Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, 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: 12062019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 103452 characters in sequence are not A, C, G, or T
File 8 of 26
Found at i:2808234 original size:12 final size:12
Alignment explanation
Indices: 2808158--2808234 Score: 102
Period size: 12 Copynumber: 6.4 Consensus size: 12
2808148 CAGAATAGTT
2808158 TCTTCCTGCCTC
1 TCTTCCTGCCTC
*
2808170 -CTTTGCTGCCTC
1 TC-TTCCTGCCTC
* *
2808182 TCTTGCTACCTC
1 TCTTCCTGCCTC
2808194 TCTTCCTGCCTC
1 TCTTCCTGCCTC
*
2808206 TCTTGCTGCCTC
1 TCTTCCTGCCTC
2808218 TCTTCCTGCCTC
1 TCTTCCTGCCTC
2808230 TCTTC
1 TCTTC
2808235 TCTGAAAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
11 1 0.02
12 55 0.96
13 1 0.02
ACGTcount: A:0.01, C:0.45, G:0.10, T:0.43
Consensus pattern (12 bp):
TCTTCCTGCCTC
Found at i:2808913 original size:21 final size:22
Alignment explanation
Indices: 2808878--2808921 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2808868 CTCTTAAAGT
2808878 AATTTAAAATAAAATAACCTAA
1 AATTTAAAATAAAATAACCTAA
* *
2808900 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACCTAA
2808921 A
1 A
2808922 TTAATCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTTAAAATAAAATAACCTAA
Found at i:2811025 original size:19 final size:19
Alignment explanation
Indices: 2811001--2811039 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2810991 TTCTTTATTA
2811001 ACTATGCATCTTCCTTTTC
1 ACTATGCATCTTCCTTTTC
2811020 ACTATGCATCTTCCTTTTC
1 ACTATGCATCTTCCTTTTC
2811039 A
1 A
2811040 AGCTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.31, G:0.05, T:0.46
Consensus pattern (19 bp):
ACTATGCATCTTCCTTTTC
Found at i:2816452 original size:21 final size:21
Alignment explanation
Indices: 2816423--2816465 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2816413 AAGTGATTAA
2816423 TTTAAGTTATTTTAGTTAAAT
1 TTTAAGTTATTTTAGTTAAAT
* *
2816444 TTTAGGTTATTTTATTTAAAT
1 TTTAAGTTATTTTAGTTAAAT
2816465 T
1 T
2816466 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTAAGTTATTTTAGTTAAAT
Found at i:2819281 original size:63 final size:64
Alignment explanation
Indices: 2819182--2819304 Score: 169
Period size: 63 Copynumber: 1.9 Consensus size: 64
2819172 ATTAGTGTGG
* *
2819182 GTTTGTGGTTAAGCCCATTAAAAATCATAGATTGTGCTTGCTCT-AGTAAAATGCATTTGTAAT
1 GTTTGTGGTTAAGCCCATTAAAAACCATAGATTGTGCTTGCTCTCAGTAAAAAGCATTTGTAAT
* * * *
2819245 GTTTGTGGTT-AGACCCATTAAAAACCATGGGTTGTGCTTGCTTTCGGTAAAAAGCATTTG
1 GTTTGTGGTTAAG-CCCATTAAAAACCATAGATTGTGCTTGCTCTCAGTAAAAAGCATTTG
2819305 AAAAGGGTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 2 0.04
63 37 0.71
64 13 0.25
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (64 bp):
GTTTGTGGTTAAGCCCATTAAAAACCATAGATTGTGCTTGCTCTCAGTAAAAAGCATTTGTAAT
Found at i:2823474 original size:24 final size:25
Alignment explanation
Indices: 2823438--2823489 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
2823428 GATTAAGCTC
*
2823438 TTATCTATTTTTGTTAATAAGATAG
1 TTATCTATCTTTGTTAATAAGATAG
*
2823463 TTATCTA-CTTTGTTAATAAGGTAG
1 TTATCTATCTTTGTTAATAAGATAG
2823487 TTA
1 TTA
2823490 GGTGACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (25 bp):
TTATCTATCTTTGTTAATAAGATAG
Found at i:2826070 original size:14 final size:14
Alignment explanation
Indices: 2826051--2826080 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2826041 CCTACATATA
*
2826051 TATATATATGTATG
1 TATATAAATGTATG
2826065 TATATAAATGTATG
1 TATATAAATGTATG
2826079 TA
1 TA
2826081 CGTACTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TATATAAATGTATG
Found at i:2828987 original size:11 final size:11
Alignment explanation
Indices: 2828971--2829019 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
2828961 GAGAAATTGC
2828971 AAATGTAAGTG
1 AAATGTAAGTG
2828982 AAATGT-AGCTG
1 AAATGTAAG-TG
*
2828993 AAATGTAAGCG
1 AAATGTAAGTG
* *
2829004 AAATGCAAATG
1 AAATGTAAGTG
2829015 AAATG
1 AAATG
2829020 AAATGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 2 0.06
11 28 0.88
12 2 0.06
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.22
Consensus pattern (11 bp):
AAATGTAAGTG
Found at i:2829016 original size:22 final size:22
Alignment explanation
Indices: 2828971--2829019 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2828961 GAGAAATTGC
* * **
2828971 AAATGTAAGTGAAATGTAGCTG
1 AAATGTAAGCGAAATGCAAATG
2828993 AAATGTAAGCGAAATGCAAATG
1 AAATGTAAGCGAAATGCAAATG
2829015 AAATG
1 AAATG
2829020 AAATGAGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.22
Consensus pattern (22 bp):
AAATGTAAGCGAAATGCAAATG
Found at i:2829020 original size:5 final size:5
Alignment explanation
Indices: 2829003--2829069 Score: 80
Period size: 5 Copynumber: 12.6 Consensus size: 5
2828993 AAATGTAAGC
*
2829003 GAAAT GCAAAT GAAAT GAAAT GAGAT GAAAT GAAAAT GAAAT GAAGAT
1 GAAAT G-AAAT GAAAT GAAAT GAAAT GAAAT G-AAAT GAAAT GAA-AT
*
2829051 GAAAT GAAAAT AAAAT GAA
1 GAAAT G-AAAT GAAAT GAA
2829070 TAGAAATGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 35 0.65
6 19 0.35
ACGTcount: A:0.60, C:0.01, G:0.21, T:0.18
Consensus pattern (5 bp):
GAAAT
Found at i:2829024 original size:16 final size:15
Alignment explanation
Indices: 2829003--2829069 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 15
2828993 AAATGTAAGC
2829003 GAAATGCAAATGAAAT
1 GAAATG-AAATGAAAT
*
2829019 GAAATGAGATGAAAT
1 GAAATGAAATGAAAT
2829034 GAAAATGAAATGAAGAT
1 G-AAATGAAATGAA-AT
*
2829051 GAAATGAAAATAAAAT
1 GAAATG-AAATGAAAT
2829067 GAA
1 GAA
2829070 TAGAAATGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
15 9 0.20
16 27 0.60
17 9 0.20
ACGTcount: A:0.60, C:0.01, G:0.21, T:0.18
Consensus pattern (15 bp):
GAAATGAAATGAAAT
Found at i:2829043 original size:11 final size:11
Alignment explanation
Indices: 2829004--2829069 Score: 82
Period size: 11 Copynumber: 6.1 Consensus size: 11
2828994 AATGTAAGCG
2829004 AAATGCAAATG-
1 AAATG-AAATGA
2829015 AAATGAAATG-
1 AAATGAAATGA
*
2829025 AGATGAAATGA
1 AAATGAAATGA
2829036 AAATGAAATGA
1 AAATGAAATGA
*
2829047 AGATGAAATGA
1 AAATGAAATGA
*
2829058 AAATAAAATGA
1 AAATGAAATGA
2829069 A
1 A
2829070 TAGAAATGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
10 14 0.29
11 35 0.71
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.18
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:2832241 original size:12 final size:12
Alignment explanation
Indices: 2832224--2832248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2832214 CAATACTTAG
2832224 AAACATTTAAAT
1 AAACATTTAAAT
2832236 AAACATTTAAAT
1 AAACATTTAAAT
2832248 A
1 A
2832249 CTTAGAAACA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAACATTTAAAT
Found at i:2833409 original size:18 final size:18
Alignment explanation
Indices: 2833386--2833420 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2833376 ATTACAAGTA
*
2833386 GAATAACTACTTCACATG
1 GAATAACAACTTCACATG
*
2833404 GAATAACAATTTCACAT
1 GAATAACAACTTCACAT
2833421 AAATGATAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (18 bp):
GAATAACAACTTCACATG
Found at i:2843024 original size:26 final size:25
Alignment explanation
Indices: 2842995--2843073 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
2842985 AGATTAAAGC
2842995 ATCTATCCACTTCTTATGGTAAAATT
1 ATCTATCCA-TTCTTATGGTAAAATT
* *
2843021 ATCTA-CTCATTTTTTGTGGTAAAATT
1 ATCTATC-CA-TTCTTATGGTAAAATT
**
2843047 ATTCT-TAGATTCTTATGGTAAAATT
1 A-TCTATCCATTCTTATGGTAAAATT
2843072 AT
1 AT
2843074 TCTTAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 1 0.02
25 16 0.37
26 23 0.53
27 3 0.07
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (25 bp):
ATCTATCCATTCTTATGGTAAAATT
Found at i:2843071 original size:25 final size:24
Alignment explanation
Indices: 2843005--2843079 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
2842995 ATCTATCCAC
* *
2843005 TTCTTATGGTAAAATTATCTACTCAT
1 TTCTTATGGTAAAATTAT-T-CTTAA
* *
2843031 TTTTTGTGGTAAAATTATTCTTAGA
1 TTCTTATGGTAAAATTATTCTTA-A
2843056 TTCTTATGGTAAAATTATTCTTAA
1 TTCTTATGGTAAAATTATTCTTAA
2843080 AATTAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
24 4 0.10
25 22 0.52
26 16 0.38
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (24 bp):
TTCTTATGGTAAAATTATTCTTAA
Found at i:2859017 original size:5 final size:5
Alignment explanation
Indices: 2859007--2859047 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
2858997 CTTAAAGAAG
*
2859007 ATGAA ATGAA ATGCAA ATTGAA ATGAA ATGAA AGGAA ATGA
1 ATGAA ATGAA ATG-AA A-TGAA ATGAA ATGAA ATGAA ATGA
2859048 TGCCATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 24 0.75
6 6 0.19
7 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (5 bp):
ATGAA
Found at i:2870597 original size:24 final size:24
Alignment explanation
Indices: 2870549--2870603 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
2870539 AACAGTCGCA
* *
2870549 TTGAATATTCTAGAATGAGGATAT
1 TTGAATATTCTAGAATAACGATAT
* *
2870573 TTGAATATTCTAGATTAACGCTAT
1 TTGAATATTCTAGAATAACGATAT
2870597 TT-AATAT
1 TTGAATAT
2870604 AAAAAATCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (24 bp):
TTGAATATTCTAGAATAACGATAT
Found at i:2872670 original size:20 final size:18
Alignment explanation
Indices: 2872640--2872692 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
2872630 TGATATAATT
*
2872640 ATTTTAGTTTTTAGTTTA
1 ATTTTAATTTTTAGTTTA
**
2872658 ATAGTTTAATTTTTTTTTTA
1 AT--TTTAATTTTTAGTTTA
2872678 ATTTTAATTGTTTAG
1 ATTTTAATT-TTTAG
2872693 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 9 0.33
19 3 0.11
20 15 0.56
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
ATTTTAATTTTTAGTTTA
Found at i:2887578 original size:88 final size:89
Alignment explanation
Indices: 2887429--2887607 Score: 227
Period size: 88 Copynumber: 2.0 Consensus size: 89
2887419 TCACAAATTG
* * * *
2887429 ATTTTCTTGACATGTTCACCAACCTTAGACATTAGGGTGTATATAGCAATATCATAGTGATACTA
1 ATTTGCTTGACATGTTCACCAACCTCACACATTAGGATGTATATAGCAATATCATAGTGATACTA
**
2887494 AGGTGGCAGAA-AAAAAATCAAAGC
66 AGGCAGCA-AATAAAAAATCAAAGC
* * * * *
2887518 ATTTGCTTGACGTGTTCACCAACCTCACACTTTA-GATGTGTGTAGCAATATCATAGTGATAGTA
1 ATTTGCTTGACATGTTCACCAACCTCACACATTAGGATGTATATAGCAATATCATAGTGATACTA
*
2887582 AGGCAGCAAATTAAAAATCAAAGC
66 AGGCAGCAAATAAAAAATCAAAGC
2887606 AT
1 AT
2887608 GCTTAAAAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
87 2 0.03
88 46 0.60
89 29 0.38
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (89 bp):
ATTTGCTTGACATGTTCACCAACCTCACACATTAGGATGTATATAGCAATATCATAGTGATACTA
