Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
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: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 1 of 33
Found at i:7235 original size:18 final size:18
Alignment explanation
Indices: 7194--7235 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7184 TTGTTTGGTC
*
7194 TATTT-TTTTAATATTAA
1 TATTTATTTTAATAGTAA
* *
7211 AAATTATTTTAATAGTAA
1 TATTTATTTTAATAGTAA
7229 TATTTAT
1 TATTTAT
7236 ATTTTATAAT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTATTTTAATAGTAA
Found at i:7270 original size:17 final size:18
Alignment explanation
Indices: 7243--7290 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7233 TATATTTTAT
*
7243 AATTAAATTTTAA-TAAA
1 AATTAATTTTTAATTAAA
*
7260 AATTATTTTTTAATTAAA
1 AATTAATTTTTAATTAAA
*
7278 TATTAATTTTTAA
1 AATTAATTTTTAA
7291 ATGGAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAATTTTTAATTAAA
Found at i:7404 original size:13 final size:15
Alignment explanation
Indices: 7367--7407 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
7357 ATTAAACACA
7367 AATAATTTAATTAATT
1 AATAATTTAATT-ATT
7383 AATAGATTTAATT-TT
1 AATA-ATTTAATTATT
7398 -ATAATTTAAT
1 AATAATTTAAT
7408 CTATAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.29
14 3 0.12
15 2 0.08
16 4 0.17
17 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATAATTTAATTATT
Found at i:7450 original size:14 final size:14
Alignment explanation
Indices: 7433--7481 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
7423 AATAATTTTA
*
7433 AAAATATAAAAATT
1 AAAATATAAAATTT
*
7447 AAAATATTAAATTT
1 AAAATATAAAATTT
7461 AATAATATAAAATTT
1 AA-AATATAAAATTT
7476 AAAATA
1 AAAATA
7482 CGTTTTTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATATAAAATTT
Found at i:7450 original size:15 final size:15
Alignment explanation
Indices: 7429--7479 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
7419 TTTTAATAAT
7429 TTTAAAAATATAAAA
1 TTTAAAAATATAAAA
* *
7444 ATT-AAAATATTAAA
1 TTTAAAAATATAAAA
*
7458 TTTAATAATATAAAA
1 TTTAAAAATATAAAA
7473 TTTAAAA
1 TTTAAAA
7480 TACGTTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAAATATAAAA
Found at i:7785 original size:15 final size:15
Alignment explanation
Indices: 7744--7784 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
7734 TTAGTTATAT
7744 AATAAATAAA--TTA
1 AATAAATAAATTTTA
*
7757 AATAATTAAATTTTA
1 AATAAATAAATTTTA
7772 AATAAAT-AATTTT
1 AATAAATAAATTTT
7785 TTATTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAAATAAATTTTA
Found at i:10660 original size:14 final size:14
Alignment explanation
Indices: 10641--10669 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10631 AAAGGTATTT
10641 TAGAATAGCTCATA
1 TAGAATAGCTCATA
10655 TAGAATAGCTCATA
1 TAGAATAGCTCATA
10669 T
1 T
10670 GATTAGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (14 bp):
TAGAATAGCTCATA
Found at i:10987 original size:33 final size:33
Alignment explanation
Indices: 10950--11015 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10940 TTAACTCCCA
10950 AAATGTTTCGGGAAGCTCTTCTCTCAATAAAAT
1 AAATGTTTCGGGAAGCTCTTCTCTCAATAAAAT
10983 AAATGTTTCGGGAAGCTCTTCTCTCAATAAAAT
1 AAATGTTTCGGGAAGCTCTTCTCTCAATAAAAT
11016 TAGTTTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (33 bp):
AAATGTTTCGGGAAGCTCTTCTCTCAATAAAAT
Found at i:15422 original size:3 final size:3
Alignment explanation
Indices: 15414--15452 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15404 AACAAATCCA
15414 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15453 CTAACGATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16123 original size:23 final size:21
Alignment explanation
Indices: 16070--16123 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
16060 TTTTAAAATT
16070 ATAATAAAA-AATTATTAATG
1 ATAATAAAATAATTATTAATG
*
16090 ATATTAAAATAATTATTTAAAT-
1 ATAATAAAATAATTA-TT-AATG
16112 ATTAATAAAATA
1 A-TAATAAAATA
16124 TTAACGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 8 0.29
21 5 0.18
22 3 0.11
23 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAATAAAATAATTATTAATG
Found at i:16255 original size:18 final size:18
Alignment explanation
Indices: 16209--16255 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
16199 TATATAAAAT
* *
16209 TTAAAATTTCATATTATA
1 TTAATATTTAATATTATA
*
16227 -TAATATGTTAATATTTTA
1 TTAATAT-TTAATATTATA
16245 TTAATATTTAA
1 TTAATATTTAA
16256 ATAAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TTAATATTTAATATTATA
Found at i:16258 original size:19 final size:20
Alignment explanation
Indices: 16222--16271 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
16212 AAATTTCATA
16222 TTATATAATATGTTAAT-ATT
1 TTAT-TAATATGTTAATAATT
16242 TTATTAATAT-TTAAATAAATT
1 TTATTAATATGTT-AAT-AATT
16263 TT-TTAATAT
1 TTATTAATAT
16272 CATTAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 11 0.41
21 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATTAATATGTTAATAATT
Found at i:18559 original size:30 final size:31
Alignment explanation
Indices: 18525--18611 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 31
18515 AATAAAACTC
18525 AAATAAAAATAATTAATAATTAA-TAATTTT
1 AAATAAAAATAATTAATAATTAATTAATTTT
* *
18555 AAATAAAAAT-TTTAAGTATTTAATTAATTTT
1 AAATAAAAATAATTAA-TAATTAATTAATTTT
18586 AATGCATAAAATATAATTAAATAATT
1 AA---ATAAAA-ATAATT-AATAATT
18612 TTATTACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
29 4 0.09
30 16 0.36
31 9 0.20
34 6 0.13
35 2 0.04
36 6 0.13
37 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (31 bp):
AAATAAAAATAATTAATAATTAATTAATTTT
Found at i:18981 original size:20 final size:20
Alignment explanation
Indices: 18956--19009 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
18946 ATTTAGAAAC
18956 TTAAATTTTAAAAAATAAAT
1 TTAAATTTTAAAAAATAAAT
* *
18976 TTAAATTTTAAAAAGTAGAT
1 TTAAATTTTAAAAAATAAAT
*
18996 TTAAAGTTTAAAAA
1 TTAAATTTTAAAAA
19010 TAGTATAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (20 bp):
TTAAATTTTAAAAAATAAAT
Found at i:19501 original size:2 final size:2
Alignment explanation
Indices: 19491--19679 Score: 130
Period size: 2 Copynumber: 103.0 Consensus size: 2
19481 AAAATTTTTT
* *
19491 TA TA T- TA TA TA TA TA TA T- TA TA TG T- TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
19530 TA TA TA T- TA TG T- TA TA TA T- TA TA T- TA -A TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
19567 TA TA AA CA -A CTA TA TA TA TA -A TA -A TA TA -A TA CTA TA -A TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
19606 TA TA -A TA TA TA -A TA TA -A TA TA TA TA GA GA GTA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
19646 TA -A TA TA -A TA TA -A TA TA TA CA TA -A 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
19680 ACATATAATA
Statistics
Matches: 152, Mismatches: 12, Indels: 46
0.72 0.06 0.22
Matches are distributed among these distances:
1 20 0.13
2 128 0.84
3 4 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:19608 original size:55 final size:58
Alignment explanation
Indices: 19522--19686 Score: 164
Period size: 58 Copynumber: 2.9 Consensus size: 58
19512 ATGTTATATT
* ** *
19522 TATATATATATATATTATGTTATATATTATATTAATATA-AATAT-ATATA-A-ACA-AC
1 TATATATATA-ATAATATAATATATAATATA-TAATATATAATATAATATATATACAGAC
* *
19577 TATATATATAATAATATAATACTATAATATATAATATATAATATAATATATATAGAGAG
1 TATATATATAATAATATAATA-TATAATATATAATATATAATATAATATATATACAGAC
* *
19636 TATATATAT-ATAATATAATATAATATATACATAATATAT-ATATAACATATA
1 TATATATATAATAATATAATAT-ATA-ATATATAATATATAATATAATATATA
19687 ATATTTTGTT
Statistics
Matches: 94, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
54 15 0.16
55 23 0.24
56 5 0.05
57 2 0.02
58 27 0.29
59 22 0.23
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (58 bp):
TATATATATAATAATATAATATATAATATATAATATATAATATAATATATATACAGAC
Found at i:19615 original size:34 final size:35
