Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003288.1 Hibiscus syriacus cultivar Beakdansim tig00006918_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 186948
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:4255 original size:23 final size:24
Alignment explanation
Indices: 4229--4290 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
4219 TATACCTACG
* *
4229 TAATATATAATATATTTTTAAA-A
1 TAATATATAATATATATTCAAATA
4252 TAATATATATATATATATTCAAATA
1 TAATATATA-ATATATATTCAAATA
*
4277 TAATATATACTATA
1 TAATATATAATATA
4291 ATATATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.26
24 15 0.44
25 10 0.29
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATATATAATATATATTCAAATA
Found at i:4264 original size:27 final size:25
Alignment explanation
Indices: 4231--4315 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 25
4221 TACCTACGTA
4231 ATATATAATATATTTTTAAAATAATAT
1 ATATATAATATA--TTTAAAATAATAT
*
4258 ATATAT-ATATATTCAAATATAATAT
1 ATATATAATATATTTAAA-ATAATAT
*
4283 ATACTATAATATATTTAAAATTACTAT
1 ATA-TATAATATATTTAAAA-TAATAT
4310 ATATAT
1 ATATAT
4316 TTTAAATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.10
25 10 0.20
26 12 0.24
27 24 0.47
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATAATATATTTAAAATAATAT
Found at i:4313 original size:19 final size:20
Alignment explanation
Indices: 4284--4324 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
4274 ATATAATATA
4284 TACTATAATATATTTAAAAT
1 TACTATAATATATTTAAAAT
*
4304 TACTAT-ATATATTTTAAAT
1 TACTATAATATATTTAAAAT
4323 TA
1 TA
4325 TAATATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TACTATAATATATTTAAAAT
Found at i:4330 original size:53 final size:51
Alignment explanation
Indices: 4233--4349 Score: 121
Period size: 53 Copynumber: 2.2 Consensus size: 51
4223 CCTACGTAAT
*
4233 ATATAATATATTTTTAAAATAATATATATATATATATTCAAATATAATATAT-
1 ATATAATATA--TTTAAAATAATATATATATATAAATTCAAATATAATATATC
* * **
4285 ACTATAATATATTTAAAATTACTATATATATTTTAAATT-ATAATATGTTATATC
1 A-TATAATATATTTAAAA-TAATATATATA-TATAAATTCA-AATATAATATATC
4339 ATATAATATAT
1 ATATAATATAT
4350 ATGATAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
51 7 0.13
52 12 0.22
53 35 0.64
54 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (51 bp):
ATATAATATATTTAAAATAATATATATATATAAATTCAAATATAATATATC
Found at i:4950 original size:6 final size:6
Alignment explanation
Indices: 4939--4969 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4929 TATGGCTTAG
*
4939 TCATCT TCATCT GCATCT TCATCT TCATCT T
1 TCATCT TCATCT TCATCT TCATCT TCATCT T
4970 TAGTTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.03, T:0.48
Consensus pattern (6 bp):
TCATCT
Found at i:5920 original size:21 final size:19
Alignment explanation
Indices: 5887--5925 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
5877 TTTGTTTCTT
*
5887 TTTTTTTTCTTGAATTTTAA
1 TTTTTCTTCTTG-ATTTTAA
5907 TTTTTCTTCTTTGATTTTA
1 TTTTTCTTC-TTGATTTTA
5926 TTGAGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTTCTTCTTGATTTTAA
Found at i:7396 original size:7 final size:6
Alignment explanation
Indices: 7381--7421 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
7371 ATTTTTACCC
*
7381 AAAAAG AAAAAGG AAAAAGG AAAAAG AAGAAG AAAAAG AAA
1 AAAAAG AAAAA-G AAAAA-G AAAAAG AAAAAG AAAAAG AAA
7422 TTTTGAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 19 0.59
7 13 0.41
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:7399 original size:13 final size:13
Alignment explanation
Indices: 7381--7418 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
7371 ATTTTTACCC
7381 AAAAAGAAAAAGG
1 AAAAAGAAAAAGG
7394 AAAAAGGAAAAA-G
1 AAAAA-GAAAAAGG
*
7407 AAGAAGAAAAAG
1 AAAAAGAAAAAG
7419 AAATTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 6 0.27
13 10 0.45
14 6 0.27
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:7551 original size:20 final size:20
Alignment explanation
Indices: 7523--7567 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
7513 TAAATATTTG
*
7523 GTTGTTTCATTTGTCTTGTT
1 GTTGCTTCATTTGTCTTGTT
*
7543 GTTGCTTCATTTGTTTTGTT
1 GTTGCTTCATTTGTCTTGTT
7563 -TTGCT
1 GTTGCT
7568 CGTGGACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.04, C:0.11, G:0.20, T:0.64
Consensus pattern (20 bp):
GTTGCTTCATTTGTCTTGTT
Found at i:11760 original size:47 final size:47
Alignment explanation
Indices: 11704--11811 Score: 180
Period size: 47 Copynumber: 2.3 Consensus size: 47
11694 GTTCATTTGT
* *
11704 GTTCATTTACGTTCGTTTATTGTATTCATTTATGTTCATTTACATTC
1 GTTCGTTTACGTTCGTTTATTGTATTCATTAATGTTCATTTACATTC
*
11751 GTTCGTTTACGTTTGTTTATTGTATTCATTAATGTTCATTTACATTC
1 GTTCGTTTACGTTCGTTTATTGTATTCATTAATGTTCATTTACATTC
*
11798 GTTCGTTTATGTTC
1 GTTCGTTTACGTTC
11812 ATTCATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.18, C:0.14, G:0.13, T:0.56
Consensus pattern (47 bp):
GTTCGTTTACGTTCGTTTATTGTATTCATTAATGTTCATTTACATTC
Found at i:35825 original size:18 final size:18
Alignment explanation
Indices: 35802--35855 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
35792 AATTGGAGTG
35802 CAAAAAGAAAGAAAAAGA
1 CAAAAAGAAAGAAAAAGA
35820 CAAAAAG-AAGAAGAAAAGA
1 CAAAAAGAAAG-A-AAAAGA
35839 -AGAAAAGAAAAGAAAAA
1 CA-AAAAG-AAAGAAAAA
35856 AGAATTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
17 3 0.10
18 9 0.29
19 15 0.48
20 1 0.03
21 3 0.10
ACGTcount: A:0.78, C:0.04, G:0.19, T:0.00
Consensus pattern (18 bp):
CAAAAAGAAAGAAAAAGA
Found at i:35826 original size:14 final size:13
Alignment explanation
Indices: 35809--35859 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
