Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009055.1 Hibiscus syriacus cultivar Beakdansim tig00112470_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 451578
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:27 original size:21 final size:21
Alignment explanation
Indices: 1--66 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
1 GCGAATTGGGAAAATCGCAAT
1 GCGAATTGGGAAAATCGCAAT
** * *
22 GCGAA-TAAGTAAATCGCAAC
1 GCGAATTGGGAAAATCGCAAT
42 GCGAATTGGGAAAATCGCAAT
1 GCGAATTGGGAAAATCGCAAT
63 GCGA
1 GCGA
67 TACTTACTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTGGGAAAATCGCAAT
Found at i:79 original size:41 final size:41
Alignment explanation
Indices: 1--127 Score: 123
Period size: 41 Copynumber: 3.1 Consensus size: 41
** *
1 GCGAATTGGGAAAATCGCAATGCGAATAAGTA-AATCGCAAC
1 GCGAATTGGGAAAATCGCAATGCG-ATACTTACTATCGCAAC
*
42 GCGAATTGGGAAAATCGCAATGCGATACTTACTATCGCAAT
1 GCGAATTGGGAAAATCGCAATGCGATACTTACTATCGCAAC
* ** * * * *
83 GCGATAAT-AAAAAATCGCAACGCGATCCTGACTTTCGCAAC
1 GCGA-ATTGGGAAAATCGCAATGCGATACTTACTATCGCAAC
124 GCGA
1 GCGA
128 TAATACATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
40 5 0.07
41 65 0.90
42 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (41 bp):
GCGAATTGGGAAAATCGCAATGCGATACTTACTATCGCAAC
Found at i:101 original size:21 final size:20
Alignment explanation
Indices: 52--149 Score: 61
Period size: 20 Copynumber: 4.8 Consensus size: 20
42 GCGAATTGGG
* *
52 AAAATCGCAATGCGATACTT
1 AAAATCGCAATGCGATAATA
**
72 ACTATCGCAATGCGATAATAA
1 AAAATCGCAATGCGATAAT-A
* ** *
93 AAAATCGCAACGCGATCCTG
1 AAAATCGCAATGCGATAATA
*** *
113 ACTTTCGCAACGCGATAATA
1 AAAATCGCAATGCGATAATA
*
133 CATAATCGCAATGCGAT
1 -AAAATCGCAATGCGAT
150 TTTCAAAGCG
Statistics
Matches: 56, Mismatches: 20, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
20 30 0.54
21 26 0.46
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (20 bp):
AAAATCGCAATGCGATAATA
Found at i:128 original size:41 final size:41
Alignment explanation
Indices: 52--149 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
42 GCGAATTGGG
* *
52 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAA
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAA
* * * *
93 AAAATCGCAACGCGATCCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAA
*
134 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
150 TTTCAAAGCG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAA
Found at i:1949 original size:18 final size:18
Alignment explanation
Indices: 1923--1967 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1913 TCCACTTCGG
*
1923 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1941 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1959 GAGCCATCA
1 GAGCCATCA
1968 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2465 original size:20 final size:20
Alignment explanation
Indices: 2440--2485 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2430 TAGTTTACTT
2440 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
2460 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
2480 TCGCAA
1 TCGCAA
2486 AGCGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:2494 original size:19 final size:20
Alignment explanation
Indices: 2451--2495 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2441 CGCAACACGA
*
2451 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAAAGCGG
*
2471 AAATGGCTATCGCAAAGC-G
1 AAATGACTATCGCAAAGCGG
2490 AAATGA
1 AAATGA
2496 AAATCGCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAAAGCGG
Found at i:2501 original size:19 final size:19
Alignment explanation
Indices: 2479--2574 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 19
2469 GGAAATGGCT
2479 ATCGCAAAGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
2498 ATCGC-AA-CG--A-CAAA
1 ATCGCAAAGCGAAATGAAA
*
2512 ATCGCAACGCGAAATG-AA
1 ATCGCAAAGCGAAATGAAA
*
2530 ATCGC-AA-CG--A-CAAA
1 ATCGCAAAGCGAAATGAAA
*
2544 ATCGCAACGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
2563 ATCGCAATGCGA
1 ATCGCAAAGCGA
2575 TTTATGTTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 22
0.66 0.09 0.25
Matches are distributed among these distances:
14 16 0.28
15 3 0.05
16 6 0.10
17 3 0.05
18 11 0.19
19 19 0.33
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
ATCGCAAAGCGAAATGAAA
Found at i:2514 original size:14 final size:14
Alignment explanation
Indices: 2495--2552 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2485 AAGCGAAATG
2495 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2509 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
2525 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2541 AAAATCGCAACG
1 AAAATCGCAACG
2553 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2537 original size:32 final size:33
Alignment explanation
Indices: 2479--2569 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2469 GGAAATGGCT
*
2479 ATCGCAAAGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2512 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2544 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
2570 TGCGATTTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2605 original size:14 final size:14
Alignment explanation
Indices: 2586--2643 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2576 TTATGTTTCG
2586 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2600 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2616 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
2632 CGTTGCGATTTT
1 CGTTGCGATTTT
2644 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2620 original size:32 final size:33
Alignment explanation
Indices: 2581--2659 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2571 GCGATTTATG
2581 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
2613 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
2646 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2660 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2658 original size:19 final size:19
Alignment explanation
Indices: 2600--2717 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
2590 GCGATTTTGT
2600 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2618 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
2632 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
2651 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
2671 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2690 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
2710 TGTTGCGA
1 CGTTGCGA
2718 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:4718 original size:19 final size:19
Alignment explanation
Indices: 4696--4782 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
4686 ATCGCAACGA
4696 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
4715 GAAAATCGCAATACGAAAT
1 GAAAATCGCAATGCGAAAT
4734 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4753 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4767 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4783 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 47 0.75
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4747 original size:38 final size:33
Alignment explanation
Indices: 4667--4782 Score: 151
Period size: 33 Copynumber: 3.4 Consensus size: 33
4657 AAAACAGACT
* ***
4667 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
4700 ATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAAA
4738 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
4771 ATCGCAATGCGA
1 ATCGCAATGCGA
4783 TTTTCATTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 36 0.49
34 2 0.03
35 3 0.04
36 3 0.04
37 2 0.03
38 28 0.38
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:4858 original size:20 final size:20
Alignment explanation
Indices: 4801--4858 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
4791 TCGCATTGCG
* *
4801 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
4821 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4841 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
4859 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:5945 original size:24 final size:24
Alignment explanation
Indices: 5918--5971 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5908 GTATTCGAAA
* *
5918 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
5942 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
5966 TTTGAT
1 TTTGAT
5972 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:6162 original size:12 final size:12
Alignment explanation
Indices: 6145--6169 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6135 ATATAATCCT