Alignment explanation
Indices: 19496--19686 Score: 150
Period size: 34 Copynumber: 5.6 Consensus size: 35
19486 TTTTTTATAT
* * * * *
19496 TATATATATATATTATATGT-TATATTTATATATA
1 TATATATATATATAATATATATATAATAATATACA
* * *
19530 TATATAT-TATGTTATATAT-TATATTAATATA-A
1 TATATATATATATAATATATATATAATAATATACA
* *
19562 -ATATATATAAACAACTATATATATAATAATATA-A
1 TATATATATATATAA-TATATATATAATAATATACA
*
19596 TACTATA-ATATATAATATATAATATAATATATATAGA
1 TA-TATATATATATAATATAT-ATATAATA-ATATACA
*
19633 GAGTATATATATATAATATA-ATATAAT-ATATACA
1 TA-TATATATATATAATATATATATAATAATATACA
*
19667 TA-ATATATATATAACATATA
1 TATATATATATATAATATATA
19687 ATATTTTGTT
Statistics
Matches: 132, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
31 6 0.05
32 19 0.14
33 27 0.20
34 31 0.23
35 15 0.11
36 16 0.12
37 6 0.05
38 12 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (35 bp):
TATATATATATATAATATATATATAATAATATACA
Found at i:19687 original size:34 final size:33
Alignment explanation
Indices: 19590--19690 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 33
19580 ATATATAATA
* *
19590 ATATAATACTATAATATATAATATATAATATAAT
1 ATATAATAATAT-ATATATAACATATAATATAAT
*
19624 ATATATAGAGAGTATATATATATA-ATATAATATAAT
1 ATATA-ATA-A-TATATATATA-ACATATAATATAAT
19660 ATATACATAATATATATATAACATATAATAT
1 ATATA-ATAATATATATATAACATATAATAT
19691 TTTGTTTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
33 1 0.02
34 24 0.41
35 3 0.05
36 26 0.45
37 4 0.07
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (33 bp):
ATATAATAATATATATATAACATATAATATAAT
Found at i:19795 original size:20 final size:19
Alignment explanation
Indices: 19770--19820 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
19760 ATATCTTGTA
19770 ATTTTTTTCGATTTTACT-TT
1 ATTTTTTTCG-TTTT-CTATT
* *
19790 ATTTTTTTAGTTTTGTATT
1 ATTTTTTTCGTTTTCTATT
19809 ATTTTTTTCGTT
1 ATTTTTTTCGTT
19821 AAGTCTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 17 0.63
20 9 0.33
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.73
Consensus pattern (19 bp):
ATTTTTTTCGTTTTCTATT
Found at i:20911 original size:9 final size:9
Alignment explanation
Indices: 20894--20929 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
20884 CTCTCTCGGG
20894 ATCCTATCA
1 ATCCTATCA
*
20903 ATCCAATCA
1 ATCCTATCA
20912 ATCCTATCA
1 ATCCTATCA
20921 ATCCTATCA
1 ATCCTATCA
20930 TTAAGATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (9 bp):
ATCCTATCA
Found at i:23363 original size:89 final size:88
Alignment explanation
Indices: 23212--23762 Score: 584
Period size: 89 Copynumber: 6.2 Consensus size: 88
23202 TTTGTCGTAT
* * * * * * **
23212 CATTAGTCAAATATTTTTTATCATATC-GGAAGAAATCTGATACCCACATATATCTGTCACATCT
1 CATTAGTCAAATATTTTATGTCGTGTCAGAAAG-AATCTGATACCCGCATGCATCTGTCACATCT
*
23276 TTCAGGTTTCAAGAAATTTATTAGG
65 TTC-GGTTTCAAAAAATTTATTAGG
* * * *
23301 CATTAGTCAAATATTTTATGTCGTGTCAGAAAGAATTTGATACCCACATCCATCTATCACATCTT
1 CATTAGTCAAATATTTTATGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
*
23366 TCGGGTTTCAAAAAATTTATTAGA
66 TC-GGTTTCAAAAAATTTATTAGG
* * * * * * ** * * *
23390 TATTAGTTAAATATTTTCTATCGTATCAAAAAGAATCTGATACTTGTATGTATTTGTCACATCTT
1 CATTAGTCAAATATTTTATGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
23455 TCGGGTTTTC-AAAAATTTATTAGG
66 TC-GG-TTTCAAAAAATTTATTAGG
* *
23479 CATTAGTCAAATATTTTATGTCGTGTTAGAAAGAATCTGATACCCGCATGCATATGTCACATCTT
1 CATTAGTCAAATATTTTATGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* *
23544 TCGGGTTCTAAGAAATTTATTAGG
66 TCGGTTTC-AAAAAATTTATTAGG
* * * * **
23568 CATTAGTCATATATTTTCTGTCGTGTCAGAAGGAACCTGATACCCGCATATATCTGTCACATCTT
1 CATTAGTCAAATATTTTATGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
23633 TCGGATTTCAAAAAATTTATTAGG
66 TCGG-TTTCAAAAAATTTATTAGG
* * * * * ** * *
23657 CATTAATTAAATATTTTATGTCGTGTAAAAAAAAATCTGATACCTTCATGCATTTGTCACATTTT
1 CATTAGTCAAATATTTTATGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
** *
23722 TCGAATTCAAAAAAATTTATTAAG
66 TCGGTTTC-AAAAAATTTATTAGG
*
23746 CGTTAGTCAAATATTTT
1 CATTAGTCAAATATTTT
23763 TTATAAAAAT
Statistics
Matches: 383, Mismatches: 73, Indels: 12
0.82 0.16 0.03
Matches are distributed among these distances:
87 3 0.01
88 5 0.01
89 364 0.95
90 11 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (88 bp):
CATTAGTCAAATATTTTATGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
TCGGTTTCAAAAAATTTATTAGG
Found at i:23696 original size:267 final size:267
Alignment explanation
Indices: 23245--23762 Score: 707
Period size: 267 Copynumber: 1.9 Consensus size: 267
23235 TATCGGAAGA
* *
23245 AATCTGATACCCACATATATCTGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCA
1 AATCTGATACCCACATACATATGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCA
** * *
23310 AATATTTTATGTCGTGTCAGAAAGAATTTGATACCCACATCCATCTATCACATCTTTCGGGTTTC
66 AATATTTTATGTCGTGTCAGAAAGAACCTGATACCCACATACATCTATCACATCTTTCGGATTTC
* * * * * *
23375 AAAAAATTTATTAGATATTAGTTAAATATTTTCTATCGTATCAAAAAGAATCTGATA-CTTGTAT
131 AAAAAATTTATTAGACATTAATTAAATATTTTATATCGTATAAAAAAAAATCTGATACCTT-CAT
* ** *** *
23439 GTATTTGTCACATCTTTCGGGTTTTCAAAAATTTATTAGGCATTAGTCAAATATTTTATGTCGTG
195 GCATTTGTCACATCTTTCGAATTCAAAAAAATTTATTAAGCATTAGTCAAATATTTTATGTCGTG
23504 TTAGAAAG
260 TTAGAAAG
* * *
23512 AATCTGATACCCGCATGCATATGTCACATCTTTC-GGGTTCTAAGAAATTTATTAGGCATTAGTC
1 AATCTGATACCCACATACATATGTCACATCTTTCAGGTTTC-AAGAAATTTATTAGGCATTAGTC
* * * * * *
23576 ATATATTTTCTGTCGTGTCAGAAGGAACCTGATACCCGCATATATCTGTCACATCTTTCGGATTT
65 AAATATTTTATGTCGTGTCAGAAAGAACCTGATACCCACATACATCTATCACATCTTTCGGATTT
* * *
23641 CAAAAAATTTATTAGGCATTAATTAAATATTTTATGTCGTGTAAAAAAAAATCTGATACCTTCAT
130 CAAAAAATTTATTAGACATTAATTAAATATTTTATATCGTATAAAAAAAAATCTGATACCTTCAT
* *
23706 GCATTTGTCACATTTTTCGAATTCAAAAAAATTTATTAAGCGTTAGTCAAATATTTT
195 GCATTTGTCACATCTTTCGAATTCAAAAAAATTTATTAAGCATTAGTCAAATATTTT
23763 TTATAAAAAT
Statistics
Matches: 216, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
266 5 0.02
267 208 0.96
268 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (267 bp):
AATCTGATACCCACATACATATGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCA
AATATTTTATGTCGTGTCAGAAAGAACCTGATACCCACATACATCTATCACATCTTTCGGATTTC
AAAAAATTTATTAGACATTAATTAAATATTTTATATCGTATAAAAAAAAATCTGATACCTTCATG
CATTTGTCACATCTTTCGAATTCAAAAAAATTTATTAAGCATTAGTCAAATATTTTATGTCGTGT
TAGAAAG
Found at i:23795 original size:7 final size:7
Alignment explanation
Indices: 23780--23936 Score: 134
Period size: 7 Copynumber: 22.4 Consensus size: 7
23770 AATAAATAAA
23780 ATATTAT
1 ATATTAT
*
23787 ATGTTAT
1 ATATTAT
23794 ATATTAT
1 ATATTAT
23801 ATA-TACT
1 ATATTA-T
23808 ATATATAT
1 ATAT-TAT
23816 ATTATTAT
1 A-TATTAT
23824 ATTATTAT
1 A-TATTAT
23832 ATATTAT
1 ATATTAT
*
23839 AAATTAT
1 ATATTAT
*
23846 -TA-AAT
1 ATATTAT
23851 -TATTAT
1 ATATTAT
23857 ATATTAT
1 ATATTAT
23864 ATATCTAT
1 ATAT-TAT
23872 -TA-TAT
1 ATATTAT
23877 ATATTTAT
1 ATA-TTAT
*
23885 ATTAATAT
1 A-TATTAT
23893 ATATTAT
1 ATATTAT
23900 ATATTAT
1 ATATTAT
23907 ATATGT-T
1 ATAT-TAT
23914 ATATGTAT
1 ATAT-TAT
23922 ATA-TAT
1 ATATTAT
23928 ATA-TAT
1 ATATTAT
23934 ATA
1 ATA
23937 ACATATAATT
Statistics
Matches: 129, Mismatches: 8, Indels: 27
0.79 0.05 0.16
Matches are distributed among these distances:
5 7 0.05
6 19 0.15
7 66 0.51
8 30 0.23
9 7 0.05
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (7 bp):
ATATTAT
Found at i:23803 original size:2 final size:2
Alignment explanation
Indices: 23791--23936 Score: 110
Period size: 2 Copynumber: 81.0 Consensus size: 2
23781 TATTATATGT
23791 TA TA TA T- TA TA TA TA CTA TA TA TA TA T- TA T- TA TA T- TA T-
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
23829 TA TA TA T- TA TA AA T- TA T- TA AA T- TA T- TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
23865 TA TC TA T- TA TA TA TA TT TA TA T- TA -A TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
