Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000595.1 Hibiscus syriacus cultivar Beakdansim tig00001151_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: 89493
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:126 original size:74 final size:75
Alignment explanation
Indices: 5--205 Score: 307
Period size: 74 Copynumber: 2.7 Consensus size: 75
1 TTGA
* * *
5 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAAT-TTTGAGCATTTTGAACGTATGTATTAG
1 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCGCATTTTGAACGTATGCATTAG
69 AAAATGCTGG
66 AAAATGCTGG
* *
79 GGCATGGTGAAAGCCCATTTCAATCA-AAATTGGAATATTGGCGCATTTTTAACGTATGCATTAG
1 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCGCATTTTGAACGTATGCATTAG
* *
143 CAAATGTTGG
66 AAAATGCTGG
* *
153 GGCATGCTAAAAGCCCATTTCAATCAGAAATTGGAATATTGGCACATTTTGAA
1 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCGCATTTTGAA
206 TGTTCATATC
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
73 10 0.09
74 80 0.70
75 24 0.21
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (75 bp):
GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCGCATTTTGAACGTATGCATTAG
AAAATGCTGG
Found at i:222 original size:75 final size:75
Alignment explanation
Indices: 5--238 Score: 275
Period size: 74 Copynumber: 3.1 Consensus size: 75
1 TTGA
* *
5 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAAT-TTTG-AGCATTTTGAACGTAT-GTATT
1 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCA-CATTTTGAACGTATCATA-T
* *
67 AGAAAATGCTGG
64 AGCAAATGTTGG
* * *
79 GGCATGGTGAAAGCCCATTTCAATCA-AAATTGGAATATTGGCGCATTTTTAACGTATGCAT-TA
1 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCACATTTTGAACGTAT-CATATA
142 GCAAATGTTGG
65 GCAAATGTTGG
* *
153 GGCATGCTAAAAGCCCATTTCAATCAGAAATTGGAATATTGGCACATTTTGAATGT-TCATATCA
1 GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCACATTTTGAACGTATCATAT-A
*
217 TCAAATGCTT-G
65 GCAAATG-TTGG
*
228 GGCATGATGAA
1 GGCATGCTGAA
239 GGCCTAAATC
Statistics
Matches: 137, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
73 13 0.09
74 78 0.57
75 43 0.31
76 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (75 bp):
GGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGCACATTTTGAACGTATCATATAG
CAAATGTTGG
Found at i:805 original size:27 final size:27
Alignment explanation
Indices: 767--825 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
757 CTGAGTTTTT
767 ATCTATTTTGTTTATCATGTGCGATTC
1 ATCTATTTTGTTTATCATGTGCGATTC
*
794 ATCTATTTTGTTTATCATGTGCGTTTC
1 ATCTATTTTGTTTATCATGTGCGATTC
821 ATCTA
1 ATCTA
826 CAGCAGCAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.53
Consensus pattern (27 bp):
ATCTATTTTGTTTATCATGTGCGATTC
Found at i:1213 original size:54 final size:54
Alignment explanation
Indices: 1155--1348 Score: 192
Period size: 54 Copynumber: 3.6 Consensus size: 54
1145 GGCACAAGAA
* **
1155 ATGATGAATATGTTGTCAAATATTTTACGAACATTTGTTTAAAAACCATATGAG
1 ATGATGAATATGTTGTCAAATATTTTACGAACATCTGAGTAAAAACCATATGAG
* * ** * * * * ***
1209 ATGATGAATGTGTTATCAAATGCTTTACGAACATCTGGGCAGAAGCCACGGGA-
1 ATGATGAATATGTTGTCAAATATTTTACGAACATCTGAGTAAAAACCATATGAG
* * * *
1262 AAGAATGAATATGTTGTCAAATATTTTACGAGCATCTAAGTAAAATCCATATGAG
1 ATG-ATGAATATGTTGTCAAATATTTTACGAACATCTGAGTAAAAACCATATGAG
* *
1317 ATGATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATGATGAATATGTTGTCAAATATTTTACGAAC
1349 CAGTTATTCT
Statistics
Matches: 107, Mismatches: 31, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
53 2 0.02
54 103 0.96
55 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (54 bp):
ATGATGAATATGTTGTCAAATATTTTACGAACATCTGAGTAAAAACCATATGAG
Found at i:1743 original size:22 final size:22
Alignment explanation
Indices: 1715--1793 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
1705 ACATCTACAT
1715 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1737 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1759 TCTTCAAAGATAATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
1781 TTTTTAAAGATGA
1 TCTTCAAAGATGA
1794 AAACTTTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:2567 original size:45 final size:45
Alignment explanation
Indices: 2516--3079 Score: 734
Period size: 45 Copynumber: 12.7 Consensus size: 45
2506 GGGAGCTTTT
* *
2516 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCATTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
2561 TGATGTTTTCAAAGCCTTCAGGTCATATGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
2606 TGATGTTTTTAAAGCCTTCGGATCATATGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * *
2651 TGATGTTTTCAAATCCTTCGGGTTATCTATAAGCCCTTCAGTGTA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
2696 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGTA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * * *
2741 TGATATTTTCAAAACCTTCGGTTAATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
2786 TGATGTTTTCAAAGCCTTTGGGTCGTCTGTAAGCCCTTTAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
2831 TGATGTTTTCAAAGCCTTCGAGTCATCTGTAAACCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * *
2876 TGATGTTTTTAAAGCCTTCGAGTCATTTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
2921 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
** * *
2966 TGATGTGTTT-AAAGCC-T----T-ATCTGTTTGTCTTTCAGTGCA
1 TGATGT-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
3005 TGATGTTTTCAAAACCTTTGGGTCATCTG---GACCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
3047 TGATGTTTTTAAAGCCTTCGGGTCATCTGTAAG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
3080 ACCTAAAGTG
Statistics
Matches: 452, Mismatches: 56, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
38 3 0.01
39 28 0.06
40 2 0.00
42 37 0.08
44 2 0.00
45 377 0.83
46 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:2581 original size:25 final size:24
Alignment explanation
Indices: 2546--2669 Score: 74
Period size: 25 Copynumber: 5.3 Consensus size: 24
2536 GGTCATCTGT
2546 AAGCCATTCAGTGCATGATGTTTTCA
1 AAGCC-TTCAGTGCATGATGTTTT-A
2572 AAGCCTTCAG-GTCAT-ATG---T-
1 AAGCCTTCAGTG-CATGATGTTTTA
2591 AAGCCCTTCAGTGCATGATGTTTTTA
1 AAG-CCTTCAGTGCATGATG-TTTTA
*
2617 AAGCCTTCGGAT-CAT-ATG---T-
1 AAGCCTTCAG-TGCATGATGTTTTA
2636 AAGCCCTTCAGTGCATGATGTTTTCA
1 AAG-CCTTCAGTGCATGATGTTTT-A
*
2662 AATCCTTC
1 AAGCCTTC
2670 GGGTTATCTA
Statistics
Matches: 77, Mismatches: 3, Indels: 37
0.66 0.03 0.32
Matches are distributed among these distances:
19 7 0.09
20 20 0.26
21 8 0.10
24 8 0.10
25 23 0.30
26 11 0.14
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (24 bp):
AAGCCTTCAGTGCATGATGTTTTA
Found at i:2894 original size:25 final size:25
Alignment explanation
Indices: 2820--2939 Score: 68
Period size: 25 Copynumber: 5.2 Consensus size: 25
2810 GTCTGTAAGC
* *
2820 CCTTTAGTGCATGATGTTTTCAAAG
1 CCTTCAGTGCATGATGTTTTTAAAG
* *
2845 CCTTCGAGT-CAT-CTG----TAAAC
1 CCTTC-AGTGCATGATGTTTTTAAAG
2865 CCTTCAGTGCATGATGTTTTTAAAG
1 CCTTCAGTGCATGATGTTTTTAAAG
*
2890 CCTTCGAGT-C---A--TTTGT-AAG
1 CCTTC-AGTGCATGATGTTTTTAAAG
*
2909 ACCTTCAGTGCATGATGTTTTCAAAG
1 -CCTTCAGTGCATGATGTTTTTAAAG
2935 CCTTC
1 CCTTC
2940 GGGTCATCTG
Statistics
Matches: 70, Mismatches: 9, Indels: 32
0.63 0.08 0.29
Matches are distributed among these distances:
19 9 0.13
20 21 0.30
21 2 0.03
22 1 0.01
23 1 0.01
24 2 0.03
25 25 0.36
26 9 0.13
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (25 bp):
CCTTCAGTGCATGATGTTTTTAAAG
Found at i:3496 original size:3 final size:3
Alignment explanation
Indices: 3418--3487 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
3408 CTTTTATCTT
* *
3418 TTA TTA TTA TTA ATA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3466 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
3488 AAATTATTAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12590 original size:16 final size:16
Alignment explanation
Indices: 12569--12616 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
12559 AATTTTAATT
*
12569 ATTAAAGTAAAACAAA
1 ATTAAAGTAAAAGAAA
*
12585 ATTAAA-T-TAAGAAA
1 ATTAAAGTAAAAGAAA
12599 ATATAAAGTAAAAGAAA
1 AT-TAAAGTAAAAGAAA
12616 A
1 A
12617 CTGTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 7 0.27
17 7 0.27
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (16 bp):
ATTAAAGTAAAAGAAA
Found at i:13862 original size:38 final size:40
Alignment explanation
Indices: 13820--13903 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 40
13810 ATTTAAAAAC
*
13820 TATATATACG-TTTTCGAAATATGTTTTCAAAA-C-TATAT
1 TATATATACGTTTTTC-AAAAATGTTTTCAAAATCATATAT
* *
13858 TATATATATGTTTTTTCAAAAATGTTTTTAAAATCATATAT
1 TATATATACG-TTTTTCAAAAATGTTTTCAAAATCATATAT
13899 TATAT
1 TATAT
13904 GTTTTCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 9 0.23