6145 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6157 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6169 G
1 G
6170 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:8485 original size:19 final size:19
Alignment explanation
Indices: 8463--8521 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
8453 GGAAATTACT
8463 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8482 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
8496 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
8515 ATCGCAA
1 ATCGCAA
8522 CGCTAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:8667 original size:14 final size:14
Alignment explanation
Indices: 8648--8684 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8638 CATCAATTAA
8648 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
8662 ACAAATCACCTTTT
1 ACAAATCAACTTTT
8676 ACAAATCAA
1 ACAAATCAA
8685 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:10108 original size:21 final size:21
Alignment explanation
Indices: 10042--10108 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
10032 GTGAATCGGG
*
10042 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
10062 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
10084 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
10105 CTCT
1 CTCT
10109 CGAGGAATAA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:10127 original size:42 final size:42
Alignment explanation
Indices: 10081--10164 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
10071 CGATGACAGT
* * *
10081 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATAATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATAATAGG
* * * *
10123 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATAATAGG
10165 CGAGTCGGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATAATAGG
Found at i:12246 original size:33 final size:33
Alignment explanation
Indices: 12189--12287 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
12179 ACGAGATAAT
*
12189 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
12223 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
12256 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
12288 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:12281 original size:19 final size:19
Alignment explanation
Indices: 12164--12329 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
12154 TCTTTTGGTT
*
12164 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
12183 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
12203 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
12221 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
12237 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
12255 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
12270 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
12290 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
12309 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
12328 GA
1 GA
12330 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 43 0.36
20 45 0.38
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:12347 original size:19 final size:19
Alignment explanation
Indices: 12325--12391 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
12315 AAAATCGCAA
*
12325 TGCGATTTTGGTTTCGAGT
1 TGCGATTTTGATTTCGAGT
* *
12344 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGAGT
* *
12363 TGCGATAGTT-ATTTCCGCGT
1 TGCGAT-TTTGATTT-CGAGT
12383 TGCGATTTT
1 TGCGATTTT
12392 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 28 0.68
20 13 0.32
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGATTTCGAGT
Found at i:12383 original size:20 final size:19
Alignment explanation
Indices: 12336--12388 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
12326 GCGATTTTGG
* **
12336 TTTCGAGTTGCGATTTTTA
1 TTTCGCGTTGCGATAGTTA
12355 TTTCGCGTTGCGATAGTTA
1 TTTCGCGTTGCGATAGTTA
12374 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
12389 TTTCATTCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTTA
Found at i:12980 original size:21 final size:19
Alignment explanation
Indices: 12956--13084 Score: 80
Period size: 20 Copynumber: 6.3 Consensus size: 19
12946 AAGTATCTCG
12956 TTGCGATTTTTTATTATCGCA
1 TTGCGATTTTTTA-T-TCGCA
** *
12977 TTGCGA-TAGTAAGTATCGCA
1 TTGCGATTTTTTA-T-TCGCA
** *
12997 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTT--TTATTCGCA
13018 TTGCGATTTATTTATTCGCA
1 TTGCGATTT-TTTATTCGCA
* *
13038 TTGCGATTTTTCCAATTCGCG
1 TTGCGATTTTT--TATTCGCA
*
13059 TTGCGATTTACTTATTCGCA
1 TTGCGATTT-TTTATTCGCA
13079 TTGCGA
1 TTGCGA
13085 ATTGGGAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
19 2 0.02
20 43 0.51
21 35 0.41
22 3 0.04
23 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTTTATTCGCA
Found at i:13003 original size:20 final size:20
Alignment explanation
Indices: 12910--13003 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
12900 CGCTATGTAA
* *
12910 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
12930 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
12950 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
*
12971 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
12991 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
13004 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:13022 original size:41 final size:40
Alignment explanation
Indices: 12931--13065 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 40
12921 AAAGTCAGTA
* * * ** *
12931 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
12971 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
* **
13013 TCGCGTTGCGAT-TTATTTATTCGCATTGCGATTTTTCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGA-TTTTCCAAT
13054 TCGCGTTGCGAT
1 TCGCGTTGCGAT
13066 TTACTTATTC
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 70 0.88
42 6 0.08
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (40 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:13036 original size:20 final size:20
Alignment explanation
Indices: 13011--13084 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
13001 GATTTTCCCA
*
13011 ATTCGCGTTGCGATTTATTT
1 ATTCGCATTGCGATTTATTT
*
13031 ATTCGCATTGCGATTT-TTCCA
1 ATTCGCATTGCGATTTATT--T
* *
13052 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTATTT
13072 ATTCGCATTGCGA
1 ATTCGCATTGCGA
13085 ATTGGGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 27 0.60
21 15 0.33
22 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (20 bp):
ATTCGCATTGCGATTTATTT
Found at i:13066 original size:41 final size:41
Alignment explanation
Indices: 12992--13084 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
12982 ATAGTAAGTA
*
12992 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTATTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
13033 TCGCATTGCGATTTTTCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
13074 TCGCATTGCGA
1 TCGCATTGCGA
13085 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:14307 original size:2 final size:2
Alignment explanation
Indices: 14302--14351 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
14292 CATATATTTT
* * *
14302 TA TA TA TA CA TA TA TA TT TA TA TA TA TA TA TA TA TC TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14343 TA T- TA TA TA
1 TA TA TA TA TA
14352 GTCTACAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14308 original size:10 final size:10
Alignment explanation
Indices: 14293--14351 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 10
14283 ATTTTCGTCC
*
14293 ATATATTTTT
1 ATATATTTAT
**
14303 ATATATACAT
1 ATATATTTAT
14313 ATATATTTAT
1 ATATATTTAT
14323 ATATA--TAT
1 ATATATTTAT
*
14331 ATATATCTAT
1 ATATATTTAT
14341 -TATA-TTAT
1 ATATATTTAT
14349 ATA
1 ATA
14352 GTCTACAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
8 11 0.28
9 6 0.15
10 23 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (10 bp):
ATATATTTAT
Found at i:14315 original size:18 final size:18
Alignment explanation
Indices: 14292--14336 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
14282 AATTTTCGTC
*
14292 CATATATTTTTATATATA
1 CATATATATTTATATATA
14310 CATATATATTTATATATA
1 CATATATATTTATATATA
*
14328 TATATATAT
1 CATATATAT
14337 CTATTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
CATATATATTTATATATA
Found at i:14417 original size:36 final size:35
Alignment explanation
Indices: 14377--14567 Score: 124
Period size: 36 Copynumber: 5.2 Consensus size: 35
14367 TGAAAATACG
*
14377 TATATAATATATGATTTTTAAAATACCTTTGAAAAC
1 TATATAATATAT-ATTTTTAAAATACTTTTGAAAAC
* *
14413 TATATAATATATAGTTTTTAAAACA-TTTTTAGAAA-