23903 T- TA TA TA TG T- TA TA TG 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
23937 ACATATAATT
Statistics
Matches: 115, Mismatches: 11, Indels: 36
0.71 0.07 0.22
Matches are distributed among these distances:
1 17 0.15
2 96 0.83
3 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:23876 original size:61 final size:63
Alignment explanation
Indices: 23790--23936 Score: 191
Period size: 61 Copynumber: 2.4 Consensus size: 63
23780 ATATTATATG
*
23790 TTATATATTATATATACTATATATATAT-TATTATATTATTATATATTATAAATTATTAAATTA
1 TTATATATTATATATACTATATATATATAT-TTATATTAATATATATTATAAATTATTAAATTA
* * *
23853 TTATATATTATATAT-CTAT-TATATATATTTATATTAATATATATTATATATTA-TATA-TG
1 TTATATATTATATATACTATATATATATATTTATATTAATATATATTATAAATTATTAAATTA
*
23912 TTATAT-GTATATATA-TATATATATA
1 TTATATATTATATATACTATATATATA
23937 ACATATAATT
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
58 10 0.13
59 13 0.17
60 3 0.04
61 30 0.39
62 5 0.07
63 15 0.20
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (63 bp):
TTATATATTATATATACTATATATATATATTTATATTAATATATATTATAAATTATTAAATTA
Found at i:23923 original size:43 final size:42
Alignment explanation
Indices: 23783--23936 Score: 142
Period size: 43 Copynumber: 3.6 Consensus size: 42
23773 AAATAAAATA
*
23783 TTATATGTTATATATTATATATACTATATA-TATATTATTATATTAT
1 TTATATG-TATATA-TATAT-TAATATATATTATA-TATTATA-TAT
*
23829 TATATAT-TATAAAT-TATTAA-AT-TATTATATATTATATAT
1 T-TATATGTATATATATATTAATATATATTATATATTATATAT
* * *
23868 CTATTATATATATTTATATTAATATATATTATATATTATATAT
1 TTA-TATGTATATATATATTAATATATATTATATATTATATAT
23911 GTTATATGTATATATATA-T-ATATATA
1 -TTATATGTATATATATATTAATATATA
23937 ACATATAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
38 2 0.02
39 6 0.07
40 14 0.15
41 19 0.21
42 5 0.05
43 32 0.35
44 3 0.03
45 5 0.05
46 1 0.01
47 5 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (42 bp):
TTATATGTATATATATATTAATATATATTATATATTATATAT
Found at i:23993 original size:15 final size:15
Alignment explanation
Indices: 23973--24005 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
23963 CAAGTTCCCA
23973 ATTGAATATATATAT
1 ATTGAATATATATAT
23988 ATTGAATATATATAT
1 ATTGAATATATATAT
24003 ATT
1 ATT
24006 TAAAACATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
ATTGAATATATATAT
Found at i:24108 original size:17 final size:17
Alignment explanation
Indices: 24088--24126 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
24078 TGTTTTTTTC
24088 TTTAATTGTTT-AATTT
1 TTTAATTGTTTAAATTT
*
24104 ATTTAATTTTTTAAATTT
1 -TTTAATTGTTTAAATTT
24122 TTTAA
1 TTTAA
24127 CGTATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTAATTGTTTAAATTT
Found at i:24110 original size:9 final size:8
Alignment explanation
Indices: 24088--24159 Score: 56
Period size: 9 Copynumber: 8.6 Consensus size: 8
24078 TGTTTTTTTC
*
24088 TTTAATTG
1 TTTAATTT
24096 TTTAATTT
1 TTTAATTT
24104 ATTTAATTT
1 -TTTAATTT
24113 TTTAAATTT
1 TTT-AATTT
* *
24122 TTTAACGTA
1 TTTAA-TTT
**
24131 TAAAATTT
1 TTTAATTT
24139 TTT-ATTT
1 TTTAATTT
24146 TTTAATTT
1 TTTAATTT
24154 ATTTAA
1 -TTTAA
24160 ATAAATTATA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
7 7 0.14
8 18 0.36
9 25 0.50
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (8 bp):
TTTAATTT
Found at i:24125 original size:26 final size:25
Alignment explanation
Indices: 24088--24159 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 25
24078 TGTTTTTTTC
*
24088 TTTAATTGTTTAATTTATTTAATTT
1 TTTAATTTTTTAATTTATTTAATTT
** **
24113 TTTAAATTTTTTAACGTATAAAATTT
1 TTT-AATTTTTTAATTTATTTAATTT
24139 TTT-ATTTTTTAATTTATTTAA
1 TTTAATTTTTTAATTTATTTAA
24160 ATAAATTATA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 14 0.38
25 3 0.08
26 20 0.54
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTAATTTTTTAATTTATTTAATTT
Found at i:24689 original size:39 final size:40
Alignment explanation
Indices: 24644--24726 Score: 107
Period size: 42 Copynumber: 2.1 Consensus size: 40
24634 TTAAGTTATA
* *
24644 ATTATTTTTTA-T-TTATAATAATAAAATTTATATTAATAT
1 ATTATTTTTTATTATTATAAAAATAAAATTTATAATAAT-T
*
24683 ATTATTTTTTATTAATTATAAAAATTAAATTTATAATAATT
1 ATTATTTTTTATT-ATTATAAAAATAAAATTTATAATAATT
24724 ATT
1 ATT
24727 TTGGCTTAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 11 0.29
40 1 0.03
41 4 0.11
42 22 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (40 bp):
ATTATTTTTTATTATTATAAAAATAAAATTTATAATAATT
Found at i:25283 original size:23 final size:23
Alignment explanation
Indices: 25257--25310 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
25247 ATGATAAACT
25257 ATAAAATAAATAAATAAT-TTAAA
1 ATAAAATAAATAAA-AATATTAAA
25280 ATAAAAT--ATAAAAATATTAAA
1 ATAAAATAAATAAAAATATTAAA
25301 A-AATAATAAA
1 ATAA-AATAAA
25311 AAGTGACACG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
20 5 0.19
21 14 0.52
23 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
ATAAAATAAATAAAAATATTAAA
Found at i:25400 original size:17 final size:16
Alignment explanation
Indices: 25380--25441 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
25370 ATTAATATAT
* *
25380 AAAAATTTATATAATT
1 AAAAATATATATAATA
25396 AAAAATAATATATAATA
1 AAAAAT-ATATATAATA
25413 AAAAA-ATTATATAAATA
1 AAAAATA-TATAT-AATA
25430 AATAAATATATA
1 AA-AAATATATA
25442 AAAATATACC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 1 0.03
16 11 0.28
17 19 0.49
18 7 0.18
19 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATATATAATA
Found at i:25439 original size:16 final size:16
Alignment explanation
Indices: 25387--25443 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
25377 TATAAAAATT
*
25387 TATATAATTAAAAATAA
1 TATATAAATAAAAA-AA
25404 TATAT-AATAAAAAAA
1 TATATAAATAAAAAAA
*
25419 TTATATAAATAAATAAA
1 -TATATAAATAAAAAAA
25436 TATATAAA
1 TATATAAA
25444 AATATACCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 20 0.56
17 14 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATATAAATAAAAAAA
Found at i:25457 original size:93 final size:94
Alignment explanation
Indices: 25332--25529 Score: 215
Period size: 93 Copynumber: 2.1 Consensus size: 94
25322 TATTAAAAAT
* * * * * *
25332 AATATAATGAATATATTAAAATTTATATAAAATTAATTATTAATATATAAAAATTTATAT-AATT
1 AATA-AATAAATATATAAAAATATACATAAAATAAATTATTAACATATAAAAATTTATATAAATT
* * *
25396 AAAAATAATATAT-AATAAA-AAAATTATATA
65 --AAATAATATATGAATAAATAAAAATACAAA
* * * *
25426 AATAAATAAATATATAAAAATATACCTAAAATAAATTATTAACCTATAAGATTTTATATAAATTA
1 AATAAATAAATATATAAAAATATACATAAAATAAATTATTAACATATAAAAATTTATATAAATTA
*
25491 ATTAATATATGAATAAATAAAAATACAAA
66 AATAATATATGAATAAATAAAAATACAAA
25520 AATAAA-AAAT
1 AATAAATAAAT
25530 TTTCTCCTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
92 10 0.11
93 55 0.63
94 22 0.25
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (94 bp):
AATAAATAAATATATAAAAATATACATAAAATAAATTATTAACATATAAAAATTTATATAAATTA
AATAATATATGAATAAATAAAAATACAAA
Found at i:28642 original size:15 final size:15
Alignment explanation
Indices: 28607--28648 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
28597 TTATATTTTT
*
28607 TAATTT-ATTTTTAA
1 TAATTTAATATTTAA
28621 -AATTTTAATATTTAA
1 TAA-TTTAATATTTAA
28636 TAATTTAATATTT
1 TAATTTAATATTT
28649 TTATTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 3 0.12
15 17 0.71
16 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATTTAATATTTAA
Found at i:28659 original size:26 final size:27
Alignment explanation
Indices: 28623--28687 Score: 89
Period size: 26 Copynumber: 2.4 Consensus size: 27
28613 ATTTTTAAAA
*
28623 TTTTAATATTTAATAATTTAATAT-TT
1 TTTTAATATTTAATAATTTAACATATT
*
28649 TTATTAA-ATTTCATAATTTAACATATT
1 TT-TTAATATTTAATAATTTAACATATT
28676 TTTTAATATTTA
1 TTTTAATATTTA
28688 TATTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTAATATTTAATAATTTAACATATT
Found at i:28914 original size:18 final size:21