AGGCAGCAAATAAAAAATCAAAGC
Found at i:2889403 original size:2 final size:2
Alignment explanation
Indices: 2889396--2889421 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2889386 GACTTGAAAT
2889396 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2889422 AGTCATCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2898885 original size:29 final size:30
Alignment explanation
Indices: 2898789--2898887 Score: 114
Period size: 30 Copynumber: 3.3 Consensus size: 30
2898779 CCACAAGAGT
*
2898789 TTATTT-AACTCAAAATAAAAGTACAAGGGC
1 TTATTTGAA-TCAAAATAAAAGTATAAGGGC
** *
2898819 TTATTTGGTTCAAAATAAAAGTATAAGGGT
1 TTATTTGAATCAAAATAAAAGTATAAGGGC
*
2898849 TTGA-TTGAAT-ATAATAAAAGTATAAGGGC
1 TT-ATTTGAATCAAAATAAAAGTATAAGGGC
2898878 TTATTTGAAT
1 TTATTTGAAT
2898888 TTTTTCAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
28 1 0.02
29 25 0.43
30 31 0.53
31 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.34
Consensus pattern (30 bp):
TTATTTGAATCAAAATAAAAGTATAAGGGC
Found at i:2909508 original size:15 final size:15
Alignment explanation
Indices: 2909488--2909517 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2909478 TTCTACCTTC
2909488 ACACTAAATCAAAAA
1 ACACTAAATCAAAAA
*
2909503 ACACTACATCAAAAA
1 ACACTAAATCAAAAA
2909518 GATATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (15 bp):
ACACTAAATCAAAAA
Found at i:2916882 original size:29 final size:32
Alignment explanation
Indices: 2916840--2916899 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
2916830 GAATAAAAGG
2916840 TATTCATAATGAGT-TAATCGAGAAAAAAATA
1 TATTCATAATGAGTCTAATCGAGAAAAAAATA
*
2916871 TATTCAT-A-GAGTGCTAATTGAGAAAAAAA
1 TATTCATAATGAGT-CTAATCGAGAAAAAAA
2916900 GAAATTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.15
30 1 0.04
31 21 0.81
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (32 bp):
TATTCATAATGAGTCTAATCGAGAAAAAAATA
Found at i:2925988 original size:13 final size:13
Alignment explanation
Indices: 2925953--2925994 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2925943 TATTTAGTTA
2925953 TAATAAATATTA-T
1 TAAT-AATATTATT
*
2925966 TAAGAATATTATT
1 TAATAATATTATT
*
2925979 TAATATTATTATT
1 TAATAATATTATT
2925992 TAA
1 TAA
2925995 ATATAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TAATAATATTATT
Found at i:2926000 original size:45 final size:45
Alignment explanation
Indices: 2925940--2926030 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
2925930 AATATATTAA
** * *
2925940 TATTATTTAGTTATAATAAATATTATTAA-GAATATTATTTAATAT
1 TATTATTTAAATATAATAAAT-GTAATAAGGAATATTATTTAATAT
*
2925985 TATTATTTAAATATAATAAATGTAATAAGGAATATTATTTAGTAT
1 TATTATTTAAATATAATAAATGTAATAAGGAATATTATTTAATAT
2926030 T
1 T
2926031 GTTTAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 5 0.12
45 35 0.88
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (45 bp):
TATTATTTAAATATAATAAATGTAATAAGGAATATTATTTAATAT
Found at i:2926164 original size:22 final size:22
Alignment explanation
Indices: 2926098--2926166 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
2926088 CTTTTAATAT
* * *
2926098 AAAATATTATTAAATTATAATA
1 AAAATATTATTTAATTATAGTG
* * *
2926120 AAAATA-TATTTGTATTTTGGTG
1 AAAATATTATTT-AATTATAGTG
2926142 AAAATATTATTTAATTATAGTG
1 AAAATATTATTTAATTATAGTG
2926164 AAA
1 AAA
2926167 GGTATTTTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
21 4 0.11
22 27 0.75
23 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
AAAATATTATTTAATTATAGTG
Found at i:2926252 original size:23 final size:23
Alignment explanation
Indices: 2926191--2926252 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
2926181 ATTAGTTAGA
* *
2926191 ATATTTTTATCTTTTAACAAAAT
1 ATATTTTTATCATTTAACAAAAG
* * * *
2926214 AAATTTTT-TAATTTTAATAAAGG
1 ATATTTTTATCA-TTTAACAAAAG
2926237 ATATTTTTATCATTTA
1 ATATTTTTATCATTTA
2926253 CCATTTATTC
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
22 1 0.03
23 26 0.90
24 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (23 bp):
ATATTTTTATCATTTAACAAAAG
Found at i:2931639 original size:35 final size:33
Alignment explanation
Indices: 2931561--2931639 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 33
2931551 AAAATTAAAA
* * *
2931561 ATATTAAATATATATTATATTTTATATAAATTT
1 ATATAAAATATATATAATATTTTATATAAATAT
*
2931594 A-AAAATAATATATATAATATTTTATATATTAATAT
1 ATATAA-AATATATATAATATTTTATATA--AATAT
2931629 ATATAAAATAT
1 ATATAAAATAT
2931640 TAGTTTGGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 2 0.05
33 22 0.59
35 10 0.27
36 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
ATATAAAATATATATAATATTTTATATAAATAT
Found at i:2934356 original size:31 final size:31
Alignment explanation
Indices: 2934321--2934382 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
2934311 TAGGAGTTGA
2934321 AATATCTAAATTGAAGTCATGCATACTCTAT
1 AATATCTAAATTGAAGTCATGCATACTCTAT
*
2934352 AATATCTAAATTGAAGTCATGTATACTCTAT
1 AATATCTAAATTGAAGTCATGCATACTCTAT
2934383 GTTGTAGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (31 bp):
AATATCTAAATTGAAGTCATGCATACTCTAT
Found at i:2940515 original size:27 final size:27
Alignment explanation
Indices: 2940485--2940539 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2940475 ATATTTTACT
2940485 TAGAGAAGTTAATAGCAATTTAATTCC
1 TAGAGAAGTTAATAGCAATTTAATTCC
2940512 TAGAGAAGTTAATAGCAATTTAATTCC
1 TAGAGAAGTTAATAGCAATTTAATTCC
2940539 T
1 T
2940540 CGTAATTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (27 bp):
TAGAGAAGTTAATAGCAATTTAATTCC
Found at i:2946982 original size:21 final size:21
Alignment explanation
Indices: 2946956--2947012 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2946946 TCACACTGAG
2946956 AGTTGCTCGATGAGGACAATC
1 AGTTGCTCGATGAGGACAATC
2946977 AGTTGCTCGATGAGGACAATC
1 AGTTGCTCGATGAGGACAATC
*
2946998 AGTTACTCGATGAGG
1 AGTTGCTCGATGAGG
2947013 TTCTTTGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (21 bp):
AGTTGCTCGATGAGGACAATC
Found at i:2950685 original size:29 final size:29
Alignment explanation
Indices: 2950653--2950767 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 29
2950643 GTATAACCCC
* *
2950653 TTGCCTTGTCAAAGATTAGGCGTAACCTT
1 TTGCCTTTTCAAGGATTAGGCGTAACCTT
* * *
2950682 TTGCCTTTTCAATGATTAAGTGTAACCTT
1 TTGCCTTTTCAAGGATTAGGCGTAACCTT
* * * *
2950711 TTACCTTTTCAAGGATTCGACGTAACCAT
1 TTGCCTTTTCAAGGATTAGGCGTAACCTT
* *
2950740 TTGTCTTTTCAAGGATTAGGCATAACCT
1 TTGCCTTTTCAAGGATTAGGCGTAACCT
2950768 CTTTACAACA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (29 bp):
TTGCCTTTTCAAGGATTAGGCGTAACCTT
Found at i:2954772 original size:29 final size:29
Alignment explanation
Indices: 2954740--2954809 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
2954730 AACCCCTTGC
* *
2954740 CTTTTCAAGGATCAGGCATAACCTTTTAT
1 CTTTTCAAGGATCAGACATAACCTATTAT
* * *
2954769 CTTTTCGAGGATCATACATAACCTATTGT
1 CTTTTCAAGGATCAGACATAACCTATTAT
*
2954798 CTTTTGAAGGAT
1 CTTTTCAAGGAT
2954810 TAGGTGTAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (29 bp):
CTTTTCAAGGATCAGACATAACCTATTAT
Found at i:2955535 original size:21 final size:23
Alignment explanation
Indices: 2955497--2955538 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
2955487 TGTATACATA
*
2955497 TTCCATCTTGCAAGAATTGATGT
1 TTCCATCTTGCAACAATTGATGT
2955520 TTCC-TCTT-CAACAATTGAT
1 TTCCATCTTGCAACAATTGAT
2955539 TCCTTGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 4 0.22
23 4 0.22
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (23 bp):
TTCCATCTTGCAACAATTGATGT
Found at i:2955757 original size:6 final size:6
Alignment explanation
Indices: 2955722--2955746 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2955712 TAAATATAAC
2955722 AAACTA AAACTA AAACTA AAACTA A
1 AAACTA AAACTA AAACTA AAACTA A
2955747 TCTAACACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AAACTA
Found at i:2967858 original size:345 final size:344
Alignment explanation
Indices: 2967228--2967880 Score: 1011
Period size: 345 Copynumber: 1.9 Consensus size: 344
2967218 GGTACATACC
*
2967228 TTAAAATCAAGAAATAGATGCAATCCTTTATTCAAACCACTAATCATTATATGTGAAAATGCTAT
1 TTAAAATAAAGAAATAGATGCAATCCTTTATTCAAACCACTAATCATTATATGTGAAAATGCTAT
* * * *
2967293 TGAATGAAAATGAAAAAATGTTAATTTCCTCAAAGAAATCCTTTTCTTCCCTAGTGATATTCACT
66 TGAATGAAAATAAAAAAATGCTAATTTCCTCAAAGAAATCATTTTCTTCCCTAGTAATATTCACT
* ** *
2967358 CGCACCAACCAAAAGAAAATGGCACATAAAATCTTAATAAAAAGAAAATCCAAATTGAAATTTAT
131 CACACCAACCAAAAGAAAAAAGCACATAAAATCTTAATAAAAAGAAAACCCAAATTGAAATTTAT
* * * *
2967423 AGTCACGTTTTAAAGGACAAAACATAGATACAAAAAAACTCGAAACTTATATAACCTATATTCAA
196 AGCCACGCTTTAAAGGACAAAACATAGATACAAAAAAACTCCAAACTTATATAACCTACATTCAA
* *
2967488 AATTGCTTTACAGTGCCCAACACTAAGGGCATACAAAAAAGCATCAAAGCCCAGAGTTCAATGAG
261 AATAGCTTTACAGTGCCCAACACTAAAGGCATACAAAAAAGCATCAAAGCCCAGAGTTCAATGAG
2967553 AGTGTTCTATATAGGGATA
326 AGTGTTCTATATAGGGATA
* * *
2967572 TTAAAATAAAGAAATAGATGCAATCCTTTATTCAAGCCATTAATCATTATGTGTGAAAATGCTAT
1 TTAAAATAAAGAAATAGATGCAATCCTTTATTCAAACCACTAATCATTATATGTGAAAATGCTAT
* *
2967637 TGAATGAAAATAAAAAAAATGCTAATTTCCTCAAGGAAATCATTTTCTTCCCTCGTAATATTCAC
66 TGAATGAAAAT-AAAAAAATGCTAATTTCCTCAAAGAAATCATTTTCTTCCCTAGTAATATTCAC
* * *
2967702 TCACACCAACCGAAAGAAAAAAGCACATAACATCTTAATAAAAAGAAAACCCAAATTGGAATTTA
130 TCACACCAACCAAAAGAAAAAAGCACATAAAATCTTAATAAAAAGAAAACCCAAATTGAAATTTA
* * * * *
2967767 TAGCCATGCTTTAAGGGACAAAATATAGATTCATAAAAACTCCAAACTTATATAACCTACATTCA
195 TAGCCACGCTTTAAAGGACAAAACATAGATACAAAAAAACTCCAAACTTATATAACCTACATTCA
* *
2967832 AAACTAG-TTTAGAGTGCCCAACACTAAAGGCATACAAAAATGCATCAAA
260 AAA-TAGCTTTACAGTGCCCAACACTAAAGGCATACAAAAAAGCATCAAA
2967881 ATAGTGAGAT
Statistics
Matches: 277, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
344 72 0.26
345 203 0.73
346 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.26
Consensus pattern (344 bp):
TTAAAATAAAGAAATAGATGCAATCCTTTATTCAAACCACTAATCATTATATGTGAAAATGCTAT
TGAATGAAAATAAAAAAATGCTAATTTCCTCAAAGAAATCATTTTCTTCCCTAGTAATATTCACT
CACACCAACCAAAAGAAAAAAGCACATAAAATCTTAATAAAAAGAAAACCCAAATTGAAATTTAT
AGCCACGCTTTAAAGGACAAAACATAGATACAAAAAAACTCCAAACTTATATAACCTACATTCAA
AATAGCTTTACAGTGCCCAACACTAAAGGCATACAAAAAAGCATCAAAGCCCAGAGTTCAATGAG
AGTGTTCTATATAGGGATA
Found at i:2974423 original size:21 final size:21
Alignment explanation
Indices: 2974397--2974436 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2974387 CATATTAGTT
2974397 CCTTAAAAACTCAAAAATGTC
1 CCTTAAAAACTCAAAAATGTC
2974418 CCTTAAAAACTCAAAAATG
1 CCTTAAAAACTCAAAAATG
2974437 AGTAACCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.23
