-ACTCGGTATG
1 CTTAGGTTGGGAATGAACTCCGTATG
*
18422 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGGTTGGGAATGAACTCCGTATG
*
18448 CCTAGGT
1 CTTAGGT
18455 CAACGCACGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (26 bp):
CTTAGGTTGGGAATGAACTCCGTATG
Found at i:20850 original size:25 final size:26
Alignment explanation
Indices: 20801--20850 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
20791 CCGATCGATA
*
20801 TTAGACTGAGAATGAAACTCCGTATC
1 TTAGACCGAGAATGAAACTCCGTATC
*
20827 TTAGACCGGGAATG-AACTCCGTAT
1 TTAGACCGAGAATGAAACTCCGTAT
20851 GTCCAAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (26 bp):
TTAGACCGAGAATGAAACTCCGTATC
Found at i:23062 original size:24 final size:25
Alignment explanation
Indices: 23006--23063 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
22996 TATTTTTCAC
*
23006 GATTTTTGAAACTTTTTACGGTTTAG
1 GATTTTTGAAACTTTTTACGG-TAAG
* *
23032 GATTTTTTAAACTTTTTTCGG-AAG
1 GATTTTTGAAACTTTTTACGGTAAG
23056 GATTTTTG
1 GATTTTTG
23064 GCCCCAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 9 0.32
26 19 0.68
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (25 bp):
GATTTTTGAAACTTTTTACGGTAAG
Found at i:23527 original size:22 final size:24
Alignment explanation
Indices: 23476--23546 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
23466 GATCTGATCT
23476 TAGACTGGGAATGAACTCGTATGC
1 TAGACTGGGAATGAACTCGTATGC
23500 TAGACTGGGAATGAACT-GTAT-C
1 TAGACTGGGAATGAACTCGTATGC
*
23522 TAGACTAGG-ATGAACTCCGTATGC
1 TAGACTGGGAATGAACT-CGTATGC
23546 T
1 T
23547 GTCGACCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 7 0.16
22 9 0.21
23 8 0.19
24 19 0.44
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (24 bp):
TAGACTGGGAATGAACTCGTATGC
Done.