Alignment explanation
Indices: 28876--28914 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
28866 ATTTTTATTA
28876 AAATTTTCTTAACTATTGAAT
1 AAATTTTCTTAACTATTGAAT
28897 AAATTTT-TTAA-T-TTGAAT
1 AAATTTTCTTAACTATTGAAT
28915 GAATAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 1 0.06
20 4 0.22
21 7 0.39
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
AAATTTTCTTAACTATTGAAT
Found at i:29758 original size:20 final size:21
Alignment explanation
Indices: 29735--29774 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
29725 ATATTTAGTC
*
29735 TTTATTAAAAATTTA-ATTAT
1 TTTAATAAAAATTTATATTAT
*
29755 TTTAATATAAATTTATATTA
1 TTTAATAAAAATTTATATTA
29775 ATATATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATAAAAATTTATATTAT
Found at i:31671 original size:20 final size:20
Alignment explanation
Indices: 31646--31708 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
31636 AAATTTCATA
31646 AAAATACTCATATTTCATTG
1 AAAATACTCATATTTCATTG
** * * *
31666 AAAATA-AAAAAATT-A-TA
1 AAAATACTCATATTTCATTG
31683 AAAATACTCATATTTCATTG
1 AAAATACTCATATTTCATTG
31703 AAAATA
1 AAAATA
31709 AAAAATTATT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
17 7 0.23
18 5 0.17
19 5 0.17
20 13 0.43
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATACTCATATTTCATTG
Found at i:31688 original size:37 final size:36
Alignment explanation
Indices: 31643--31717 Score: 141
Period size: 37 Copynumber: 2.1 Consensus size: 36
31633 ATGAAATTTC
31643 ATAAAAATACTCATATTTCATTGAAAATAAAAAAATT
1 ATAAAAATACTCATATTTCATTGAAAAT-AAAAAATT
31680 ATAAAAATACTCATATTTCATTGAAAATAAAAAATT
1 ATAAAAATACTCATATTTCATTGAAAATAAAAAATT
31716 AT
1 AT
31718 TTACGCTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 10 0.26
37 28 0.74
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (36 bp):
ATAAAAATACTCATATTTCATTGAAAATAAAAAATT
Found at i:34677 original size:19 final size:20
Alignment explanation
Indices: 34648--34686 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
34638 ATAATTAAAT
*
34648 TTAATTAAAATAATTTTTTA
1 TTAATTAAAATAATATTTTA
34668 TTAATT-AAATAATATTTTA
1 TTAATTAAAATAATATTTTA
34687 AATCAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTAAAATAATATTTTA
Found at i:36265 original size:2 final size:2
Alignment explanation
Indices: 36258--36298 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
36248 TTTTCTTCTG
*
36258 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
36299 TTCTTTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.02, T:0.51
Consensus pattern (2 bp):
TC
Found at i:36640 original size:2 final size:2
Alignment explanation
Indices: 36633--36662 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36623 TGATAAACCG
36633 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36663 CCATTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:37286 original size:12 final size:12
Alignment explanation
Indices: 37269--37322 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
37259 GATGTAGAAA
37269 TAATATAATAAT
1 TAATATAATAAT
37281 TAATATAAT-A-
1 TAATATAATAAT
37291 TAATATAATAAT
1 TAATATAATAAT
* *
37303 TATTA-AAAATAT
1 TAATATAATA-AT
37315 TAATATAA
1 TAATATAA
37323 AAATATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 9 0.26
11 5 0.14
12 19 0.54
13 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATATAATAAT
Found at i:37295 original size:22 final size:23
Alignment explanation
Indices: 37268--37322 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
37258 TGATGTAGAA
*
37268 ATAATATAATAATTAAT-ATAAT
1 ATAATATAATAATTAATAAAAAT
*
37290 ATAATATAATAATTATTAAAAAT
1 ATAATATAATAATTAATAAAAAT
37313 ATTAATATAA
1 A-TAATATAA
37323 AAATATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 16 0.55
23 5 0.17
24 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAATATAATAATTAATAAAAAT
Found at i:37330 original size:16 final size:16
Alignment explanation
Indices: 37275--37335 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
37265 GAAATAATAT
37275 AATA-ATTAATATAATA
1 AATATATTAATATAA-A
* *
37291 TAATATAATAATTATTAA
1 -AATATATTAA-TATAAA
37309 AA-ATATTAATATAAA
1 AATATATTAATATAAA
37324 AATATATTAATA
1 AATATATTAATA
37336 AATTATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.19
16 15 0.41
17 6 0.16
18 5 0.14
19 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATATTAATATAAA
Found at i:37677 original size:19 final size:19
Alignment explanation
Indices: 37653--37690 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37643 GTTTTTATAC
37653 CTTAAAATCGAAGTAAAAA
1 CTTAAAATCGAAGTAAAAA
*
37672 CTTAAAATTGAAGTAAAAA
1 CTTAAAATCGAAGTAAAAA
37691 GGTAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (19 bp):
CTTAAAATCGAAGTAAAAA
Found at i:37696 original size:19 final size:19
Alignment explanation
Indices: 37655--37699 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
37645 TTTTATACCT
* *
37655 TAAAATCGAAGTAAAAACT
1 TAAAATTGAAGTAAAAACG
*
37674 TAAAATTGAAGTAAAAAGG
1 TAAAATTGAAGTAAAAACG
37693 TAAAATT
1 TAAAATT
37700 ATCAACTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.58, C:0.04, G:0.13, T:0.24
Consensus pattern (19 bp):
TAAAATTGAAGTAAAAACG
Found at i:39232 original size:43 final size:43
Alignment explanation
Indices: 39171--39258 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
39161 TTAAAAGAGC
39171 ATCAACAATTCTTGGCTATCAACAAATTCAAGGATAATTATTG
1 ATCAACAATTCTTGGCTATCAACAAATTCAAGGATAATTATTG
39214 ATCAACAATTCTTGGCTATCAACAAATTCAAGGATAATTATTG
1 ATCAACAATTCTTGGCTATCAACAAATTCAAGGATAATTATTG
39257 AT
1 AT
39259 AGAAGAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (43 bp):
ATCAACAATTCTTGGCTATCAACAAATTCAAGGATAATTATTG
Found at i:39368 original size:19 final size:19
Alignment explanation
Indices: 39320--39375 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 19
39310 CATAAATAGA
39320 TTTATTTATAAGTTAAGAT-AT
1 TTTATTTA-AA-TTAA-ATAAT
39341 TTTATTT-AATTAAATAAT
1 TTTATTTAAATTAAATAAT
39359 TTTGATTTAAATTAAAT
1 TTT-ATTTAAATTAAAT
39376 CAAATGTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.06
18 9 0.28
19 6 0.19
20 8 0.25
21 7 0.22
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTATTTAAATTAAATAAT
Found at i:39373 original size:20 final size:18
Alignment explanation
Indices: 39339--39375 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
39329 AAGTTAAGAT
39339 ATTTTATTTAATTAAATA
1 ATTTTATTTAATTAAATA
39357 ATTTTGATTTAAATTAAAT
1 ATTTT-ATTT-AATTAAAT
39376 CAAATGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTATTTAATTAAATA
Found at i:45217 original size:2 final size:2
Alignment explanation
Indices: 45206--45248 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
45196 TATATATATA
*
45206 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45248 A
1 A
45249 TGAAGCAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47863 original size:12 final size:12
Alignment explanation
Indices: 47843--47883 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
47833 TAAAAAAGGA
*
47843 TTTTCTTTTCTT
1 TTTTTTTTTCTT
47855 TTTTTTTTTCTT
1 TTTTTTTTTCTT
*
47867 TTTATTTTTCTGT
1 TTTTTTTTTCT-T
47880 TTTT
1 TTTT
47884 GAAATTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:48451 original size:19 final size:19
Alignment explanation
Indices: 48427--48474 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
48417 AGTCGAGTGG
*
48427 TATTAATTTATTTAAAAAA
1 TATTAATTTAATTAAAAAA
*
48446 TATTAA--AAATTAAAAAA
1 TATTAATTTAATTAAAAAA
48463 TATATAATTTAA
1 TAT-TAATTTAA
48475 ATATATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 6 0.26
20 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTAATTTAATTAAAAAA
Found at i:48494 original size:13 final size:14
Alignment explanation
Indices: 48478--48506 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48468 AATTTAAATA
48478 TATTTATAT-TTTT
1 TATTTATATATTTT