Consensus pattern (21 bp):
CCTTAAAAACTCAAAAATGTC
Found at i:2976396 original size:80 final size:80
Alignment explanation
Indices: 2976239--2976397 Score: 200
Period size: 80 Copynumber: 2.0 Consensus size: 80
2976229 ATATTAAAGT
* * *
2976239 TTATAAATATTAATAAAATTTATACAATTTATAAATGAAAATTTTAATTGCATTAAATGATTATT
1 TTATAAATATTAATAAAATTTATACAATTTATAAATGAAAATTCTAATTACATTAAATGATTATC
*
2976304 ATTTAAATTTTTTTA
66 ATTAAAATTTTTTTA
* *
2976319 TTATAAATATTAATAAAATTTA-ACTAATTTGTAAAT-AAAA-TCTAATTACATTGAATGACTT-
1 TTATAAATATTAATAAAATTTATAC-AATTTATAAATGAAAATTCTAATTACATTAAATGA-TTA
2976380 TCATTAAAAATATTTTTT
64 TCATT-AAAAT-TTTTTT
2976398 TATTCTGATA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
78 19 0.28
79 12 0.17
80 38 0.55
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (80 bp):
TTATAAATATTAATAAAATTTATACAATTTATAAATGAAAATTCTAATTACATTAAATGATTATC
ATTAAAATTTTTTTA
Found at i:2976804 original size:18 final size:18
Alignment explanation
Indices: 2976781--2976818 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2976771 CATTTTATAT
2976781 TTTATACTTT-TAAAATTA
1 TTTATA-TTTATAAAATTA
*
2976799 TTTATATTTATATAATTA
1 TTTATATTTATAAAATTA
2976817 TT
1 TT
2976819 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATTTATAAAATTA
Found at i:2981204 original size:121 final size:123
Alignment explanation
Indices: 2980989--2981214 Score: 359
Period size: 121 Copynumber: 1.9 Consensus size: 123
2980979 TATTTTCCCC
* * * *
2980989 TTTTTTAATCTTTTAATTTTTATTTTCATTAAAACTTTAAAATATTAATAATTTATATTTCAATT
1 TTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTTAAAACATTAATAATTTATATTTAAATT
*
2981054 ATGAATATGATTTTTTATTTCAATTTCTTTTTA-TTTTTTCCTCTATTTGTATTCTCA
66 ATGAATATAATTTTTTATTTCAATTTCTTTTTACTTTTTTCCTCTATTTGTATTCTCA
2981111 TTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTT-AAACATTAATAATTTAT-TATTAAAT
1 TTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTTAAAACATTAATAATTTATAT-TTAAAT
* *
2981174 TATTAATATAATTTTTTATTTTAATTTCTTTTTACTTTTTT
65 TATGAATATAATTTTTTATTTCAATTTCTTTTTACTTTTTT
2981215 ATTTTTATTT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
120 1 0.01
121 52 0.55
122 42 0.44
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.61
Consensus pattern (123 bp):
TTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTTAAAACATTAATAATTTATATTTAAATT
ATGAATATAATTTTTTATTTCAATTTCTTTTTACTTTTTTCCTCTATTTGTATTCTCA
Found at i:2982717 original size:29 final size:29
Alignment explanation
Indices: 2982664--2982746 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 29
2982654 TATGTATAAT
* *
2982664 ATTTAAA-AAAATTTTAAATTATTTAAAAA
1 ATTTAAATAAATTTTTATATT-TTTAAAAA
* ** *
2982693 ATTTAAATAAGTTTTTATATTTTTATTAT
1 ATTTAAATAAATTTTTATATTTTTAAAAA
**
2982722 ATTTATTTAAATTTTTATATTTTTA
1 ATTTAAATAAATTTTTATATTTTTA
2982747 TTGAGTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 34 0.77
30 10 0.23
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
ATTTAAATAAATTTTTATATTTTTAAAAA
Found at i:2982876 original size:33 final size:33
Alignment explanation
Indices: 2982839--2982901 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2982829 ATGTGTTAAG
* * *
2982839 ATATTATAATTGACGATGATGTGATATATTGAA
1 ATATTATAATTAACGATGATATGACATATTGAA
*
2982872 ATATTATAATTAATGATGATATGACATATT
1 ATATTATAATTAACGATGATATGACATATT
2982902 AATTTGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (33 bp):
ATATTATAATTAACGATGATATGACATATTGAA
Found at i:2984262 original size:27 final size:27
Alignment explanation
Indices: 2984230--2984299 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
2984220 ATCCGTTTAA
2984230 ATTAACATGATTAAAATTTTAAACATG
1 ATTAACATGATTAAAATTTTAAACATG
2984257 ATTAACATGATTAAAATTTTAAACATG
1 ATTAACATGATTAAAATTTTAAACATG
2984284 ATTAACATGATTAAAA
1 ATTAACATGATTAAAA
2984300 AAAATTCAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (27 bp):
ATTAACATGATTAAAATTTTAAACATG
Found at i:2984265 original size:9 final size:9
Alignment explanation
Indices: 2984230--2984297 Score: 68
Period size: 9 Copynumber: 7.6 Consensus size: 9
2984220 ATCCGTTTAA
2984230 ATTAACATG
1 ATTAACATG
*
2984239 ATTAAAAT-
1 ATTAACATG
*
2984247 TTTAAACATG
1 ATT-AACATG
2984257 ATTAACATG
1 ATTAACATG
*
2984266 ATTAAAAT-
1 ATTAACATG
*
2984274 TTTAAACATG
1 ATT-AACATG
2984284 ATTAACATG
1 ATTAACATG
2984293 ATTAA
1 ATTAA
2984298 AAAAAATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
8 4 0.09
9 39 0.83
10 4 0.09
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (9 bp):
ATTAACATG
Found at i:2995839 original size:25 final size:26
Alignment explanation
Indices: 2995811--2995861 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
2995801 CTTAGATAGG
*
2995811 ATTTTTTTTAAATT-AATAAATATTT
1 ATTTATTTTAAATTAAATAAATATTT
*
2995836 ATTTATTTTAATTTAAAATAAATATT
1 ATTTATTTTAAATT-AAATAAATATT
2995862 AATATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
27 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTATTTTAAATTAAATAAATATTT
Found at i:2995891 original size:18 final size:18
Alignment explanation
Indices: 2995846--2995909 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
2995836 ATTTATTTTA
2995846 ATTTAAA-ATAAATATTAAT
1 ATTTAAATATAAA-A-TAAT
*
2995865 A-TAAAATATAAAATAAT
1 ATTTAAATATAAAATAAT
2995882 ATTTAAATATAAAATAAT
1 ATTTAAATATAAAATAAT
2995900 ATTTAAATAT
1 ATTTAAATAT
2995910 TTAATTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
17 5 0.12
18 30 0.73
19 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTTAAATATAAAATAAT
Found at i:2995896 original size:25 final size:24
Alignment explanation
Indices: 2995849--2995897 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
2995839 TATTTTAATT
2995849 TAAAATAAATATTAATATAAAATA
1 TAAAATAAATATTAATATAAAATA
2995873 TAAAAT-AATATTTAAATATAAAATA
1 TAAAATAAATA-TT-AATATAAAATA
2995898 ATATTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.17
24 8 0.35
25 11 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAATAAATATTAATATAAAATA
Found at i:2997101 original size:27 final size:28
Alignment explanation
Indices: 2997068--2997130 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
2997058 TTAGATTTTT
*
2997068 TAAATATTAATAATCT-AGAATTTAATTA
1 TAAATATTAATAAT-TAAGAATTTAAATA
*
2997096 -AAATATTAATAATTAATAATTTAAATA
1 TAAATATTAATAATTAAGAATTTAAATA
2997123 TAAATATT
1 TAAATATT
2997131 TCATTTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.74
28 7 0.23
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
TAAATATTAATAATTAAGAATTTAAATA
Found at i:2997116 original size:22 final size:22
Alignment explanation
Indices: 2997090--2997170 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 22
2997080 ATCTAGAATT
2997090 TAATTAAAATATTAATAATTAA
1 TAATTAAAATATTAATAATTAA
* * * *
2997112 TAATTTAAATATAAATATTTCA
1 TAATTAAAATATTAATAATTAA
* * *
2997134 T--TTATAAT-TTAATCACTAA
1 TAATTAAAATATTAATAATTAA
*
2997153 TATTTTAAAATATTAATA
1 TA-ATTAAAATATTAATA
2997171 TTTTATTTTA
Statistics
Matches: 42, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
19 7 0.17
20 5 0.12
22 25 0.60
23 5 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATTAAAATATTAATAATTAA
Found at i:2997299 original size:42 final size:42
Alignment explanation
Indices: 2997107--2997346 Score: 153
Period size: 40 Copynumber: 5.7 Consensus size: 42
2997097 AATATTAATA
* * *
2997107 ATTAATAATTTAAATATAAATATTTCATTTATAATTT-AATC
1 ATTAATATTTTAAATATTAATATTTTATTTATAATTTAAATC
*
2997148 ACTAATATTTTAAAATATTAATATTTTATTT-T-ATTTAAAT-
1 ATTAATATTTT-AAATATTAATATTTTATTTATAATTTAAATC
* * * * * *
2997188 ATTATTATGATCAATTATT-TTATTTTATTT-TATTTTCAAAT-
1 ATTAATAT-TTTAAATATTAATATTTTATTTATAATTT-AAATC
2997229 ATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATTT-AATC
1 A-T--TAA-T-AT--TTTAAATATTAATATTTTATTTATAATTTAAATC
*
2997277 TTTAATATTTTAAAATATTAATATTTTA-TT-TAATTTAAAT-
1 ATTAATATTTT-AAATATTAATATTTTATTTATAATTTAAATC
* * * *
2997317 ATTATTATGATTAATTATT-TTATTTTATTT
1 ATTAATAT-TTTAAATATTAATATTTTATTT
2997347 TTAAATATTA
Statistics
Matches: 157, Mismatches: 24, Indels: 37
0.72 0.11 0.17
Matches are distributed among these distances:
39 18 0.11
40 39 0.25
41 29 0.18
42 34 0.22
43 2 0.01
44 3 0.02
45 4 0.03
46 2 0.01
47 11 0.07
48 10 0.06
49 5 0.03
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (42 bp):
ATTAATATTTTAAATATTAATATTTTATTTATAATTTAAATC
Found at i:2997386 original size:129 final size:127
Alignment explanation
Indices: 2997096--2997371 Score: 441
Period size: 129 Copynumber: 2.2 Consensus size: 127
2997086 AATTTAATTA
* *
2997096 AAATATTAATAATTAATAATTTAAATATAAATATTTCATTTATAATTTAATCACTAATATTTTAA
1 AAATATTAATAATTGATAATTTAAATATTAATATTTCATTTATAATTTAATCACTAATATTTTAA
*
2997161 AATATTAATATTTTATTTTATTTAAATATTATTATGATCAATTATTTTATTTTATTTTATTTTC
66 AATATTAATATTTTATTTAATTTAAATATTATTATGATCAATTATTTTATTTTA--TTATTTTC
* **
2997225 AAATATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATTTAATCTTTAATATTTTAA
1 AAATATTAATAATTGATAATTTAAATATTAATATTTCATTTATAATTTAATCACTAATATTTTAA
*
2997290 AATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTTATTTTA-T-TTTT-
66 AATATTAATATTTTATTTAATTTAAATATTATTATGATCAATTATTTTATTTTATTATTTTC
*
2997349 AAATATTAATAATTGATAGTTTA
1 AAATATTAATAATTGATAATTTA
2997372 TTTAAAATAT
Statistics
Matches: 139, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
124 22 0.16
125 4 0.03
126 1 0.01
129 112 0.81
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (127 bp):
AAATATTAATAATTGATAATTTAAATATTAATATTTCATTTATAATTTAATCACTAATATTTTAA
AATATTAATATTTTATTTAATTTAAATATTATTATGATCAATTATTTTATTTTATTATTTTC
Found at i:2997425 original size:27 final size:27
Alignment explanation
Indices: 2997340--2997415 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
2997330 ATTATTTTAT
*
2997340 TTTATTTTTAAATATTAATAATTGATAG
1 TTTA-TTTAAAATATTAATAATTGATAG
2997368 TTTATTTAAAATATTAATAATTGATAG
1 TTTATTTAAAATATTAATAATTGATAG
2997395 TTTATTTAAAATATTAATAAT
1 TTTATTTAAAATATTAATAAT
2997416 GGACCATTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 43 0.91
28 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (27 bp):
TTTATTTAAAATATTAATAATTGATAG
Found at i:2997538 original size:139 final size:137
Alignment explanation
Indices: 2997368--2997870 Score: 361
Period size: 132 Copynumber: 3.7 Consensus size: 137
2997358 TAATTGATAG
* *
2997368 TTTA-TTTAAAATATTAATAATTGATAGTTTATTTAAAATATTAATAATGGACCATTTAAATATT
1 TTTATTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAAT-GA--ATTTAAATATT