35799 GTGCAAAAAG
35809 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
35823 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
35836 AGAAG-AAAAGAAA
1 A-AAGAAAAAGAAA
*
35849 AGA-AAAAAGAA
1 AAAGAAAAAGAA
35860 TTCAAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 8 0.25
13 11 0.34
14 13 0.41
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:35830 original size:11 final size:10
Alignment explanation
Indices: 35806--35859 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
35796 GGAGTGCAAA
35806 AAGAAAGAAA-
1 AAGAAA-AAAG
35816 AAGACAAAAAG
1 AAGA-AAAAAG
35827 AAGAAGAAAAG
1 AAGAA-AAAAG
35838 AAGAAAAGAA-
1 AAGAAAA-AAG
35848 AAGAAAAAAG
1 AAGAAAAAAG
35858 AA
1 AA
35860 TTCAAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.05
10 19 0.49
11 18 0.46
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:38325 original size:18 final size:18
Alignment explanation
Indices: 38302--38344 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
38292 CTATAGATTA
38302 TTTATTTAATTATT-TTCT
1 TTTATTTAATTATTATT-T
*
38320 TTTATTTAATTCTTATTT
1 TTTATTTAATTATTATTT
38338 TTTATTT
1 TTTATTT
38345 TAAAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTAATTATTATTT
Found at i:38428 original size:20 final size:20
Alignment explanation
Indices: 38387--38428 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
38377 TTTACTACTA
* *
38387 TTATTTATTATTTTTCTCTT
1 TTATTTATTATTATTATCTT
*
38407 TTATTTATTATTATTATGTT
1 TTATTTATTATTATTATCTT
38427 TT
1 TT
38429 GTTTTGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (20 bp):
TTATTTATTATTATTATCTT
Found at i:38446 original size:26 final size:26
Alignment explanation
Indices: 38385--38447 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
38375 TCTTTACTAC
38385 TATTATTTATTATTTTTCTCTTTTATT
1 TATT-TTTATTATTTTTCTCTTTTATT
* *
38412 TATTATTATTATGTTTTGT-TTTGT-TT
1 TATTTTTATTAT-TTTTCTCTTT-TATT
38438 TATTTTTATT
1 TATTTTTATT
38448 TTCCCACTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (26 bp):
TATTTTTATTATTTTTCTCTTTTATT
Found at i:38661 original size:34 final size:34
Alignment explanation
Indices: 38586--38661 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
38576 TTATATAACA
*
38586 TTTTTTTAAATTTAATATTTCATTCTTGGATTTT
1 TTTTTTTAAATTTAATATTTCATTCTTAGATTTT
* *
38620 TTTTTTTAAATTTAAT-TTTTATT-TTATATTTCT
1 TTTTTTTAAATTTAATATTTCATTCTTAGATTT-T
38653 TTTATTTTA
1 TTT-TTTTA
38662 TAATCTAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 6 0.16
33 10 0.27
34 21 0.57
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.70
Consensus pattern (34 bp):
TTTTTTTAAATTTAATATTTCATTCTTAGATTTT
Found at i:40339 original size:90 final size:90
Alignment explanation
Indices: 40186--40363 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
40176 CCTAACACAC
* *
40186 CCTTTTATAGCTAAGTTACCCTAATCATATTAAGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAAGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
40251 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* *
40276 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAAGGATTTTATTATTTCAAATTAATTAAATCTAT
40341 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
40364 TTCGAGATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAAGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:41992 original size:26 final size:27
Alignment explanation
Indices: 41951--42014 Score: 121
Period size: 26 Copynumber: 2.4 Consensus size: 27
41941 CCTTTAAGAT
41951 ATTTTTGTCTCTTAAAAAAAATAAAAC
1 ATTTTTGTCTCTTAAAAAAAATAAAAC
41978 ATTTTTGTCTC-TAAAAAAAATAAAAC
1 ATTTTTGTCTCTTAAAAAAAATAAAAC
42004 ATTTTTGTCTC
1 ATTTTTGTCTC
42015 AATAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.70
27 11 0.30
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (27 bp):
ATTTTTGTCTCTTAAAAAAAATAAAAC
Found at i:45348 original size:42 final size:42
Alignment explanation
Indices: 45213--45692 Score: 151
Period size: 42 Copynumber: 11.2 Consensus size: 42
45203 TCAGACCAAC
* *
45213 GAAGGGGGACCACCTGAAGAATACACCACATGACTTTCCCGT
1 GAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCCGT
** * * * * *
45255 GAAGGGGAGTCATCC-AAAG-ATCAT-CTCACCTG-GTTCAGACCCGC
1 GAAGGGGAACCA-CCTGAAGAAT-ATAC-CACATGACTT---TCCCGT
*
45299 GAAGGGGAACCACCTGAAGAATATACCACATGACATTCCCGT
1 GAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCCGT
** * ** * *
45341 GAAGGGGAGTCATCC-AAAG-ATCATTTCACATG-GTTTAGACCCGC
1 GAAGGGGAACCA-CCTGAAGAAT-ATACCACATGACTTT---CCCGT
*
45385 GAAGGGTAACCACCTGAAGAATATACCACATGACTTTCCCGT
1 GAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCCGT
** * * *
45427 GAAGGGGAGTCATCC-AAAG-ATCAT-CTCACCT-A-GTTCAGACC-T
1 GAAGGGGAACCA-CCTGAAGAAT-ATAC-CACATGACTTTC---CCGT
*
45469 ACGAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCTGT
1 --GAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCCGT
** * * * *
45513 GAAGGGGAGTCATCC-AAAG-ATCAT-CTCATC-TG--GTTCAGATCTGC
1 GAAGGGGAACCA-CCTGAAGAAT-ATAC-CA-CATGACTTTC----CCGT
*
45557 GAAGGGGAGCCACCTGAAGAATATACCACATGACTTTCCCGT
1 GAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCCGT
** * * * *
45599 GAAGGGGAGTCATCC-AAAG-ATCAT-CTCACCTG-TTTTAGACCCGC
1 GAAGGGGAACCA-CCTGAAGAAT-ATAC-CACATGACTTT---CCCGT
* *
45643 GAAGGGGAACCACCTGAAGAATATACCACACGATTTTCCCGT
1 GAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCCGT
45685 GAAGGGGA
1 GAAGGGGA
45693 GTAATCCAAA
Statistics
Matches: 316, Mismatches: 66, Indels: 112
0.64 0.13 0.23
Matches are distributed among these distances:
40 6 0.02
41 22 0.07
42 120 0.38
43 25 0.08
44 114 0.36
45 23 0.07
46 6 0.02