1 TATATAATATATA-TTTTTAAAATACTTTTGA-AAAC
14448 -ATAT-ATATATA-TTTTAAAAT-CATTTTGAAAAC
1 TATATAATATATATTTTTAAAATAC-TTTTGAAAAC
** * *
14480 TTATATAATATATAGTTTTTTTTAACATTTTTGAAAAC
1 -TATATAATATATA--TTTTTAAAATACTTTTGAAAAC
* * *
14518 TTATATGTAATATATAAATTTTTAAAAAATATTTTTTAAAAT
1 -TATA--TAATATAT--ATTTTT--AAAATACTTTTGAAAAC
14560 TATATAAT
1 TATATAAT
14568 TTTTAAAACA
Statistics
Matches: 123, Mismatches: 14, Indels: 33
0.72 0.08 0.19
Matches are distributed among these distances:
31 11 0.09
32 5 0.04
33 7 0.06
34 8 0.07
35 12 0.10
36 25 0.20
38 21 0.17
39 4 0.03
40 13 0.11
41 4 0.03
42 13 0.11
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (35 bp):
TATATAATATATATTTTTAAAATACTTTTGAAAAC
Found at i:14463 original size:67 final size:68
Alignment explanation
Indices: 14383--14524 Score: 186
Period size: 68 Copynumber: 2.1 Consensus size: 68
14373 TACGTATATA
14383 ATATATGATTTTTAAAAT-ACCTTTGAAAAC-TATATAATATATAG-TTTTTAAAACATTTTTAG
1 ATATATGATTTTTAAAATCA-CTTTGAAAACTTATATAATATATAGTTTTTTAAAACATTTTT-G
14445 AAAAT
64 AAAAT
* **
14450 ATATAT-ATATTTTAAAATCATTTTGAAAACTTATATAATATATAGTTTTTTTTAACATTTTTGA
1 ATATATGAT-TTTTAAAATCACTTTGAAAACTTATATAATATATAGTTTTTTAAAACATTTTTGA
14514 AAACT
65 AAA-T
14519 -TATATG
1 ATATATG
14525 TAATATATAA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
66 2 0.03
67 24 0.36
68 25 0.38
69 15 0.23
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (68 bp):
ATATATGATTTTTAAAATCACTTTGAAAACTTATATAATATATAGTTTTTTAAAACATTTTTGAA
AAT
Found at i:14499 original size:68 final size:67
Alignment explanation
Indices: 14383--14524 Score: 184
Period size: 67 Copynumber: 2.1 Consensus size: 67
14373 TACGTATATA
14383 ATATATGATTTTTAAAATACCTTTGAAAACTATATAATATATAG-TTTTTAAAACATTTTTAGAA
1 ATATATGATTTTTAAAATACCTTTGAAAACTATATAATATATAGTTTTTTAAAACATTTTT-GAA
14447 AAT
65 AAT
* **
14450 ATATAT-ATATTTTAAAAT-CATTTTGAAAACTTATATAATATATAGTTTTTTTTAACATTTTTG
1 ATATATGAT-TTTTAAAATAC-CTTTGAAAAC-TATATAATATATAGTTTTTTAAAACATTTTTG
14513 AAAACT
63 AAAA-T
14519 -TATATG
1 ATATATG
14525 TAATATATAA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
66 3 0.05
67 24 0.36
68 24 0.36
69 15 0.23
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (67 bp):
ATATATGATTTTTAAAATACCTTTGAAAACTATATAATATATAGTTTTTTAAAACATTTTTGAAA
AT
Found at i:14587 original size:29 final size:30
Alignment explanation
Indices: 14528--14594 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
14518 TTATATGTAA
* *
14528 TATATAAATTTTTAAAAAATATTTTTTAAAAT
1 TATAT-AATTTTT-AAAAACATTTTTGAAAAT
14560 TATATAATTTTT-AAAACATTTTTGAAAAT
1 TATATAATTTTTAAAAACATTTTTGAAAAT
14589 TATATA
1 TATATA
14595 GTTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 21 0.64
31 7 0.21
32 5 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TATATAATTTTTAAAAACATTTTTGAAAAT
Found at i:14604 original size:29 final size:29
Alignment explanation
Indices: 14538--14604 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
14528 TATATAAATT
* *
14538 TTTAAAAAATATTTTTTAAAATTATATAA
1 TTTAAAAAACATTTTTGAAAATTATATAA
** *
14567 TTTTTAAAACATTTTTGAAAATTATATAG
1 TTTAAAAAACATTTTTGAAAATTATATAA
14596 TTTAAAAAA
1 TTTAAAAAA
14605 AAGGCATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTAAAAAACATTTTTGAAAATTATATAA
Found at i:15616 original size:30 final size:30
Alignment explanation
Indices: 15582--15654 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
15572 CCCGAAGGAC
*
15582 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
15612 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
* *
15642 CTGTCCATAGGTC
1 CTATCCAGAGGTC
15655 CCGAATAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGATAA
Found at i:15756 original size:63 final size:62
Alignment explanation
Indices: 15641--15764 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 62
15631 ATCCTCGATA
* * *
15641 ACTGTCCATAGGTCCCGAATAACCTAGGTAAATTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCGAATAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTAT
* *
15703 ACTGTCCATATGTCTCGAA-AGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATAGGTCCCGAATA-ACATAGGT-AAACTGTCCATATGTTCCGTAGAACATAGGTA
15765 AACCCTCGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 24 0.44
63 30 0.55
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (62 bp):
ACTGTCCATAGGTCCCGAATAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTAT
Found at i:15760 original size:32 final size:31
Alignment explanation
Indices: 15640--15767 Score: 134
Period size: 31 Copynumber: 4.1 Consensus size: 31
15630 GATCCTCGAT
* * * * *
15640 AACTGTCCATAGGTCCCGAATAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
15671 AATTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
15702 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
15734 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
15765 AAC
1 AAC
15768 CCTCGACTCT
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
30 4 0.05
31 48 0.61
32 23 0.29
33 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:17165 original size:21 final size:21
Alignment explanation
Indices: 17135--17179 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
17125 ATTCTGTCGT
* *
17135 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
17156 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
17177 TTG
1 TTG
17180 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:18890 original size:23 final size:22
Alignment explanation
Indices: 18857--18917 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
18847 TTTTCCTTTG
18857 TTTTTTTATTTCTTTGATTTAT
1 TTTTTTTATTTCTTTGATTTAT
*
18879 TTTTATTTATTTAC--TGATTTTT
1 TTTT-TTTATTT-CTTTGATTTAT
18901 TTTGTCTTTATTTCTTT
1 TTT-T-TTTATTTCTTT
18918 TTTCCCTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 15 0.47
23 15 0.47
24 2 0.06
ACGTcount: A:0.13, C:0.07, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTTTTATTTCTTTGATTTAT
Found at i:22901 original size:15 final size:15
Alignment explanation
Indices: 22881--22925 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
22871 CTGAGAATAC
*
22881 AAAATAAAAGCGGAA
1 AAAATAATAGCGGAA
* *
22896 AAAATAATACCCGAA
1 AAAATAATAGCGGAA
*
22911 AAATTAATAGCGGAA
1 AAAATAATAGCGGAA
22926 TTCAGCCAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.60, C:0.11, G:0.16, T:0.13
Consensus pattern (15 bp):
AAAATAATAGCGGAA
Found at i:23221 original size:21 final size:21
Alignment explanation
Indices: 23195--23236 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23185 AGCTAAACTT
23195 GACAATTTGTGTTGAAATCCC
1 GACAATTTGTGTTGAAATCCC
23216 GACAATTTGTGTTGAAATCCC
1 GACAATTTGTGTTGAAATCCC
23237 ACCGAAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
GACAATTTGTGTTGAAATCCC
Found at i:25555 original size:24 final size:25
Alignment explanation
Indices: 25505--25558 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
25495 ATTTATATTG
25505 AAAATTTTAAGAGATATAAAATTAT
1 AAAATTTTAAGAGATATAAAATTAT
*
25530 AAAATTTTGAGAGA-A-ACAAATTAT
1 AAAATTTTAAGAGATATA-AAATTAT
25554 AAAAT
1 AAAAT
25559 AAAAAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 13 0.48
25 13 0.48
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.31
Consensus pattern (25 bp):
AAAATTTTAAGAGATATAAAATTAT
Found at i:25574 original size:14 final size:14
Alignment explanation
Indices: 25554--25599 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
25544 AACAAATTAT
25554 AAAATAAAAAAATA
1 AAAATAAAAAAATA
*
25568 CAAAT-AAAAAATAA
1 AAAATAAAAAAAT-A
25582 AAAATAAAAAAATA
1 AAAATAAAAAAATA
25596 AAAA
1 AAAA
25600 AATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.25
14 14 0.50
15 7 0.25
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:25602 original size:8 final size:7
Alignment explanation
Indices: 25554--25600 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
25544 AACAAATTAT
25554 AAAATAA
1 AAAATAA
25561 AAAA-ATA
1 AAAATA-A
*
25568 CAAATAA
1 AAAATAA
25575 AAAATAA
1 AAAATAA
25582 AAAATAAA
1 AAAAT-AA
25590 AAAATAA
1 AAAATAA
25597 AAAA
1 AAAA
25601 ATTTCAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 1 0.03
7 26 0.74
8 8 0.23
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:26943 original size:31 final size:30
Alignment explanation
Indices: 26908--26965 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
26898 ACTTAATAAA
* *
26908 TTTAATGATGATTTTATAACTTTTTAAACAT
1 TTTAATAATAATTTTATAA-TTTTTAAACAT
26939 TTTAATAATAATTTTATAATTTTTAAA
1 TTTAATAATAATTTTATAATTTTTAAA
26966 AGTTCAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTAATAATAATTTTATAATTTTTAAACAT
Found at i:30862 original size:39 final size:38
Alignment explanation