48491 TATTTATATATTTT
1 TATTTATATATTTT
48505 TA
1 TA
48507 AAAAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTATATATTTT
Found at i:48631 original size:22 final size:22
Alignment explanation
Indices: 48582--48641 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
48572 ATATTTTATT
*
48582 TAATATAATAAT-ATTATTCAAAA
1 TAATATAA-AATAATT-TTAAAAA
48605 T-ATATAAAATAATTTTAAAAA
1 TAATATAAAATAATTTTAAAAA
**
48626 TAATATTTAATAATTT
1 TAATATAAAATAATTT
48642 ATTTATTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 10 0.31
22 21 0.66
23 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATATAAAATAATTTTAAAAA
Found at i:51838 original size:15 final size:16
Alignment explanation
Indices: 51820--51860 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
51810 TTGACATAGG
51820 TATTTTTGATATCA-A
1 TATTTTTGATATCAGA
51835 TA-TTTTGATA-CAGA
1 TATTTTTGATATCAGA
*
51849 TGTTTTTGATAT
1 TATTTTTGATAT
51861 AGGTACCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 10 0.45
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (16 bp):
TATTTTTGATATCAGA
Found at i:52938 original size:2 final size:2
Alignment explanation
Indices: 52925--52956 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
52915 TTGAACAAGG
*
52925 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52957 TACTGCCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:54335 original size:22 final size:21
Alignment explanation
Indices: 54310--54361 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
54300 AATGTATGCA
**
54310 AAAATAAAATAAATAAATTATT
1 AAAATAAAATAAATAAAACA-T
* *
54332 AAAATAGATTAAATAAAACAT
1 AAAATAAAATAAATAAAACAT
54353 AAAATAAAA
1 AAAATAAAA
54362 ATATGATGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAATAAAATAAATAAAACAT
Found at i:54475 original size:17 final size:17
Alignment explanation
Indices: 54455--54487 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54445 TGATAATCCT
54455 AAAAATAAAAAAAATAC
1 AAAAATAAAAAAAATAC
*
54472 AAAAATAAAAATAATA
1 AAAAATAAAAAAAATA
54488 GATAGAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAAAAATAC
Found at i:56206 original size:10 final size:10
Alignment explanation
Indices: 56164--56210 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
56154 AAATAGCATG
56164 TATTTTAT-T
1 TATTTTATAT
56173 TATTTT-TAT
1 TATTTTATAT
* *
56182 TAATTTAAAT
1 TATTTTATAT
56192 ATATTTTATAT
1 -TATTTTATAT
56203 TATTTTAT
1 TATTTTAT
56211 TAATATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
8 1 0.03
9 12 0.39
10 10 0.32
11 8 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTTTATAT
Found at i:58367 original size:15 final size:16
Alignment explanation
Indices: 58349--58378 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58339 AATGATTTAA
58349 ATTTAAA-TAAATCTT
1 ATTTAAAGTAAATCTT
58364 ATTTAAAGTAAATCT
1 ATTTAAAGTAAATCT
58379 AATTCGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTTAAAGTAAATCTT
Found at i:58796 original size:22 final size:22
Alignment explanation
Indices: 58732--58798 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
58722 TTTAAATAGA
*
58732 TTTAAAT-TTAAATTT-ATATTT
1 TTTAAATATTAAATTTGAT-TAT
* *
58753 TATTAAATA-T-ATTTTGAATAT
1 T-TTAAATATTAAATTTGATTAT
58774 TTTAAATATTAAATTTGATTAT
1 TTTAAATATTAAATTTGATTAT
58796 TTT
1 TTT
58799 GATTTATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 7 0.19
21 9 0.25
22 20 0.56
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (22 bp):
TTTAAATATTAAATTTGATTAT
Found at i:58928 original size:12 final size:14
Alignment explanation
Indices: 58911--58943 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
58901 TTTAAATAAA
58911 TTTAATT-AATT-T
1 TTTAATTAAATTAT
58923 TTTAATTAAATTAT
1 TTTAATTAAATTAT
58937 TTTAATT
1 TTTAATT
58944 GACATTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 4 0.21
14 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTAAATTAT
Found at i:60167 original size:33 final size:31
Alignment explanation
Indices: 60118--60179 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 31
60108 ATTTAGTAAA
60118 TTTATAAATAATTAAAAATATATTATATTATTT
1 TTTATAAATAATTAAAAATA-ATT-TATTATTT
*
60151 TTTATATAATAA-TAAAATTAATTTATTAT
1 TTTATA-AATAATTAAAAATAATTTATTAT
60180 ATTACTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 6 0.22
32 3 0.11
33 13 0.48
34 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTATAAATAATTAAAAATAATTTATTATTT
Found at i:60178 original size:31 final size:33
Alignment explanation
Indices: 60118--60183 Score: 87
Period size: 36 Copynumber: 1.9 Consensus size: 33
60108 ATTTAGTAAA
60118 TTTATAAATAATTAAAAATATATTATATTATTT
1 TTTATAAATAATTAAAAATATATTATATTATTT
* *
60151 TTTATATAATAATAAAATTAATTTATTATATTA
1 TTTATA-AATAATTAAA--AATATATTATATTA
60184 CTTCAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 9 0.32
36 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TTTATAAATAATTAAAAATATATTATATTATTT
Found at i:60732 original size:2 final size:2
Alignment explanation
Indices: 60725--60751 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
60715 TTATTATTAT
60725 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
60752 TCCCTCTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68508 original size:15 final size:15
Alignment explanation
Indices: 68488--68532 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
68478 GTTTAATTTA
68488 ATAATAATTATATAT
1 ATAATAATTATATAT
*
68503 ATAATAATTTTATAT
1 ATAATAATTATATAT
*
68518 ATAATTAATAATATA
1 ATAA-TAATTATATA
68533 AACATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATAATTATATAT
Found at i:68606 original size:19 final size:20
Alignment explanation
Indices: 68570--68615 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
68560 ATGAACATAA
68570 AAATAAAATATATAATTAAAT
1 AAAT-AAATATATAATTAAAT
*
68591 AAATAAAT-TATCATTAAAT
1 AAATAAATATATAATTAAAT
*
68610 ATATAA
1 AAATAA
68616 TCAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 4 0.17
21 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATAAATATATAATTAAAT
Found at i:70313 original size:32 final size:30
Alignment explanation
Indices: 70276--70354 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 30
70266 AACCTAAGCT
70276 CGAAATAGCCTAAACTCAACATGAACCAAATC
1 CGAAATAGCCTAAACTCAA-AT-AACCAAATC
* * *
70308 CGAAATAGCTTAAATCTGAAATAACCGAATC
1 CGAAATAGCCTAAA-CTCAAATAACCAAATC
*
70339 CAAAATAGGCCTAAAC
1 CGAAATA-GCCTAAAC
70355 ATGAAATCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 15 0.38
32 21 0.52
33 4 0.10
ACGTcount: A:0.47, C:0.24, G:0.11, T:0.18
Consensus pattern (30 bp):
CGAAATAGCCTAAACTCAAATAACCAAATC
Found at i:70690 original size:48 final size:48
Alignment explanation
Indices: 70635--70733 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 48
70625 TTATCTATTT
*
70635 TTTTAAAATACTTGGAAGAACACTTGCTTATATACCCAAAGACTTTCC
1 TTTTAAAATACTTGGAAGAACACTTACTTATATACCCAAAGACTTTCC
* * *
70683 TTTTAAAATATTTGGCAGAACACTTATTTATATACCCAAAGACTTTCC
1 TTTTAAAATACTTGGAAGAACACTTACTTATATACCCAAAGACTTTCC
70731 TTT
1 TTT
70734 CATAAAAGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (48 bp):
TTTTAAAATACTTGGAAGAACACTTACTTATATACCCAAAGACTTTCC
Found at i:72229 original size:12 final size:12
Alignment explanation
Indices: 72214--72238 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72204 GTCGTCATGC
72214 TTTTCTTCATCT
1 TTTTCTTCATCT
72226 TTTTCTTCATCT
1 TTTTCTTCATCT
72238 T
1 T
72239 CAACATCCCA
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:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTCATCT
Found at i:78478 original size:16 final size:16
Alignment explanation
Indices: 78389--78504 Score: 62
Period size: 16 Copynumber: 7.2 Consensus size: 16
78379 TTTGATCTTG
* *
78389 AAATGATTTAAATTCA
1 AAATAATTTAAATTTA
*
78405 AAATAATTTAAACTTA
1 AAATAATTTAAATTTA
* * * *
78421 AATTTATTCT-AA-CTC