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (42 bp):
GAAGGGGAACCACCTGAAGAATATACCACATGACTTTCCCGT
Found at i:45876 original size:86 final size:86
Alignment explanation
Indices: 45169--45868 Score: 1112
Period size: 86 Copynumber: 8.1 Consensus size: 86
45159 GTTTTCTCGC
* * ** *
45169 GAAGGGGAATCATCCAAAGATAATCTCACCTGGTTCAGACCAACGAAGGGGGACCACCTGAAGAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
*
45234 TACACCACATGACTTTCCCGT
66 TATACCACATGACTTTCCCGT
45255 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
*
45320 TATACCACATGACATTCCCGT
66 TATACCACATGACTTTCCCGT
* * * *
45341 GAAGGGGAGTCATCCAAAGATCATTTCACATGGTTTAGACCCGCGAAGGGTAACCACCTGAAGAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
45406 TATACCACATGACTTTCCCGT
66 TATACCACATGACTTTCCCGT
* **
45427 GAAGGGGAGTCATCCAAAGATCATCTCACCTAGTTCAGACCTACGAAGGGGAACCACCTGAAGAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
*
45492 TATACCACATGACTTTCCTGT
66 TATACCACATGACTTTCCCGT
* * * *
45513 GAAGGGGAGTCATCCAAAGATCATCTCATCTGGTTCAGATCTGCGAAGGGGAGCCACCTGAAGAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
45578 TATACCACATGACTTTCCCGT
66 TATACCACATGACTTTCCCGT
* *
45599 GAAGGGGAGTCATCCAAAGATCATCTCACCTGTTTTAGACCCGCGAAGGGGAACCACCTGAAGAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
* *
45664 TATACCACACGATTTTCCCGT
66 TATACCACATGACTTTCCCGT
* * * *
45685 GAAGGGGAGTAATCCAAAGATCATCTCACTTGGTTCAGACCCACGAAGGGGAACCACCTGAATAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
45750 TATACCACATGACTTTCCCGT
66 TATACCACATGACTTTCCCGT
* * *
45771 GAAGGGTAGTCATCCAAAGATCATCTCACCTGGTTCAGACCTGCGAATGGGAACCACCTGAAGAA
1 GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
* *
45836 TATACCACTTGGCTTTCCCGT
66 TATACCACATGACTTTCCCGT
45857 GAAGGGGAGTCA
1 GAAGGGGAGTCA
45869 ACTAAAGAAT
Statistics
Matches: 562, Mismatches: 52, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 562 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (86 bp):
GAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCGAAGGGGAACCACCTGAAGAA
TATACCACATGACTTTCCCGT
Found at i:47296 original size:20 final size:20
Alignment explanation
Indices: 47271--47374 Score: 72
Period size: 20 Copynumber: 5.1 Consensus size: 20
47261 TTTACTACTA
*
47271 TTATTTATTATT-TTTCTCTT
1 TTATTTATTATTATTT-TATT
47291 TTATTTATTATTATTTTATT
1 TTATTTATTATTATTTTATT
*
47311 TTATTCTGTT-TTATTTTTATT
1 TTATT-TATTATTA-TTTTATT
** *
47332 TT-TCCACTTCTT-TTTTATT
1 TTATTTA-TTATTATTTTATT
*
47351 TTATTTTATTTTTATTTTTATT
1 TTA-TTTATTATTA-TTTTATT
47373 TT
1 TT
47375 CAATATTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
19 9 0.13
20 30 0.45
21 19 0.28
22 9 0.13
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (20 bp):
TTATTTATTATTATTTTATT
Found at i:47305 original size:30 final size:30
Alignment explanation
Indices: 47269--47406 Score: 91
Period size: 30 Copynumber: 4.8 Consensus size: 30
47259 TCTTTACTAC
*
47269 TATTATTTATTATTTTTCTCTTTTATTTAT
1 TATTATTTATTATTTTTCTATTTTATTTAT
* *
47299 TATTATTTTATT-TTATTCTGTTTTATTT-T
1 TATTA-TTTATTATTTTTCTATTTTATTTAT
*
47328 TATT-TTTCCACTTCTTTTT-TATTTTATTTTAT
1 TATTATTT--A-TTATTTTTCTATTTTA-TTTAT
* *
47360 TTTTATTT-TTA-TTTTCAATATTT-TTTA-
1 TATTATTTATTATTTTTCTAT-TTTATTTAT
47387 TATT-TTT-TTATTTTTC-ATTT
1 TATTATTTATTATTTTTCTATTT
47407 CTAAAATTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
25 2 0.02
26 8 0.09
27 11 0.12
28 8 0.09
29 10 0.11
30 30 0.34
31 13 0.15
32 4 0.04
33 3 0.03
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.75
Consensus pattern (30 bp):
TATTATTTATTATTTTTCTATTTTATTTAT
Found at i:47313 original size:16 final size:15
Alignment explanation
Indices: 47289--47400 Score: 61
Period size: 16 Copynumber: 6.9 Consensus size: 15
47279 TATTTTTCTC
47289 TTTTA-TTTATTATTA
1 TTTTATTTTATT-TTA
* *
47304 TTTTATTTTATTCTG
1 TTTTATTTTATTTTA
47319 TTTTATTTTTATTTTTCCA
1 TTTTA-TTTTA-TTTT--A
47338 CTTCTT-TTTTATTTTA
1 -TT-TTATTTTATTTTA
47354 TTTTATTTTTATTTTTA
1 TTTTA-TTTTA-TTTTA
*
47371 TTTTCAATATT-TTTTA
1 TTTT--ATTTTATTTTA
47387 TATTT-TTTTATTTT
1 T-TTTATTTTATTTT
47401 TCATTTCTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 28
0.69 0.05 0.25
Matches are distributed among these distances:
14 5 0.06
15 17 0.22
16 23 0.30
17 15 0.19
18 7 0.09
19 6 0.08
20 2 0.03
21 2 0.03
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:47330 original size:6 final size:6
Alignment explanation
Indices: 47271--47374 Score: 61
Period size: 6 Copynumber: 16.2 Consensus size: 6
47261 TTTACTACTA
* *
47271 TTATTT ATTATTT TTCTCTT TTATTT ATTATTATT TTATTTT ATTCTGTT
1 TTATTT -TTATTT TTAT-TT TTATTT -TTA-T-TT TTA-TTT -TTAT-TT
* *
47321 TTATTT TTATTT TTCCACTT CT-TTT TTA-TT TTA-TT TTATTT TTATTT
1 TTATTT TTATTT TT--ATTT TTATTT TTATTT TTATTT TTATTT TTATTT
47368 TTATTT T
1 TTATTT T
47375 CAATATTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
5 13 0.16
6 30 0.38
7 20 0.25
8 14 0.18
9 2 0.03
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:47362 original size:17 final size:17
Alignment explanation
Indices: 47342--47406 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
47332 TTTCCACTTC
47342 TTTTTTATTTTATTTTA
1 TTTTTTATTTTATTTTA
47359 -TTTTTATTTTTATTTTCAATA
1 TTTTTTA-TTTTA-TTT---TA
47380 TTTTTTATATTT-TTTTA
1 TTTTTTAT-TTTATTTTA
*
47397 TTTTTCATTT
1 TTTTTTATTT
47407 CTAAAATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
16 8 0.20
17 14 0.35
18 3 0.08
20 3 0.08
21 3 0.08
22 9 0.22
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTATTTTA
Found at i:47396 original size:38 final size:41
Alignment explanation