Indices: 30808--30909 Score: 150
Period size: 39 Copynumber: 2.6 Consensus size: 38
30798 CTACTCGGCC
*
30808 GCGGGTTCGGCTTCTCTGGAGTAGCTCCGTCATCTGCAG
1 GCGGGTTCGGCTTCTCTGGAGCAGCTCCGTCATCTG-AG
* *
30847 GCGGGTCCGGCTTCTCTGGAGCAGCTCCGTCATCTGTG
1 GCGGGTTCGGCTTCTCTGGAGCAGCTCCGTCATCTGAG
*
30885 GTCGAGTTCGGCTTCTCTGGAGCAG
1 G-CGGGTTCGGCTTCTCTGGAGCAG
30910 AGAGTGAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.04
39 55 0.96
ACGTcount: A:0.10, C:0.28, G:0.34, T:0.27
Consensus pattern (38 bp):
GCGGGTTCGGCTTCTCTGGAGCAGCTCCGTCATCTGAG
Found at i:31787 original size:23 final size:22
Alignment explanation
Indices: 31759--31840 Score: 69
Period size: 27 Copynumber: 3.5 Consensus size: 22
31749 AAATTGAACG
31759 ATCGGTTTTTTACCGGATTAAAA
1 ATCGGTTTTTTACCGGA-TAAAA
31782 ATCGGTTTTTTTCAAACCGGATAAAAA
1 ATCGG-TTTTTT---ACCGGAT-AAAA
*
31809 ACCGGTTTTTTATCC-GA-AAAA
1 ATCGGTTTTTTA-CCGGATAAAA
*
31830 ATCCGTTTTTT
1 ATCGGTTTTTT
31841 TTAAAAAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
21 13 0.26
23 8 0.16
24 8 0.16
26 7 0.14
27 14 0.28
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (22 bp):
ATCGGTTTTTTACCGGATAAAA
Found at i:36157 original size:63 final size:64
Alignment explanation
Indices: 36023--36184 Score: 186
Period size: 63 Copynumber: 2.5 Consensus size: 64
36013 ATTGTTCAAG
* * * * *
36023 GTGTATCGATGCACATGAAGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCAATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
* * ** *
36087 GTGTATCAATGCACAAGTAGTGCATCGATTCACCCCCTT-AAATACAAACATCGAATGGGATTTA
1 GTGTATCAATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCA-TCA
*
36151 -TGTATCAATGCATATA-TAGTGCATCGATGCACCC
1 GTGTATCAATGCACA-AGTAGTGCATCGATGCACCC
36185 GTCAAGGGAT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
63 48 0.57
64 36 0.43
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (64 bp):
GTGTATCAATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
Found at i:43892 original size:7 final size:7
Alignment explanation
Indices: 43871--43904 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
43861 AACGAGGTTT
43871 AAATTTA
1 AAATTTA
43878 ACAATTTA
1 A-AATTTA
43886 AAATTTA
1 AAATTTA
*
43893 AAATATA
1 AAATTTA
43900 AAATT
1 AAATT
43905 AATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (7 bp):
AAATTTA
Found at i:47828 original size:11 final size:10
Alignment explanation
Indices: 47763--47833 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 10
47753 AAATATTAAT
*
47763 TATTAAAATA
1 TATTAATATA
47773 T-TTAATATA
1 TATTAATATA
*
47782 CATATAATATA
1 TAT-TAATATA
47793 -ATTTAATA-A
1 TA-TTAATATA
47802 TATT-ATAT-
1 TATTAATATA
*
47810 TTTTAATATCA
1 TATTAATAT-A
47821 TATTAATATA
1 TATTAATATA
47831 TAT
1 TAT
47834 ACTTAGATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
8 6 0.12
9 14 0.29
10 13 0.27
11 16 0.33
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (10 bp):
TATTAATATA
Found at i:47991 original size:19 final size:19
Alignment explanation
Indices: 47953--47998 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
47943 TAAAAATGAG
*
47953 TAATATTAATTTATATATT
1 TAATATTAATTAATATATT
47972 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATATATT
*
47991 TAGTATTA
1 TAATATTA
47999 TATTCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTAATTAATATATT
Found at i:48312 original size:30 final size:30
Alignment explanation
Indices: 48275--48355 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
48265 TTCCCATAAA
*
48275 ATGTAATTCATTTTACATAAAACAATTT-TC
1 ATGTAATTCATTTTACGTAAAAC-ATTTCTC
* *
48305 TTGTAATTCATTTCACGTAAAACATTTCTC
1 ATGTAATTCATTTTACGTAAAACATTTCTC
* *
48335 AGGTAATCCATTTTACGTAAA
1 ATGTAATTCATTTTACGTAAA
48356 TTATTTTCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 4 0.09
30 39 0.91
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (30 bp):
ATGTAATTCATTTTACGTAAAACATTTCTC
Found at i:48700 original size:2 final size:2
Alignment explanation
Indices: 48695--48746 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
48685 TTCTCTAACC
48695 AT 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 AT
48737 AT AT AT AT AT
1 AT AT AT AT AT
48747 CTTACGCTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50010 original size:2 final size:2
Alignment explanation
Indices: 50003--50033 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49993 TTAAATATGC
50003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50034 AACTGGAATA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54105 original size:20 final size:21
Alignment explanation
Indices: 54080--54131 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
54070 TTTTCCCAAT
*
54080 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
54100 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
54121 TCGCAATGCGA
1 TCGCAATGCGA
54132 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:54145 original size:20 final size:20
Alignment explanation
Indices: 54120--54213 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
54110 AATTGGGAAA
*
54120 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
54140 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
54161 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
54181 TTTGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
54201 TTCGCAACGCGAT
1 ATCGCAACGCGAT
54214 TTACATAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:54162 original size:41 final size:41
Alignment explanation
Indices: 54117--54194 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
54107 GCGAATTGGG
* * *
54117 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* * *
54158 AAAATCGCAACGAGATACTTACTTTTGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
54195 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:54867 original size:39 final size:38
Alignment explanation
Indices: 54790--54974 Score: 183
Period size: 33 Copynumber: 5.1 Consensus size: 38
54780 GAAACCAAAA
*
54790 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
54828 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
54867 TCGCGTTGCGA--TT-GTTT-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
**
54900 TCGCGTTGCGA--TTC---TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
54933 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
54973 TC
1 TC
54975 AACCAAAAGA
Statistics
Matches: 125, Mismatches: 11, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 40 0.32
34 10 0.08
35 1 0.01
36 5 0.04
37 2 0.02
38 21 0.17
39 27 0.22
40 17 0.14
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:54951 original size:20 final size:19
Alignment explanation
Indices: 54790--54974 Score: 183
Period size: 19 Copynumber: 10.1 Consensus size: 19
54780 GAAACCAAAA
*
54790 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
54809 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
54828 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
54847 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
54867 TCGCGTTGCGA--TT-GTT
1 TCGCGTTGCGATTTTCATT
* **
54883 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
54900 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
54914 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
54933 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
54953 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
54973 TC
1 TC
54975 AACCAAAAGA
Statistics
Matches: 139, Mismatches: 14, Indels: 26
0.78 0.08 0.15
Matches are distributed among these distances:
14 17 0.12
15 1 0.01
16 6 0.04
17 7 0.05
18 1 0.01
19 56 0.40
20 50 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:55927 original size:42 final size:42
Alignment explanation
Indices: 55867--55989 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
55857 GCCCGACTCG
* * *
55867 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
55909 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
55951 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
55990 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:55947 original size:21 final size:21
Alignment explanation
Indices: 55923--55989 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
55913 TCATTCCTCG
55923 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
55944 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
55965 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
55986 AGAG
1 AGAG
55990 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:57365 original size:14 final size:14
Alignment explanation
Indices: 57346--57381 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
57336 ATTGTTTAAT