*
2997432 AATATTTATTTATAATTTAGTCATTAATATTTTATTTTATTTAAATATTATTATGA-TAA-A-TT
63 AATATTTATTTATAATTTA-T-ATTAATATTTTATTTAATTTAAATATTATTATGATTAATATTT
*
2997494 ATTTTATTTTAT
126 ATTTCATTTTAT
**
2997506 TTTATTTTTAAATATTAATAATTGATTTTTTATTTAAAATA-T--TAAT-AATTT-AATCATTAA
1 TTTATTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATGAATTTAAAT-ATTAA
2997566 TA--T-TTTA-AA---ATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTTATT
65 TATTTATTTATAATTTATATTAATATTTTATTTAATTTAAATATTATTATGATTAA-----TA-T
2997624 TTATTTCATTTTAT
124 TTATTTCATTTTAT
*
2997638 TTTATTTTTAAATATTAATAATTTG-TAATTTATTTAAAATATTAATAATTGATGATTTAATTAT
1 TTTATTTTTAAATATTAATAA-TTGATAATTTATTTAAAATATTAATAA-TGA--ATTTAAATAT
* * * * * * * *
2997702 CAATATTTTATATATAATTTAAATGATATTATGCTTATTTATTTTTAAT-TTATT-T-TTTAA-A
62 TAATA-TTTATTTATAATTTATAT--TAATAT-TTTATTTAATTTAAATATTATTATGATTAATA
** * * *
2997763 TAGGA-ATAATTTATAA
123 T-TTATTTCATTT-TAT
** * * * * *
2997779 TTTATTTTTTAAATAGGAATAATTTATAATTTATTT-TATTAATAATTTAT-AATTTAAATATTA
1 TTTA-TTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAA-TAATGAATTTAAATATTA
2997842 ATATTTTATTTATAATTTAATATTAATAT
64 ATA-TTTATTTATAATTT-ATATTAATAT
2997871 GTTAAAATAT
Statistics
Matches: 295, Mismatches: 33, Indels: 75
0.73 0.08 0.19
Matches are distributed among these distances:
123 33 0.11
124 4 0.01
125 1 0.00
128 2 0.01
129 4 0.01
130 2 0.01
131 3 0.01
132 59 0.20
133 4 0.01
134 1 0.00
135 3 0.01
136 5 0.02
137 6 0.02
138 32 0.11
139 46 0.16
140 9 0.03
141 17 0.06
142 28 0.09
143 3 0.01
144 2 0.01
147 7 0.02
148 1 0.00
149 10 0.03
150 13 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (137 bp):
TTTATTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATGAATTTAAATATTAAT
ATTTATTTATAATTTATATTAATATTTTATTTAATTTAAATATTATTATGATTAATATTTATTTC
ATTTTAT
Found at i:2997545 original size:27 final size:26
Alignment explanation
Indices: 2997504--2997690 Score: 88
Period size: 27 Copynumber: 7.1 Consensus size: 26
2997494 ATTTTATTTT
2997504 ATTTTATT-TTTAAATATTAATAATTG
1 ATTTT-TTATTTAAATATTAATAATTG
*
2997530 ATTTTTTATTTAAAATATTAATAATTTA
1 ATTTTTTATTT-AAATATTAATAA-TTG
**
2997558 ATCATTAATATTTTAAAATATTAAT-ATT-
1 AT--TTTTTA-TTT-AAATATTAATAATTG
* * *
2997586 -TTATTTAATTTAAATATTATTATGATTA
1 ATT-TTTTATTTAAATATTA--ATAATTG
* * *
2997614 ATTTTTTATTT-TAT-TTCAT--TTT
1 ATTTTTTATTTAAATATTAATAATTG
2997636 ATTTTATT-TTTAAATATTAATAATTTG
1 ATTTT-TTATTTAAATATTAATAA-TTG
**
2997663 -TAATTTATTTAAAATATTAATAATTG
1 ATTTTTTATTT-AAATATTAATAATTG
2997689 AT
1 AT
2997691 GATTTAATTA
Statistics
Matches: 125, Mismatches: 15, Indels: 41
0.69 0.08 0.23
Matches are distributed among these distances:
22 10 0.08
23 4 0.03
24 14 0.11
25 8 0.06
26 22 0.18
27 33 0.26
28 11 0.09
29 4 0.03
30 5 0.04
31 14 0.11
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTTTTTATTTAAATATTAATAATTG
Found at i:2997558 original size:16 final size:16
Alignment explanation
Indices: 2997537--2997588 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
2997527 TTGATTTTTT
2997537 ATTTAAAATATTAATA
1 ATTTAAAATATTAATA
2997553 ATTT--AATCATTAATA
1 ATTTAAAAT-ATTAATA
*
2997568 TTTTAAAATATTAATA
1 ATTTAAAATATTAATA
*
2997584 TTTTA
1 ATTTA
2997589 TTTAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 3 0.09
15 10 0.31
16 16 0.50
17 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAAAATATTAATA
Found at i:2997565 original size:23 final size:23
Alignment explanation
Indices: 2997539--2997582 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2997529 GATTTTTTAT
2997539 TTAAAATATTAATAAT-TTAATCA
1 TTAAAATATTAA-AATATTAATCA
* *
2997562 TTAATATTTTAAAATATTAAT
1 TTAAAATATTAAAATATTAAT
2997583 ATTTTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAAAATATTAAAATATTAATCA
Found at i:2997822 original size:29 final size:29
Alignment explanation
Indices: 2997742--2997820 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
2997732 ATGCTTATTT
*
2997742 ATTTTTAATTTATTTTTTAAATAGGAATA
1 ATTTATAATTTATTTTTTAAATAGGAATA
2997771 ATTTATAATTTATTTTTTAAATAGGAATA
1 ATTTATAATTTATTTTTTAAATAGGAATA
2997800 ATTTATAATTTATTTTATTAA
1 ATTTATAATTTATTTT-TTAA
2997821 TAATTTATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (29 bp):
ATTTATAATTTATTTTTTAAATAGGAATA
Found at i:2997896 original size:19 final size:20
Alignment explanation
Indices: 2997815--2997896 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 20
2997805 TAATTTATTT
*
2997815 TATTAATAATTTATAATTTAAA
1 TATTAAT-ATTTAT-ATTAAAA
*
2997837 TATTAATATTT-TATTTATAA
1 TATTAATATTTATA-TTAAAA
*
2997857 T-TTAATATTAATATGTTAAAA
1 TATTAATATT--TATATTAAAA
2997878 TATTAATATTT-TATTAAAA
1 TATTAATATTTATATTAAAA
2997897 GTTGGAATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
19 16 0.32
20 7 0.14
21 11 0.22
22 16 0.32
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (20 bp):
TATTAATATTTATATTAAAA
Found at i:2998433 original size:20 final size:19
Alignment explanation
Indices: 2998408--2998448 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2998398 CTTCAAAAGA
2998408 TTTTAAGATAATTTTTACAT
1 TTTTAAG-TAATTTTTACAT
**
2998428 TTTTAAGTGTTTTTTACAT
1 TTTTAAGTAATTTTTACAT
2998447 TT
1 TT
2998449 GATTTAGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTTAAGTAATTTTTACAT
Found at i:2998610 original size:165 final size:167
Alignment explanation
Indices: 2998321--2998645 Score: 512
Period size: 165 Copynumber: 2.0 Consensus size: 167
2998311 TTTTCTTTTT
*
2998321 TTTTTATCCGAACTTGATTATCTTTTTCTCCCCTTCTTCTTCTTCTAGCAATAAAATTAAGTTTG
1 TTTTTATCCGAACTTGATTATCTTCTTCTCCCCTTCTTCTTCTTCTAGCAATAAAATTAAGTTTG
* * * *
2998386 CAAATTGTTTAACTTCAAAAGATTTTAAGATAATTTTTACATTTTTAAGTGTTTTTTACATTTGA
66 CAAATTGTTCAACTTCAAAAGATTTCAAGATAATTTTTACATTTTTAAGTGATTTTTACAATTGA
*
2998451 TTTAGGGTTATGATGTGATAATCAACTGTTCTCTTCC
131 TTTAGGGTTATAATGTGATAATCAACTGTTCTCTTCC
* *
2998488 TTTTTATCCTAACTTGATTATCTTCTTCT-CCC-T-TTCTTCTTCTAGCATTAAAATTAAGTTTG
1 TTTTTATCCGAACTTGATTATCTTCTTCTCCCCTTCTTCTTCTTCTAGCAATAAAATTAAGTTTG
* * *
2998550 CAAAATTGTTCAATTTCAAGAGATTTCAAGATAATTTTTATATTTTTAAGTGATTTTTACAATTG
66 C-AAATTGTTCAACTTCAAAAGATTTCAAGATAATTTTTACATTTTTAAGTGATTTTTACAATTG
*
2998615 ATTTAGGGTTATAATGTGATAATCAATTGTT
130 ATTTAGGGTTATAATGTGATAATCAACTGTT
2998646 TGTTTTTTCA
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
164 29 0.20
165 86 0.59
166 3 0.02
167 27 0.19
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.48
Consensus pattern (167 bp):
TTTTTATCCGAACTTGATTATCTTCTTCTCCCCTTCTTCTTCTTCTAGCAATAAAATTAAGTTTG
CAAATTGTTCAACTTCAAAAGATTTCAAGATAATTTTTACATTTTTAAGTGATTTTTACAATTGA
TTTAGGGTTATAATGTGATAATCAACTGTTCTCTTCC
Found at i:3006252 original size:17 final size:18
Alignment explanation
Indices: 3006229--3006273 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
3006219 TCCTTTGAAC
3006229 AATTATGATTGTTCAAAT
1 AATTATGATTGTTCAAAT
* *
3006247 -ATTATGTTTGTTTAAAT
1 AATTATGATTGTTCAAAT
3006264 AATTAT-ATTG
1 AATTATGATTG
3006274 AAAAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (18 bp):
AATTATGATTGTTCAAAT
Found at i:3013596 original size:2 final size:2
Alignment explanation
Indices: 3013589--3013626 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3013579 CATAAGTATG
3013589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3013627 AATACAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3017036 original size:29 final size:29
Alignment explanation
Indices: 3016995--3017061 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
3016985 TGTCAAGAAA
* * *
3016995 TTATGCCTGATCCTTGAAAAGCC-AAGAGG
1 TTATGCTTAATCCTTAAAAAGCCAAAG-GG
*
3017024 TTATGCTTAATCCTTAAAAAGGCAAAGGG
1 TTATGCTTAATCCTTAAAAAGCCAAAGGG
3017053 TTATGCTTA
1 TTATGCTTA
3017062 CTCTTGTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (29 bp):
TTATGCTTAATCCTTAAAAAGCCAAAGGG
Found at i:3022366 original size:13 final size:13
Alignment explanation
Indices: 3022348--3022377 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
3022338 TTTGGCTAAG
3022348 TGAGATTGATTTA
1 TGAGATTGATTTA
3022361 TGAGATTGATTTA
1 TGAGATTGATTTA
3022374 TGAG
1 TGAG
3022378 TGTGCCTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (13 bp):
TGAGATTGATTTA
Found at i:3029115 original size:23 final size:23
Alignment explanation
Indices: 3029086--3029134 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
3029076 AGAAAACTTA
3029086 AAGTTGAGAATAAGAATCTAATT
1 AAGTTGAGAATAAGAATCTAATT
* * *
3029109 AAGTTGAGATTGAGAATCTAGTT
1 AAGTTGAGAATAAGAATCTAATT
3029132 AAG
1 AAG
3029135 GCTAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (23 bp):
AAGTTGAGAATAAGAATCTAATT
Found at i:3035111 original size:78 final size:78
Alignment explanation
Indices: 3034978--3035136 Score: 246
Period size: 78 Copynumber: 2.0 Consensus size: 78
3034968 ACCGTATTTG
* * * *
3034978 AGAGATCCGTTGTGGAGGCTTAGATTGATAGAAATGGAGGTGACAACAACCGTACTTGGTGAACG
1 AGAGATCCATTGTCGAGGCTTAGATTGATAGAAATAGAGGTGACAACAACCGTACTTGGAGAACG
3035043 AAAATCAATCTAA
66 AAAATCAATCTAA
* *
3035056 AGAGATCCATTGTCGAGGCTTAGGTTGATAGAAATAGAGGTGACAACAACTGTACTTGGAGAACG
1 AGAGATCCATTGTCGAGGCTTAGATTGATAGAAATAGAGGTGACAACAACCGTACTTGGAGAACG
**
3035121 GCAATCAATCTAA
66 AAAATCAATCTAA
3035134 AGA
1 AGA
3035137 CCACCTCTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (78 bp):
AGAGATCCATTGTCGAGGCTTAGATTGATAGAAATAGAGGTGACAACAACCGTACTTGGAGAACG
AAAATCAATCTAA
Found at i:3038143 original size:63 final size:64
Alignment explanation
Indices: 3038002--3038191 Score: 208
Period size: 63 Copynumber: 3.0 Consensus size: 64
3037992 TGGAAGAATT
* **
3038002 GACATCTCATGAAAGAAGAATAAATTCTCCAAAGACA-AACAG-TTCTAGACTTTACGAAGAAC-
1 GACATCTCATGAAAGAAGAATCAATTCTCCAAAGACAGAA-AGCTTC-AGACTTTATAAAGAACT
3038064 A
64 A
* * *
3038065 GACATCTCATGAAAGAAGAATCGATTCTCCAAAGATAGAAAGCTTCAAACTTTATAAAGAACTA
1 GACATCTCATGAAAGAAGAATCAATTCTCCAAAGACAGAAAGCTTCAGACTTTATAAAGAACTA
** * ** * *
3038129 -ACATCTCAAAAAAGAAAAAATCAATTCTGTAGAGGCAGAAAGCTTCAGACTTTATAAAGAACT
1 GACATCTCATGAAAG-AAGAATCAATTCTCCAAAGACAGAAAGCTTCAGACTTTATAAAGAACT
3038192 GAAAACTCAT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
63 61 0.57
64 46 0.43
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.22
Consensus pattern (64 bp):
GACATCTCATGAAAGAAGAATCAATTCTCCAAAGACAGAAAGCTTCAGACTTTATAAAGAACTA
Found at i:3039699 original size:80 final size:80
Alignment explanation
Indices: 3039566--3039725 Score: 259
Period size: 80 Copynumber: 2.0 Consensus size: 80
3039556 AAAAAAGTGA
* * *
3039566 GGTATGGGAATTAGTACCTAGACCACATGATTATCCTATTGTAGGAACTAAATAGGTG-CTTAGA