Indices: 47299--47406 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 41
47289 TTTTATTTAT
* * *
47299 TATTATTTTATTTTATTCT-GTTTTATTTTTATTTTTCCACT
1 TATT-TTTTATTTTATTTTATTTTTATTTTTATTTTTCCACA
*
47340 TCTTTTTTATTTTATTTTATTTTTATTTTTA-TTTT-CA-A
1 TATTTTTTATTTTATTTTATTTTTATTTTTATTTTTCCACA
47378 TATTTTTTATATTT-TTTTATTTTTCATTT
1 TATTTTTTAT-TTTATTTTATTTTT-ATTT
47407 CTAAAATTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
38 19 0.32
39 9 0.15
40 17 0.29
41 14 0.24
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (41 bp):
TATTTTTTATTTTATTTTATTTTTATTTTTATTTTTCCACA
Found at i:56305 original size:266 final size:266
Alignment explanation
Indices: 55831--56310 Score: 888
Period size: 266 Copynumber: 1.8 Consensus size: 266
55821 AAATAATTAA
55831 CCATATCCACATACCATGAGAGTACCTTTTGCGCCAAGTATAAGTTTTTCTCTAGGAATTCTTCT
1 CCATATCCACATACCATGAGAGTACCTTTTGCGCCAAGTATAAGTTTTTCTCTAGGAATTCTTCT
* *
55896 TGAATTAGAGCATCAATGGTTGTGATGGGTAACCGACTTAGATGATCAGGCACTAAATTTTCATA
66 TGAATTAGAGCATCAATGGTTGTGATGGGTAACCGACTTAGATGATCAGGAACCAAATTTTCATA
* *
55961 TCCCTCTTTTTCCTTTGATTTCAAAATTAAAATCTTGTAAGAGTAACATTTATCGGATTAAGCAT
131 TCCCTCTTTTTCCCTTGATTTCAAAATTAAAATCTTGTAAGAGTAACATTCATCGGATTAAGCAT
56026 GGTCTTCTCTCCTTCTTGAATGCTTTGACTTACCTCTGAACGTAATAAATCTAAAGGTAGTACTC
196 GGTCTTCTCTCCTTCTTGAATGCTTTGACTTACCTCTGAACGTAATAAATCTAAAGGTAGTACTC
56091 TCGTGG
261 TCGTGG
* *
56097 CCATATCCGCATACCATGAGAGTACCTTTTGCGCCATGTATAAGTTTTTCTCTAGGAATTCTTCT
1 CCATATCCACATACCATGAGAGTACCTTTTGCGCCAAGTATAAGTTTTTCTCTAGGAATTCTTCT
*
56162 TGAATTAGTGCATCAATGGTTGTGATGGGTAACCGACTTAGATGATCAGGAACCAAATTTTCATA
66 TGAATTAGAGCATCAATGGTTGTGATGGGTAACCGACTTAGATGATCAGGAACCAAATTTTCATA
*
56227 TCCCTTTTTTTCCCTTGATTTCAAAATTAAAATCTTGTAAGAGTAACATTCATCGGATTAAGCAT
131 TCCCTCTTTTTCCCTTGATTTCAAAATTAAAATCTTGTAAGAGTAACATTCATCGGATTAAGCAT
56292 GGTCTTCTCTCCTTCTTGA
196 GGTCTTCTCTCCTTCTTGA
56311 TCAACAAATA
Statistics
Matches: 206, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
266 206 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (266 bp):
CCATATCCACATACCATGAGAGTACCTTTTGCGCCAAGTATAAGTTTTTCTCTAGGAATTCTTCT
TGAATTAGAGCATCAATGGTTGTGATGGGTAACCGACTTAGATGATCAGGAACCAAATTTTCATA
TCCCTCTTTTTCCCTTGATTTCAAAATTAAAATCTTGTAAGAGTAACATTCATCGGATTAAGCAT
GGTCTTCTCTCCTTCTTGAATGCTTTGACTTACCTCTGAACGTAATAAATCTAAAGGTAGTACTC
TCGTGG
Found at i:61687 original size:85 final size:84
Alignment explanation
Indices: 61581--61793 Score: 275
Period size: 85 Copynumber: 2.5 Consensus size: 84
61571 AATCTCGTGT
* *
61581 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATG-
*
61646 CAAGTAGATTTATGACGGAG
65 CAACTAGATTTATGACGGAG
* * * *
61666 GCTTCAATGATGTTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTGTGC
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGC
* ** * *
61731 ATCTTTATTTATGATGGGG
66 AACTAGATTTATGACGGAG
* *
61750 GCTTCAATGACGCTCAATG-AACGTCATAAATGCATGTCATAAAT
1 GCTTCAATGACGCTCAATGTAA-GTCATACATGCGTGTCATAAAT
61794 GTGTCATAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
83 2 0.02
84 50 0.45
85 58 0.53
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (84 bp):
GCTTCAATGACGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGC
AACTAGATTTATGACGGAG
Found at i:61788 original size:13 final size:13
Alignment explanation
Indices: 61772--61814 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
61762 CTCAATGAAC
61772 GTCATAAATGCAT
1 GTCATAAATGCAT
61785 GTCATAAATG--T
1 GTCATAAATGCAT
*
61796 GTCATAAATGCAC
1 GTCATAAATGCAT
61809 GTCATA
1 GTCATA
61815 GATTTATGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 11 0.41
13 16 0.59
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
GTCATAAATGCAT
Found at i:61800 original size:11 final size:12
Alignment explanation
Indices: 61772--61805 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
61762 CTCAATGAAC
61772 GTCATAAATGCAT
1 GTCATAAATG-AT
61785 GTCATAAATG-T
1 GTCATAAATGAT
61796 GTCATAAATG
1 GTCATAAATG
61806 CACGTCATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (12 bp):
GTCATAAATGAT
Found at i:64380 original size:119 final size:119
Alignment explanation
Indices: 64198--64437 Score: 471
Period size: 119 Copynumber: 2.0 Consensus size: 119
64188 GAAATTTTGC
64198 AATTTATTGAATCTAATAATTAAAATAGAACCTTAGGCTAAAAGTGAGGACCAAAATAAAAATTC
1 AATTTATTGAATCTAATAATTAAAATAGAACCTTAGGCTAAAAGTGAGGACCAAAATAAAAATTC
64263 ACCTAAATTAAAGGATTAAAATGAAATTAATTAAAAATAGAGGGTCCATTATGA
66 ACCTAAATTAAAGGATTAAAATGAAATTAATTAAAAATAGAGGGTCCATTATGA
*
64317 AATTTATTGAATCTAATACTTAAAATAGAACCTTAGGCTAAAAGTGAGGACCAAAATAAAAATTC
1 AATTTATTGAATCTAATAATTAAAATAGAACCTTAGGCTAAAAGTGAGGACCAAAATAAAAATTC
64382 ACCTAAATTAAAGGATTAAAATGAAATTAATTAAAAATAGAGGGTCCATTATGA
66 ACCTAAATTAAAGGATTAAAATGAAATTAATTAAAAATAGAGGGTCCATTATGA
64436 AA
1 AA
64438 ATAGAGTCAA
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.28
Consensus pattern (119 bp):
AATTTATTGAATCTAATAATTAAAATAGAACCTTAGGCTAAAAGTGAGGACCAAAATAAAAATTC
ACCTAAATTAAAGGATTAAAATGAAATTAATTAAAAATAGAGGGTCCATTATGA
Found at i:64982 original size:15 final size:15
Alignment explanation
Indices: 64962--64999 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
64952 TAAAGTGCAT
64962 AAATTAAAAT-TCTGG
1 AAATTAAAATGT-TGG
64977 AAATTAAAATGTTGG
1 AAATTAAAATGTTGG
*
64992 AATTTAAA
1 AAATTAAA
65000 TGGTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (15 bp):
AAATTAAAATGTTGG
Found at i:65860 original size:12 final size:12
Alignment explanation
Indices: 65843--65867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65833 AATTTGAACA
65843 AAATAATATTTT
1 AAATAATATTTT
65855 AAATAATATTTT