57346 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
57360 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
57374 TGATTTGT
1 TGATTTGT
57382 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:57582 original size:19 final size:19
Alignment explanation
Indices: 57560--57690 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
57550 CGAAATTAAA
*
57560 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
57579 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
57595 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
57612 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
57626 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
57645 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
57661 CTCG--TTGCGATTTTTAT
1 TTCGCATTGCGATTTTCAT
57678 TTCGCATTGCGAT
1 TTCGCATTGCGAT
57691 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 23 0.28
16 12 0.14
17 13 0.16
19 35 0.42
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:57606 original size:33 final size:32
Alignment explanation
Indices: 57564--57690 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
57554 ATTAAATTCG
57564 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
57597 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
57630 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
57663 CGTTGCGATTTTTATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
57691 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 79 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:57653 original size:66 final size:66
Alignment explanation
Indices: 57557--57689 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
57547 ACGCGAAATT
*
57557 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
57622 G
66 G
* *
57623 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTTATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
57688 G
66 G
57689 A
1 A
57690 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:60001 original size:12 final size:12
Alignment explanation
Indices: 59984--60008 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59974 TCTTCGGGGA
59984 CTTTTTCTTCTT
1 CTTTTTCTTCTT
59996 CTTTTTCTTCTT
1 CTTTTTCTTCTT
60008 C
1 C
60009 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:60217 original size:24 final size:24
Alignment explanation
Indices: 60183--60236 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
60173 CTGAAACATC
* *
60183 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
* *
60207 ATCAAAGTCCGGGTATTGATCAAG
1 ATCAAAATCCGGGTATTGACCAAG
60231 ATCAAA
1 ATCAAA
60237 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:61321 original size:20 final size:20
Alignment explanation
Indices: 61296--61353 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
61286 ATTCATTTGA
61296 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
61316 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
61336 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
61354 CGCATTGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:61377 original size:19 final size:19
Alignment explanation
Indices: 61353--61486 Score: 163
Period size: 19 Copynumber: 7.8 Consensus size: 19
61343 AACGAGAAAA
61353 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
61372 TCGCATTGCGA---T--TT
1 TCGCATTGCGATTTTCATT
61386 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
61405 TCGCATTGCGA---T--TT
1 TCGCATTGCGATTTTCATT
61419 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
61438 TCGCATTGCGA---T--TT
1 TCGCATTGCGATTTTCATT
61452 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
61471 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
61487 TCGTTGCGAT
Statistics
Matches: 100, Mismatches: 0, Indels: 30
0.77 0.00 0.23
Matches are distributed among these distances:
14 39 0.39
16 3 0.03
17 3 0.03
19 55 0.55
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:61390 original size:33 final size:33
Alignment explanation
Indices: 61353--61496 Score: 270
Period size: 33 Copynumber: 4.4 Consensus size: 33
61343 AACGAGAAAA
61353 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
61386 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
61419 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
61452 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTT
* *
61485 TCTCGTTGCGAT
1 TCGCATTGCGAT
61497 AGTCTGTTTT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 109 1.00
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTT
Found at i:61424 original size:47 final size:47
Alignment explanation
Indices: 61394--61496 Score: 77
Period size: 52 Copynumber: 2.1 Consensus size: 47
61384 TTTCGCATTG
*
61394 CGATTTTCATTTCGCATTGCGATTTTCGCATTGCGATTTTCATTTCGCATTG
1 CGATTTTCATTGCGCATTGCGATTTTCGCATTGCGA---T--TTTCGCATTG
* * *
61446 CGATTTTCGCATTGCG-ATTTTC-A-TTTCGCATTGCGATTTTCTCGTTG
1 CGATTTT--CATTGCGCA-TTGCGATTTTCGCATTGCGATTTTCGCATTG
61493 CGAT
1 CGAT
61497 AGTCTGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
47 12 0.27
49 1 0.02
52 20 0.45
53 2 0.05
54 9 0.20
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (47 bp):
CGATTTTCATTGCGCATTGCGATTTTCGCATTGCGATTTTCGCATTG
Found at i:61486 original size:14 final size:14
Alignment explanation
Indices: 61370--61467 Score: 106
Period size: 14 Copynumber: 6.3 Consensus size: 14
61360 GCGATTTTCA
61370 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
61384 TTTCGCATTGCGATTTT
1 TTTCGCATTGCGA---T
61401 CATTTCGCATTGCGAT
1 --TTTCGCATTGCGAT
61417 TTTCGCATTGCGATTTT
1 TTTCGCATTGCGA---T
61434 CATTTCGCATTGCGAT
1 --TTTCGCATTGCGAT
61450 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
61464 TTTC
1 TTTC
61468 ATTTCGCATT
Statistics
Matches: 74, Mismatches: 0, Indels: 20
0.79 0.00 0.21
Matches are distributed among these distances:
14 44 0.59
16 2 0.03
17 2 0.03
19 26 0.35
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (14 bp):
TTTCGCATTGCGAT
Found at i:61493 original size:14 final size:14
Alignment explanation
Indices: 61377--61496 Score: 51
Period size: 14 Copynumber: 7.5 Consensus size: 14
61367 TCATTTCGCA
* *
61377 TTGCGATTTTCGCA
1 TTGCGATTTTCTCG
61391 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
* *
61408 CATTGCGATTTTCGCA
1 --TTGCGATTTTCTCG
61424 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
* *
61441 CATTGCGATTTTCGCA
1 --TTGCGATTTTCTCG
61457 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
61474 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
61490 TTGCGAT
1 TTGCGAT
61497 AGTCTGTTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
14 40 0.49
16 5 0.06
17 3 0.04
19 33 0.41
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:63521 original size:20 final size:19
Alignment explanation
Indices: 63486--63552 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
63476 GAAACTTAAA
63486 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
63505 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
63525 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
63544 ATCGCAACG
1 ATCGCAACG
63553 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:63560 original size:14 final size:14
Alignment explanation
Indices: 63541--63603 Score: 74
Period size: 14 Copynumber: 4.3 Consensus size: 14
63531 ATGCGAAATG
63541 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
63555 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
63571 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
63587 AAAATCGCAACG-C
1 AAAATCGCAACGAC
63600 AAAA
1 AAAA
63604 CACAAATCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
13 5 0.12
14 21 0.49
16 8 0.19
18 9 0.21
ACGTcount: A:0.51, C:0.25, G:0.16, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:63583 original size:32 final size:33
Alignment explanation
Indices: 63525--63599 Score: 134
Period size: 32 Copynumber: 2.3 Consensus size: 33
63515 GGAAATGGCT
*
63525 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
63558 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
63590 ATCGCAACGC
1 ATCGCAACGC
63600 AAAACACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 26 0.63
33 15 0.37
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:63632 original size:19 final size:19
Alignment explanation
Indices: 63610--63673 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
63600 AAAACACAAA
63610 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
63629 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
63645 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
63662 TCGCATTGCGAT
1 TCGCATTGCGAT
63674 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:63692 original size:20 final size:19