39 14 0.36
40 6 0.15
41 10 0.26
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (40 bp):
TATATATACGTTTTTCAAAAATGTTTTCAAAATCATATAT
Found at i:13974 original size:28 final size:28
Alignment explanation
Indices: 13934--13992 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
13924 AACATATATT
13934 ATACGTTTTCAAAAATGTTTTTAAAACC
1 ATACGTTTTCAAAAATGTTTTTAAAACC
13962 ATACGTTTTCAAAAATGTTTTTAAAACC
1 ATACGTTTTCAAAAATGTTTTTAAAACC
13990 ATA
1 ATA
13993 TATTTTACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (28 bp):
ATACGTTTTCAAAAATGTTTTTAAAACC
Found at i:15383 original size:2 final size:2
Alignment explanation
Indices: 15376--15416 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
15366 TTTATCTAAT
15376 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
15417 TCAAATTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16923 original size:60 final size:58
Alignment explanation
Indices: 16852--17019 Score: 192
Period size: 60 Copynumber: 2.8 Consensus size: 58
16842 AATTATAACT
* *
16852 CTCATTTTAAATTAGTTATTAAACTTTTGAATATTCTAATTTCATCCACAAACTATGACT
1 CTCATTCTAAATTAGTT-TTAAACTTTTGAATATTCTAATTTCATCC-CAAACTATGACC
* * * *
16912 TTCATTCTAAATTAGTCCTTAAACTATTGAACATTCTAATTTCATCCCTAAACTATGACC
1 CTCATTCTAAATTAGT-TTTAAACTTTTGAATATTCTAATTTCATCCC-AAACTATGACC
* ** * *
16972 CTCTTTCTAAATTAGTCTCCAACCTTTTGAATATTCAAATTTCATCCC
1 CTCATTCTAAATTAGT-TTTAAACTTTTGAATATTCTAATTTCATCCC
17020 CAAATTCATC
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 90 0.99
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (58 bp):
CTCATTCTAAATTAGTTTTAAACTTTTGAATATTCTAATTTCATCCCAAACTATGACC
Found at i:16963 original size:29 final size:29
Alignment explanation
Indices: 16871--16967 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
16861 AATTAGTTAT
* *
16871 TAAACTTTTGAATATTCTAATTTCATCCAC
1 TAAACTATTGAACATTCTAATTTCATCC-C
* * *
16901 -AAACTA-TGACTTTCATTCTAAATT-AGTCCT
1 TAAACTATTGA---ACATTCTAATTTCA-TCCC
16931 TAAACTATTGAACATTCTAATTTCATCCC
1 TAAACTATTGAACATTCTAATTTCATCCC
16960 TAAACTAT
1 TAAACTAT
16968 GACCCTCTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
28 3 0.06
29 26 0.50
30 2 0.04
31 18 0.35
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (29 bp):
TAAACTATTGAACATTCTAATTTCATCCC
Found at i:19300 original size:2 final size:2
Alignment explanation
Indices: 19293--19328 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19283 TGCAAAAGTA
19293 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
19329 GAAAAGTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19707 original size:20 final size:20
Alignment explanation
Indices: 19682--19931 Score: 204
Period size: 20 Copynumber: 12.5 Consensus size: 20
19672 GATTTTTCAG
* *
19682 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
19702 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
19722 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
19741 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATACGT-A
* *
19763 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
19783 AATTGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
19804 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
19824 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * * *
19844 AATCACAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
19864 AATCGCAA--CGATTACGTA
1 AATCGCAACGCGAATACGTA
* *
19882 AATCGCAATGCGATTACGTA
1 AATCGCAACGCGAATACGTA
*
19902 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
19922 AATCGCAACG
1 AATCGCAACG
19932 AGATTCTGAC
Statistics
Matches: 189, Mismatches: 32, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
18 16 0.08
19 2 0.01
20 133 0.70
21 36 0.19
22 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:19858 original size:40 final size:40
Alignment explanation
Indices: 19682--19931 Score: 231
Period size: 40 Copynumber: 6.2 Consensus size: 40
19672 GATTTTTCAG
* ** * * * **
19682 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * *
19722 AATCGCAACGCG-ATTC-TGACTATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGT-A
* *
19763 AATCGCAACGCGTATCCGTAAATTGCAACGACAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
19804 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * *
19844 AATCACAATGCGTATCCGTAAATCGCAAC--GATTACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * *
19882 AATCGCAATGCG-ATTACGTAAATCGCAATGCGAATACGTA
1 AATCGCAACGCGTA-TCCGTAAATCGCAACGAGAATACGTA
19922 AATCGCAACG
1 AATCGCAACG
19932 AGATTCTGAC
Statistics
Matches: 176, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 32 0.18
39 3 0.02
40 69 0.39
41 66 0.38
42 4 0.02
43 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:19900 original size:58 final size:58
Alignment explanation
Indices: 19795--19932 Score: 177
Period size: 58 Copynumber: 2.3 Consensus size: 58
19785 TTGCAACGAC
* *
19795 AATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCACAATGCG
1 AATACGT-AAATCGCAACG-AT-TACGTAAATCGCAACGAGAATACGTAAATCACAATGCG
* * * * * *
19856 TATCCGTAAATCGCAACGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCG
1 AATACGTAAATCGCAACGATTACGTAAATCGCAACGAGAATACGTAAATCACAATGCG
19914 AATACGTAAATCGCAACGA
1 AATACGTAAATCGCAACGA
19933 GATTCTGACT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 50 0.75
59 1 0.01
60 11 0.16
61 5 0.07
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (58 bp):
AATACGTAAATCGCAACGATTACGTAAATCGCAACGAGAATACGTAAATCACAATGCG
Found at i:20513 original size:14 final size:14
Alignment explanation
Indices: 20494--20530 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
20484 CATCAATTAA
20494 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
20508 ACAAATCATCTTTT
1 ACAAATCAACATTT
20522 ACAAATCAA
1 ACAAATCAA
20531 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:21981 original size:42 final size:42
Alignment explanation
Indices: 21902--21994 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
21892 CCTCTTCAAC
* * *
21902 GATGACAGTGGCCTCTTGAACGGTTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATAGGAGGGGACTCTTGAGG
* * **
21944 GATGATAGGGGCCTCTTGAACGATAGG-GGAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGATAGGAGG-GGACTCTTGAGG
21986 GATGACAGG
1 GATGACAGG
21995 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATAGGAGGGGACTCTTGAGG
Found at i:22497 original size:20 final size:20
Alignment explanation
Indices: 22474--22547 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
22464 GAAACTTAAA
* *
22474 ATCGCAACGTGAAAATGACT
1 ATCGCAATGCGAAAATGACT
22494 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
22514 ATCGCAATGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
22534 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
22548 TGAAAATCGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:22550 original size:19 final size:19
Alignment explanation
Indices: 22486--22564 Score: 104
Period size: 20 Copynumber: 4.1 Consensus size: 19
22476 CGCAACGTGA
22486 AAATGACTATCGCAATGCG
1 AAATGACTATCGCAATGCG
*
22505 AAAATGACTATCGCAATGCAA
1 -AAATGACTATCGCAATGC-G
22526 AAATGACTATCGCAATGCG
1 AAATGACTATCGCAATGCG
** *
22545 AAATGAAAATCGCAACGCG
1 AAATGACTATCGCAATGCG
22564 A
1 A
22565 TTATAGTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.32
20 36 0.68
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (19 bp):
AAATGACTATCGCAATGCG
Found at i:22583 original size:19 final size:19
Alignment explanation
Indices: 22561--22604 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22551 AAATCGCAAC
*
22561 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCACGTT
* *
22580 GCGATTTTGGTTTCACGTT
1 GCGATTATAGTTTCACGTT
22599 GCGATT
1 GCGATT
22605 TTGTCGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCACGTT
Found at i:22618 original size:33 final size:33
Alignment explanation
Indices: 22576--22639 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
22566 TATAGTTTCG
**
22576 CGTTGCGATTTTGGTTTCACGTTGCGATTTTGT
1 CGTTGCGATTTTCATTTCACGTTGCGATTTTGT
*
22609 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
1 CGTTGCGATTTTCATTTCACGTTGCGATTTT
22640 CATTTCTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.09, C:0.17, G:0.25, T:0.48
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCACGTTGCGATTTTGT
Found at i:22627 original size:52 final size:50
Alignment explanation
Indices: 22571--22708 Score: 168
Period size: 52 Copynumber: 2.7 Consensus size: 50
22561 GCGATTATAG
** * *
22571 TTTCGCGTTGCGATTTTGGTTTCACGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGA--TTCA
* *
22623 TTTCGCGTTGCGATTTTCATTTCTCGTTGTGATTCTCTCGTTGCGATTCA
1 TTTCGCGTTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATTCA
**
22673 TTTCGCGTTGCGATAGTCATTTTTCACGTTGCGATT
1 TTTCGCGTTGCGATTTTCA--TTTCACGTTGCGATT
22709 TTAAGTTTCG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 21 0.28
52 53 0.72
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (50 bp):
TTTCGCGTTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATTCA
Found at i:22640 original size:19 final size:19
Alignment explanation
Indices: 22571--22726 Score: 93
Period size: 19 Copynumber: 8.7 Consensus size: 19
22561 GCGATTATAG
**
22571 TTTCGCGTTGCGATTTTGG
1 TTTCGCGTTGCGATTTTCA
*
22590 TTTCACGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
22606 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
22623 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* *
22642 TTTCTCGTTGTGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
22658 --TCTCGTTGCGA--TTCA
1 TTTCGCGTTGCGATTTTCA
**
22673 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCA
* *
22692 TTTTTCACGTTGCGATTTTAA
1 --TTTCGCGTTGCGATTTTCA
*
22713 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
22727 AAGTAAACTA
Statistics
Matches: 110, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
14 21 0.19
15 3 0.03
16 2 0.02
17 15 0.14
18 3 0.03
19 40 0.36
20 11 0.10
21 15 0.14
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:22920 original size:94 final size:94
Alignment explanation
Indices: 22774--23142 Score: 584
Period size: 94 Copynumber: 4.1 Consensus size: 94
22764 ATGGATTGCA
* * *
22774 TTAC-TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
22838 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAATAAAT
22867 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
22932 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAATAAAT
22961 TTACTTTCAA-C------C---A-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
23015 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAATAAAT
*
23044 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
*
23108 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAATAAAT
23138 TTACT
1 TTACT
23143 AAGCAATCCA
Statistics
Matches: 255, Mismatches: 7, Indels: 26
0.89 0.02 0.09
Matches are distributed among these distances:
82 5 0.02
83 74 0.29
84 1 0.00
87 1 0.00
89 1 0.00
92 1 0.00
93 5 0.02
94 167 0.65
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:23093 original size:177 final size:177
Alignment explanation
Indices: 22797--23142 Score: 631
Period size: 177 Copynumber: 2.0 Consensus size: 177
22787 AAGATAAAAC
*
22797 AAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTATTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
*
22862 TAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAC
66 TAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAA
22927 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCA
131 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCA
*
22974 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTATTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
23039 TAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATA
66 TAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATA
* *
23103 AACAGTTTAGCAGTATTGGCAGCAACCGAATAAATTTACT
130 AACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
23143 AAGCAATCCA
Statistics
Matches: 163, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
176 19 0.12
177 144 0.88
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (177 bp):
AAAGACAAATACTAACTTCACAGTATTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
TAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAA
ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCA
Found at i:24870 original size:20 final size:20
Alignment explanation
Indices: 24847--24902 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
24837 TGAAATGAAA
24847 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
24867 ATCGCAACGCAGA-AATGACT
1 ATCGCAACG-AGAGAATGACT
*
24887 ATTGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
24903 CGCAACGCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:24909 original size:14 final size:14
Alignment explanation
Indices: 24890--24942 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
24880 AATGACTATT
24890 GCAACGAGAGAATC
1 GCAACGAGAGAATC
*
24904 GCAACGCGAAATGAAAATC
1 GCAA--CG--A-GAGAATC
24923 GCAACGAGAGAATC
1 GCAACGAGAGAATC
24937 GCAACG
1 GCAACG
24943 TGAAATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.08
Consensus pattern (14 bp):
GCAACGAGAGAATC
Found at i:24927 original size:33 final size:33
Alignment explanation
Indices: 24838--24989 Score: 187
Period size: 33 Copynumber: 4.4 Consensus size: 33
24828 TCTTTTGGTT
24838 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAACGC
** *
24877 AGAAATGACTATTGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
24911 GAAATGAAAATCGCAACGAGAGAATCGCAACGT
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
24944 GAAATGAAAATTGCAACGAGGGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
24977 GAAATGAAAATCG
1 GAAATGAAAATCG
24990 AAATGCGATT
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
33 71 0.70
34 10 0.10
36 2 0.02
37 1 0.01
38 3 0.03
40 14 0.14
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:24974 original size:66 final size:71
Alignment explanation
Indices: 24838--24989 Score: 215
Period size: 66 Copynumber: 2.2 Consensus size: 71
24828 TCTTTTGGTT
**
24838 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGCAGAAATGACTATTGCAACGAGAGAAT
1 GAAATGAAAATCGCAAC-AGAGAATGAC-ATCGCAACGCAGAAATGAAAATTGCAACGAGAGAAT
24903 CGCAACGC
64 CGCAACGC
* *
24911 GAAATGAAAATCGCAAC-GAG-A-GA-ATCGCAACG-TGAAATGAAAATTGCAACGAGGGAATCG
1 GAAATGAAAATCGCAACAGAGAATGACATCGCAACGCAGAAATGAAAATTGCAACGAGAGAATCG
24971 CAACGC
66 CAACGC
24977 GAAATGAAAATCG
1 GAAATGAAAATCG
24990 AAATGCGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
66 43 0.57
67 9 0.12
69 2 0.03
70 1 0.01
71 3 0.04
73 17 0.23
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.13
Consensus pattern (71 bp):
GAAATGAAAATCGCAACAGAGAATGACATCGCAACGCAGAAATGAAAATTGCAACGAGAGAATCG
CAACGC
Found at i:25041 original size:33 final size:33
Alignment explanation
Indices: 24993--25112 Score: 132
Period size: 33 Copynumber: 3.4 Consensus size: 33
24983 AAAATCGAAA
**
24993 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
25026 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
**
25059 TGCGATAGTCATTTCCGCGTTGCGATAGTCATTCTCTCGT
1 TGCGATTTTCATTT-CGCGTTGCGAT--T-A---TCTCGT
25099 TGCGATTTTCATTT
1 TGCGATTTTCATTT
25113 TCATGTTGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
33 42 0.58
34 11 0.15
36 1 0.01
40 18 0.25
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:25111 original size:20 final size:20
Alignment explanation
Indices: 25049--25104 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
25039 TCGCGTTGCG
25049 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
25069 ATT-TCCGCGTTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
25089 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
25105 TTTCATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:25121 original size:40 final size:40
Alignment explanation
Indices: 25049--25124 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
25039 TCGCGTTGCG
*
25049 ATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTCATTTCCACGTTGCGATAGTC
** * *
25089 ATTCTCTCGTTGCGATTTTCATTTTCATGTTGCGAT
1 ATTCTCTCGTTGCGATAGTCATTTCCACGTTGCGAT
25125 TTTAAGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (40 bp):
ATTCTCTCGTTGCGATAGTCATTTCCACGTTGCGATAGTC
Found at i:25692 original size:20 final size:21
Alignment explanation
Indices: 25666--25880 Score: 216
Period size: 20 Copynumber: 10.6 Consensus size: 21
25656 TTAAAAATCG
25666 CGTTGCGATTTACGGATACGT
1 CGTTGCGATTTACGGATACGT
* *
25687 -GTTGCGATTTTACGTAT-TGT
1 CGTTGCGA-TTTACGGATACGT
*
25707 CGTTGCGATTTACAGATACG-
1 CGTTGCGATTTACGGATACGT
* * *
25727 CATTGCGATTTACGTATTC-T
1 CGTTGCGATTTACGGATACGT
*
25747 CGTTGCGATTTACAGATACG-
1 CGTTGCGATTTACGGATACGT
* *
25767 CGTTGCGATTTACGTATTC-T
1 CGTTGCGATTTACGGATACGT
*
25787 CGTTGCGATTTATGGATACG-
1 CGTTGCGATTTACGGATACGT
* *
25807 CGTTGCGATTTTACGTAT-TGT
1 CGTTGCGA-TTTACGGATACGT
25828 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGGATACGT
*
25848 CGTTGCGATTTTATGGATAC-T
1 CGTTGCGA-TTTACGGATACGT
25869 CGTTGCGATTTA
1 CGTTGCGATTTA
25881 TATGTTCGCG
Statistics
Matches: 157, Mismatches: 25, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
20 107 0.68
21 50 0.32
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTACGGATACGT
Found at i:25750 original size:40 final size:41
Alignment explanation
Indices: 25666--25880 Score: 326