1 AAATAATATTTT
65867 A
1 A
65868 GTTGGGAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:69249 original size:95 final size:95
Alignment explanation
Indices: 69073--69259 Score: 225
Period size: 95 Copynumber: 2.0 Consensus size: 95
69063 GACGAGGTAG
* * * * *
69073 TATCGATACCATGGTAAGGGTATCAATACTAGTAAACATCGAATATGATTTTGGTATTCATACCA
1 TATCGATACCATGGTAAGAGTATCAATACTAGGAAACATCGAAGATAATTTTAGTATTCATACCA
* *
69138 GAAAGGGGTATTGGTACTATAATATAGTAA
66 GAAAGGGGTATCGGTACCATAATATAGTAA
* * *
69168 TATCGATACCATTGTAAGAGTATCAATACTAGGCAACATCGAAGCTAATTTTAGTA-TCGAT-CC
1 TATCGATACCATGGTAAGAGTATCAATACTAGGAAACATCGAAGATAATTTTAGTATTC-ATACC
* * *
69231 CGGAAGGGGTTATCGGTACCATAGTATAG
65 AGAAAGGGG-TATCGGTACCATAATATAG
69260 AAGTATCAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 11 0.14
95 66 0.86
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (95 bp):
TATCGATACCATGGTAAGAGTATCAATACTAGGAAACATCGAAGATAATTTTAGTATTCATACCA
GAAAGGGGTATCGGTACCATAATATAGTAA
Found at i:69414 original size:19 final size:19
Alignment explanation
Indices: 69390--69452 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
69380 TTGTATGTTA
69390 TGTGTACGTATTGGATAAT
1 TGTGTACGTATTGGATAAT
*
69409 TGTGTACTTATTGGATAAT
1 TGTGTACGTATTGGATAAT
*
69428 TGTGTA-GTTAATGGATAAT
1 TGTGTACG-TATTGGATAAT
*
69447 TTTGTA
1 TGTGTA
69453 GATCTAAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.46
Consensus pattern (19 bp):
TGTGTACGTATTGGATAAT
Found at i:69775 original size:47 final size:47
Alignment explanation
Indices: 69706--70015 Score: 514
Period size: 47 Copynumber: 6.6 Consensus size: 47
69696 AAATTGAATC
69706 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
*
69753 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
* *
69800 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATAAAAGCATGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
69847 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
*
69894 CATAATTGAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
* * *
69941 CATAATTGAAAATGCATGAAAGGATACAGTAAGGCATAAAAGGATGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
*
69988 CATATATATTAAAATGCAT-AAATGGATG
1 CATA-AT-TGAAAATGCATGAAA-GGATG
70016 TGTTAATACT
Statistics
Matches: 247, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 228 0.92
48 5 0.02
49 14 0.06
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
Found at i:69817 original size:27 final size:27
Alignment explanation
Indices: 69786--69873 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 27
69776 ATGCATTAAG
69786 GCATGAAAGGATGCCATAATTGAAAAT
1 GCATGAAAGGATGCCATAATTGAAAAT
*
69813 GCATGAAAGGATG-C---ATT---AAG
1 GCATGAAAGGATGCCATAATTGAAAAT
* * *
69833 GCATAAAAGCATGTCATAATTGAAAAT
1 GCATGAAAGGATGCCATAATTGAAAAT
69860 GCATGAAAGGATGC
1 GCATGAAAGGATGC
69874 ATTAAGGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
20 13 0.28
21 1 0.02
23 3 0.06
24 3 0.06
26 1 0.02
27 26 0.55
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAATTGAAAAT
Found at i:76273 original size:95 final size:95
Alignment explanation
Indices: 76162--76366 Score: 266
Period size: 95 Copynumber: 2.2 Consensus size: 95
76152 TATTGACGAG
* * * * *
76162 GTAGTATCGATACCATGATAAGGGTATTGATACCAGTAAACATTGAATATAATTTTGGTATTAAT
1 GTAGTATCGATACCATGATAAGGGTATCGATACCAGGAAACATCGAAGATAATTTTGGTATCAAT
* *
76227 ACCAGAAAGGGGTATCGGTACCATTGTATA
66 ACCAGAAAGGGGTATCGATACCATAGTATA
* * * * *
76257 GTAGTATCGATACCATGGTAAGGGTATCGATATCAGGCAACATCGAAGCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATGATAAGGGTATCGATACCAGGAAACATCGAAGATAATTTTGGTATCAAT
* *
76322 ACTAGAAAGGGGTATTGATACCATAGTATA
66 ACCAGAAAGGGGTATCGATACCATAGTATA
* *
76352 GAAGTATCGGTACCA
1 GTAGTATCGATACCA
76367 GGGTAGTAGT
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (95 bp):
GTAGTATCGATACCATGATAAGGGTATCGATACCAGGAAACATCGAAGATAATTTTGGTATCAAT
ACCAGAAAGGGGTATCGATACCATAGTATA
Found at i:76285 original size:20 final size:21
Alignment explanation
Indices: 76236--76288 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
76226 TACCAGAAAG
* *
76236 GGGTATCGGTACCATTGTATA
1 GGGTATCGATACCATGGTATA
*
76257 GTAGTATCGATACCATGGTA-A
1 G-GGTATCGATACCATGGTATA
76278 GGGTATCGATA
1 GGGTATCGATA
76289 TCAGGCAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.33
21 3 0.11
22 15 0.56
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (21 bp):
GGGTATCGATACCATGGTATA
Found at i:76804 original size:20 final size:20
Alignment explanation
Indices: 76779--76975 Score: 124
Period size: 20 Copynumber: 8.7 Consensus size: 20
76769 AATTGAGAAT
*
76779 GCATGAAAGGATGCATTATG
1 GCATGAAAGGATGCATTAAG
*
76799 GCATGAAAGGATGCCAAAAATTGAAAAT
1 GCATGAAAGGATG-C----ATT---AAG
*
76827 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
76847 GCATGGAAAGGATGCATTAAG
1 GCAT-GAAAGGATGCATTAAG
* *
76868 GCATGAAAGGTTGTCATAATTGAAAAT
1 GCATGAAAGGATG-C---ATT---AAG
76895 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
76915 GCATGAAAGGATGTCATAATTGAAAAT
1 GCATGAAAGGATG-C---ATT---AAG
*
76942 GCATGAAAGGATGAATTAAG
1 GCATGAAAGGATGCATTAAG
76962 GCATGAAAGGATGC
1 GCATGAAAGGATGC
76976 CATAATTGAA
Statistics
Matches: 141, Mismatches: 13, Indels: 46
0.70 0.06 0.23
Matches are distributed among these distances:
20 57 0.40
21 22 0.16
23 9 0.06
24 6 0.04
25 3 0.02
26 1 0.01
27 30 0.21
28 13 0.09
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:76840 original size:48 final size:49
Alignment explanation
Indices: 76769--76861 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 49
76759 TCGAATCCAT
* *
76769 AATTGAGAATGCATGAAAGGATGCATTATGGCAT-GAAAGGATGCCAAA