Alignment explanation
Indices: 63658--63712 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
63648 TTGCGATTTT
*
63658 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
63677 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
63697 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
63713 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:64211 original size:18 final size:18
Alignment explanation
Indices: 64185--64229 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
64175 GTCGATCAGA
*
64185 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
64203 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
64221 TGATGGCTC
1 TGATGGCTC
64230 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:65575 original size:20 final size:20
Alignment explanation
Indices: 65550--65587 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65540 AATAGTTTCT
65550 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
65570 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
65588 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:65876 original size:22 final size:22
Alignment explanation
Indices: 65851--65894 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
65841 GATTTAGATA
65851 GACGGATTTCG-CTGGAGATGGG
1 GACGGATTTCGTC-GGAGATGGG
65873 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
65895 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:66107 original size:20 final size:20
Alignment explanation
Indices: 66082--66134 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
66072 GATTATGTAT
66082 TATCGCGTTGCGAAAG-ACAG
1 TATCGCGTTGCGAAAGTA-AG
66102 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
66122 TATCTCGTTGCGA
1 TATCGCGTTGCGA
66135 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:66153 original size:21 final size:21
Alignment explanation
Indices: 66120--66220 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
66110 TGCGAAAGTA
* * *
66120 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
66141 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
66161 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
66183 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
66204 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
66221 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:66168 original size:20 final size:20
Alignment explanation
Indices: 66062--66176 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
66052 CGCTTTGAAA
*
66062 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
66083 ATCGCGTTGCGAAAGACAGT
1 ATCGCATTGCGATAGTCAGT
* * *
66103 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
66123 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
66144 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
66164 ATCGCATTGCGAT
1 ATCGCATTGCGAT
66177 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 1 0.01
20 49 0.66
21 24 0.32
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:66195 original size:41 final size:41
Alignment explanation
Indices: 66104--66238 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
66094 AAAGACAGTA
* * * ** *
66104 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
66144 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
66186 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
66227 TCGCGTTGCGAT
1 TCGCGTTGCGAT
66239 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:66230 original size:21 final size:20
Alignment explanation
Indices: 66165--66257 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
66155 ATAGTCAGTA
*
66165 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
66186 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
66206 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
66227 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
66247 TCGCATTGCGA
1 TCGCATTGCGA
66258 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:66239 original size:41 final size:41
Alignment explanation
Indices: 66165--66257 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
66155 ATAGTCAGTA
66165 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
66206 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
66247 TCGCATTGCGA
1 TCGCATTGCGA
66258 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:71231 original size:2 final size:2
Alignment explanation
Indices: 71224--71250 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71214 GTTTTGCTAT
71224 TA TA 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 T
71251 TTTGATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76906 original size:42 final size:36
Alignment explanation
Indices: 76848--76932 Score: 170
Period size: 36 Copynumber: 2.4 Consensus size: 36
76838 TCATCTTTGA
76848 TGCAGGTATTCTTGCTTTTGCTTTTTAATTTTACCC
1 TGCAGGTATTCTTGCTTTTGCTTTTTAATTTTACCC
76884 TGCAGGTATTCTTGCTTTTGCTTTTTAATTTTACCC
1 TGCAGGTATTCTTGCTTTTGCTTTTTAATTTTACCC
76920 TGCAGGTATTCTT
1 TGCAGGTATTCTT
76933 ACCTAGGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.14, C:0.19, G:0.15, T:0.52
Consensus pattern (36 bp):
TGCAGGTATTCTTGCTTTTGCTTTTTAATTTTACCC
Found at i:82430 original size:2 final size:2
Alignment explanation
Indices: 82423--82458 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
82413 GGTTTTATCA
*
82423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82459 TCGATAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90685 original size:60 final size:60
Alignment explanation
Indices: 90621--90803 Score: 251
Period size: 60 Copynumber: 3.0 Consensus size: 60
90611 TTATCTTAAA
* * * *
90621 ATTATTTATTTATTTATTTATTGATAGAAATAGTAATTTTAATTTCATCATATCTATGTT
1 ATTATTTATTTATTAATTTATTAATAGAAATAATAATTTTAATTTCATCATATCTGTGTT
* * *
90681 ATTATTTATTTATTAATTAATTAATAGAAATAATAATTTTAATTTCATCATATATGTATT
1 ATTATTTATTTATTAATTTATTAATAGAAATAATAATTTTAATTTCATCATATCTGTGTT
* * * *
90741 ACTT-TTTATTTATTAATTTATTTACATAAATAATAATTTTAATTTCATCATATCCGTGTT
1 A-TTATTTATTTATTAATTTATTAATAGAAATAATAATTTTAATTTCATCATATCTGTGTT
90801 ATT
1 ATT
90804 TGTCATTGGA
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
59 2 0.02
60 104 0.96
61 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (60 bp):
ATTATTTATTTATTAATTTATTAATAGAAATAATAATTTTAATTTCATCATATCTGTGTT
Found at i:91899 original size:64 final size:64
Alignment explanation
Indices: 91831--92051 Score: 182
Period size: 64 Copynumber: 3.5 Consensus size: 64
91821 TTGAAGGTGT
** ** * *
91831 ATCGATGCATTGGTAGTACATCGATGCA-CTCTTTTAA-AATAAATACATCAAATGCAATTCGTG
1 ATCGATGCATAAGTAGTACATCGATGCATC-CCATTAATAAGAAA-ACATCAAATGCAATTAGTG
91894 C
64 C
* * *
91895 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTACATCGATGCATCCCATTAATAAGAAAACATCAAATGCAATTAGTGC
* * * * * ** *
91959 ATCGATGCATAAGGCA-TGCATCGATGAATCCCAGTAATAA-ATAAACATCGAATATATTTTA-T
1 ATCGATGCATAA-GTAGTACATCGATGCATCCCATTAATAAGA-AAACATCAAATGCA-ATTAGT
92021 GC
63 GC
* * *
92023 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTACATCGATGCAT
92052 ACCTTCATTA
Statistics
Matches: 131, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
63 2 0.02
64 119 0.91
65 10 0.08
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTACATCGATGCATCCCATTAATAAGAAAACATCAAATGCAATTAGTGC
Found at i:92967 original size:103 final size:103
Alignment explanation
Indices: 92788--93107 Score: 570
Period size: 103 Copynumber: 3.1 Consensus size: 103
92778 GTTTAGGGTC
92788 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
92853 TTGATCCTTGGCATATGTATATGATTCTTAATGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
92891 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
92956 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGT
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
92994 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
93059 TTGATCCCTAGTATAT-TATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
93096 TATGTGGTCCTT
1 TATGTGGTCCTT
93108 ATGGACATTA
Statistics
Matches: 208, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
102 31 0.15
103 177 0.85
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:93190 original size:23 final size:23
Alignment explanation
Indices: 93114--93191 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
93104 CCTTATGGAC
* *
93114 ATTATTATATGGCACTACAGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
93138 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
93161 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
93184 ATTATATG
1 ATTATATG
93192 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:97592 original size:64 final size:64