Period size: 41 Copynumber: 5.3 Consensus size: 41
25656 TTAAAAATCG
* *
25666 CGTTGCGATTTACGGATACGTGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
25707 CGTTGCGATTTACAGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
25747 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
25787 CGTTGCGATTTATGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
25828 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
25869 CGTTGCGATTTA
1 CGTTGCGATTTA
25881 TATGTTCGCG
Statistics
Matches: 160, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 76 0.47
41 84 0.52
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:30238 original size:21 final size:18
Alignment explanation
Indices: 30184--30230 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
30174 CCTACAATAA
* *
30184 AATAATAAT-TAAATAAT
1 AATAATAATATGATTAAT
30201 AATAATAATATGATTAAT
1 AATAATAATATGATTAAT
30219 AATAATATATAT
1 AATAATA-ATAT
30231 AGAATTAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 9 0.35
18 13 0.50
19 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAATAATATGATTAAT
Found at i:31014 original size:9 final size:9
Alignment explanation
Indices: 31001--31078 Score: 93
Period size: 9 Copynumber: 8.7 Consensus size: 9
30991 TTTTTACCCA
*
31001 TATTATAAA
1 TATTATAAT
*
31010 TATTATTAT
1 TATTATAAT
31019 TATTATAAT
1 TATTATAAT
*
31028 TATTATTAT
1 TATTATAAT
*
31037 TACTATAAT
1 TATTATAAT
*
31046 TATTATTAT
1 TATTATAAT
*
31055 TATTATTAT
1 TATTATAAT
*
31064 TATTATTAT
1 TATTATAAT
31073 TATTAT
1 TATTAT
31079 TAAATATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATAAT
Found at i:31018 original size:3 final size:3
Alignment explanation
Indices: 31010--31080 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
31000 ATATTATAAA
* * *
31010 TAT TAT TAT TAT TAT AAT TAT TAT TAT TAC TAT AAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31058 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
31081 AATATATTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:31024 original size:18 final size:18
Alignment explanation
Indices: 31001--31078 Score: 129
Period size: 18 Copynumber: 4.3 Consensus size: 18
30991 TTTTTACCCA
*
31001 TATTATAAATATTATTAT
1 TATTATAATTATTATTAT
31019 TATTATAATTATTATTAT
1 TATTATAATTATTATTAT
*
31037 TACTATAATTATTATTAT
1 TATTATAATTATTATTAT
*
31055 TATTATTATTATTATTAT
1 TATTATAATTATTATTAT
31073 TATTAT
1 TATTAT
31079 TAAATATATT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATAATTATTATTAT
Found at i:31088 original size:18 final size:19
Alignment explanation
Indices: 31001--31089 Score: 114
Period size: 18 Copynumber: 4.8 Consensus size: 19
30991 TTTTTACCCA
31001 TATTATAA-ATATTATTAT
1 TATTATAATATATTATTAT
31019 TATTATAAT-TATTATTAT
1 TATTATAATATATTATTAT
*
31037 TACTATAAT-TATTATTAT
1 TATTATAATATATTATTAT
*
31055 TATTATTAT-TATTATTAT
1 TATTATAATATATTATTAT
31073 TATTATTAAATATATTA
1 TATTA-T-AATATATTA
31090 AATACATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
18 55 0.87
19 1 0.02
20 2 0.03
21 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATAATATATTATTAT
Found at i:31235 original size:15 final size:16
Alignment explanation
Indices: 31198--31237 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
31188 CCTAATCCCT
31198 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
31214 AGCCGCCTCTG-CTCTC
1 AGCCGCCTCTGCCTC-C
31230 -GCCGCCTC
1 AGCCGCCTC
31238 CACCGCTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.05, C:0.55, G:0.20, T:0.20
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:43769 original size:7 final size:7
Alignment explanation
Indices: 43757--43806 Score: 64
Period size: 7 Copynumber: 6.7 Consensus size: 7
43747 ATTATGCTTG
43757 AAGAAAA
1 AAGAAAA
43764 AAGAAAA
1 AAGAAAA
43771 AAGAAAGAA
1 AAG-AA-AA
43780 AAGAAAA
1 AAGAAAA
43787 AAGAAAGA
1 AAGAAA-A
*
43795 AAAAAAA
1 AAGAAAA
43802 AAGAA
1 AAGAA
43807 TGAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 23 0.61
8 10 0.26
9 5 0.13
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:43779 original size:11 final size:11
Alignment explanation
Indices: 43757--43806 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
43747 ATTATGCTTG
43757 AAGAAAAAAGA
1 AAGAAAAAAGA
43768 AA-AAAGAAAGAA
1 AAGAAA-AAAG-A
43780 AAGAAAAAAGA
1 AAGAAAAAAGA
*
43791 AAGAAAAAAAA
1 AAGAAAAAAGA
43802 AAGAA
1 AAGAA
43807 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
10 3 0.09
11 22 0.63
12 7 0.20
13 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:43783 original size:16 final size:15
Alignment explanation
Indices: 43757--43816 Score: 86
Period size: 15 Copynumber: 4.0 Consensus size: 15
43747 ATTATGCTTG
*
43757 AAGAAA-AAAGAAAA
1 AAGAAAGAAAAAAAA
43771 AAGAAAGAAAAGAAAA
1 AAGAAAGAAAA-AAAA
43787 AAGAAAGAAAAAAAA
1 AAGAAAGAAAAAAAA
*
43802 AAGAATGAAAAAAAA
1 AAGAAAGAAAAAAAA
43817 GGGGGGGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
14 6 0.14
15 21 0.50
16 15 0.36
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAAAAAA
Found at i:43815 original size:27 final size:27
Alignment explanation
Indices: 43763--43814 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
43753 CTTGAAGAAA
*
43763 AAAGAAAAAAGAAAGAAAAGAAAAAAG
1 AAAGAAAAAAAAAAGAAAAGAAAAAAG
*
43790 AAAGAAAAAAAAAAG-AATGAAAAAA
1 AAAGAAAAAAAAAAGAAAAGAAAAAA
43815 AAGGGGGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (27 bp):
AAAGAAAAAAAAAAGAAAAGAAAAAAG
Found at i:45090 original size:83 final size:83
Alignment explanation
Indices: 44951--45387 Score: 677
Period size: 83 Copynumber: 5.3 Consensus size: 83
44941 AAACATTAAC
44951 TGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
* *
45016 AGAACTAATCATTGAAAT
66 AGAACCAATCATTGAATT
* *
45034 TGGAAGAAT-AATGTGCTCATAGCATTTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TGGAAG-ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
45098 CAGAACCAATCATTGAATT
65 CAGAACCAATCATTGAATT
* *
45117 TAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TGGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
* *
45181 CAGAACTAATCATTGAAAT
65 CAGAACCAATCATTGAATT
* *
45200 TGGAAGAAT-AATGTGCTCATAGCATTTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TGGAAG-ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
45264 CAGAACCAATCATTGAATT
65 CAGAACCAATCATTGAATT
* *
45283 TAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TGGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGG
45347 -CAGAACCAATCATTGAATT
64 ACAGAACCAATCATTGAATT
*
45366 TGGAAGATGAATTTGCTCATAG
1 TGGAAGATGAATGTGCTCATAG
45388 TAGAAATAAG
Statistics
Matches: 324, Mismatches: 21, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
82 6 0.02
83 308 0.95
84 10 0.03
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (83 bp):
TGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAACCAATCATTGAATT
Found at i:45227 original size:166 final size:166
Alignment explanation
Indices: 44953--45387 Score: 786
Period size: 166 Copynumber: 2.6 Consensus size: 166
44943 ACATTAACTG
*
44953 GAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
1 GAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
45017 GAACTAATCATTGAAATTGGAAGAATAATGTGCTCATAGCATTTTATGGAAGTGTTCTTTGAGTT
65 GAACTAATCATTGAAATTGGAAGAATAATGTGCTCATAGCATTTTATGGAAGTGTTCTTTGAGTT
45082 ATCTGATCTGGTTGGACAGAACCAATCATTGAATTTA
130 ATCTGATCTGGTTGGACAGAACCAATCATTGAATTTA
45119 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
45184 AACTAATCATTGAAATTGGAAGAATAATGTGCTCATAGCATTTTATGGAAGTGTTCTTTGAGTTA
66 AACTAATCATTGAAATTGGAAGAATAATGTGCTCATAGCATTTTATGGAAGTGTTCTTTGAGTTA
45249 TCTGATCTGGTTGGACAGAACCAATCATTGAATTTA
131 TCTGATCTGGTTGGACAGAACCAATCATTGAATTTA
45285 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CA
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACA
* * *
45349 GAACCAATCATTGAATTTGGAAG-ATGAATTTGCTCATAG
65 GAACTAATCATTGAAATTGGAAGAAT-AATGTGCTCATAG
45388 TAGAAATAAG
Statistics
Matches: 262, Mismatches: 4, Indels: 6
0.96 0.01 0.02
Matches are distributed among these distances:
165 3 0.01
166 255 0.97
167 4 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (166 bp):
GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
AACTAATCATTGAAATTGGAAGAATAATGTGCTCATAGCATTTTATGGAAGTGTTCTTTGAGTTA
TCTGATCTGGTTGGACAGAACCAATCATTGAATTTA
Found at i:46396 original size:113 final size:113
Alignment explanation
Indices: 46212--46933 Score: 1207
Period size: 113 Copynumber: 6.4 Consensus size: 113
46202 TGGATTGACA
* *
46212 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAATGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
46277 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
*
46325 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
* *