1 AATTGAAAATGCATGAAAGGATGCATTAAGGCATGGAAAGGATGCCAAA
*
76817 AATTGAAAATGCATGAAATGATGCATTAAGGCATGGAAAGGATGC
1 AATTGAAAATGCATGAAAGGATGCATTAAGGCATGGAAAGGATGC
76862 ATTAAGGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 31 0.76
49 10 0.24
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.22
Consensus pattern (49 bp):
AATTGAAAATGCATGAAAGGATGCATTAAGGCATGGAAAGGATGCCAAA
Found at i:76902 original size:68 final size:68
Alignment explanation
Indices: 76779--76927 Score: 237
Period size: 68 Copynumber: 2.2 Consensus size: 68
76769 AATTGAGAAT
* *
76779 GCATGAAAGGATGCATTATGGCATGAAAGGATGCCAAAAATTGAAAATGCATGAAATGATGCATT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAAATTGAAAATGCATGAAAGGATGCATT
76844 AAG
66 AAG
* * *
76847 GCATGGAAAGGATGCATTAAGGCATGAAAGGTTGTC-ATAATTGAAAATGCATGAAAGGATGCAT
1 GCAT-GAAAGGATGCATTAAGGCATGAAAGGATGCCAAAAATTGAAAATGCATGAAAGGATGCAT
76911 TAAG
65 TAAG
76915 GCATGAAAGGATG
1 GCATGAAAGGATG
76928 TCATAATTGA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 9 0.12
68 38 0.51
69 28 0.37
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.22
Consensus pattern (68 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAAATTGAAAATGCATGAAAGGATGCATT
AAG
Found at i:76908 original size:47 final size:47
Alignment explanation
Indices: 76847--77000 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
76837 ATGCATTAAG
*
76847 GCATGGAAAGGATGCATTAAGGCATGAAAGGTTGTCATAATTGAAAAT
1 GCAT-GAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTGAAAAT
76895 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTGAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTGAAAAT
* *
76942 GCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATAATTGAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTGAAAAT
76989 GCATGAAAGGAT
1 GCATGAAAGGAT
77001 ACCATAATTG
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 99 0.96
48 4 0.04
ACGTcount: A:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (47 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAATTGAAAAT
Found at i:76946 original size:27 final size:27
Alignment explanation
Indices: 76915--77029 Score: 154
Period size: 27 Copynumber: 4.5 Consensus size: 27
76905 ATGCATTAAG
*
76915 GCATGAAAGGATGTCATAATTGAAAAT
1 GCATGAAAGGATGCCATAATTGAAAAT
*
76942 GCATGAAAGGATG----AATT---AAG
1 GCATGAAAGGATGCCATAATTGAAAAT
76962 GCATGAAAGGATGCCATAATTGAAAAT
1 GCATGAAAGGATGCCATAATTGAAAAT
*
76989 GCATGAAAGGATACCATAATTGAAAAT
1 GCATGAAAGGATGCCATAATTGAAAAT
77016 GCATGAAAGGATGC
1 GCATGAAAGGATGC
77030 ATTAAGGCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
20 15 0.19
23 4 0.05
24 4 0.05
27 54 0.70
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAATTGAAAAT
Found at i:76999 original size:74 final size:76
Alignment explanation
Indices: 76915--77078 Score: 262
Period size: 74 Copynumber: 2.2 Consensus size: 76
76905 ATGCATTAAG
76915 GCATGAAAGGATGTCATAATTGAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATA
1 GCATGAAAGGATGTCATAATTGAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATA
76980 -AT-TGAAAAT
66 TATATGAAAAT
** *
76989 GCATGAAAGGATACCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
1 GCATGAAAGGATGTCATAATTGAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATA
*
77054 TATATTAAAAT
66 TATATGAAAAT
77065 GCAT-AAATGGATGT
1 GCATGAAA-GGATGT
77079 GTTAGTACGT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
74 62 0.77
75 5 0.06
76 14 0.17
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (76 bp):
GCATGAAAGGATGTCATAATTGAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATA
TATATGAAAAT
Found at i:77040 original size:94 final size:92
Alignment explanation
Indices: 76799--77048 Score: 285
Period size: 94 Copynumber: 2.6 Consensus size: 92
76789 ATGCATTATG
* *
76799 GCATGAAAGGATGCCAAAAATTGAAAATGCATGAAATGATGCATTAAGGCATGGAAAGGATGCAT
1 GCATGAAAGGAT-CC--AAATTGAAAATGCATGAAAGGATGCATTAAGGCAT-GAAAGGATGAAT
* *
76864 TAAGGCATGAAAGGTTGTCATAATTGAAAAT
62 TAAGGCATGAAAGGATGCCATAATTGAAAAT
* * *
76895 GCATGAAAGGATGC--ATT---AAGGCATGAAAGGATGTCATAATTGAAAATGCATGAAAGGATG
1 GCATGAAAGGATCCAAATTGAAAATGCATGAAAGGATG-C---ATT---AAGGCATGAAAGGATG
76955 AATTAAGGCATGAAAGGATGCCATAATTGAAAAT
59 AATTAAGGCATGAAAGGATGCCATAATTGAAAAT
76989 GCATGAAAGGATACCATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 GCATGAAAGGAT-CCA-AATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
77049 CCATATATAT
Statistics
Matches: 130, Mismatches: 10, Indels: 30
0.76 0.06 0.18
Matches are distributed among these distances:
88 14 0.11
89 1 0.01
91 3 0.02
92 3 0.02
94 67 0.52
95 8 0.06
96 12 0.09
97 3 0.02
98 3 0.02
100 1 0.01
101 15 0.12
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.22
Consensus pattern (92 bp):
GCATGAAAGGATCCAAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGAATTAAG
GCATGAAAGGATGCCATAATTGAAAAT
Found at i:78372 original size:73 final size:73
Alignment explanation
Indices: 78305--78465 Score: 200
Period size: 73 Copynumber: 2.2 Consensus size: 73
78295 TTAAAATAGA
* *
78305 TACCGGTTTCTTTAACGGATAATAATAATGTAAACGATAAAAAA-ATAGGTGCTACATATTATGT
1 TACCGATTTCTTTAACGGATAATAATAATGTAAA-GATAAAAAACATAGGTGCTACATATTACGT
*
78369 TAAACTATC
65 TAAACTACC
* * ** * * *
78378 TAAC-ATTTTGTTTAATTGATAATAATAATGTAAATATAAAAAACATAGGTTCTACCTATTACGT
1 TACCGA-TTTCTTTAACGGATAATAATAATGTAAAGATAAAAAACATAGGTGCTACATATTACGT
78442 TAAACTACC
65 TAAACTACC
78451 TACCGATTTCTTTAA
1 TACCGATTTCTTTAA
78466 AGGTATATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
72 8 0.11
73 64 0.88