Alignment explanation
Indices: 97524--97744 Score: 220
Period size: 64 Copynumber: 3.5 Consensus size: 64
97514 TTGAAGGTGT
* ** * * *
97524 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTG
1 ATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCAAATGCAATTAGTG
97587 C
64 C
* *
97588 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCAAATGCAATTAGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCAAATGCAATTAGTGC
* * * * *
97652 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAA-ACAAACATCGAATGTATTTTA-T
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAAGA-AAACATCAAATGCA-ATTAGT
97714 GC
63 GC
*
97716 ACCGATGCATCA-GTAGTGCATCGATGCAT
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT
97745 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
63 2 0.02
64 120 0.90
65 11 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCAAATGCAATTAGTGC
Found at i:98664 original size:103 final size:103
Alignment explanation
Indices: 98481--98798 Score: 557
Period size: 103 Copynumber: 3.1 Consensus size: 103
98471 GTCGAGGGTC
98481 TATGTGGTTC-TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGG-TCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
*
98545 CTTGATCCTTGTCATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
98584 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
98649 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
98687 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACATATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * * *
98752 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATTA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
98790 TATGTGGTC
1 TATGTGGTC
98799 CTTATGGACA
Statistics
Matches: 206, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
102 2 0.01
103 204 0.99
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:98884 original size:23 final size:23
Alignment explanation
Indices: 98808--98884 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
98798 CCTTATGGAC
98808 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATATGGCACTACGGTGCA
* *** *
98832 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATATGGCACTACGGTGCA
*
98855 ATTATATATGGCACTTCGGTGCA
1 ATTATATATGGCACTACGGTGCA
98878 ATTATAT
1 ATTATAT
98885 GAGCTGTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
ATTATATATGGCACTACGGTGCA
Found at i:104326 original size:31 final size:31
Alignment explanation
Indices: 104291--104355 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
104281 TTAAAAAACA
104291 TAAGATACAG-TCACTTTCATTTTTATTTAAT
1 TAAGATA-AGATCACTTTCATTTTTATTTAAT
* *
104322 TAAGATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATAAGATCACTTTCATTTTTATTTAAT
104353 TAA
1 TAA
104356 AATGTGGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (31 bp):
TAAGATAAGATCACTTTCATTTTTATTTAAT
Found at i:104786 original size:13 final size:13
Alignment explanation
Indices: 104768--104798 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
104758 AGGGGAAAAG
104768 GTAAAGATTATAA
1 GTAAAGATTATAA
104781 GTAAAGATTATAA
1 GTAAAGATTATAA
104794 GTAAA
1 GTAAA
104799 TATGGTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (13 bp):
GTAAAGATTATAA
Found at i:110379 original size:31 final size:31
Alignment explanation
Indices: 110313--110380 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
110303 TAATTCGTAG
* *
110313 TCACTTTCATTTCATTTTAATTAAGATTTGG
1 TCACTTTCATTTCATTTTAATTAAGATGTGA
** * *
110344 TCACTTTTGTTTCGTTTTAATTAATATGTGA
1 TCACTTTCATTTCATTTTAATTAAGATGTGA
110375 TCACTT
1 TCACTT
110381 ACCCTAAACG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.13, G:0.10, T:0.53
Consensus pattern (31 bp):
TCACTTTCATTTCATTTTAATTAAGATGTGA
Found at i:113965 original size:18 final size:17
Alignment explanation
Indices: 113938--113976 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
113928 TATATTGTAT
*
113938 TATATTTTAAATTATTA
1 TATATTTTAAATTAATA
113955 TATAGTTTTAAATTAATA
1 TATA-TTTTAAATTAATA
113973 TATA
1 TATA
113977 ACTATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATTTTAAATTAATA
Found at i:121850 original size:205 final size:206
Alignment explanation
Indices: 121492--121903 Score: 799
Period size: 205 Copynumber: 2.0 Consensus size: 206
121482 AAATAATCGG
121492 ATATCCGAAATTTCGGATCGGATAACCGGATATCCGGATCCGAATATAAATTTTAATTTGATAAA
1 ATATCCGAAATTTCGGATCGGATAACCGGATATCCGGATCCGAATATAAATTTTAATTTGATAAA
*
121557 AAAATACAATTTCATGTAATGTAATTTACCCATAAACTATTACAAATCAATATACTTTTGCAAAC
66 AAAATACAATGTCATGTAATGTAATTTACCCATAAACTATTACAAATCAATATACTTTTGCAAAC
*
121622 AACCTTCATTAAAACCGTTTAGTCTTTATGCATTCTGCTGTGCTCAACAATGGTAGCTTTTTTTG
131 AACCTTCATTAAAACCCTTTAGTCTTTATGCATTCTGCTGTGCTCAACAATGGTAGCTTTTTTTG
121687 GATTGTTTGAA
196 GATTGTTTGAA
121698 ATATCCGAAATTTCGGATCGGATAACCGGATATCCGGATCCGAATATAAATTTTAATTTGAT-AA
1 ATATCCGAAATTTCGGATCGGATAACCGGATATCCGGATCCGAATATAAATTTTAATTTGATAAA
121762 AAAATACAATGTCATGTAATGTAATTTACCCATAAACTATTACAAATCAATATACTTTTGCAAAC
66 AAAATACAATGTCATGTAATGTAATTTACCCATAAACTATTACAAATCAATATACTTTTGCAAAC
121827 AACCTTCATTAAAACCCTTTAGTCTTTATGCATTCTGCTGTGCTCAACAATGGTAGCTTTTTTTG
131 AACCTTCATTAAAACCCTTTAGTCTTTATGCATTCTGCTGTGCTCAACAATGGTAGCTTTTTTTG
121892 GATTGTTTGAA
196 GATTGTTTGAA
121903 A
1 A
121904 ATTTTAGTTA
Statistics
Matches: 204, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
205 142 0.70
206 62 0.30
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (206 bp):
ATATCCGAAATTTCGGATCGGATAACCGGATATCCGGATCCGAATATAAATTTTAATTTGATAAA
AAAATACAATGTCATGTAATGTAATTTACCCATAAACTATTACAAATCAATATACTTTTGCAAAC
AACCTTCATTAAAACCCTTTAGTCTTTATGCATTCTGCTGTGCTCAACAATGGTAGCTTTTTTTG
GATTGTTTGAA
Found at i:124235 original size:103 final size:103
Alignment explanation
Indices: 124109--124316 Score: 416
Period size: 103 Copynumber: 2.0 Consensus size: 103
124099 TGTTTTATTA
124109 GTACGGCCAAGTGGGTAGTTTCCCTTTATTGTTTTGAATGTTATGATTCACTTTTGGTTCAGTTA
1 GTACGGCCAAGTGGGTAGTTTCCCTTTATTGTTTTGAATGTTATGATTCACTTTTGGTTCAGTTA
124174 TTTGAGTTTTTGATTTGATTCTTTAAGTTCTGATTCAT
66 TTTGAGTTTTTGATTTGATTCTTTAAGTTCTGATTCAT
124212 GTACGGCCAAGTGGGTAGTTTCCCTTTATTGTTTTGAATGTTATGATTCACTTTTGGTTCAGTTA
1 GTACGGCCAAGTGGGTAGTTTCCCTTTATTGTTTTGAATGTTATGATTCACTTTTGGTTCAGTTA
124277 TTTGAGTTTTTGATTTGATTCTTTAAGTTCTGATTCAT
66 TTTGAGTTTTTGATTTGATTCTTTAAGTTCTGATTCAT
124315 GT
1 GT
124317 TCATGTTTAT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.50
Consensus pattern (103 bp):
GTACGGCCAAGTGGGTAGTTTCCCTTTATTGTTTTGAATGTTATGATTCACTTTTGGTTCAGTTA
TTTGAGTTTTTGATTTGATTCTTTAAGTTCTGATTCAT
Found at i:127746 original size:43 final size:43
Alignment explanation
Indices: 127684--127768 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
127674 TAGCTCGAAA
* *
127684 CGAATGACCCGAACCACAACAACAAATCATATAACCCCTCTAC
1 CGAATAACCCGAACCACAACAACAAATCATATAACACCTCTAC
* * * *
127727 CGAATAACCTGAACGACAACAACGAATCATATGACACCTCTA
1 CGAATAACCCGAACCACAACAACAAATCATATAACACCTCTA
127769 TCGATAGGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.15
Consensus pattern (43 bp):
CGAATAACCCGAACCACAACAACAAATCATATAACACCTCTAC
Found at i:129044 original size:21 final size:21
Alignment explanation
Indices: 129015--129423 Score: 129
Period size: 21 Copynumber: 19.7 Consensus size: 21
129005 CATATTCGCA
*
129015 TTGCAATAGTCCAAGTTTGCG
1 TTGCGATAGTCCAAGTTTGCG
* *
129036 TTGCGATAGTCTAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* ** ** **
129057 TTGCGA-ATTTGGAA-ACTGAT
1 TTGCGATA-GTCCAAGTTTGCG
* *
129077 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* * *
129098 TTGCGATTTATTACAA-ATT-CG
1 TTGCGA--TAGTCCAAGTTTGCG
129119 TTGCGATAGTCCAAG-TT-CG
1 TTGCGATAGTCCAAGTTTGCG
* *
129138 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* * *
129159 TTGCGATTATTTCAAATTT--G
1 TTGCGA-TAGTCCAAGTTTGCG
* *
129179 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* *
129200 TTGCGATTTATTCCAA-ATT-CG
1 TTGCGA--TAGTCCAAGTTTGCG
* *
129221 TTGCGATTTATTCTAAG-TT-CG
1 TTGCGA--TAGTCCAAGTTTGCG
* * *
129242 TTACGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* * * *
129263 TTGCAATTTATTCTAA-ATT-CG
1 TTGCGA--TAGTCCAAGTTTGCG
*
129284 TTGCGATTTATTCCAAG-TT-CG
1 TTGCGA--TAGTCCAAGTTTGCG
* * *
129305 TTGCGATAGACGAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* *
129326 TTGCGATTTATTCCAA-ATT-CG
1 TTGCGA--TAGTCCAAGTTTGCG
* *
129347 TTGCGATAGTCTAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* *
129368 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTTGCG
* *
129389 TTGCGATTTATTACAAG-TT-CG
1 TTGCGA--TAGTCCAAGTTTGCG
129410 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
129424 AATCGCAACG
Statistics