1 GGTATGGGAATTAGTACCTAGACCACATGATTATCCCATTGTACGAACTAAATAGGTGTC-TAAA
3039630 AATAAGATGAATGAAC
65 AATAAGATGAATGAAC
*
3039646 GGTATGGGAATTAGTATCTAGACCACATGATTATCCCATTGTACGAACTAAATAGGTGTCTAAAA
1 GGTATGGGAATTAGTACCTAGACCACATGATTATCCCATTGTACGAACTAAATAGGTGTCTAAAA
*
3039711 ATAAGATGGATGAAC
66 ATAAGATGAATGAAC
3039726 ATGGAAATAT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
80 73 0.99
81 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (80 bp):
GGTATGGGAATTAGTACCTAGACCACATGATTATCCCATTGTACGAACTAAATAGGTGTCTAAAA
ATAAGATGAATGAAC
Found at i:3044872 original size:34 final size:35
Alignment explanation
Indices: 3044834--3044906 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
3044824 TGATATCATG
** * *
3044834 AAAAGGC-ATTGTAAGGGTTTCGTTTGATCCCGTA
1 AAAAGGCTATTGTAAGAATTTCGCTTGATCCCATA
*
3044868 AAAA-GCTATTGTGAGAATTTCGCTTGATCCCATA
1 AAAAGGCTATTGTAAGAATTTCGCTTGATCCCATA
3044902 AAAAG
1 AAAAG
3044907 TTCATTTCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (35 bp):
AAAAGGCTATTGTAAGAATTTCGCTTGATCCCATA
Found at i:3048540 original size:33 final size:33
Alignment explanation
Indices: 3048498--3048598 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
3048488 CATAGGTTTC
3048498 ATATTTTTATTTACCCTTCTCACTTAAACTTTA
1 ATATTTTTATTTACCCTTCTCACTTAAACTTTA
3048531 ATATTTTTATTTACCCTTCTCACTTAAACTTTA
1 ATATTTTTATTTACCCTTCTCACTTAAACTTTA
** *
3048564 ATATTTTTATTTACTATTCTCACTTGAACTTTA
1 ATATTTTTATTTACCCTTCTCACTTAAACTTTA
3048597 AT
1 AT
3048599 GCCTTAAATG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.01, T:0.52
Consensus pattern (33 bp):
ATATTTTTATTTACCCTTCTCACTTAAACTTTA
Found at i:3055088 original size:44 final size:42
Alignment explanation
Indices: 3054951--3055117 Score: 131
Period size: 44 Copynumber: 3.8 Consensus size: 42
3054941 AATAAATGAT
* ** *
3054951 AAAATATATTTTATTATAATTTAGTGTCTATTTTTGTCAAAAGATA
1 AAAATATATTTTATTATAATTTAAT-AATA-TTTTATCAAAA-A-A
* * * * *
3054997 AAAATATCTTTTATTATAACTTAATATTA-TTTATACTATAAAC
1 AAAATATATTTTATTATAATTTAATAATATTTTAT-C-AAAAAA
*
3055040 AAAATGATCTTTTATTATAATTTAATAATATTTTATCAAAATAA
1 AAAAT-ATATTTTATTATAATTTAATAATATTTTATCAAAA-AA
* *
3055084 AAAATGGTATTTT-TTATAATTTAATAATAATTTA
1 AAAAT-ATATTTTATTATAATTTAATAATATTTTA
3055118 AATTTATCTT
Statistics
Matches: 101, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
43 32 0.32
44 37 0.37
45 10 0.10
46 22 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (42 bp):
AAAATATATTTTATTATAATTTAATAATATTTTATCAAAAAA
Found at i:3055828 original size:19 final size:21
Alignment explanation
Indices: 3055794--3055834 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
3055784 TTTTTTTATT
*
3055794 TTTTTAAGTATAATAATAAAA
1 TTTTTAAGTATAATAAAAAAA
3055815 TTTTTAA-T-TAATAAAAAAA
1 TTTTTAAGTATAATAAAAAAA
3055834 T
1 T
3055835 ATTATAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 1 0.05
21 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTTTAAGTATAATAAAAAAA
Found at i:3061688 original size:20 final size:20
Alignment explanation
Indices: 3061663--3061702 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3061653 TTCACATAGT
3061663 CCAACAAAAACAACACATTC
1 CCAACAAAAACAACACATTC
*
3061683 CCAACAAAAACAACAGATTC
1 CCAACAAAAACAACACATTC
3061703 AAAGCTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.33, G:0.03, T:0.10
Consensus pattern (20 bp):
CCAACAAAAACAACACATTC
Found at i:3063964 original size:27 final size:27
Alignment explanation
Indices: 3063934--3064017 Score: 132
Period size: 27 Copynumber: 3.1 Consensus size: 27
3063924 TTACCTCCAC
3063934 GAGAGACTTGAGTGCTCTCTTCTTCAT
1 GAGAGACTTGAGTGCTCTCTTCTTCAT
* * * *
3063961 GAGAGACTTGTGTGCTCTCCTCTCCAC
1 GAGAGACTTGAGTGCTCTCTTCTTCAT
3063988 GAGAGACTTGAGTGCTCTCTTCTTCAT
1 GAGAGACTTGAGTGCTCTCTTCTTCAT
3064015 GAG
1 GAG
3064018 CGACATCGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
GAGAGACTTGAGTGCTCTCTTCTTCAT
Found at i:3065494 original size:22 final size:22
Alignment explanation
Indices: 3065458--3065514 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3065448 ACATAGGAAC
*
3065458 AAATAGAATAGAAATGACAAAAT
1 AAATA-AATAGAAATAACAAAAT
* * *
3065481 AAATAAATATAAATAATAATAT
1 AAATAAATAGAAATAACAAAAT
*
3065503 AAATAAAAAGAA
1 AAATAAATAGAA
3065515 GAATATAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
AAATAAATAGAAATAACAAAAT
Found at i:3065504 original size:18 final size:18
Alignment explanation
Indices: 3065478--3065528 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
3065468 GAAATGACAA
*
3065478 AATAA-ATAAATATAAAT
1 AATAATATAAATATAAAG
*
3065495 AATAATATAAATAAAAAG
1 AATAATATAAATATAAAG
*
3065513 AAGAATATAAA-ATAAA
1 AATAATATAAATATAAA
3065529 ACTTTACATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (18 bp):
AATAATATAAATATAAAG
Found at i:3075808 original size:27 final size:27
Alignment explanation
Indices: 3075753--3076046 Score: 250
Period size: 27 Copynumber: 10.7 Consensus size: 27
3075743 TACTTTGGCG
*
3075753 TGTAACAATTAAATTTTTCAACATGACA
1 TGTAACAACTAAA-TTTTCAACATGACA
* * *
3075781 TGTATCAACTAAATCTTCAACATAACA
1 TGTAACAACTAAATTTTCAACATGACA
* * ***
3075808 TGTAACAACTACATTTTTCAATATGGTG
1 TGTAACAACTA-AATTTTCAACATGACA
* * * *
3075836 TGTAGCAATTAAATCTTCAACATGACG
1 TGTAACAACTAAATTTTCAACATGACA
* * * *
3075863 TGTAACAATTAAATTTTGAATATGATA
1 TGTAACAACTAAATTTTCAACATGACA
*
3075890 TGTAGCAACTAAATTTTCAACAT-AGCA
1 TGTAACAACTAAATTTTCAACATGA-CA
* * *
3075917 TGTGACAACTATATTTTTCAACATGGCA
1 TGTAACAACTA-AATTTTCAACATGACA
*
3075945 TGTAACAACTAAATTTTCAACATGATA
1 TGTAACAACTAAATTTTCAACATGACA
* ***
3075972 TGTAACAACTACATTTTTCAACATGGTG
1 TGTAACAACTA-AATTTTCAACATGACA
* * *
3076000 TATAACAACTAAATTTTCAATATGGCA
1 TGTAACAACTAAATTTTCAACATGACA
*
3076027 TGTAAC-ACTACACTTTTCAA
1 TGTAACAACTA-AATTTTCAA
3076047 AACTACCATG
Statistics
Matches: 212, Mismatches: 48, Indels: 13
0.78 0.18 0.05
Matches are distributed among these distances:
26 5 0.02
27 132 0.62
28 75 0.35
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (27 bp):
TGTAACAACTAAATTTTCAACATGACA
Found at i:3075824 original size:55 final size:55
Alignment explanation
Indices: 3075753--3076046 Score: 288
Period size: 55 Copynumber: 5.4 Consensus size: 55
3075743 TACTTTGGCG
* * * * *
3075753 TGTAACAATTAAATTTTTCAACATGACATGTATCAACTAAATCTTCAACATAACA
1 TGTAACAACTACATTTTTCAACATGACATGTAGCAACTAAATTTTCAACATGACA
* *** * * *
3075808 TGTAACAACTACATTTTTCAATATGGTGTGTAGCAATTAAATCTTCAACATGACG
1 TGTAACAACTACATTTTTCAACATGACATGTAGCAACTAAATTTTCAACATGACA
* * * * *
3075863 TGTAACAATTA-AATTTTGAATATGATATGTAGCAACTAAATTTTCAACAT-AGCA
1 TGTAACAACTACATTTTTCAACATGACATGTAGCAACTAAATTTTCAACATGA-CA
* * * * *
3075917 TGTGACAACTATATTTTTCAACATGGCATGTAACAACTAAATTTTCAACATGATA
1 TGTAACAACTACATTTTTCAACATGACATGTAGCAACTAAATTTTCAACATGACA
*** * * * *
3075972 TGTAACAACTACATTTTTCAACATGGTGTATAACAACTAAATTTTCAATATGGCA
1 TGTAACAACTACATTTTTCAACATGACATGTAGCAACTAAATTTTCAACATGACA
*
3076027 TGTAAC-ACTACACTTTTCAA
1 TGTAACAACTACATTTTTCAA
3076047 AACTACCATG
Statistics
Matches: 200, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.00
54 56 0.28
55 142 0.71
56 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (55 bp):
TGTAACAACTACATTTTTCAACATGACATGTAGCAACTAAATTTTCAACATGACA
Found at i:3075893 original size:82 final size:82
Alignment explanation
Indices: 3075752--3076046 Score: 324
Period size: 82 Copynumber: 3.6 Consensus size: 82
3075742 ATACTTTGGC
* * * * *
3075752 GTGTAACAATTAAATTTTTCAACATGACATGTATCAACTAAATCTTCAACATAACATGTAACAAC
1 GTGTAACAACTAAA-TTTTCAACATGACATGTAACAACTAAATTTTCAACATGATATGTAACAAC
*
3075817 TACATTTTTCAATATGGT
65 TACATTTTTCAACATGGT
* * * * * * * *
3075835 GTGTAGCAATTAAATCTTCAACATGACGTGTAACAATTAAATTTTGAATATGATATGTAGCAACT
1 GTGTAACAACTAAATTTTCAACATGACATGTAACAACTAAATTTTCAACATGATATGTAACAACT
* * *
3075900 A-AATTTTCAACATAGC
66 ACATTTTTCAACATGGT
* * * *
3075916 ATGTGACAACTATATTTTTCAACATGGCATGTAACAACTAAATTTTCAACATGATATGTAACAAC
1 GTGTAACAACTA-AATTTTCAACATGACATGTAACAACTAAATTTTCAACATGATATGTAACAAC
3075981 TACATTTTTCAACATGGT
65 TACATTTTTCAACATGGT
* * * *
3075999 GTATAACAACTAAATTTTCAATATGGCATGTAAC-ACTACACTTTTCAA
1 GTGTAACAACTAAATTTTCAACATGACATGTAACAACTA-AATTTTCAA
3076047 AACTACCATG
Statistics
Matches: 173, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
81 23 0.13
82 116 0.67
83 34 0.20
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (82 bp):
GTGTAACAACTAAATTTTCAACATGACATGTAACAACTAAATTTTCAACATGATATGTAACAACT
ACATTTTTCAACATGGT
Found at i:3080361 original size:50 final size:50
Alignment explanation
Indices: 3080304--3080398 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
3080294 TTATTTTTCA
*
3080304 AAAGTTGTAAAGCCTTCAAAATAAGAGTTAATTATTTTTCAAATTTATTT
1 AAAGTTGTAAAGCCTTCAAAAGAAGAGTTAATTATTTTTCAAATTTATTT
** * * *
3080354 AAAGTTGTGGAGCCTTTAAAAGAGGAGTTATTTATTTTTCAAATT
1 AAAGTTGTAAAGCCTTCAAAAGAAGAGTTAATTATTTTTCAAATT
3080399 GCAGAACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (50 bp):
AAAGTTGTAAAGCCTTCAAAAGAAGAGTTAATTATTTTTCAAATTTATTT
Found at i:3080619 original size:7 final size:7
Alignment explanation
Indices: 3080576--3080600 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3080566 ACGTATTATT
3080576 AAAAAAC
1 AAAAAAC
3080583 AAAAAAC
1 AAAAAAC
3080590 AAAAAAC
1 AAAAAAC
3080597 AAAA
1 AAAA
3080601 TATCAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:3085440 original size:21 final size:21
Alignment explanation
Indices: 3085415--3085456 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3085405 CCTTACCTTC
3085415 TTGAATTTTCTCATTTATCAT
1 TTGAATTTTCTCATTTATCAT
3085436 TTGAATTTTCTCATTTATCAT
1 TTGAATTTTCTCATTTATCAT
3085457 AAGAAGTTCA
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:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (21 bp):
TTGAATTTTCTCATTTATCAT
Found at i:3091093 original size:64 final size:64
Alignment explanation
Indices: 3090992--3091178 Score: 347
Period size: 64 Copynumber: 2.9 Consensus size: 64
3090982 AGATAAATAT
3090992 AAACATTGGTTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGCTGTA
1 AAACATTGGTTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGCTGTA
*
3091056 AAACATTGGTTTTAATCACAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGCTGTA
1 AAACATTGGTTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGCTGTA
* *
3091120 AAACATTGGTTTCAATCAAAATATAACTACCATCTTCTAAAGTTATAATGCTCATATGG
1 AAACATTGGTTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGG
3091179 TTGCAATAAT