1 AAATAATT-TAAATTTA
*
78436 AAATAACTTAAA---A
1 AAATAATTTAAATTTA
*
78449 AAATTAATTCAAATTTA
1 AAA-TAATTTAAATTTA
*
78466 AAATAATTTAAATCTA
1 AAATAATTTAAATTTA
78482 AAATTAATTTAAAATTTTA
1 AAA-TAATTT-AAA-TTTA
78501 AAAT
1 AAAT
78505 TTAAGTTAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
13 3 0.04
14 8 0.11
15 8 0.11
16 35 0.47
17 11 0.15
18 4 0.05
19 6 0.08
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (16 bp):
AAATAATTTAAATTTA
Found at i:78491 original size:17 final size:17
Alignment explanation
Indices: 78448--78494 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
78438 ATAACTTAAA
* *
78448 AAAATTAATTCAAATTT
1 AAAATTAATTTAAATCT
78465 AAAA-TAATTTAAATCT
1 AAAATTAATTTAAATCT
78481 AAAATTAATTTAAA
1 AAAATTAATTTAAA
78495 ATTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTAATTTAAATCT
Found at i:78516 original size:19 final size:19
Alignment explanation
Indices: 78448--78514 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 19
78438 ATAACTTAAA
*
78448 AAAATTAA-TTCAAA-TTT
1 AAAATTAAGTTAAAATTTT
* *
78465 AAAA-TAA-TTTAAA-TCT
1 AAAATTAAGTTAAAATTTT
*
78481 AAAATTAATTTAAAATTTT
1 AAAATTAAGTTAAAATTTT
78500 AAAATTTAAGTTAAA
1 AAAA-TTAAGTTAAA
78515 TTAATTGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.34
17 7 0.17
18 5 0.12
19 6 0.15
20 9 0.22
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (19 bp):
AAAATTAAGTTAAAATTTT
Found at i:78912 original size:21 final size:21
Alignment explanation
Indices: 78888--78957 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
78878 TATAAATATA
78888 TATAATATTTATATATATTTT
1 TATAATATTTATATATATTTT
* *
78909 TATATTCATGTTATATTTATTTTT
1 TATAAT-AT-TTATATATA-TTTT
78933 TATAATA-TTATA-ATTAATTTT
1 TATAATATTTATATA-T-ATTTT
78954 TATA
1 TATA
78958 TCATATTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 19 0.47
22 3 0.08
23 9 0.22
24 9 0.22
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (21 bp):
TATAATATTTATATATATTTT
Found at i:78912 original size:23 final size:22
Alignment explanation
Indices: 78886--78979 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 22
78876 ATTATAAATA
78886 TATATAATATTTATATATATTTT
1 TATATAATA-TTATATATATTTT
* * *
78909 TATATTCATGTTATATTTATTTT
1 TATA-TAATATTATATATATTTT
78932 T-TATAATATTATA-ATTAATTTT
1 TATATAATATTATATA-T-ATTTT
* *
78954 TATATCATATTCT-TAT-TTTT
1 TATATAATATTATATATATTTT
78974 TATATA
1 TATATA
78980 TTTAAAATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
20 9 0.16
21 9 0.16
22 9 0.16
23 27 0.47
24 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (22 bp):
TATATAATATTATATATATTTT
Found at i:79136 original size:6 final size:6
Alignment explanation
Indices: 79114--79153 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
79104 GAGGAAAGAG
79114 AGAAAA A-AAAGA A-AAAA AGAAAA AGAAAA AGAAAA A-AAAA
1 AGAAAA AGAAA-A AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
79154 TTATTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 9 0.28
6 23 0.72
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:79148 original size:25 final size:24
Alignment explanation
Indices: 79107--79153 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
79097 TGGGAGTGAG
*
79107 GAAAGAGAGAAAAAAAAGAAAAAAA
1 GAAAAAGAGAAAAAAAA-AAAAAAA
*
79132 GAAAAAGA-AAAAGAAAAAAAAA
1 GAAAAAGAGAAAAAAAAAAAAAA
79154 TTATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (24 bp):
GAAAAAGAGAAAAAAAAAAAAAAA
Found at i:79291 original size:19 final size:19
Alignment explanation
Indices: 79269--79317 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
79259 TTTTTTTATA
79269 TTATATTTTAATTAATTTT
1 TTATATTTTAATTAATTTT
* **
79288 TTATATTGT-ATTCTTTTT
1 TTATATTTTAATTAATTTT
79306 TTATATATTTAA
1 TTATAT-TTTAA
79318 AATATTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 13 0.54
19 10 0.42
20 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATATTTTAATTAATTTT
Found at i:79317 original size:333 final size:344
Alignment explanation
Indices: 78899--79702 Score: 992
Period size: 333 Copynumber: 2.3 Consensus size: 344
78889 ATAATATTTA
* * * * * *
78899 TATATATTTTTATATTCATGTTATATTTA-TTTTTTATA--ATATTATAATTAA-TTTTTATATC
1 TATATGTTCTTATATTCGTGTCATATTTATTTTTTTATATTATATTTTAATTAATTTTTTATATT
* * * *
78960 ATATTCTTATTTTTTATATATTTAAAATATTATAAATTTATATTAATTTTTATATATATACATCT
66 ATATTCTT-TTTTTTATATATTTAAAATATTATAAATTTATATAAATTTTTACACACATACATCT
* *
79025 AAAATTAACTACATAAATACACGTGATGCTTA-TATTTATCATTACTTTTGAGTGTT-TTTTTTT
130 AAAATTAACTACATAAATACACGCGATGC-TAGTATTTATCATTACTTTTGAGTGTTCTCTTTTT
* * * *
79088 CAGCAGCCATGGGAGTGAGGAA-AGAG-AGAAA-AAAAAGAAAA-AAAGAA-AAAGAAAAAGA-A
194 CAACAGCCATGGGAGAGAGGAACAGAGAAAAAAGAAAAAAAAAAGAAAGAAGAAAGAAAAAGAGA
** * *
79147 AAAA-AAATTATTTATATTTATATTTGTGTT-A-TTTTTTGATTGTTTAAAATATTATACATTTA
259 AAAAGAAATTATTTATATTTATATTCATATTCAGTTTTTTGATTGTTTAAAATATTATAAATTTA
*
79209 TATAATGTTTATACATATTCT
324 TATAATGTTTACACATATTCT
* * *
79230 TATTTGTTGTTATATTTGTGTCATATTTATTTTTTTATATTATATTTTAATTAATTTTTTATATT
1 TATATGTTCTTATATTCGTGTCATATTTATTTTTTTATATTATATTTTAATTAATTTTTTATATT
* * *
79295 GTATTC-TTTTTTTATATATTTAAAATATTATAAATTTATGTAAATTTTTACACACATACATTTA
66 ATATTCTTTTTTTTATATATTTAAAATATTATAAATTTATATAAATTTTTACACACATACATCTA
* *
79359 AAATTAACTACATAAATACATGCGGTGCTAGTATTTATCATTACTTTTGAGTGTTCTCTTTTTCA
131 AAATTAACTACATAAATACACGCGATGCTAGTATTTATCATTACTTTTGAGTGTTCTCTTTTTCA
79424 ACAGCCATGGGAGAGAGGAACGAGAGAAAAAAAGAAAAAAAAAAGAAAGAAGGAAAGAAAAAGAG
196 ACAGCCATGGGAGAGAGGAAC-AGAG-AAAAAAGAAAAAAAAAAGAAAGAA-GAAAGAAAAAGAG
* * *
79489 AAAAAGGAAATTTTTTGTATTTATATTCATATTCATGTTTTTTTATTGTTTAAAATATTATAAAT
258 AAAAA-GAAATTATTTATATTTATATTCATATTCA-GTTTTTTGATTGTTTAAAATATTATAAAT
* *
79554 TTATATGATGTTTGCACATATTCT
321 TTATATAATGTTTACACATATTCT
* ** *
79578 TATATGTTCTTATATTCGTGTCATTTTTATTCTTTTTGCATTATGTTTTAATTAAATTTTTTATA
1 TATATGTTCTTATATTCGTGTCATATTTATT-TTTTTATATTATATTTTAATT-AATTTTTTATA
* * * * *
79643 TTATGTTCATGTTATTTTTCATATGTTTAAAGTACTATAAATTTATATAAAGTTTTACAC
64 TTATATTC-T-TT-TTTTT-ATATATTTAAAATATTATAAATTTATATAAATTTTTACAC
79703 GTTAATTATT
Statistics
Matches: 399, Mismatches: 47, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
331 23 0.06
332 11 0.03
333 100 0.25
334 39 0.10
335 14 0.04
336 4 0.01
338 4 0.01
339 9 0.02
340 6 0.02
342 11 0.03
343 5 0.01
345 21 0.05
346 1 0.00
348 74 0.19
349 18 0.05
350 17 0.04
353 2 0.01
354 5 0.01
355 35 0.09
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (344 bp):
TATATGTTCTTATATTCGTGTCATATTTATTTTTTTATATTATATTTTAATTAATTTTTTATATT
ATATTCTTTTTTTTATATATTTAAAATATTATAAATTTATATAAATTTTTACACACATACATCTA
AAATTAACTACATAAATACACGCGATGCTAGTATTTATCATTACTTTTGAGTGTTCTCTTTTTCA
ACAGCCATGGGAGAGAGGAACAGAGAAAAAAGAAAAAAAAAAGAAAGAAGAAAGAAAAAGAGAAA
AAGAAATTATTTATATTTATATTCATATTCAGTTTTTTGATTGTTTAAAATATTATAAATTTATA
TAATGTTTACACATATTCT
Found at i:79479 original size:19 final size:19
Alignment explanation
Indices: 79451--79498 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
79441 GAACGAGAGA
*
79451 AAAAAAGAAA-AAAAAAAG
1 AAAAAGGAAAGAAAAAAAG
*
79469 AAAGAAGGAAAGAAAAAGAG
1 AAA-AAGGAAAGAAAAAAAG
79489 AAAAAGGAAA
1 AAAAAGGAAA
79499 TTTTTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 13 0.50
20 10 0.38
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAAAGGAAAGAAAAAAAG
Found at i:79724 original size:34 final size:35
Alignment explanation
Indices: 79685--79750 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
79675 TACTATAAAT
*
79685 TTATATAAAGTTTTA-CACGTTAAT-TATTTGTTTA
1 TTATATAAA-TTTTAGCACATTAATGTATTTGTTTA
*
79719 TTATATAAATTTTAGCACATTCATGTATTTGT
1 TTATATAAATTTTAGCACATTAATGTATTTGT
79751 GTCATGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.18
34 16 0.57
35 7 0.25
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.52
Consensus pattern (35 bp):
TTATATAAATTTTAGCACATTAATGTATTTGTTTA