Matches: 287, Mismatches: 74, Indels: 56
0.69 0.18 0.13
Matches are distributed among these distances:
19 56 0.20
20 23 0.08
21 168 0.59
22 12 0.04
23 28 0.10
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTTGCG
Found at i:129135 original size:42 final size:38
Alignment explanation
Indices: 129077--129423 Score: 185
Period size: 42 Copynumber: 8.4 Consensus size: 38
129067 GGAAACTGAT
* *
129077 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTAC-AAATTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGA--TATT-CGAAGTTCG
*
129119 TTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGTTGCGATATTCGAAGTT--CG
* * * * *
129159 TTGCGATTATTTCAAATTTGTTGCGATAGTCGAAGTTCGCG
1 TTGCGA-TAGTCCAAGTTCGTTGCGATATTCGAAGTT--CG
* * *
129200 TTGCGATTTATTCCAAATTCGTTGCGATTTATTCTAAGTTCG
1 TTGCGA--TAGTCCAAGTTCGTTGCGA--TATTCGAAGTTCG
* * * * *
129242 TTACGATAGTCGAAGTTCGCGTTGCAATTTATTCTAAATTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGA--TATTCGAAGTTCG
* **
129284 TTGCGATTTATTCCAAGTTCGTTGCGATAGACGAAGTTCGCG
1 TTGCGA--TAGTCCAAGTTCGTTGCGATATTCGAAGTT--CG
* * * *
129326 TTGCGATTTATTCCAAATTCGTTGCGATAGTCTAAGTTCGCG
1 TTGCGA--TAGTCCAAGTTCGTTGCGATATTCGAAGTT--CG
*
129368 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTAC-AAGTTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGA--TATT-CGAAGTTCG
129410 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
129424 AATCGCAACG
Statistics
Matches: 254, Mismatches: 33, Indels: 36
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.00
38 7 0.03
40 39 0.15
41 36 0.14
42 144 0.57
44 26 0.10
45 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (38 bp):
TTGCGATAGTCCAAGTTCGTTGCGATATTCGAAGTTCG
Found at i:129142 original size:102 final size:100
Alignment explanation
Indices: 129015--129271 Score: 347
Period size: 102 Copynumber: 2.5 Consensus size: 100
129005 CATATTCGCA
* * *
129015 TTGCAATAGTCCAAGTTTGCGTTGCGATAGTCTAAGTTCGCGTTGCGAATTTGGAAACTGAT-TT
1 TTGCGATAGTCCAAG-TT-CGTTGCGATAGTCGAAGTTCGCGTTGCGAATTT-CAAA-T-ATGTT
129079 GCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCG
61 GCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCG
*
129119 TTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTTCAAATTTGTTGCG
1 TTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGA--ATTTCAAATATGTTGCG
*
129184 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
64 ATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCG
* * *
129221 TTGCGATTTATTCTAAGTTCGTTACGATAGTCGAAGTTCGCGTTGC-AATTT
1 TTGCGA--TAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGAATTT
129272 ATTCTAAATT
Statistics
Matches: 140, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
101 5 0.04
102 76 0.54
103 6 0.04
104 53 0.38
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (100 bp):
TTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGAATTTCAAATATGTTGCGAT
AGTCGAAGTTCGCGTTGCGATTTATTACAAATTCG
Found at i:129258 original size:63 final size:63
Alignment explanation
Indices: 129096--129416 Score: 390
Period size: 63 Copynumber: 5.1 Consensus size: 63
129086 TCGAAGTTCG
* * * * *
129096 CGTTGCGATTTATTAC-AAATTCGTTGCGATAGTCCAAGTT--CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATT-CTAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
129155 CGCGTTGCGA-TTATT-TCAAATTTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAAT
1 --CGTTGCGATTTATTCT-AAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAAT
129218 T
63 T
* * *
129219 CGTTGCGATTTATTCTAAGTTCGTTACGATAGTCGAAGTTCGCGTTGCAATTTATTCTAAATT
1 CGTTGCGATTTATTCTAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* *
129282 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGACGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCTAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* * *
129345 CGTTGCGA--TAGTCTAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAGTT
1 CGTTGCGATTTATTCTAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
129408 CGTTGCGAT
1 CGTTGCGAT
129417 AGTCCAAAAT
Statistics
Matches: 229, Mismatches: 20, Indels: 19
0.85 0.07 0.07
Matches are distributed among these distances:
60 27 0.12
61 17 0.07
62 16 0.07
63 160 0.70
64 9 0.04
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (63 bp):
CGTTGCGATTTATTCTAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:130328 original size:21 final size:21
Alignment explanation
Indices: 130303--130376 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
130293 GATTTTGGAC
130303 TATCGCAACGAACTTGGAATA
1 TATCGCAACGAACTTGGAATA
* *
130324 TATCGCAACGCGAACTTCG-A-C
1 TATCGCAA--CGAACTTGGAATA
*
130345 TATCGCAACGAACTTGAAATA
1 TATCGCAACGAACTTGGAATA
*
130366 AATCGCAACGA
1 TATCGCAACGA
130377 CTATCGTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 7 0.16
20 1 0.02
21 26 0.60
22 1 0.02
23 8 0.19
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (21 bp):
TATCGCAACGAACTTGGAATA
Found at i:130359 original size:42 final size:42
Alignment explanation
Indices: 130300--130446 Score: 147
Period size: 42 Copynumber: 3.8 Consensus size: 42
130290 TGCGATTTTG
130300 GACTATCGCAACGAACTTGGAATATATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATATATCGCAACGCGAACTTC
130342 GACTATCGCAACGAACTT-GAA-ATA----AATCGC-AA---C
1 GACTATCGCAACGAACTTGGAATATATCGCAA-CGCGAACTTC
* * * * *
130375 GACTATCGTAATGAACTTGGAATAAATCGTAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATATATCGCAACGCGAACTTC
*
130417 GACTATCGCAATGAACTTGG-AT-TATCGCAA
1 GACTATCGCAACGAACTTGGAATATATCGCAA
130447 TATGAATTTG
Statistics
Matches: 87, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
33 17 0.20
34 3 0.03
35 2 0.02
36 4 0.05
37 3 0.03
38 3 0.03
39 4 0.05
40 9 0.10
41 5 0.06
42 37 0.43
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATATATCGCAACGCGAACTTC
Found at i:130391 original size:33 final size:33
Alignment explanation
Indices: 130341--130408 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
130331 ACGCGAACTT
130341 CGACTATCGCAACGAACTTGAAATAAATCGCAA
1 CGACTATCGCAACGAACTTGAAATAAATCGCAA
* * * *
130374 CGACTATCGTAATGAACTTGGAATAAATCGTAA
1 CGACTATCGCAACGAACTTGAAATAAATCGCAA
130407 CG
1 CG
130409 CGAACTTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.22
Consensus pattern (33 bp):
CGACTATCGCAACGAACTTGAAATAAATCGCAA
Found at i:130405 original size:21 final size:19
Alignment explanation
Indices: 130378--130443 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
130368 TCGCAACGAC
130378 TATCGTAATGAACTTGGAA
1 TATCGTAATGAACTTGGAA
* *
130397 TAAATCGTAACGCGAACTTGGAC
1 T--ATCGTAA--TGAACTTGGAA
* *
130420 TATCGCAATGAACTTGGAT
1 TATCGTAATGAACTTGGAA
130439 TATCG
1 TATCG
130444 CAATATGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 15 0.39
21 13 0.34
23 10 0.26
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (19 bp):
TATCGTAATGAACTTGGAA
Found at i:130496 original size:19 final size:19
Alignment explanation
Indices: 130409--130500 Score: 76
Period size: 19 Copynumber: 4.5 Consensus size: 19
130399 AATCGTAACG
*
130409 CGAACTTGGACTATCGCAA
1 CGAATTTGGACTATCGCAA
* * *
130428 TGAACTTGGATTATCGCAATA
1 CGAATTTGGACTATCGC-A-A
* *
130449 TGAATTTGGAATAAATCGCAA
1 CGAATTTGGACT--ATCGCAA
130470 CGCGAATTTGGACTATCGCAA
1 --CGAATTTGGACTATCGCAA
130491 CGAATTTGGA
1 CGAATTTGGA
130501 AAATCGCATT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
19 25 0.41
20 1 0.02
21 19 0.31
22 1 0.02
23 15 0.25
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (19 bp):
CGAATTTGGACTATCGCAA
Found at i:130506 original size:19 final size:20
Alignment explanation
Indices: 130450--130508 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
130440 ATCGCAATAT
130450 GAATTTGGAATAAATCGCAACGC
1 GAATTTGG-A-AAATCGCAAC-C
**
130473 GAATTTGGACTATCGCAA-C
1 GAATTTGGAAAATCGCAACC
130492 GAATTTGGAAAATCGCA
1 GAATTTGGAAAATCGCA
130509 TTGCGATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.50
21 7 0.22
22 1 0.03
23 8 0.25
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (20 bp):
GAATTTGGAAAATCGCAACC
Found at i:130507 original size:63 final size:63
Alignment explanation
Indices: 130385--130508 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
130375 GACTATCGTA
* * **
130385 ATGAACTTGGAATAAATCGTAACGCGAACTTGGACTATCGCAATGAACTTGGATTATCGCAAT
1 ATGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCGCAAT
* * *
130448 ATGAATTTGGAATAAATCGCAACGCGAATTTGGACTATCGCAACGAATTTGGAAAATCGCA
1 ATGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCGCA
130509 TTGCGATAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (63 bp):
ATGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCGCAAT
Done.