46390 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTGGATGGATCATCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
*
46438 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
46503 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
* *
46551 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAAATCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
46616 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
46664 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
* * *
46729 AGAATTTGTTCAACCTTTTGCCTGAATTCATCATTTGATGGATCAACA
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
* * *
46777 TTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTAATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 TTTCCAGAG-AAAGTTCATAATGAGAAGAACTC---ATCTGAAGAAGGAAGAAGAAATTCATAAT
* * * * *
46841 GAGAAGAATTTGTTTAACCTTTTG-ATCAAATCCATCACTTGATGGAGCAGCT
62 GAGAAGAATTTGTTCAACCTTTTGCCT-GAATTCATCACTTGATGGATCAGCT
46893 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
46934 AAAGAAAGAG
Statistics
Matches: 577, Mismatches: 26, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
112 11 0.02
113 467 0.81
115 22 0.04
116 76 0.13
117 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCAGCT
Found at i:47153 original size:9 final size:9
Alignment explanation
Indices: 47140--47204 Score: 76
Period size: 9 Copynumber: 7.2 Consensus size: 9
47130 TTTTTACCCA
*
47140 TATTATAAA
1 TATTATAAT
*
47149 TATTATTAT
1 TATTATAAT
*
47158 TATTATTAT
1 TATTATAAT
47167 TATTATAAT
1 TATTATAAT
*
47176 TATTATTAT
1 TATTATAAT
*
47185 TACTATAAT
1 TATTATAAT
*
47194 TATTATTAT
1 TATTATAAT
47203 TA
1 TA
47205 AATATATTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATAAT
Found at i:47157 original size:3 final size:3
Alignment explanation
Indices: 47149--47204 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
47139 ATATTATAAA
* * *
47149 TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAC TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47197 TAT TAT TA
1 TAT TAT TA
47205 AATATATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:47163 original size:18 final size:18
Alignment explanation
Indices: 47149--47204 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
47139 ATATTATAAA
*
47149 TATTATTATTATTATTAT
1 TATTATAATTATTATTAT
47167 TATTATAATTATTATTAT
1 TATTATAATTATTATTAT
*
47185 TACTATAATTATTATTAT
1 TATTATAATTATTATTAT
47203 TA
1 TA
47205 AATATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATAATTATTATTAT
Found at i:47212 original size:9 final size:10
Alignment explanation
Indices: 47200--47238 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
47190 TAATTATTAT
47200 TATTAAAT-A
1 TATTAAATAA
47209 TATTAAATACA
1 TATTAAATA-A
47220 TATATAAATAA
1 TAT-TAAATAA
47231 TATTAAAT
1 TATTAAAT
47239 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:52072 original size:3 final size:3
Alignment explanation
Indices: 52064--52102 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
52054 CCGAATTTTA
* *
52064 ATT ATT ATT ATT ATT ATT ATT -TT ATT AAT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
52103 CTACATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:52090 original size:17 final size:17
Alignment explanation
Indices: 52068--52101 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52058 ATTTTAATTA
* *
52068 TTATTATTATTATTATT
1 TTATTAATAGTATTATT
52085 TTATTAATAGTATTATT
1 TTATTAATAGTATTATT
52102 ACTACATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTAATAGTATTATT
Found at i:57336 original size:18 final size:19
Alignment explanation
Indices: 57313--57360 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
57303 TGTTTCTGAG
57313 GGAATTGAAATCTATG-AA
1 GGAATTGAAATCTATGTAA
*
57331 GGAATTGAAA--TATGTCA
1 GGAATTGAAATCTATGTAA
57348 GGAATTGAAATCT
1 GGAATTGAAATCT
57361 GAATCTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 10 0.38
19 1 0.04
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (19 bp):
GGAATTGAAATCTATGTAA
Found at i:57927 original size:15 final size:15
Alignment explanation
Indices: 57928--58138 Score: 82
Period size: 17 Copynumber: 13.4 Consensus size: 15
57918 AAAGAAAAAT
57928 AAAATAAAATAAATG-
1 AAAATAAAATAAA-GA
*
57943 AAAATAAATGAAAAAAGA
1 AAAAT-AA--AATAAAGA
*
57961 AAAATAAGATAAAGA
1 AAAATAAAATAAAGA
*
57976 AAAGATATAAA-AAA-T
1 AAA-ATA-AAATAAAGA
*
57991 AAAATAAAGATAAAAA
1 AAAATAAA-ATAAAGA
58007 ACTAAATAAAATAAAGA
1 A--AAATAAAATAAAGA
58024 ACATAA-AAAATAAA-A
1 A-A-AATAAAATAAAGA
*
58039 GAAATAAAA-AAATGA
1 AAAATAAAATAAA-GA
*
58054 AGAAATGAAGA-AAA-A
1 A-AAAT-AAAATAAAGA
* **
58069 TAAATAAAAT-AATT
1 AAAATAAAATAAAGA
*
58083 AAAATAAAGATAACGAGT
1 AAAATAAA-ATAA--AGA
58101 AAAATAAAATAAA-A
1 AAAATAAAATAAAGA
58115 ATAAGACTAAAATAAAGA
1 A-AA-A-TAAAATAAAGA
58133 AAAATA
1 AAAATA
58139 CTAATAATTG
Statistics
Matches: 152, Mismatches: 17, Indels: 54
0.68 0.08 0.24
Matches are distributed among these distances:
13 12 0.08
14 21 0.14
15 30 0.20
16 25 0.16
17 35 0.23
18 29 0.19
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (15 bp):
AAAATAAAATAAAGA
Found at i:57931 original size:5 final size:5
Alignment explanation
Indices: 57909--58130 Score: 69
Period size: 5 Copynumber: 43.4 Consensus size: 5
57899 CAATGAAGAT
*
57909 AAATA AACTA AAGA-A AAATA AAATA AAAT- AAATGA AAAT- AAATGA
1 AAATA AAATA AA-ATA AAATA AAATA AAATA AAAT-A AAATA AAAT-A
* * *
57954 AAA-A AGA-A AAATA AGATA AAGA-A AAGATA TAA-A AAATA AAATA AAGATA
1 AAATA AAATA AAATA AAATA AA-ATA AA-ATA AAATA AAATA AAATA AA-ATA
* *
58003 AAAAA CTAAATA AAATA AAGA-A CATAA-A AAATA AAA-G AAAT- AAA-A
1 AAATA --AAATA AAATA AA-ATA -A-AATA AAATA AAATA AAATA AAATA
* *
58048 AAATGAA GAAATGA AGA-A AAAT- AAATA AAAT- AATTA AAATA AAGATA
1 AAAT--A -AAAT-A AAATA AAATA AAATA AAATA AAATA AAATA AA-ATA
* *
58095 ACGAGTA AAATA AAATAA AAATA AGACTA AAATA AA
1 A--AATA AAATA AAAT-A AAATA A-AATA AAATA AA
58131 GAAAAATACT
Statistics
Matches: 166, Mismatches: 20, Indels: 62
0.67 0.08 0.25
Matches are distributed among these distances:
4 39 0.23
5 78 0.47
6 34 0.20
7 10 0.06
8 5 0.03
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:57956 original size:31 final size:33
Alignment explanation
Indices: 57928--58064 Score: 94
Period size: 30 Copynumber: 4.3 Consensus size: 33
57918 AAAGAAAAAT
* *
57928 AAAATAAA-ATAAATGAAAATAAATGAAAAAAGA
1 AAAATAAAGATAAA-GAAAAGAAATAAAAAAAGA
* *
57961 AAAAT-AAGATAAAGAAAAGATAT-AAAAAA-T
1 AAAATAAAGATAAAGAAAAGAAATAAAAAAAGA
**
57991 AAAATAAAGATAAA-AAACTAAATAAAATAAAG-
1 AAAATAAAGATAAAGAAAAGAAATAAAA-AAAGA
* *
58023 AACAT-AA-A-AAATAAAAGAAATAAAAAAATGA
1 AAAATAAAGATAAAGAAAAGAAATAAAAAAA-GA
*
58054 AGAAATGAAGA
1 A-AAATAAAGA
58065 AAAATAAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
29 6 0.07
30 24 0.29
31 20 0.24
32 20 0.24
33 12 0.14
34 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.15
Consensus pattern (33 bp):
AAAATAAAGATAAAGAAAAGAAATAAAAAAAGA
Found at i:57966 original size:53 final size:52
Alignment explanation
Indices: 57904--58138 Score: 145
Period size: 53 Copynumber: 4.5 Consensus size: 52
57894 AAAGGCAATG
*
57904 AAGATAAATAAACTAAAGAAAAATAAAATAAAATAAATGAAAATAAATGA-AAA
1 AAGAAAAATAAA-TAAAGAAAAATAAAATAAAATAAAT-AAAATAAATGAGAAA
*
57957 AAGAAAAATAAGATAAAGAAAAGAT---AT-AAA-AAATAAAATAAA-GATAAA
1 AAGAAAAATAA-ATAAAGAAAA-ATAAAATAAAATAAATAAAATAAATGAGAAA
* *
58005 AA-ACTAAATAAAATAAAGAACATAA-AAAATAAAAGAAATAAAA-AAATGAAGAAA
1 AAGA-AAAAT-AAATAAAGAA-A-AATAAAATAAAATAAATAAAATAAATG-AGAAA
* * *
58059 TGAAGAAAAATAAATAAA-ATAATTAAAATAAAGATAACGAGTAAAATAAA--ATAAA
1 --AAGAAAAATAAATAAAGAAAAATAAAATAAA-ATAA--A-TAAAATAAATGAGAAA
* * *
58114 AATAAGACTAAAATAAAGAAAAATA
1 AAGAAAAAT-AAATAAAGAAAAATA
58139 CTAATAATTG
Statistics
Matches: 144, Mismatches: 13, Indels: 48
0.70 0.06 0.23
Matches are distributed among these distances:
47 3 0.02
48 25 0.17
49 8 0.06
50 4 0.03
51 4 0.03
52 7 0.05
53 43 0.30
54 18 0.12
55 16 0.11
56 7 0.05
57 6 0.04
58 3 0.02
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (52 bp):
AAGAAAAATAAATAAAGAAAAATAAAATAAAATAAATAAAATAAATGAGAAA
Found at i:58029 original size:9 final size:8
Alignment explanation
Indices: 58015--58066 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
58005 AAACTAAATA
58015 AAATAAAG
1 AAATAAAG
58023 AACATAAA-
1 AA-ATAAAG
58031 AAATAAAAG
1 AAAT-AAAG
*
58040 AAATAAAA
1 AAATAAAG
*
58048 AAATGAAG
1 AAATAAAG
*
58056 AAATGAAG
1 AAATAAAG
58064 AAA
1 AAA
58067 AATAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
7 2 0.05
8 27 0.71
9 9 0.24
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATAAAG
Found at i:58050 original size:44 final size:42
Alignment explanation