Found at i:80583 original size:10 final size:10
Alignment explanation
Indices: 80565--80598 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
80555 TGTAATAATT
*
80565 ATTTAATATA
1 ATTTTATATA
80575 ATTTTATATAA
1 ATTTTATAT-A
80586 ATTTTATATA
1 ATTTTATATA
80596 ATT
1 ATT
80599 ATTAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTATATA
Found at i:80604 original size:28 final size:26
Alignment explanation
Indices: 80569--80638 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
80559 ATAATTATTT
80569 AATA-TAATTTTATATAAAT-TTTATA
1 AATATTAATTTTAT-TAAATATTTATA
*
80594 TAATTATTAATTTAATTAAATATTTATA
1 -AA-TATTAATTTTATTAAATATTTATA
80622 AATATTAAATTTT-TTAA
1 AATATT-AATTTTATTAA
80639 TAGAAGTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 10 0.26
27 14 0.37
28 14 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATTAATTTTATTAAATATTTATA
Found at i:80638 original size:26 final size:26
Alignment explanation
Indices: 80573--80638 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 26
80563 TTATTTAATA
80573 TAATTTTATATAAATTTTATATAATTAT
1 TAATTTT-T-TAAATTTTATATAATTAT
*
80601 TAATTTAATTAAATATTTATA-AA-TAT
1 TAATTT-TTTAAAT-TTTATATAATTAT
80627 TAAATTTTTTAA
1 T-AATTTTTTAA
80639 TAGAAGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 8 0.24
27 12 0.36
28 13 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TAATTTTTTAAATTTTATATAATTAT
Found at i:80860 original size:15 final size:16
Alignment explanation
Indices: 80806--80873 Score: 70
Period size: 16 Copynumber: 4.2 Consensus size: 16
80796 AAAGTTATAA
*
80806 TTATATT-TAAAATATT
1 TTATATTATATAA-ATT
80822 TTATATTTATATAAATT
1 TTATA-TTATATAAATT
80839 TTA-A-TATAGTAAAATT
1 TTATATTATA-T-AAATT
80855 TTATATTATATAAATT
1 TTATATTATATAAATT
80871 TTA
1 TTA
80874 AAATATTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
14 4 0.09
15 1 0.02
16 22 0.49
17 10 0.22
18 8 0.18
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
TTATATTATATAAATT
Found at i:82019 original size:31 final size:32
Alignment explanation
Indices: 81953--82020 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
81943 TACTCTTAAT
81953 ATAATAAAAAAACTACATTAAATGAATTCAAATA
1 ATAATAAAAAAACTACATT--ATGAATTCAAATA
81987 ATAATAAAAAAACTACATT-T-AATTCAATATA
1 ATAATAAAAAAACTACATTATGAATTCAA-ATA
82018 ATA
1 ATA
82021 TTATTATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 7 0.21
31 7 0.21
34 19 0.58
ACGTcount: A:0.60, C:0.09, G:0.01, T:0.29
Consensus pattern (32 bp):
ATAATAAAAAAACTACATTATGAATTCAAATA
Found at i:83669 original size:15 final size:16
Alignment explanation
Indices: 83632--83689 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 16
83622 AAAATGATTC
*
83632 TTTAATTTTTTTAAAA
1 TTTAATTTTATTAAAA
83648 TTT--TTTTAATT-AAA
1 TTTAATTTT-ATTAAAA
83662 -TTAATTTTATTAAAA
1 TTTAATTTTATTAAAA
83677 TTTAATTTT-TTAA
1 TTTAATTTTATTAA
83690 TTTTTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
13 2 0.06
14 10 0.28
15 13 0.36
16 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAATTTTATTAAAA
Found at i:84308 original size:2 final size:2
Alignment explanation
Indices: 84301--84331 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
84291 TGACATTCAA
84301 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
84332 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:84336 original size:2 final size:2
Alignment explanation
Indices: 84331--84358 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84321 TCTCTCTCTC
84331 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
84359 ACTATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87626 original size:50 final size:50
Alignment explanation
Indices: 87572--87668 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
87562 CTGTTGGAGC
* *
87572 ATCCTCATCTCCGCC-ATGCTAATTTTTAGAATGTGTTGATACTTAGGGGA
1 ATCCTCATCTCAGCCGA-GATAATTTTTAGAATGTGTTGATACTTAGGGGA
*
87622 ATCCTCATCTCAGCCGAGATAATTTTTAGAGTGTGTTGATACTTAGG
1 ATCCTCATCTCAGCCGAGATAATTTTTAGAATGTGTTGATACTTAGG
87669 CATCACTGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 42 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (50 bp):
ATCCTCATCTCAGCCGAGATAATTTTTAGAATGTGTTGATACTTAGGGGA
Found at i:92648 original size:14 final size:13
Alignment explanation
Indices: 92626--92659 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
92616 AGAATTTTAG
92626 TTTTATTAAAATAA
1 TTTTATT-AAATAA
*
92640 TTTTGTTAAATAA
1 TTTTATTAAATAA
92653 TTTTATT
1 TTTTATT
92660 TTAGAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTTATTAAATAA
Found at i:93135 original size:18 final size:17
Alignment explanation
Indices: 93112--93151 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
93102 TAATTTATGT
*
93112 AATTATTTTATATACTAA
1 AATTATATTATATAC-AA
93130 AATTATATTATATACAA
1 AATTATATTATATACAA
93147 AATTA
1 AATTA
93152 ATGTTCTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATATTATATACAA
Found at i:94739 original size:17 final size:15
Alignment explanation
Indices: 94717--94761 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 15
94707 TTATTTAATG
94717 ATAAATTTATAATACTT
1 ATAAATTTATAA-A-TT
94734 ATAAATAATTATAAATT
1 ATAAAT--TTATAAATT
94751 ATAAATTTATA
1 ATAAATTTATA
94762 TTTTTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.19
17 14 0.54
18 1 0.04
19 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAATTTATAAATT
Found at i:94840 original size:13 final size:13
Alignment explanation
Indices: 94822--94846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94812 TCATTCTAAT
94822 TATTTATATTTTA
1 TATTTATATTTTA
94835 TATTTATATTTT
1 TATTTATATTTT
94847 TACACATAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:95212 original size:23 final size:22
Alignment explanation
Indices: 95175--95220 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
95165 TTATTACCTT
95175 ATAAAAATTTATAATATTATAAA
1 ATAAAAATTTATAAT-TTATAAA
*
95198 ATAACAAATTT-TAATTTTTAAA
1 ATAA-AAATTTATAATTTATAAA
95220 A
1 A
95221 ACAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAAAATTTATAATTTATAAA
Found at i:95325 original size:21 final size:19
Alignment explanation
Indices: 95281--95331 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
95271 ATATTTTTTA
95281 AATT-TTTTTAAAAATTAT
1 AATTATTTTTAAAAATTAT
**
95299 TTTTATTTTTAAAAATTTACT
1 AATTATTTTTAAAAA-TTA-T
95320 AATTATTTTTAA
1 AATTATTTTTAA
95332 TTACTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 10 0.38
20 3 0.12
21 11 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTATTTTTAAAAATTAT
Found at i:95650 original size:54 final size:55
Alignment explanation
Indices: 95527--95677 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 55
95517 CATATGAGAA
* * *
95527 TTAATTAGGGATGAGTAATGAGACAAATTATTCATAAAAATCTATCATGTAAGAC
1 TTAATTAAGGATGGGTAATGAGACAAATTATTCATAAAAATCTATCATGTAACAC
*
95582 TTAATTAAGGATGGGTAATGGGACAAATTATTCAT-AAAATCTATCATGTAACAC
1 TTAATTAAGGATGGGTAATGAGACAAATTATTCATAAAAATCTATCATGTAACAC
* * *
95636 TTAATTAAGTATGGGTAATGAGACAAAATCATTTATAAAAAT
1 TTAATTAAGGATGGGTAATGAGAC-AAATTATTCATAAAAAT
95678 TAACTAGAAG
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 40 0.47
55 41 0.48
56 5 0.06
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (55 bp):
TTAATTAAGGATGGGTAATGAGACAAATTATTCATAAAAATCTATCATGTAACAC
Found at i:96066 original size:23 final size:23
Alignment explanation
Indices: 96010--96071 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
96000 TTCCGTATTA
*
96010 ATAATATATTTAATA-ATTAATTAT
1 ATAA-ATATTTAATATATTAA-TAC
96034 ATAAAT-TTTAATATATTAA-AC
1 ATAAATATTTAATATATTAATAC
96055 ATAAATTATTTAATATA
1 ATAAA-TATTTAATATA
96072 ATGACCTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 6 0.18
22 8 0.24
23 16 0.47
24 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAAATATTTAATATATTAATAC
Found at i:96269 original size:18 final size:19
Alignment explanation