74 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (73 bp):
TACCGATTTCTTTAACGGATAATAATAATGTAAAGATAAAAAACATAGGTGCTACATATTACGTT
AAACTACC
Found at i:78566 original size:6 final size:6
Alignment explanation
Indices: 78551--78599 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
78541 TTAGTACATA
* * *
78551 AATTTC AATTTG AATTTG AATTTC AATTTG AATTTC AATTTG AATTTG
1 AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG
78599 A
1 A
78600 GCTCCACTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (6 bp):
AATTTG
Found at i:78572 original size:18 final size:18
Alignment explanation
Indices: 78551--78599 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
78541 TTAGTACATA
*
78551 AATTTCAATTTGAATTTG
1 AATTTCAATTTGAATTTC
78569 AATTTCAATTTGAATTTC
1 AATTTCAATTTGAATTTC
*
78587 AATTTGAATTTGA
1 AATTTCAATTTGA
78600 GCTCCACTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (18 bp):
AATTTCAATTTGAATTTC
Found at i:79361 original size:33 final size:33
Alignment explanation
Indices: 79319--79404 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
79309 TTTGATCTCT
* * *
79319 GAAGAGTTGTTGGTTGGTTGGTCGAGATTTTTC
1 GAAGAGTTGTTGGTTGATTGGTCAAGATTTTCC
*
79352 GAAGAGTTGTTGGTTGATTGGTTAAGATTTTCC
1 GAAGAGTTGTTGGTTGATTGGTCAAGATTTTCC
* *
79385 GATGAGTCGTTGGTTGATTG
1 GAAGAGTTGTTGGTTGATTG
79405 CTCCATATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.17, C:0.06, G:0.35, T:0.42
Consensus pattern (33 bp):
GAAGAGTTGTTGGTTGATTGGTCAAGATTTTCC
Found at i:79820 original size:75 final size:74
Alignment explanation
Indices: 79682--79844 Score: 222
Period size: 75 Copynumber: 2.2 Consensus size: 74
79672 CTTAATCGGT
* *
79682 TAAAATAAAATAGGTGTTACCTATTTCGTTAATCACCTATCGATTTGTTTAAAGGTTACTAATAA
1 TAAAATAAAATAGGTGCTACCTATTACGTTAATCACCTATCGATTTGTTTAAAGGTTACTAATAA
*
79747 TGTAAACGG
66 TGAAAACGG
* *
79756 TAAAATAAAATATGTGCTACCTATTACGTTAAAAT-ACCTA-CTGGTTTGTTTAAAGGTTACTAA
1 TAAAATAAAATAGGTGCTACCTATTACGTT--AATCACCTATC-GATTTGTTTAAAGGTTACTAA
* *
79819 TATTGAAAATGG
63 TAATGAAAACGG
79831 TAAAATAAAATAGG
1 TAAAATAAAATAGG
79845 CGTAAATATC
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
74 28 0.36
75 47 0.60
76 3 0.04
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (74 bp):
TAAAATAAAATAGGTGCTACCTATTACGTTAATCACCTATCGATTTGTTTAAAGGTTACTAATAA
TGAAAACGG
Found at i:80207 original size:129 final size:129
Alignment explanation
Indices: 79977--80219 Score: 414
Period size: 129 Copynumber: 1.9 Consensus size: 129
79967 TTTCAAAACC
* * *
79977 TATTACTTTAAATTAATAGGTAAATTAACAATGTAAAAGGTAAAAGTTTATCGGTATATTGATAA
1 TATTACTTTAAATTAATAGGTAAATTAACAATGTAAAAGGTAAAAATCTACCGGTATATTGATAA
* *
80042 TAGGCATAAATACCAAGTATCAATACTTTTATATAGGTATGGATACTTTAATTACAATATGCTT
66 TAGGCATAAAAACCAAGTATCAATACTCTTATATAGGTATGGATACTTTAATTACAATATGCTT
* *
80106 TATTACTTTAAATTAATAGGTAAATTAACAATGTAAACGGTAAAAATCTACCTGTATATTGATAA
1 TATTACTTTAAATTAATAGGTAAATTAACAATGTAAAAGGTAAAAATCTACCGGTATATTGATAA
*
80171 TAGGCGTAAAAACCAAGTATCAATACTCTTATATAGGTATGGATACTTT
66 TAGGCATAAAAACCAAGTATCAATACTCTTATATAGGTATGGATACTTT
80220 TATTCCAGTA
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 106 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (129 bp):
TATTACTTTAAATTAATAGGTAAATTAACAATGTAAAAGGTAAAAATCTACCGGTATATTGATAA
TAGGCATAAAAACCAAGTATCAATACTCTTATATAGGTATGGATACTTTAATTACAATATGCTT
Found at i:80578 original size:330 final size:327
Alignment explanation
Indices: 79879--80720 Score: 964
Period size: 330 Copynumber: 2.6 Consensus size: 327
79869 TCTCATGCCC
* * *
79879 GTATAGATACTTTTATTCCAGTATGCTTCTCAAACAATCTCCACGCAAAATGTATCGATACACAT
1 GTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACAT
* * *
79944 ATA-ATAAGTATCGTTACTTAGAATTTCAAAACCTATTACTTTAAATTAATAGGTAAATTAACAA
66 ATATA-AAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTAACAA
* * * * * * **
80008 TGTAAAAGGTAAAAGTTTATCGGTATATTGATAATAGGCATAAATACCAAGTATCAATACTTTTA
130 TATAAAAGGTAAAAGTTTATAGGTATAATGAAAACAGCCATAAATACCAAGTATCAATACTTGCA
** * * * *
80073 TATAGGTATGGATACTTTAATTACAATATGCTTTATTACTTTAAATTAATAGGTAAATTAACAAT
195 TATAACTATAGATACTTTAATTACAATA-GCTCTATTACTTTAAAGTAATAGGTAAATTAAAAAT
*
80138 GTAAACGGTAAAAATCTACCTGTATATTGATAATAGGCGTAAAAACCAAGTATCAATACTCTTAT
259 GTAAACGGTAAAAATCTACCGGTATATTGATAATAGGCGTAAAAACCAAGTATCAATACTCTTAT
80203 ATAG
324 ATAG
* *
80207 GTATGGATACTTTTATTCCAGTATG-TGTTTCAAACAATTTGCACGCAAAATGTATCAATACACA
1 GTATGGATACTTTTATTCCAGTATGCT-TCTCAAACAATTTGCACGCAAAATGTATCGATACACA
* * * *
80271 TATATAAAGTATC-AGTACTAATAATTTTGAAACCTATTTCTTTAAAATAATAGGTAAATTAACA
65 TATATAAAGTATCGA-TACTTAGAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTAACA
* ** * *
80335 ATATACACTGTAAACGTTTCTATAGGTATAATGAAAACAGCCATAAATGTCCAAGTATCAATA-T
129 ATATAAAAGGTAAAAG-TT-TATAGGTATAATGAAAACAGCCATAAAT-ACCAAGTATCAATACT
* * *
80399 TGGCATATAACTATAGATACTTATAATTTCTGAA-A-C-CTATTACTTTATAGTAATAGGTTAAT
191 T-GCATATAACTATAGATACTT-TAATTAC--AATAGCTCTATTACTTTAAAGTAATAGGTAAAT
* * * *
80461 TAAAAATGTAAACGGTAAAAGTCTACCGGTATATTGATAATAGGTGTAAATACCAAGTATCGATA
252 TAAAAATGTAAACGGTAAAAATCTACCGGTATATTGATAATAGGCGTAAAAACCAAGTATCAATA
*
80526 CTTTTATATAG
317 CTCTTATATAG
* * * * *
80537 GTATGGATA-TTATTATTCAAGTATGCTTCTCAAATAATTTGCACGTAAAATGCATTGATACACA
1 GTATGGATACTT-TTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACA
* * ** * *
80601 TATATAAAGTATCGATGCTTGGAACATCGAAACCTATTACTTTAAAGTAATAGGTTAATTAACAA
65 TATATAAAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTAACAA
** * * * * * * *
80666 TGCAAATGGTAAAAGTCTATCGGTACATTGATAAA-AGGCATAAATACCATGTATC
130 TATAAAAGGTAAAAGTTTATAGGTATAATGA-AAACAGCCATAAATACCAAGTATC