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 119 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (64 bp):
AAACATTGGTTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGCTGTA
Found at i:3097042 original size:42 final size:42
Alignment explanation
Indices: 3096983--3097070 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
3096973 TCACAATCAC
3096983 CTGATGATTATGATCCTCTCTGGCAGTCGCAGCTGCTACCAA
1 CTGATGATTATGATCCTCTCTGGCAGTCGCAGCTGCTACCAA
3097025 CTGATGATTATGATCCTCTCTGGCAGTCGCAGCTGCTACCAA
1 CTGATGATTATGATCCTCTCTGGCAGTCGCAGCTGCTACCAA
3097067 CTGA
1 CTGA
3097071 CGATGATCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (42 bp):
CTGATGATTATGATCCTCTCTGGCAGTCGCAGCTGCTACCAA
Found at i:3097084 original size:42 final size:42
Alignment explanation
Indices: 3096995--3097084 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
3096985 GATGATTATG
* * *
3096995 ATCCTCTCTGGCAGTCGCAGCTGCTACCAACTGATGATTATG
1 ATCCTCTCTGGCAGTCGCAGCTGCTACCAACTGACGATGATC
3097037 ATCCTCTCTGGCAGTCGCAGCTGCTACCAACTGACGATGATC
1 ATCCTCTCTGGCAGTCGCAGCTGCTACCAACTGACGATGATC
*
3097079 CTCCTC
1 ATCCTC
3097085 CTTTAATCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (42 bp):
ATCCTCTCTGGCAGTCGCAGCTGCTACCAACTGACGATGATC
Found at i:3103884 original size:15 final size:15
Alignment explanation
Indices: 3103864--3103893 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3103854 AAAAACAAAC
3103864 CAAGAGCAAAAAAAT
1 CAAGAGCAAAAAAAT
*
3103879 CAAGAGCAAGAAAAT
1 CAAGAGCAAAAAAAT
3103894 GTTGTGTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.13, G:0.17, T:0.07
Consensus pattern (15 bp):
CAAGAGCAAAAAAAT
Found at i:3105603 original size:186 final size:186
Alignment explanation
Indices: 3105404--3105748 Score: 546
Period size: 186 Copynumber: 1.9 Consensus size: 186
3105394 TGACACGCTA
* * * *
3105404 AGTACTAGCAGATTTATGGCGTGACATGTTGAGTGAAAGCAGATATATGACATGACACGCTGAGT
1 AGTACTAGCAGATTTATGGCATGACATGTGGAGTGAAAGCAGATATAAGACATGAAACGCTGAGT
* *
3105469 GGTACCAGATTTAGGGCATGCGACGCTGAGTACTAGCAGATTTATGGGGTGACACGTTGAGTACT
66 GGTACCAGATTTAGGGCATACGACGCTGAGTACTAGCAGATTTATGGGGTGACACGCTGAGTACT
**
3105534 AGCAGATTTATGGTGTCACACGCTGAGTGGTACCAGATTCAGGACGTTCGACACTG
131 AGCAGATTTATGGCATCACACGCTGAGTGGTACCAGATTCAGGACGTTCGACACTG
* * *
3105590 AGTACTAGCAGATTTATGGCATGACATGTGGATTGAAAGCAGATATAAGGCATGAAACGCTGGGT
1 AGTACTAGCAGATTTATGGCATGACATGTGGAGTGAAAGCAGATATAAGACATGAAACGCTGAGT
* * * *
3105655 GGTACTAGATTTAGGGCGTACGATGCTGAGTACTAGCAGATTTATGGGGTGACATGCTGAGTACT
66 GGTACCAGATTTAGGGCATACGACGCTGAGTACTAGCAGATTTATGGGGTGACACGCTGAGTACT
*
3105720 AGCAGATTTATGGCATGACACGCTGAGTG
131 AGCAGATTTATGGCATCACACGCTGAGTG
3105749 AAAGAAGATA
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
186 143 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (186 bp):
AGTACTAGCAGATTTATGGCATGACATGTGGAGTGAAAGCAGATATAAGACATGAAACGCTGAGT
GGTACCAGATTTAGGGCATACGACGCTGAGTACTAGCAGATTTATGGGGTGACACGCTGAGTACT
AGCAGATTTATGGCATCACACGCTGAGTGGTACCAGATTCAGGACGTTCGACACTG
Found at i:3105788 original size:93 final size:91
Alignment explanation
Indices: 3105691--3106196 Score: 414
Period size: 93 Copynumber: 5.5 Consensus size: 91
3105681 TGAGTACTAG
* * *
3105691 CAGATTTATGGG-GTGACATGCTGAGTACTAGCAGATTTATGGCATGACACGCTGAGTGA-AAGA
1 CAGATTTA-GGGCATGACACGCTGAGTACTAGCAGATTTATGG-ATGACACGCTGAGT-ACTAGA
* * *
3105754 AGATATATGGCGTGACATGTTAAGTGGTAC
63 A-ATATATGGCGTGACACGCTGAGTGGTAC
* * *
3105784 CAGATTTAGGGCGTG-CGACGCTGAGTACTAACAGATTTATAAGG-TGACACGCTGAATACTAGC
1 CAGATTTAGGGCATGAC-ACGCTGAGTACTAGCAGATTTAT--GGATGACACGCTGAGTACTAG-
* *
3105847 AAATATATAGCGTGACACACTGAGTGGTAC
62 AAATATATGGCGTGACACGCTGAGTGGTAC
* * * *
3105877 CAGATTTAGGGCATGTA-ACGCTAAGTACTAGCAGATTTATGGGGTGACACACTAAGTACTAGCA
1 CAGATTTAGGGCATG-ACACGCTGAGTACTAGCAGATTTAT-GGATGACACGCTGAGTACTAG-A
* *
3105941 GATATATGGCGTGACACGCTGAGTGGCAC
63 AATATATGGCGTGACACGCTGAGTGGTAC
* * * * * * *
3105970 CAGATTTAGGGCATCACACGTTAAGTACTAGCATATTTATGGCATGACATGCTGAATACTAGCAT
1 CAGATTTAGGGCATGACACGCTGAGTACTAGCAGATTTATGG-ATGACACGCTGAGTACTAG-AA
*
3106035 ATATATGACGTGACACGCTGAGTGGTAC
64 ATATATGGCGTGACACGCTGAGTGGTAC
* * * * * * * * ** *
3106063 CAGATTTAGGGCATCACACGTTGAATACTAGTAAATTTATTAGATCACATGCTGAGTGGTGGCAA
1 CAGATTTAGGGCATGACACGCTGAGTACTAGCAGATTTA-TGGATGACACGCTGAGTACTAG-AA
* *
3106128 ATATATGGCGTGACACGTTAAGTGGTGA-
64 ATATATGGCGTGACACGCTGAGTGGT-AC
* * * * * * *
3106156 TAGA-TAAAGGCGTGACATGCTGAATACTAGTAGATTTATGG
1 CAGATTTAGGGCATGACACGCTGAGTACTAGCAGATTTATGG
3106197 GGTTACGCTT
Statistics
Matches: 346, Mismatches: 54, Indels: 28
0.81 0.13 0.07
Matches are distributed among these distances:
91 2 0.01
92 37 0.11
93 300 0.87
94 5 0.01
95 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (91 bp):
CAGATTTAGGGCATGACACGCTGAGTACTAGCAGATTTATGGATGACACGCTGAGTACTAGAAAT
ATATGGCGTGACACGCTGAGTGGTAC
Found at i:3105974 original size:31 final size:31
Alignment explanation
Indices: 3105289--3106102 Score: 447
Period size: 31 Copynumber: 26.3 Consensus size: 31
3105279 TCATACTTTT
* * *
3105289 AGATTTAGGGTGTGACACGCTGAGTGA-AAGC
1 AGATTTATGGCGTGACACGCTGAGT-ACTAGC
* * * * * ** *
3105320 AAATATATGGTGTGACACACTAAGTGGTACC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * *
3105351 AGATTTAAGGTGTG-CGACGCTGAGTACTAGT
1 AGATTTATGGCGTGAC-ACGCTGAGTACTAGC
*
3105382 AGATTTATAGG-GTGACACGCTAAGTACTAGC
1 AGATTTAT-GGCGTGACACGCTGAGTACTAGC
* * *
3105413 AGATTTATGGCGTGACATGTTGAGTGA-AAGC
1 AGATTTATGGCGTGACACGCTGAGT-ACTAGC
* * * ** *
3105444 AGATATATGACATGACACGCTGAGTGGTACC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* *
3105475 AGATTTAGGGCATG-CGACGCTGAGTACTAGC
1 AGATTTATGGCGTGAC-ACGCTGAGTACTAGC
* *
3105506 AGATTTATGGGGTGACACGTTGAGTACTAGC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * ** *
3105537 AGATTTATGGTGTCACACGCTGAGTGGTACC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
*
3105568 AGATTCA-GGACGTTCGACA--CTGAGTACTAGC
1 AGATTTATGG-CG-T-GACACGCTGAGTACTAGC
* * * *
3105599 AGATTTATGGCATGACATG-TGGATTGA-AAGC
1 AGATTTATGGCGTGACACGCT-GAGT-ACTAGC
* * * * * **
3105630 AGATATAAGGCATGAAACGCTGGGTGGTA-C
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* *
3105660 TAGATTTAGGGCGT-ACGATGCTGAGTACTAGC
1 -AGATTTATGGCGTGAC-ACGCTGAGTACTAGC
* *
3105692 AGATTTATGGGGTGACATGCTGAGTACTAGC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * *
3105723 AGATTTATGGCATGACACGCTGAGTGA-AAGA
1 AGATTTATGGCGTGACACGCTGAGT-ACTAGC
* * * * ** *
3105754 AGATATATGGCGTGACATGTTAAGTGGTACC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* *
3105785 AGATTTAGGGCGTG-CGACGCTGAGTACTAAC
1 AGATTTATGGCGTGAC-ACGCTGAGTACTAGC
* *
3105816 AGATTTATAAG-GTGACACGCTGAATACTAGC
1 AGATTTAT-GGCGTGACACGCTGAGTACTAGC
* * * * ** *
3105847 AAATATATAGCGTGACACACTGAGTGGTACC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * *
3105878 AGATTTAGGGCATGTA-ACGCTAAGTACTAGC
1 AGATTTATGGCGTG-ACACGCTGAGTACTAGC
* * *
3105909 AGATTTATGGGGTGACACACTAAGTACTAGC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * *
3105940 AGATATATGGCGTGACACGCTGAGTGGC-ACC
1 AGATTTATGGCGTGACACGCTGAGT-ACTAGC
* * * * *
3105971 AGATTTAGGGCATCACACGTTAAGTACTAGC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * * *
3106002 ATATTTATGGCATGACATGCTGAATACTAGC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * * ** *
3106033 ATATATATGACGTGACACGCTGAGTGGTACC
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
* * * * * *
3106064 AGATTTAGGGCATCACACGTTGAATACTAGT
1 AGATTTATGGCGTGACACGCTGAGTACTAGC
*
3106095 AAATTTAT
1 AGATTTAT
3106103 TAGATCACAT
Statistics
Matches: 584, Mismatches: 166, Indels: 66
0.72 0.20 0.08
Matches are distributed among these distances:
29 4 0.01
30 15 0.03
31 544 0.93
32 18 0.03
33 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (31 bp):
AGATTTATGGCGTGACACGCTGAGTACTAGC
Found at i:3108230 original size:20 final size:19
Alignment explanation
Indices: 3108198--3108235 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3108188 TGTTAAGTGA
3108198 TTAATTTAAGTTATTTTAG
1 TTAATTTAAGTTATTTTAG
*
3108217 TTAATTTTAGGTTATTTTA
1 TTAA-TTTAAGTTATTTTA
3108236 TTTTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (19 bp):
TTAATTTAAGTTATTTTAG
Found at i:3108891 original size:12 final size:12
Alignment explanation
Indices: 3108867--3108913 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
3108857 CAGAGATTTT
3108867 GAGGCAG-AAGA
1 GAGGCAGCAAGA
3108878 GAGGCAGCAAGA
1 GAGGCAGCAAGA
3108890 GAGGCAGCAA-A
1 GAGGCAGCAAGA
3108901 GGAGGCAGCAAGA
1 -GAGGCAGCAAGA
3108914 AACTATTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.24
12 24 0.73
13 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.43, T:0.00
Consensus pattern (12 bp):
GAGGCAGCAAGA
Found at i:3111352 original size:31 final size:31
Alignment explanation
Indices: 3111317--3111489 Score: 238
Period size: 31 Copynumber: 5.6 Consensus size: 31
3111307 AGAAAGAAAT
* **
3111317 AAATGTTGTTACACACCATAAATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* *
3111348 AAATGTTGTTACATGCCATGCATATCAAGAA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*
3111379 AAATGTTGTTACACGGCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* *
3111410 AAATGTTGTTACACGTCATGCATATCAAATA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
* **
3111441 AAATATTGTTATGCGCCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTA
*
3111472 AAATGTTGTTACATGCCA
1 AAATGTTGTTACACGCCA
3111490 ACATTGACAC
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 123 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (31 bp):
AAATGTTGTTACACGCCATGCATATCAAGTA
Found at i:3112240 original size:45 final size:46
Alignment explanation
Indices: 3112097--3112346 Score: 225
Period size: 47 Copynumber: 5.4 Consensus size: 46
3112087 CATGTTCAGG
* * * *
3112097 CCATGGCGT-TCGACACACTCTAAAGCTTGGCGTGTCATAGATTCCTT
1 CCATGGCGTGTC-ACAAACTCTAAA-CCTGGCGTGTCACAGATTCCCT
* *
3112144 CCATGGCGTGTCACACACTCTAAACCCTGGTGTGTCACAGATTCCCT
1 CCATGGCGTGTCACAAACTCTAAA-CCTGGCGTGTCACAGATTCCCT
* * *
3112191 CCATGGCATTTCACAAACTCTAAA-CTGGCATGTCACAGATTCCCT
1 CCATGGCGTGTCACAAACTCTAAACCTGGCGTGTCACAGATTCCCT
* * *** * *
3112236 CCATGGTGTGTCACAAACTCTGAACCCTCTTGTGTTAAAGATTCCCT
1 CCATGGCGTGTCACAAACTCT-AAACCTGGCGTGTCACAGATTCCCT
* * * * * ** *
3112283 ACATGGCATGTCATAAATTTTAAACCCTGATGTGTCATAGATTCCCT
1 CCATGGCGTGTCACAAACTCTAAA-CCTGGCGTGTCACAGATTCCCT
3112330 CCATGGCGTGTCACAAA
1 CCATGGCGTGTCACAAA
3112347 GAGAGGGTAG
Statistics
Matches: 165, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
45 37 0.22