Indices: 96246--96283 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
96236 TTAATTCAAC
*
96246 TTTAAAATAATT-TAAAAA
1 TTTAAAAAAATTGTAAAAA
96264 TTTAAAAAAATTGTAAAAA
1 TTTAAAAAAATTGTAAAAA
96283 T
1 T
96284 GGGTAGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTAAAAAAATTGTAAAAA
Found at i:97763 original size:19 final size:19
Alignment explanation
Indices: 97728--97770 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
97718 TTTATTTTAT
*
97728 TATTTATTATATTATTAAA
1 TATTTATTATATAATTAAA
97747 TATTATATT-TATAATTAAA
1 TATT-TATTATATAATTAAA
97766 T-TTTA
1 TATTTA
97771 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 2 0.09
19 14 0.64
20 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTATTATATAATTAAA
Found at i:97833 original size:15 final size:15
Alignment explanation
Indices: 97798--97831 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
97788 TAATAAAAAT
*
97798 AATTTAAATTTAATT
1 AATTTAAATTTAATA
97813 AATTTAAATTT-ATA
1 AATTTAAATTTAATA
97827 AATTT
1 AATTT
97832 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTAAATTTAATA
Found at i:100957 original size:27 final size:27
Alignment explanation
Indices: 100911--100972 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
100901 GATGCTTTAA
*
100911 TAAATT-AATAAAAATGATAAAATTTTT
1 TAAATTAAATAAAAA-GATAAAAGTTTT
*
100938 TAAATTAAATAAATAA-ATAATAGTTTT
1 TAAATTAAATAAA-AAGATAAAAGTTTT
*
100965 TAAGTTAA
1 TAAATTAA
100973 TTTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 22 0.73
28 6 0.20
29 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (27 bp):
TAAATTAAATAAAAAGATAAAAGTTTT
Found at i:101047 original size:14 final size:13
Alignment explanation
Indices: 101030--101059 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
101020 TTTATATTTT
101030 AATTATATATAAAA
1 AATTATATA-AAAA
101044 AATTATATAAAAA
1 AATTATATAAAAA
101057 AAT
1 AAT
101060 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTATATAAAAA
Found at i:101342 original size:11 final size:11
Alignment explanation
Indices: 101326--101356 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
101316 TAAAATTTTA
101326 AATTTTAATTT
1 AATTTTAATTT
*
101337 AATTTTAAATT
1 AATTTTAATTT
101348 AATTTTAAT
1 AATTTTAAT
101357 GATAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTTTAATTT
Found at i:102537 original size:29 final size:29
Alignment explanation
Indices: 102495--102555 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
102485 CATGATTCAC
102495 GAATTGTTATATCTAATTTTTATTAAGGA
1 GAATTGTTATATCTAATTTTTATTAAGGA
*
102524 GAATTGTTATATCTAATTTTTCTTAAGGA
1 GAATTGTTATATCTAATTTTTATTAAGGA
102553 GAA
1 GAA
102556 AAAAAGTCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (29 bp):
GAATTGTTATATCTAATTTTTATTAAGGA
Found at i:106239 original size:4 final size:4
Alignment explanation
Indices: 106232--106262 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
106222 CCCAACCAAA
106232 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
106263 AGACATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:110105 original size:21 final size:21
Alignment explanation
Indices: 110073--110113 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
110063 AAAAAGTTAG
110073 TTTTTAACTTATT-TTTAAAT
1 TTTTTAACTTATTGTTTAAAT
*
110093 TTTTTAAATTTATTGTTTAAA
1 TTTTT-AACTTATTGTTTAAA
110114 ATAAAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTAACTTATTGTTTAAAT
Found at i:110602 original size:3 final size:3
Alignment explanation
Indices: 110594--110631 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
110584 GTTTACAATA
*
110594 AAT AAT AAT AAT -AT AAT AAT ATT AAT AAT AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA
110632 ACACTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:111109 original size:2 final size:2
Alignment explanation
Indices: 111064--111090 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111054 AAAATTCCCT
111064 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
111091 GCTTATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112265 original size:16 final size:16
Alignment explanation
Indices: 112244--112276 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
112234 CTTATAGATG
*
112244 AATTGAGTAAAATTTA
1 AATTGAATAAAATTTA
112260 AATTGAATAAAATTTA
1 AATTGAATAAAATTTA
112276 A
1 A
112277 TTTATCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (16 bp):
AATTGAATAAAATTTA
Found at i:112661 original size:2 final size:2
Alignment explanation
Indices: 112623--112653 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
112613 TTCGTAGAAA
112623 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
112654 ATGAGAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:113996 original size:17 final size:18
Alignment explanation
Indices: 113974--114035 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 18
113964 AATATTTATA
113974 TATATTT-TTTATATTTT
1 TATATTTATTTATATTTT
* *
113991 TATATTTATTTTTA-TAT
1 TATATTTATTTATATTTT
*
114008 TATATTTATAT-TATTTT
1 TATATTTATTTATATTTT
114025 T-TATTTATTTA
1 TATATTTATTTA
114036 AAATATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 10 0.27
17 22 0.59
18 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TATATTTATTTATATTTT
Found at i:114014 original size:25 final size:23
Alignment explanation
Indices: 113968--114034 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
113958 TTATATAATA
*
113968 TTTATA-TATATTTT-TTATATT
1 TTTATATTATTTTTTATTATATT
113989 TTTATATTTATTTTTATATTATA--
1 TTTATA-TTATTTTT-TATTATATT
114012 TTTATATTATTTTTTATT-TATT
1 TTTATATTATTTTTTATTATATT
114034 T
1 T
114035 AAAATATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 2 0.05
21 10 0.26
22 9 0.23
23 12 0.31
24 1 0.03
25 5 0.13
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATATTATTTTTTATTATATT
Found at i:114019 original size:11 final size:11
Alignment explanation
Indices: 113956--114035 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
113946 AATATTGTAA
*
113956 ATTTATATAAT
1 ATTTATATTAT
113967 ATTTATA-TAT
1 ATTTATATTAT
113977 ATTT-T-TTAT
1 ATTTATATTAT
113986 ATTTTTATATTTAT
1 A--TTTATA-TTAT
*
114000 TTTTATATTAT
1 ATTTATATTAT
114011 ATTTATATTAT
1 ATTTATATTAT
*
114022 -TTTTTATT-T
1 ATTTATATTAT
114031 ATTTA
1 ATTTA
114036 AAATATTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
9 6 0.11
10 16 0.28
11 24 0.42
12 7 0.12
14 4 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:114043 original size:23 final size:21
Alignment explanation
Indices: 113966--114036 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 21
113956 ATTTATATAA
113966 TATTT-ATATATATTTTTTATAT
1 TATTTAATAT-TATTTTTTAT-T
113988 T-TTT-ATATTTATTTTTATATT
1 TATTTAATA-TTATTTTT-TATT
114009 ATATTT-ATATTATTTTTTATT
1 -TATTTAATATTATTTTTTATT
114030 TATTTAA
1 TATTTAA
114037 AATATTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.11
21 19 0.43
22 14 0.32
23 6 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTAATATTATTTTTTATT
Found at i:114911 original size:15 final size:15
Alignment explanation
Indices: 114891--114920 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114881 TAAATTTACG
114891 TAAAATTTTAAAATA
1 TAAAATTTTAAAATA
*
114906 TAAAATTTTTAAATA
1 TAAAATTTTAAAATA
114921 AATAATAATT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATTTTAAAATA
Found at i:114941 original size:20 final size:17
Alignment explanation
Indices: 114891--114941 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
114881 TAAATTTACG
*
114891 TAAAA-TTTTAAA-ATA
1 TAAAATTTTTAAATAAA
114906 TAAAATTTTTAAATAAA
1 TAAAATTTTTAAATAAA
114923 TAATAATTATTTAATATAA
1 TAA-AATT-TTTAA-ATAA
114942 TTTAACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 5 0.17
16 7 0.23
17 5 0.17
18 4 0.13
19 5 0.17
20 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTTTTAAATAAA
Done.