Indices: 57943--58056 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 42
57933 AAAATAAATG
* *
57943 AAAATAAATGAAAAAAGAAAAATAAGATAAAGAAAAGATATAA
1 AAAATAAAAGAAAAAA-AAAAATAAGATAAAGAAAAGACATAA
* *
57986 AAAATAAAATAAAGATAAAAAACTAA-ATAAA-ATAAAGAACATAA
1 AAAATAAAAGAAA-A-AAAAAAATAAGATAAAGA-AAAG-ACATAA
*
58030 AAAATAAAAGAAATAAAAAAATGAAGA
1 AAAATAAAAGAAAAAAAAAAAT-AAGA
58057 AATGAAGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
42 8 0.14
43 22 0.38
44 26 0.45
45 2 0.03
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (42 bp):
AAAATAAAAGAAAAAAAAAAATAAGATAAAGAAAAGACATAA
Found at i:58078 original size:44 final size:42
Alignment explanation
Indices: 57924--58080 Score: 108
Period size: 44 Copynumber: 3.6 Consensus size: 42
57914 AACTAAAGAA
* *
57924 AAATAAA-ATAAAATAAATGAAAATAAATGAAAAAAGAAAAATAAG
1 AAATAAAGA-AAAATAAA--AAAATAAAAGAAATAA-AAAAATAAG
* * *
57969 --ATAAAGAAAAGATATAAAAAATAAAATAAAGATAAAAAACTAAATA
1 AAATAAAGAAAA-ATA-AAAAAATAAAA-GAA-ATAAAAAAAT-AA-G
*
58015 AAATAAAG-AACAT-AAAAAATAAAAGAAATAAAAAAATGAAG
1 AAATAAAGAAAAATAAAAAAATAAAAGAAATAAAAAAAT-AAG
*
58056 AAATGAAGAAAAATAAATAAAATAA
1 AAATAAAGAAAAATAAA-AAAATAA
58081 TTAAAATAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
41 7 0.08
42 15 0.17
43 20 0.23
44 29 0.33
45 7 0.08
46 2 0.02
47 2 0.02
48 6 0.07
ACGTcount: A:0.75, C:0.01, G:0.08, T:0.15
Consensus pattern (42 bp):
AAATAAAGAAAAATAAAAAAATAAAAGAAATAAAAAAATAAG
Found at i:58079 original size:9 final size:9
Alignment explanation
Indices: 57907--58207 Score: 87
Period size: 9 Copynumber: 32.6 Consensus size: 9
57897 GGCAATGAAG
57907 ATAAATAAA
1 ATAAATAAA
* *
57916 CTAAAGAAAA
1 ATAAA-TAAA
57926 ATAAAATAAA
1 AT-AAATAAA
57936 ATAAATGAAA
1 ATAAAT-AAA
57946 ATAAATGAAA
1 ATAAAT-AAA
57956 A-AAGA-AAA
1 ATAA-ATAAA
57964 ATAAGATAAA
1 ATAA-ATAAA
*
57974 GAAAAGATATAA
1 -ATAA-ATA-AA
57986 A-AAATAAA
1 ATAAATAAA
57994 ATAAAGATAAAAA
1 AT-AA-AT--AAA
58007 ACTAAATAAA
1 A-TAAATAAA
* *
58017 ATAAAGAAC
1 ATAAATAAA
58026 AT-AA-AAA
1 ATAAATAAA
58033 ATAAA-AGAA
1 ATAAATA-AA
58042 ATAAA-AAA
1 ATAAATAAA
* *
58050 ATGAA-GAA
1 ATAAATAAA
58058 ATGAAGA-AAA
1 AT-AA-ATAAA
58068 ATAAATAAA
1 ATAAATAAA
*
58077 ATAATTAAA
1 ATAAATAAA
* *
58086 ATAAAGATA
1 ATAAATAAA
** *
58095 ACGAGTAAA
1 ATAAATAAA
58104 ATAAAATAAAA
1 AT-AAAT-AAA
58115 ATAAGACTAAA
1 ATAA-A-TAAA
*
58126 ATAAAGAAAA
1 ATAAA-TAAA
58136 ATACTAAT-AA
1 ATA--AATAAA
* ** *
58146 TTGTATATAC
1 ATAAATA-AA
*
58156 CT-AATAAA
1 ATAAATAAA
58164 A-AAATAAA
1 ATAAATAAA
58172 A-AAATAAA
1 ATAAATAAA
58180 A-AAAT-AA
1 ATAAATAAA
58187 A-AAATAAA
1 ATAAATAAA
58195 A-AAATAAA
1 ATAAATAAA
58203 ATAAA
1 ATAAA
58208 AAGTAAATAT
Statistics
Matches: 227, Mismatches: 35, Indels: 60
0.70 0.11 0.19
Matches are distributed among these distances:
7 11 0.05
8 56 0.25
9 64 0.28
10 56 0.25
11 26 0.11
12 7 0.03
13 6 0.03
14 1 0.00
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.18
Consensus pattern (9 bp):
ATAAATAAA
Found at i:58108 original size:23 final size:22
Alignment explanation
Indices: 58082--58138 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
58072 ATAAAATAAT
* *
58082 TAAAATAAAGATAACGAGTAAAA
1 TAAAATAAAAATAA-GACTAAAA
58105 TAAAATAAAAATAAGACTAAAA
1 TAAAATAAAAATAAGACTAAAA
*
58127 T-AAAGAAAAATA
1 TAAAATAAAAATA
58139 CTAATAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 10 0.32
22 8 0.26
23 13 0.42
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.18
Consensus pattern (22 bp):
TAAAATAAAAATAAGACTAAAA
Found at i:58171 original size:8 final size:8
Alignment explanation
Indices: 58158--58203 Score: 85
Period size: 8 Copynumber: 5.9 Consensus size: 8
58148 GTATATACCT
58158 AATAAAAA
1 AATAAAAA
58166 AATAAAAA
1 AATAAAAA
58174 AATAAAAA
1 AATAAAAA
58182 AAT-AAAA
1 AATAAAAA
58189 AATAAAAA
1 AATAAAAA
58197 AATAAAA
1 AATAAAA
58204 TAAAAAGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.19
8 30 0.81
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AATAAAAA
Found at i:58179 original size:16 final size:16
Alignment explanation
Indices: 58158--58203 Score: 85
Period size: 15 Copynumber: 2.9 Consensus size: 16
58148 GTATATACCT
58158 AATAAAAAAATAAAAA
1 AATAAAAAAATAAAAA
58174 AATAAAAAAAT-AAAA
1 AATAAAAAAATAAAAA
58189 AATAAAAAAATAAAA
1 AATAAAAAAATAAAA
58204 TAAAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AATAAAAAAATAAAAA
Found at i:58533 original size:14 final size:15
Alignment explanation
Indices: 58480--58536 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
58470 TTGGTTTTTC
58480 GGAAAATGAATTACT
1 GGAAAATGAATTACT
*
58495 GAAAAATGAATTACT
1 GGAAAATGAATTACT
**
58510 GGAATTTGAATT-CT
1 GGAAAATGAATTACT
58524 GGAAAATGAATTA
1 GGAAAATGAATTA
58537 TATTTTTCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 12 0.34
15 23 0.66
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (15 bp):
GGAAAATGAATTACT
Found at i:58862 original size:23 final size:23
Alignment explanation
Indices: 58813--58884 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
58803 GTGTTATATT
* **
58813 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
58836 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
*
58859 ATATTATTTAAATATA-TAAATAAA
1 ATA-T-TTTAAATATATTAATTAAA
58883 AT
1 AT
58885 TATTCATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 21 0.54
24 9 0.23
25 9 0.23
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:59281 original size:42 final size:42
Alignment explanation
Indices: 59226--59333 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
59216 CAGGAAAATC
*
59226 AATTACGTGAAACAAACACTGG-GAAATATTTT-TCGAAAAACG
1 AATTACGTGAAACAAACAC-GGAAAAATATTTTCT-GAAAAACG
* *
59268 AATTACGTAAAACAAACACGGAAAAATATTTTCTGAAAAATG
1 AATTACGTGAAACAAACACGGAAAAATATTTTCTGAAAAACG
*
59310 AATTACGTGAAACAAATAC-GAAAA
1 AATTACGTGAAACAAACACGGAAAA
59334 TTCAGAGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 7 0.12
42 51 0.86
43 1 0.02
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (42 bp):
AATTACGTGAAACAAACACGGAAAAATATTTTCTGAAAAACG
Found at i:64733 original size:19 final size:19
Alignment explanation
Indices: 64709--64756 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
64699 ATGACCAATA
* *
64709 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCC
64728 AAATCGCAACGCGATCTCC
1 AAATCGCAACGCGATCTCC
64747 AATATCGCAA
1 AA-ATCGCAA
64757 ATCAGTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCC
Found at i:64794 original size:20 final size:20
Alignment explanation
Indices: 64771--64862 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 20
64761 GTTTTCAGAT
*
64771 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTCTGACTA
* * * * *
64791 TCGCGATGCGAATATGTA-AA
1 TCGCAACGCGATTCTG-ACTA
*
64811 TCGCAACGCGATTCTGATTA
1 TCGCAACGCGATTCTGACTA
*
64831 TCACAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
64851 TCGCAACGCGAT
1 TCGCAACGCGAT
64863 AATACAAAAT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 1 0.02
20 55 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:65057 original size:22 final size:22
Alignment explanation
Indices: 65032--65074 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
65022 GGCGACATCC
65032 GTCCCCATCTCCGACGAAATCT
1 GTCCCCATCTCCGACGAAATCT
* *
65054 GTCCCCATCTCTGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
65075 CGTCTATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCT
Found at i:65492 original size:20 final size:20
Alignment explanation
Indices: 65464--65607 Score: 104
Period size: 20 Copynumber: 7.5 Consensus size: 20
65454 GATAATCAAA
*
65464 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATAGTCATT
* * **
65484 TTTGTGTTGCAATTTTCA-T
1 TTCGTGTTGCGATAGTCATT
65503 TTCGTGTTGCGAT--T-A-T
1 TTCGTGTTGCGATAGTCATT
* **
65519 CTC--GTTGCGATAGTCAAA
1 TTCGTGTTGCGATAGTCATT
*
65537 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATAGTCATT
* **
65557 TTCATGTTGCGATTTTCATT
1 TTCGTGTTGCGATAGTCATT
**
65577 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATAGTCATT
*
65597 TTAGTGTTGCG
1 TTCGTGTTGCG
65608 CTTTTAAGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
14 8 0.08
16 5 0.05
17 2 0.02
18 2 0.02
19 12 0.12
20 71 0.71
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (20 bp):
TTCGTGTTGCGATAGTCATT
Found at i:65572 original size:73 final size:74
Alignment explanation
Indices: 65453--65590 Score: 233
Period size: 73 Copynumber: 1.9 Consensus size: 74
65443 AAAATCATAA
**
65453 CGATAATCAAATTCGCGTTGCGATAGTCATTTTTGTGTTGCAATTTTCA-TTTCGTGTTGCGATT
1 CGATAATCAAATTCGCGTTGCGATAGTCATTTTCATGTTGCAATTTTCATTTTCGTGTTGCGATT
65517 ATCTCGTTG
66 ATCTCGTTG
* *
65526 CGATAGTCAAATTCGCGTTGCGATAGTCATTTTCATGTTGCGATTTTCATTTTCGTGTTGCGATT
1 CGATAATCAAATTCGCGTTGCGATAGTCATTTTCATGTTGCAATTTTCATTTTCGTGTTGCGATT