46 4 0.02
47 122 0.74
48 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
CCATGGCGTGTCACAAACTCTAAACCTGGCGTGTCACAGATTCCCT
Found at i:3112250 original size:92 final size:93
Alignment explanation
Indices: 3112113--3112346 Score: 281
Period size: 92 Copynumber: 2.5 Consensus size: 93
3112103 CGTTCGACAC
* * * *
3112113 ACTCTAAAGCTTGGCGTGTCATAGATTCCTTCCATGGCGTGTCACACACTCTAAACCCTGGTGTG
1 ACTCTAAA-CCTGGCGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTAAACCCTCGTGTG
* * *
3112178 TCACAGATTCCCTCCATGGCATTTCACAA
65 TCAAAGATTCCCTACATGGCATGTCACAA
* * * * *
3112207 ACTCTAAA-CTGGCATGTCACAGATTCCCTCCATGGTGTGTCACAAACTCTGAACCCTCTTGTGT
1 ACTCTAAACCTGGCGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTAAACCCTCGTGTGT
* *
3112271 TAAAGATTCCCTACATGGCATGTCATAA
66 CAAAGATTCCCTACATGGCATGTCACAA
* * **
3112299 ATTTTAAACCCTGATGTGTCATAGATTCCCTCCATGGCGTGTCACAAA
1 ACTCTAAA-CCTGGCGTGTCATAGATTCCCTCCATGGCGTGTCACAAA
3112347 GAGAGGGTAG
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
92 76 0.65
94 41 0.35
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (93 bp):
ACTCTAAACCTGGCGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTAAACCCTCGTGTGT
CAAAGATTCCCTACATGGCATGTCACAA
Found at i:3113346 original size:15 final size:16
Alignment explanation
Indices: 3113318--3113350 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3113308 CTTGTGGATG
*
3113318 ATGCAATTTGCTTTTA
1 ATGCAATTTACTTTTA
3113334 ATGC-ATTTACTTTTA
1 ATGCAATTTACTTTTA
3113349 AT
1 AT
3113351 TTAGGTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (16 bp):
ATGCAATTTACTTTTA
Found at i:3116940 original size:62 final size:63
Alignment explanation
Indices: 3116836--3117061 Score: 206
Period size: 63 Copynumber: 3.6 Consensus size: 63
3116826 ATTTGGGATG
* * * * * * * *
3116836 AAGAAGAATT-AATGTCTTAAGAATGCAAAGATTGATTTTTAAAACACATAATTCTCCAAAGAC
1 AAGAAGAATTGACT-TCTCAAGAATGCAAAGATTGATTCTTAAAAAACAAAATGCTACAGAGAC
* * **
3116899 AAAAAGAATTGACTTCTCAAGAA-GCAAAGATTGATTCTTAAAAAACAAAATGCTATAGAGGT
1 AAGAAGAATTGACTTCTCAAGAATGCAAAGATTGATTCTTAAAAAACAAAATGCTACAGAGAC
** * * * * * *
3116961 AAGAAGAATTGACTTCTCAAGAATGCATTGATCGATTCTTATAAGACAGAATGCTTCAGACAC
1 AAGAAGAATTGACTTCTCAAGAATGCAAAGATTGATTCTTAAAAAACAAAATGCTACAGAGAC
* * * *
3117024 AAGAAGAATTGATTTCTCGAGAA-GAAAAGGTTGATTCT
1 AAGAAGAATTGACTTCTCAAGAATGCAAAGATTGATTCT
3117062 CAAGCTCTAA
Statistics
Matches: 130, Mismatches: 31, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
62 62 0.48
63 66 0.51
64 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (63 bp):
AAGAAGAATTGACTTCTCAAGAATGCAAAGATTGATTCTTAAAAAACAAAATGCTACAGAGAC
Found at i:3116983 original size:125 final size:125
Alignment explanation
Indices: 3116836--3117061 Score: 274
Period size: 125 Copynumber: 1.8 Consensus size: 125
3116826 ATTTGGGATG
* * * * * *
3116836 AAGAAGAATTAATGTCTTAAGAATGCAAAGATTGATTTTTAAAACACATAATTCTCCAAAGACAA
1 AAGAAGAATTAATGTCTCAAGAATGCAAAGATCGATTCTTAAAACACAGAATGCTCCAAACACAA
*
3116901 AAAGAATTGACTTCTCAAGAAGCAAAGATTGATTCTTAAAAAACAAAATGCTATAGAGGT
66 AAAGAATTGACTTCTCAAGAAGAAAAGATTGATTCTTAAAAAACAAAATGCTATAGAGGT
* ** * * * *
3116961 AAGAAGAATTGACT-TCTCAAGAATGCATTGATCGATTCTTATAAGACAGAATGCTTCAGACACA
1 AAGAAGAATT-AATGTCTCAAGAATGCAAAGATCGATTCTTAAAACACAGAATGCTCCAAACACA
* * * *
3117025 AGAAGAATTGATTTCTCGAGAAGAAAAGGTTGATTCT
65 AAAAGAATTGACTTCTCAAGAAGAAAAGATTGATTCT
3117062 CAAGCTCTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
125 80 0.98
126 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (125 bp):
AAGAAGAATTAATGTCTCAAGAATGCAAAGATCGATTCTTAAAACACAGAATGCTCCAAACACAA
AAAGAATTGACTTCTCAAGAAGAAAAGATTGATTCTTAAAAAACAAAATGCTATAGAGGT
Found at i:3119034 original size:73 final size:73
Alignment explanation
Indices: 3118915--3119088 Score: 228
Period size: 73 Copynumber: 2.4 Consensus size: 73
3118905 AGGCAAACTG
* * * *
3118915 AGAGACAGAGAAC-ACTTAATCGAGTAAGAAGTTTTGTTAGTCGACTAAG-ACGTTACTGCTAGA
1 AGAGACAGA-AACAACTTAATCGACTAAAAAGTTTTGTTAGTCGACTAAGAAC-CTACTGCCAGA
* *
3118978 AACTGGGTTT
64 AACTAGGTTC
3118988 AGAGACAGAAACAACTTAATCGACTAAAAAGTTTTGTTAGTCGACTAAGAACCTACTGCCAGAAA
1 AGAGACAGAAACAACTTAATCGACTAAAAAGTTTTGTTAGTCGACTAAGAACCTACTGCCAGAAA
3119053 CTAGGTTC
66 CTAGGTTC
* *
3119061 AGAGTCA-AAGGCAACTTAATCGACTAAA
1 AGAGACAGAA-ACAACTTAATCGACTAAA
3119089 TAGCAATATT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
72 5 0.06
73 83 0.92
74 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (73 bp):
AGAGACAGAAACAACTTAATCGACTAAAAAGTTTTGTTAGTCGACTAAGAACCTACTGCCAGAAA
CTAGGTTC
Found at i:3119101 original size:73 final size:74
Alignment explanation
Indices: 3118915--3119110 Score: 193
Period size: 73 Copynumber: 2.7 Consensus size: 74
3118905 AGGCAAACTG
* * *** * * *
3118915 AGAGACAGAGAAC-ACTTAATCGAGTAAGAAGTTTTGTTAGTCGACTAAG-ACGTTACTGCTAGA
1 AGAGACAGA-AACAACTTAATCGACTAAAAAGCAATATTAGTCGACTAAGAACGCTACTGCCAGA
* *
3118978 AACTGGGTTT
65 AACTAGGTTC
*** *
3118988 AGAGACAGAAACAACTTAATCGACTAAAAAGTTTTGTTAGTCGACTAAGAAC-CTACTGCCAGAA
1 AGAGACAGAAACAACTTAATCGACTAAAAAGCAATATTAGTCGACTAAGAACGCTACTGCCAGAA
3119052 ACTAGGTTC
66 ACTAGGTTC
* * *
3119061 AGAGTCA-AAGGCAACTTAATCGACTAAATAGCAATATTAGTCGACTAAGA
1 AGAGACAGAA-ACAACTTAATCGACTAAAAAGCAATATTAGTCGACTAAGA
3119111 GCATTCTGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
72 5 0.05
73 100 0.93
74 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (74 bp):
AGAGACAGAAACAACTTAATCGACTAAAAAGCAATATTAGTCGACTAAGAACGCTACTGCCAGAA
ACTAGGTTC
Found at i:3120615 original size:18 final size:18
Alignment explanation
Indices: 3120582--3120626 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3120572 TGAAACTTAA
3120582 AAAAGAG-GAAGACAAAG
1 AAAAGAGAGAAGACAAAG
* *
3120599 ACAAGAGAGAAGCCAAAG
1 AAAAGAGAGAAGACAAAG
3120617 AAAAGA-AGAA
1 AAAAGAGAGAA
3120627 AAACAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.64, C:0.09, G:0.27, T:0.00
Consensus pattern (18 bp):
AAAAGAGAGAAGACAAAG
Found at i:3126646 original size:14 final size:14
Alignment explanation
Indices: 3126629--3126661 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3126619 AGACTAAGCT
3126629 AAAAAG-AAAGCAGC
1 AAAAAGCAAAGCA-C
3126643 AAAAAGCAAAGCAC
1 AAAAAGCAAAGCAC
3126657 AAAAA
1 AAAAA
3126662 CCAGTAGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.70, C:0.15, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGCAAAGCAC
Found at i:3132628 original size:20 final size:21
Alignment explanation
Indices: 3132595--3132635 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3132585 AAAAATATAT
3132595 ATGAATTTTCTTAAATAATTA
1 ATGAATTTTCTTAAATAATTA
* *
3132616 ATGAGTTTT-TTAAATTATTA
1 ATGAATTTTCTTAAATAATTA
3132636 TGTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
ATGAATTTTCTTAAATAATTA
Found at i:3132712 original size:2 final size:2
Alignment explanation
Indices: 3132705--3132733 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3132695 AATTACATTC
3132705 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 A
3132734 CACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3132738 original size:2 final size:2
Alignment explanation
Indices: 3132733--3132761 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3132723 ATATATATAT
3132733 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3132762 TATATTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3152739 original size:2 final size:2
Alignment explanation
Indices: 3152734--3152772 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3152724 GAAGACACAC
3152734 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3152773 CCTCGAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3154922 original size:63 final size:63
Alignment explanation
Indices: 3154845--3154963 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 63
3154835 ATCTTTCTCT
* * * *
3154845 CTCAACTCTGTGAACTATATCAACTCTGTTAACTCTTTGTTAAGCACCATTGTCATTAGGTCG
1 CTCAACTCTCTGAACTATATCAACTCTGTCAACTCTCTGTTAAGCACCATCGTCATTAGGTCG
* * * * *
3154908 CTCAACTCTCTGAACTGTATGAGCTCTGTCAACTCTCTGTTGAGCACTATCGTCAT
1 CTCAACTCTCTGAACTATATCAACTCTGTCAACTCTCTGTTAAGCACCATCGTCAT
3154964 CGTGCTGTGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 47 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (63 bp):
CTCAACTCTCTGAACTATATCAACTCTGTCAACTCTCTGTTAAGCACCATCGTCATTAGGTCG
Found at i:3155193 original size:22 final size:22
Alignment explanation
Indices: 3155152--3155193 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3155142 CATAAAGCAG
* **
3155152 ATGGTGTGTAACATTTTTGAGC
1 ATGGCGTGTAACATAGTTGAGC
3155174 ATGGCGTGTAACATAGTTGA
1 ATGGCGTGTAACATAGTTGA
3155194 AAACTGGGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.36
Consensus pattern (22 bp):
ATGGCGTGTAACATAGTTGAGC
Found at i:3156616 original size:23 final size:23
Alignment explanation
Indices: 3156590--3156670 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
3156580 GGGTGAGACA
*
3156590 CCATGCCCCAGATGGGTGACATG
1 CCATGCCCCAGATGGGTGACAAG
* ** * *
3156613 CCATGCCCTATTTGAGTGACACG
1 CCATGCCCCAGATGGGTGACAAG
* *
3156636 ACATGCCCCAG-TCAGGTGACAAG
1 CCATGCCCCAGAT-GGGTGACAAG
3156659 CCATGCCCCAGA
1 CCATGCCCCAGA
3156671 CNNNNNNNNN
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
22 1 0.02
23 43 0.98
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (23 bp):
CCATGCCCCAGATGGGTGACAAG
Found at i:3156619 original size:46 final size:46
Alignment explanation
Indices: 3156568--3156850 Score: 153
Period size: 46 Copynumber: 6.2 Consensus size: 46
3156558 AGTGACACTA
* * * *
3156568 CATGCCCTAGTCGGGTGAGAC-ACCATGCCCCAGAT-GGGTGACATGC
1 CATGCCCTAGTCGAGTGACACGA-CATGCCCCAG-TCAGGTGACAAGC
* *
3156614 CATGCCCTATTTGAGTGACACGACATGCCCCAGTCAGGTGACAAGC
1 CATGCCCTAGTCGAGTGACACGACATGCCCCAGTCAGGTGACAAGC
* * *********** * *
3156660 CATGCCCCAGACNNNNNNNNNNCCATGCCCCATTC-GAGTGACACGC
1 CATGCCCTAGTCGAGTGACACGACATGCCCCAGTCAG-GTGACAAGC
** * * *
3156706 CACACCCCATTCGAGTGACACGACATGCCCCTGT-AGGGTGACAAGC
1 CATGCCCTAGTCGAGTGACACGACATGCCCCAGTCA-GGTGACAAGC
* * * * *
3156752 CATGCCCCAGTCGAGTGACACGACATGCCTCATTCGGGTGACAATC
1 CATGCCCTAGTCGAGTGACACGACATGCCCCAGTCAGGTGACAAGC
* * * * * *
3156798 CATGCCCCATTCGAGTGACACGCCTTGCCCTAGTCGGGTGA-ATAGC
1 CATGCCCTAGTCGAGTGACACGACATGCCCCAGTCAGGTGACA-AGC
3156844 CATGCCC
1 CATGCCC
3156851 CAGACAGGTG
Statistics
Matches: 174, Mismatches: 56, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
45 3 0.02
46 169 0.97
47 2 0.01
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.17
Consensus pattern (46 bp):