65591 TTCATTTTAG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 45 0.75
74 15 0.25
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (74 bp):
CGATAATCAAATTCGCGTTGCGATAGTCATTTTCATGTTGCAATTTTCATTTTCGTGTTGCGATT
ATCTCGTTG
Found at i:67549 original size:20 final size:19
Alignment explanation
Indices: 67524--67593 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
67514 CGAAACTTAA
67524 ATCGCAACGTGAAAATGACT
1 ATCGCAACG-GAAAATGACT
*
67544 ATCGCAACGCGGAAATGACT
1 ATCGCAACG-GAAAATGACT
* *
67564 ATCGTAACGCAGAAATGACT
1 ATCGCAACGGA-AAATGACT
*
67584 ATCACAACGG
1 ATCGCAACGG
67594 GATAATCGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (19 bp):
ATCGCAACGGAAAATGACT
Found at i:67750 original size:20 final size:20
Alignment explanation
Indices: 67721--67785 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
67711 GCGATTATCC
* *
67721 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
67741 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
*
67761 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
67781 CGTTG
1 CGTTG
67786 AGATTTAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.08
20 34 0.85
21 3 0.08
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:67804 original size:19 final size:20
Alignment explanation
Indices: 67776--67818 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
67766 CGATAGTCAT
67776 TTTCGCGTTGAGA-TTTAAG
1 TTTCGCGTTGAGATTTTAAG
* *
67795 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGAGATTTTAAG
67815 TTTC
1 TTTC
67819 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.16, C:0.12, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGAGATTTTAAG
Found at i:68369 original size:42 final size:42
Alignment explanation
Indices: 68305--68416 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
68295 CTGTCATCGT
* * * *
68305 TCAAGAGGCCTCTCCTATCATTCAAGAGGCCCTTATCATCCC
1 TCAAGAGTCCTCTCCCACCATTCAAGAGGCCCCTATCATCCC
* * **
68347 TCAAGAGTCCCCTCCCACCATTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGTCCTCTCCCACCATTCAAGAGGCCCCTATCATCCC
*
68389 TGAAGAGGT-CTCTCCCACCATTCAAGAG
1 TCAAGA-GTCCTCTCCCACCATTCAAGAG
68417 CCCGATTCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
TCAAGAGTCCTCTCCCACCATTCAAGAGGCCCCTATCATCCC
Found at i:68379 original size:21 final size:21
Alignment explanation
Indices: 68304--68416 Score: 75
Period size: 21 Copynumber: 5.4 Consensus size: 21
68294 CCTGTCATCG
* * *
68304 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGGCCCCTCCCACCA
* **
68325 TTCAAGAGGCCCTTATCATCC-
1 TTCAAGAGGCCCCTCCCA-CCA
* *
68346 CTCAAGAGTCCCCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
** * *
68367 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGCCCCTCCCACCA
* * *
68388 TTGAAGAGGTCTCTCCCACCA
1 TTCAAGAGGCCCCTCCCACCA
68409 TTCAAGAG
1 TTCAAGAG
68417 CCCGATTCAT
Statistics
Matches: 65, Mismatches: 25, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
20 2 0.03
21 62 0.95
22 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCA
Found at i:69824 original size:27 final size:27
Alignment explanation
Indices: 69794--69906 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 27
69784 CATTTTTTGC
*
69794 TTGTTTAATTGATTTGTAAAAGTTGAT
1 TTGTTTAATTGATGTGTAAAAGTTGAT
* *
69821 TTGTTTAATATTGATGTGTAAATAATTCTTATTTGT
1 TTGTTT-A-ATTGATGTGT-AA-AAGT-TGA----T
*
69857 GCTTGTTTAATTGATTTGTAAAAGTTGAT
1 --TTGTTTAATTGATGTGTAAAAGTTGAT
69886 TTGTTTAATTGATGTGTAAAA
1 TTGTTTAATTGATGTGTAAAA
69907 AATTCTTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
27 26 0.38
28 1 0.01
29 10 0.15
30 2 0.03
31 3 0.04
32 2 0.03
33 2 0.03
34 3 0.04
35 2 0.03
36 10 0.15
37 1 0.01
38 6 0.09
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (27 bp):
TTGTTTAATTGATGTGTAAAAGTTGAT
Found at i:69844 original size:72 final size:64
Alignment explanation
Indices: 69785--69954 Score: 227
Period size: 65 Copynumber: 2.6 Consensus size: 64
69775 AATTATTAGC
*
69785 ATTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCT
1 ATTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTT-A-ATTGATGTGTAAATAATTAT
69850 T
64 T
* * *
69851 A-TTTGTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAAAAATTCTT
1 ATTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTATT
*
69914 ATTTTTT-CTTATTTAATTGATTGAAATGTAAAAGTTGATTT
1 ATTTTTTGCTTGTTTAATTGATT----TGTAAAAGTTGATTT
69955 ATTGATTTCA
Statistics
Matches: 95, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
63 35 0.37
64 5 0.05
65 39 0.41
66 1 0.01
67 15 0.16
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (64 bp):
ATTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:69929 original size:63 final size:65
Alignment explanation
Indices: 69785--69954 Score: 245
Period size: 63 Copynumber: 2.6 Consensus size: 65
69775 AATTATTAGC
*
69785 ATTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCT
1 ATTTTTT-CTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAAAAATTCT
69850 T
65 T
* *
69851 ATTTGTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTT-A-ATTGATGTGTAAAAAATTCTT
1 ATTTTTTCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAAAAATTCTT
*
69914 ATTTTTTCTTATTTAATTGATTGAAATGTAAAAGTTGATTT
1 ATTTTTTCTTGTTTAATTGATT----TGTAAAAGTTGATTT
69955 ATTGATTTCA
Statistics
Matches: 94, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
63 39 0.41
64 1 0.01
65 34 0.36
66 5 0.05
67 15 0.16
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (65 bp):
ATTTTTTCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAAAAATTCTT
Found at i:70048 original size:20 final size:20
Alignment explanation
Indices: 70023--70086 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
70013 AACACTAAAC
70023 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
70043 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
* *
70063 CCAAAATCGCAACGCGAAAG
1 TCAAAATCGCAATGCGAAAG
70083 TCAA
1 TCAA
70087 TTCGTGTTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.12
Consensus pattern (20 bp):
TCAAAATCGCAATGCGAAAG
Found at i:70150 original size:20 final size:20
Alignment explanation
Indices: 70125--70355 Score: 312
Period size: 20 Copynumber: 11.8 Consensus size: 20
70115 ACAATTTTCT
*
70125 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* * *
70145 CGTTGCAATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
70165 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
70185 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
70205 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
70225 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
70245 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
70265 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
70285 CGTTTCGAT--T---GTT-G
1 CGTTGCGATAGTCAAATTCG
* *
70299 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
70319 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
70339 CGTTGCAATATTCAAAT
1 CGTTGCGATAGTCAAAT
70356 GAATGTGTAA
Statistics
Matches: 186, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
14 8 0.04
15 2 0.01
16 1 0.01
18 1 0.01
19 2 0.01
20 172 0.92
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:70578 original size:140 final size:140
Alignment explanation
Indices: 70326--70608 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
70316 TCGCGTTGCG
*
70326 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAATAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
70391 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAATTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
70456 AATACACATA
131 AATACACATA
* *
70466 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
70531 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTATACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
70596 AATACACATA
131 AATACACATA
70606 ATA
1 ATA
70609 CAACGTTTGC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:70689 original size:18 final size:18
Alignment explanation
Indices: 70666--70700 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
70656 AAGCCGGTTG
70666 TGATTGGGATTTTGATTT
1 TGATTGGGATTTTGATTT
*
70684 TGATTGTGATTTTGATT
1 TGATTGGGATTTTGATT
70701 ACCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (18 bp):
TGATTGGGATTTTGATTT
Found at i:73821 original size:20 final size:20
Alignment explanation
Indices: 73796--73985 Score: 172
Period size: 20 Copynumber: 9.3 Consensus size: 20
73786 GAAATTCAGT
*
73796 GTTGCGACAGTCATAATCGC
1 GTTGCGATAGTCATAATCGC
*
73816 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCATAATCGC
*
73837 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCATAATCGC
*
73857 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCATAATCGC
* *
73878 ATTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCATAATCGC
*
73898 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCATAATCGC
* *
73919 ATTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCATAATCGC
* *
73939 GTTGCGAT-TTACATATTCGC
1 GTTGCGATAGT-CATAATCGC
* *
73959 ATTGCGATAGTCAAAATCGC
1 GTTGCGATAGTCATAATCGC
73979 GTTGCGA
1 GTTGCGA
73986 ATATGGAAAC
Statistics
Matches: 135, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
19 7 0.05
20 78 0.58
21 44 0.33
22 6 0.04
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCATAATCGC
Found at i:73841 original size:41 final size:41
Alignment explanation
Indices: 73797--73990 Score: 302
Period size: 41 Copynumber: 4.8 Consensus size: 41
73787 AAATTCAGTG
* * *
73797 TTGCGACAGTCATAATCGCGTTGCGATTATGTATTATCGCG
1 TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCA
73838 TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCA
73879 TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCA
**
73920 TTGCGATAGTCAGAATCGCGTTGCGATT-TACA-TATTCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTA-TCGCA
* *
73960 TTGCGATAGTCAAAATCGCGTTGCGAATATG
1 TTGCGATAGTCAGAATCGCGTTGCGATTATG
73991 GAAACTGTTT
Statistics
Matches: 143, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 33 0.23
41 108 0.76
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCA
Found at i:74035 original size:19 final size:19
Alignment explanation
Indices: 74000--74047 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
73990 GGAAACTGTT
* *
74000 TTGCGATATTGGAGATCGCG
1 TTGCGAT-TTAGAGATCGCA
74020 TTGCGATTTAGAGATCGCA
1 TTGCGATTTAGAGATCGCA
74039 TTGCGATTT
1 TTGCGATTT
74048 TGTTAGTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (19 bp):
TTGCGATTTAGAGATCGCA
Found at i:81617 original size:60 final size:58
Alignment explanation
Indices: 81534--81720 Score: 164
Period size: 60 Copynumber: 3.2 Consensus size: 58
81524 AACACGTCTT
* * * *
81534 CAAATTATAACTTCTAATT-TAAATTGATCTCTAAATTTTTAAATATTTTAATTTCATCC
1 CAAACTATAACTTC--ATTCTAAATTGATCTCCAAATTTTTGAACATTTTAATTTCATCC
* * * * *
81593 CTAAACTATAACTATCATTCTAAATTTATCCCCAAA-CTTTGAGCA-TTTAGTTTCATCCC
1 C-AAACTATAACT-TCATTCTAAATTGATCTCCAAATTTTTGAACATTTTAATTTCAT-CC
** * * *
81652 CAAACTATGTCCTTCATTCTAAATTGGTCTCCAAACTTTTTGAACATTTCAATTTCATCG
1 CAAACTAT-AACTTCATTCTAAATTGATCTCCAAA-TTTTTGAACATTTTAATTTCATCC
81712 CAAACTATA
1 CAAACTATA
81721 TGTATATACT
Statistics
Matches: 100, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
58 36 0.36
59 14 0.14
60 39 0.39
61 11 0.11
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.41
Consensus pattern (58 bp):
CAAACTATAACTTCATTCTAAATTGATCTCCAAATTTTTGAACATTTTAATTTCATCC
Found at i:81657 original size:58 final size:58
Alignment explanation
Indices: 81580--81719 Score: 149
Period size: 58 Copynumber: 2.4 Consensus size: 58
81570 TTTTAAATAT
* *
81580 TTTAATTTCATCCCTAAACTAT-AACTATCATTCTAAATTTATCCCCAAACTTTGAGCA
1 TTTAATTTCATCCCCAAACTATGAACT-TCATTCTAAATTGATCCCCAAACTTTGAGCA
* ** * * *
81638 TTTAGTTTCATCCCCAAACTATGTCCTTCATTCTAAATTGGTCTCCAAACTTTTTGAACA
1 TTTAATTTCATCCCCAAACTATGAACTTCATTCTAAATTGATCCCCAAAC--TTTGAGCA
*
81698 TTTCAATTTCAT-CGCAAACTAT
1 TTT-AATTTCATCCCCAAACTAT
81720 ATGTATATAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
58 40 0.59
59 2 0.03
60 19 0.28
61 7 0.10
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (58 bp):
TTTAATTTCATCCCCAAACTATGAACTTCATTCTAAATTGATCCCCAAACTTTGAGCA
Found at i:82001 original size:59 final size:59
Alignment explanation
Indices: 81839--82024 Score: 223
Period size: 60 Copynumber: 3.1 Consensus size: 59
81829 TTTGGGTGGA
* * *
81839 TTTGGGGATGAAATTGGAAAATTTAAAAGTTTGGAGACCAATTTAGAATGAGAGTCATAG
1 TTTGAGGATGAAATTGGAATATTTAAAAGTTTAG-GACCAATTTAGAATGAGAGTCATAG
* * * * *
81899 TTTGAGGATGAAATTGGAATGTTCAAAAGTTTGAGGACAAATTTAGAATGATAGTCCTAG
1 TTTGAGGATGAAATTGGAATATTTAAAAGTTT-AGGACCAATTTAGAATGAGAGTCATAG
* * *
81959 TTT-AGGATAAAATTGGAATATTTAAAAGTTTAGTGACCAATTTAGAAT-AAATGTCATAA
1 TTTGAGGATGAAATTGGAATATTTAAAAGTTTAG-GACCAATTTAGAATGAGA-GTCATAG
82018 TTTGAGG
1 TTTGAGG
82025 GTGTGTGATG
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
58 4 0.04
59 46 0.43
60 56 0.52
61 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (59 bp):
TTTGAGGATGAAATTGGAATATTTAAAAGTTTAGGACCAATTTAGAATGAGAGTCATAG
Found at i:82768 original size:30 final size:30
Alignment explanation
Indices: 82698--82771 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
82688 TTATTTGACA
*
82698 TGGCTGTTAACTCCGTTAACTCTTATGATG
1 TGGCCGTTAACTCCGTTAACTCTTATGATG
** *
82728 TTACCATTAACTCCGTTAACTCTTATGATG
1 TGGCCGTTAACTCCGTTAACTCTTATGATG
82758 TGGCCGTTAACTCC
1 TGGCCGTTAACTCC
82772 TCCTCCTCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (30 bp):
TGGCCGTTAACTCCGTTAACTCTTATGATG
Found at i:83677 original size:29 final size:28
Alignment explanation
Indices: 83645--83700 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
83635 GATTTTGTCC
*
83645 GATTTT-TAGAAATTTATGAGTTTTTTTTA
1 GATTTTCT-GAAATTTAAG-GTTTTTTTTA
*
83674 GATTTTCTGCAATTTAAGGTTTTTTTT
1 GATTTTCTGAAATTTAAGGTTTTTTTT
83701 GGGAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 14 0.58
30 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.14, T:0.59
Consensus pattern (28 bp):
GATTTTCTGAAATTTAAGGTTTTTTTTA
Found at i:88251 original size:27 final size:27
Alignment explanation
Indices: 88211--88283 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
88201 TTTTAATAAA
*
88211 ATATTATAA-GAATATATTTATAATTT
1 ATATTATAATGAATATATTTATAAATT
* *
88237 ATATTATAATTAATATATTTTTAAATT
1 ATATTATAATGAATATATTTATAAATT
*
88264 ATAATATAATGAATATATTT
1 ATATTATAATGAATATATTT
88284 TTATTATTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 9 0.22
27 32 0.78
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
ATATTATAATGAATATATTTATAAATT
Found at i:88551 original size:60 final size:60
Alignment explanation
Indices: 88484--88604 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 60
88474 TAAATTGGTT
*
88484 CTTAAACTTATAG-AGATGCAAATTTCATCCCCAAACTATGA-CTCTTATTCTAAATTAATC
1 CTTAAACTT-TAGAACATGCAAATTTCATCCCCAAACTATGACCT-TTATTCTAAATTAATC
* * * * * *
88544 CTTAAACTTTTGAACATTCTAATTTCATCCCTAAACTATGACCTTTTTTCTAAATTGATC
1 CTTAAACTTTAGAACATGCAAATTTCATCCCCAAACTATGACCTTTATTCTAAATTAATC
88604 C
1 C
88605 CCAAATATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.04
60 48 0.92
61 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (60 bp):
CTTAAACTTTAGAACATGCAAATTTCATCCCCAAACTATGACCTTTATTCTAAATTAATC
Found at i:88778 original size:29 final size:29
Alignment explanation
Indices: 88746--88844 Score: 69
Period size: 29 Copynumber: 3.4 Consensus size: 29
88736 TTAGTATATA
88746 CAAATAGTTTGGGATGAAATTGGAATGTT
1 CAAATAGTTTGGGATGAAATTGGAATGTT
* * ** * *
88775 CAAAAAGTTTAGGACCAATTTAGAATGAATGT
1 CAAATAGTTTGGGATGAAATTGGAATG--T-T
* *
88807 CATAAT--TTGGGGATGAAATTGAAATGTT
1 CA-AATAGTTTGGGATGAAATTGGAATGTT
88835 CAAA-AGTTTG
1 CAAATAGTTTG
88845 AGGACTAATT
Statistics
Matches: 49, Mismatches: 15, Indels: 13
0.64 0.19 0.17
Matches are distributed among these distances:
27 2 0.04
28 6 0.12
29 22 0.45
31 14 0.29
32 3 0.06
33 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (29 bp):
CAAATAGTTTGGGATGAAATTGGAATGTT
Found at i:88886 original size:60 final size:60
Alignment explanation
Indices: 88762--88887 Score: 132
Period size: 60 Copynumber: 2.1 Consensus size: 60
88752 GTTTGGGATG
* * * * *
88762 AAATTGGAATGTTCAAAAAGTTTAGGACCAATTTAGAATGAATGTCATAATTTGGGGATG
1 AAATTGAAATGTTCAAAAAGTTTAGGACCAATTAAGAATGAATGTCATAATTTCGAGATA
* * *
88822 AAATTGAAATGTTC-AAAAGTTTGAGGACTAATTAAGAATGATAAT-T-GTACTTTCGAGATA
1 AAATTGAAATGTTCAAAAAGTTT-AGGACCAATTAAGAATG--AATGTCATAATTTCGAGATA
88882 AAATTG
1 AAATTG
88888 GAACATTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
59 8 0.15
60 43 0.78
61 1 0.02
62 3 0.05
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (60 bp):
AAATTGAAATGTTCAAAAAGTTTAGGACCAATTAAGAATGAATGTCATAATTTCGAGATA
Found at i:89098 original size:13 final size:13
Alignment explanation
Indices: 89080--89106 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89070 AATGCTTTTG
89080 CATTGAAAAAACT
1 CATTGAAAAAACT
89093 CATTGAAAAAACT
1 CATTGAAAAAACT
89106 C
1 C
89107 GTTTGGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (13 bp):
CATTGAAAAAACT
Found at i:89208 original size:17 final size:17
Alignment explanation
Indices: 89188--89220 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
89178 ATTATTATTC
*
89188 TATTAAAAATATTAATT
1 TATTAAAAATAATAATT
89205 TATTAAAAATAATAAT
1 TATTAAAAATAATAAT
89221 ATATGATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTAAAAATAATAATT
Done.