CATGCCCTAGTCGAGTGACACGACATGCCCCAGTCAGGTGACAAGC
Found at i:3156654 original size:69 final size:69
Alignment explanation
Indices: 3156514--3156670 Score: 194
Period size: 69 Copynumber: 2.3 Consensus size: 69
3156504 GATACATGGT
* * * *
3156514 GTGACACAACATGCCCGA-ATGTGGTGACAAGCAATGCCCATTCGAGTGACACTACATGCCCTAG
1 GTGACACACCATGCCCCAGATGTGGTGACAAGCAATGCCCATTCGAGTGACACGACATGCCCCAG
*
3156578 TCGG
66 TCAG
* * * *
3156582 GTGAGACACCATGCCCCAGATG-GGTGACATGCCATGCCCTATTTGAGTGACACGACATGCCCCA
1 GTGACACACCATGCCCCAGATGTGGTGACAAGCAATGCCC-ATTCGAGTGACACGACATGCCCCA
3156646 GTCAG
65 GTCAG
3156651 GTGACA-AGCCATGCCCCAGA
1 GTGACACA-CCATGCCCCAGA
3156671 CNNNNNNNNN
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 31 0.41
69 45 0.59
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (69 bp):
GTGACACACCATGCCCCAGATGTGGTGACAAGCAATGCCCATTCGAGTGACACGACATGCCCCAG
TCAG
Found at i:3156713 original size:23 final size:23
Alignment explanation
Indices: 3156682--3156943 Score: 172
Period size: 23 Copynumber: 11.4 Consensus size: 23
3156672 NNNNNNNNNN
3156682 CCATGCCCCATTCGAGTGACACG
1 CCATGCCCCATTCGAGTGACACG
**
3156705 CCACACCCCATTCGAGTGACACG
1 CCATGCCCCATTCGAGTGACACG
* * * *
3156728 ACATGCCCC-TGTAGGGTGACAAG
1 CCATGCCCCAT-TCGAGTGACACG
*
3156751 CCATGCCCCAGTCGAGTGACACG
1 CCATGCCCCATTCGAGTGACACG
* * * **
3156774 ACATGCCTCATTCGGGTGACAAT
1 CCATGCCCCATTCGAGTGACACG
3156797 CCATGCCCCATTCGAGTGACACG
1 CCATGCCCCATTCGAGTGACACG
* * * * *
3156820 CCTTGCCCTAGTCGGGTGA-ATAG
1 CCATGCCCCATTCGAGTGACA-CG
** **
3156843 CCATGCCCCAGAC-AGGTGACAAT
1 CCATGCCCCATTCGA-GTGACACG
* *
3156866 CCATGCCCCATTCGAATGACATG
1 CCATGCCCCATTCGAGTGACACG
* * * * * *
3156889 TCATGCCCTAGTCGGGTAACAAG
1 CCATGCCCCATTCGAGTGACACG
* * *
3156912 CCATGCCCAATGCG-GTGACACA
1 CCATGCCCCATTCGAGTGACACG
*
3156934 ACATGCCCCA
1 CCATGCCCCA
3156944 GTGACGTGAC
Statistics
Matches: 178, Mismatches: 55, Indels: 13
0.72 0.22 0.05
Matches are distributed among these distances:
22 15 0.08
23 161 0.90
24 2 0.01
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.18
Consensus pattern (23 bp):
CCATGCCCCATTCGAGTGACACG
Found at i:3156816 original size:69 final size:69
Alignment explanation
Indices: 3156682--3156919 Score: 210
Period size: 69 Copynumber: 3.4 Consensus size: 69
3156672 NNNNNNNNNN
* ** * *** * *
3156682 CCATGCCCCATTCGAGTGACACGCCACACCCCATTCGAGTGACACGACATGCCCC-TGTAGGGTG
1 CCATGCCCCAGTCGAGTGACACGCCATGCCCCATTCGGGTGACAATCCATGCCCCAT-TCGAGTG
3156746 ACAAG
65 ACAAG
* *
3156751 CCATGCCCCAGTCGAGTGACACGACATGCCTCATTCGGGTGACAATCCATGCCCCATTCGAGTGA
1 CCATGCCCCAGTCGAGTGACACGCCATGCCCCATTCGGGTGACAATCCATGCCCCATTCGAGTGA
*
3156816 CACG
66 CAAG
* * * * ** * *
3156820 CCTTGCCCTAGTCGGGTGA-ATAGCCATGCCCCAGACAGGTGACAATCCATGCCCCATTCGAATG
1 CCATGCCCCAGTCGAGTGACA-CGCCATGCCCCATTCGGGTGACAATCCATGCCCCATTCGAGTG
*
3156884 ACATG
65 ACAAG
* * * * *
3156889 TCATGCCCTAGTCGGGTAACAAGCCATGCCC
1 CCATGCCCCAGTCGAGTGACACGCCATGCCC
3156920 AATGCGGTGA
Statistics
Matches: 140, Mismatches: 26, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
68 1 0.01
69 137 0.98
70 2 0.01
ACGTcount: A:0.24, C:0.34, G:0.23, T:0.18
Consensus pattern (69 bp):
CCATGCCCCAGTCGAGTGACACGCCATGCCCCATTCGGGTGACAATCCATGCCCCATTCGAGTGA
CAAG
Found at i:3160415 original size:187 final size:187
Alignment explanation
Indices: 3160199--3160585 Score: 573
Period size: 187 Copynumber: 2.1 Consensus size: 187
3160189 NNNNNNNNNN
* ** *
3160199 CCATACATAACAAGTAAAAGGTAGTGACACGTCATGCATAACAAGTA-AAAGGTGGTGACACGCC
1 CCATGCATAACAAGTAAAAGGTAGTGACACACCATGCATAACAAG-ACAAAGGTGGTGACACACC
* * **
3160263 ATGCATAATAAGTA-AAAGGTAGTGACACGCCAT-CTATAACAAGTAAAAGGTGGTGGCATGCCA
65 ATGCATAATAAG-ACAAAGATAGTGACACGCCATGC-ATAACAAGTAAAAGGTGGTGACACACCA
* * *
3160326 TGCATAACAAGTAAAAAGGTTGTGACACGCCATGCATAAGAAGTAAAAAGTCGTGACATG
128 TGCATAACAAGTAAAAAGGTTGTGACACACCATGCATAACAAGTAAAAAGTCGTGACAGG
*
3160386 CCATGCATAACAAGTAAAAGGTGGTGACACACCATGCATAACAAGACAAAGGTGGTGACACACCA
1 CCATGCATAACAAGTAAAAGGTAGTGACACACCATGCATAACAAGACAAAGGTGGTGACACACCA
* * *
3160451 TGCATAATAAGACAAAGATGGTGACACGCCATGCATAATAGGTAAAAGGTGGTGACACACCATGC
66 TGCATAATAAGACAAAGATAGTGACACGCCATGCATAACAAGTAAAAGGTGGTGACACACCATGC
* *
3160516 ATAACAAGTAAAAAGGTTGTGACACACCATGCATAACAAGTCAAATGTCGTGACAGG
131 ATAACAAGTAAAAAGGTTGTGACACACCATGCATAACAAGTAAAAAGTCGTGACAGG
3160573 CCATGCATAACAA
1 CCATGCATAACAA
3160586 TTCAAATGTC
Statistics
Matches: 180, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
186 2 0.01
187 177 0.98
188 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (187 bp):
CCATGCATAACAAGTAAAAGGTAGTGACACACCATGCATAACAAGACAAAGGTGGTGACACACCA
TGCATAATAAGACAAAGATAGTGACACGCCATGCATAACAAGTAAAAGGTGGTGACACACCATGC
ATAACAAGTAAAAAGGTTGTGACACACCATGCATAACAAGTAAAAAGTCGTGACAGG
Found at i:3160599 original size:31 final size:31
Alignment explanation
Indices: 3160078--3160585 Score: 522
Period size: 31 Copynumber: 16.3 Consensus size: 31
3160068 NGACTGCATC
* *
3160078 TGCAAAACAAG-ACAAAGGTGGTGACACGCTA
1 TGCATAACAAGTA-AAAGGTGGTGACACGCCA
* * *
3160109 TGCATAACAAGCAAAAGGTAGTGGCACGCCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
* * **
3160140 TGCAAAATAAGTAAAAGGTAATGACACGCCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
**********
3160171 TGCATAACAAG-ACAAAGGNNNNNNNNNNCCA
1 TGCATAACAAGTA-AAAGGTGGTGACACGCCA
* * *
3160202 TACATAACAAGTAAAAGGTAGTGACACGTCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
3160233 TGCATAACAAGTAAAAGGTGGTGACACGCCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
* *
3160264 TGCATAATAAGTAAAAGGTAGTGACACGCCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
* *
3160295 T-CTATAACAAGTAAAAGGTGGTGGCATGCCA
1 TGC-ATAACAAGTAAAAGGTGGTGACACGCCA
*
3160326 TGCATAACAAGTAAAAAGGTTGTGACACGCCA
1 TGCATAACAAGT-AAAAGGTGGTGACACGCCA
* * * *
3160358 TGCATAAGAAGTAAAAAGTCGTGACATGCCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
*
3160389 TGCATAACAAGTAAAAGGTGGTGACACACCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
*
3160420 TGCATAACAAG-ACAAAGGTGGTGACACACCA
1 TGCATAACAAGTA-AAAGGTGGTGACACGCCA
* *
3160451 TGCATAATAAG-ACAAAGATGGTGACACGCCA
1 TGCATAACAAGTA-AAAGGTGGTGACACGCCA
* * *
3160482 TGCATAATAGGTAAAAGGTGGTGACACACCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
* *
3160513 TGCATAACAAGTAAAAAGGTTGTGACACACCA
1 TGCATAACAAGT-AAAAGGTGGTGACACGCCA
* * * *
3160545 TGCATAACAAGTCAAATGTCGTGACAGGCCA
1 TGCATAACAAGTAAAAGGTGGTGACACGCCA
3160576 TGCATAACAA
1 TGCATAACAA
3160586 TTCAAATGTC
Statistics
Matches: 400, Mismatches: 68, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
30 3 0.01
31 336 0.84
32 61 0.15
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.17
Consensus pattern (31 bp):
TGCATAACAAGTAAAAGGTGGTGACACGCCA
Found at i:3161222 original size:47 final size:47
Alignment explanation
Indices: 3161171--3161689 Score: 436
Period size: 47 Copynumber: 11.2 Consensus size: 47
3161161 TTTCGTTGCA
* * * *
3161171 GTGTCACCAACTCTGAACACTAGCATCTCACAGATTCCCTCCATGGT
1 GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
* * *
3161218 GTGTCACAAACCCTGAAC-CCAGTCGTGTCACAGATTTCCTCCATGGC
1 GTGTCACAAACTCTGAACACTAG-CGTGTCACAGATTCCCTCCATGGC
* * * * * * *
3161265 ATGTCACAAACTCTGAATACTATCGTGTCACAAATTTCATCCATGCC
1 GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
* * * * **
3161312 GTGT--CAAACTCTGAACTCTGGTGTGTCACAGATT-CCT--AAGTTT
1 GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATG-GC
* ** * * *
3161355 GTGTCACCAACTCTGAACACGGGTGTGTCATAGATTCCCTACATGGC
1 GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
* * * * *
3161402 GTGTCACAAAC-CATAAACCCT-GCCTGTCACAGATTTCCTCCATGCC
1 GTGTCACAAACTC-TGAACACTAGCGTGTCACAGATTCCCTCCATGGC
*
3161448 GTGT--CAAACTCTGAACTCTAGCGTGTCACAGATTCCCTCCAT-GC
1 GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
* * *
3161492 TGTGTCACTAACTCTGAACACTAGCATGTCATAGATTCCCTCCATGGC
1 -GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
* * * *
3161540 GTGTCACAATCCCTGAACCCTACCGTGTCACAGATTCCCTCCATGGC
1 GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
* * * * ** *
3161587 ATGTCACAAACTTTGAATACTATCGTGTCACAGATTCTATCCATGTC
1 GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
* * * * *
3161634 GTGT--CAAACTCTGAAC-TTTGACGTGTCACAGATTCTCTTCATGCC
1 GTGTCACAAACTCTGAACACTAG-CGTGTCACAGATTCCCTCCATGGC
3161679 GTGTCACAAAC
1 GTGTCACAAAC
3161690 ACCGAACTCT
Statistics
Matches: 376, Mismatches: 78, Indels: 36
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 15 0.04
45 110 0.29
46 30 0.08
47 209 0.56
48 6 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
GTGTCACAAACTCTGAACACTAGCGTGTCACAGATTCCCTCCATGGC
Found at i:3161720 original size:24 final size:24
Alignment explanation
Indices: 3161682--3161734 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
3161672 TCATGCCGTG
3161682 TCACAAACACCGAACTCTAGAGTA
1 TCACAAACACCGAACTCTAGAGTA
* * *
3161706 TCACAAACTCTGAACTCTAGAGTG
1 TCACAAACACCGAACTCTAGAGTA
3161730 TCACA
1 TCACA
3161735 GATTCCCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (24 bp):
TCACAAACACCGAACTCTAGAGTA
Found at i:3173131 original size:23 final size:23
Alignment explanation
Indices: 3173105--3173182 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
3173095 AGTGCTAAAA
* *
3173105 AACTAATCACGCAATGCCTTATT
1 AACTAGTCACGCAATGCCTTACT
* *
3173128 AACTAGTCACACAATGTCTTACT
1 AACTAGTCACGCAATGCCTTACT
*
3173151 AACTAGTCACGCAGTGCC-TAGC-
1 AACTAGTCACGCAATGCCTTA-CT
3173173 AACTAGTCAC
1 AACTAGTCAC
3173183 ATAATGTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
22 12 0.26
23 35 0.74
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (23 bp):
AACTAGTCACGCAATGCCTTACT
Found at i:3173242 original size:22 final size:22
Alignment explanation
Indices: 3173214--3173268 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
3173204 ATGCAATATC
** *
3173214 TAAAAATTAGTCATGTAATGCT
1 TAAAAATTAGTCACATAATACT
* *
3173236 TAAAAATCAGTCACATAATATT
1 TAAAAATTAGTCACATAATACT
3173258 TAAAAATTAGT
1 TAAAAATTAGT
3173269 TACACAATGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (22 bp):
TAAAAATTAGTCACATAATACT
Found at i:3174096 original size:28 final size:28
Alignment explanation
Indices: 3174060--3174114 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
3174050 GATGTTGCAC
3174060 ACTTCAGTAG-AAGATGCTACACATCAAA
1 ACTTCAGTAGCAA-ATGCTACACATCAAA
* * *
3174088 ACTTTAGTAGCAAATGTTACATATCAA
1 ACTTCAGTAGCAAATGCTACACATCAA
3174115 GGTCAAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (28 bp):
ACTTCAGTAGCAAATGCTACACATCAAA
Done.