80721 GATATTTTTA
Statistics
Matches: 430, Mismatches: 70, Indels: 29
0.81 0.13 0.05
Matches are distributed among these distances:
327 9 0.02
328 142 0.33
329 9 0.02
330 230 0.53
331 31 0.07
332 6 0.01
333 1 0.00
334 2 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (327 bp):
GTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACAT
ATATAAAGTATCGATACTTAGAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTAACAAT
ATAAAAGGTAAAAGTTTATAGGTATAATGAAAACAGCCATAAATACCAAGTATCAATACTTGCAT
ATAACTATAGATACTTTAATTACAATAGCTCTATTACTTTAAAGTAATAGGTAAATTAAAAATGT
AAACGGTAAAAATCTACCGGTATATTGATAATAGGCGTAAAAACCAAGTATCAATACTCTTATAT
AG
Found at i:80770 original size:199 final size:199
Alignment explanation
Indices: 80430--80941 Score: 614
Period size: 199 Copynumber: 2.6 Consensus size: 199
80420 TATAATTTCT
* * * *
80430 GAAACCTATTACTTTATAGTAATAGGTTAATTAAAAATGTAAACGGTAAAAGTCTACCGGTATAT
1 GAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGCAAACGGTAAAAGTCTACCGGTACAT
* ** *
80495 TGATAATAGGTGTAAATACCAAGTATCGATACTTTTATATAGGTATGGATATTATTATTCAAGTA
66 TGATAAAAGGCATAAATACCAAGTATCGATACTTTTATATAGGTATGAATATTATTATTCAAGTA
* * * * ** **
80560 TGCTTCTCAAATAATTTGCACGTAAAATGCATTGATACACATATATAAAGTATCGATGCTTGGAA
131 TGCTTCTCAAATAATTTACACGCAAAATGCATCGATACACATATATAAAGTATCAACACTAAGAA
80625 CATC
196 CATC
* *
80629 GAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGCAAATGGTAAAAGTCTATCGGTACAT
1 GAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGCAAACGGTAAAAGTCTACCGGTACAT
* * *
80694 TGATAAAAGGCATAAATACCATGTATCGATATTTTTATATAGGTATGAATACTT-TTATTCCAGT
66 TGATAAAAGGCATAAATACCAAGTATCGATACTTTTATATAGGTATGAATA-TTATTATTCAAGT
* * * *
80758 ATGTTTCTCAAATAATTTACACGCAAAATGTATCGATACACATATTTAAAGTATCAACACTAATA
130 ATGCTTCTCAAATAATTTACACGCAAAATGCATCGATACACATATATAAAGTATCAACACTAAGA
**
80823 ATTTC
195 ACATC
* * * ** * *
80828 GAAACCTATTACTTTAATGTAATAGGTAAATTAACAATGTATGCGGTAAACGTTCTTACCGGTAT
1 GAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGCAAACGGTAAAAG-TC-TACCGGTAC
* * * * *
80893 AATGA-AAATAGGCGTAAATGTCCAAGTATCGATACTTTCATATAAGTAT
64 ATTGATAAA-AGGCATAAAT-ACCAAGTATCGATACTTTTATATAGGTAT
80942 CGATACTTAT
Statistics
Matches: 265, Mismatches: 43, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
199 214 0.81
200 7 0.03
201 20 0.08
202 24 0.09
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (199 bp):
GAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGCAAACGGTAAAAGTCTACCGGTACAT
TGATAAAAGGCATAAATACCAAGTATCGATACTTTTATATAGGTATGAATATTATTATTCAAGTA
TGCTTCTCAAATAATTTACACGCAAAATGCATCGATACACATATATAAAGTATCAACACTAAGAA
CATC
Found at i:80962 original size:130 final size:127
Alignment explanation
Indices: 80806--81076 Score: 344
Period size: 130 Copynumber: 2.1 Consensus size: 127
80796 CACATATTTA
* * * * * **
80806 AAGTATCAACACTAATAATTTCGAAACCTATTACTTTAATGTAATAGGTAAATTAACAATGTATG
1 AAGTATCGATACTTATAATTTCGAAACCAATTACTTTAAAGTAATAGGTAAATTAACAATGTAAA
* **
80871 CGGTAAACGTTCTTACCGGTATAATGAAAATAGGCGTAAATGTCCAAGTATCGATACTTTCATAT
66 CGGTAAAAG-T-TTACCGGTATAATGAAAATAGGCGTAAAT-AACAAGTATCGATACTTTCATAT
* *
80936 AAGTATCGATACTTATAATTTTGAAACCAATTACTTTAAAGTAATAGGTTAATTAACAATGTAAA
1 AAGTATCGATACTTATAATTTCGAAACCAATTACTTTAAAGTAATAGGTAAATTAACAATGTAAA
* * * * *
81001 CGGTAAAAGTTTATCGGTATATTGATAATAGGTGTAAATAACAAGTATCGATACTTTTATAT
66 CGGTAAAAGTTTACCGGTATAATGAAAATAGGCGTAAATAACAAGTATCGATACTTTCATAT
* *
81063 AGGTATGGATACTT
1 AAGTATCGATACTT
81077 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
127 32 0.26
128 25 0.20
129 1 0.01
130 64 0.52
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (127 bp):
AAGTATCGATACTTATAATTTCGAAACCAATTACTTTAAAGTAATAGGTAAATTAACAATGTAAA
CGGTAAAAGTTTACCGGTATAATGAAAATAGGCGTAAATAACAAGTATCGATACTTTCATAT
Found at i:81191 original size:528 final size:527
Alignment explanation
Indices: 80106--81672 Score: 2136
Period size: 528 Copynumber: 3.0 Consensus size: 527
80096 CAATATGCTT
* * * *
80106 TATTACTTTAAATTAATAGGTAAATTAACAATGTAAACGGTAAAAATCTACCTGTATATTGATAA
1 TATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGGTATATTGATAA
* * * * *
80171 TAGGCGTAAAAACCAAGTATCAATACTCTTATATAGGTATGGATACTTTTATTCCAGTATGTGTT
66 TAGGCATAAATACCAAGTATCGATACTTTTATATAGGTATGAATACTTTTATTCCAGTATGT-TT
* * * *
80236 -TCAAACAATTTGCACGCAAAATGTATCAATACACATATATAAAGTATCAGTACTAATAATTTTG
130 CTCAAACAATTTACACGCAAAATGTATCGATACACATATTTAAAGTATCAATACTAATAATTTTG
* * * *
80300 AAACCTATTTCTTTAAAATAATAGGTAAATTAACAATATACACTGTAAACGTTTCTATA--GGTA
195 AAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAACG-TTCTATACCGGTA
* * * * * *
80363 TAATGAAAACAGCCATAAATGTCCAAGTATCAATA-TTGGCATATAACTATAGATACTTATAATT
259 TAATGAAAATAGGCGTAAATGTCCAAGTATCGATACTT-TCATATAAGTATAGATACTTATAATT
* *
80427 TCTGAAACCTATTACTTTATAGTAATAGGTTAATTAAAAATGTAAACGGTAAAAGTCTACCGGTA
323 T-TGAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACGGTAAAAGTCTA-CGGTA
80492 TATTGATAATAGGTGTAAATACCAAGTATCGATACTTTTATATAGGTATGGATA-TTATTATTCA
386 TATTGATAATAGGTGTAAATACCAAGTATCGATACTTTTATATAGGTATGGATACTT-TTATTCA
* * *
80556 AGTATGCTTCTCAAATAATTTGCACGTAAAATGCATTGATACACATATATAAAGTATCGATGCTT
450 AGTATGCTTCTCAAACAATTTGCACGTAAAATGTA-TGATACACATATATAAAGTATCGATACTT
80621 GGAACATCGAAACC
514 GGAACATCGAAACC
* * * *
80635 TATTACTTTAAAGTAATAGGTTAATTAACAATGCAAATGGTAAAAGTCTATCGGTACATTGATAA
1 TATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGGTATATTGATAA
* * *
80700 AAGGCATAAATACCATGTATCGATATTTTTATATAGGTATGAATACTTTTATTCCAGTATGTTTC
66 TAGGCATAAATACCAAGTATCGATACTTTTATATAGGTATGAATACTTTTATTCCAGTATGTTTC
* * *
80765 TCAAATAATTTACACGCAAAATGTATCGATACACATATTTAAAGTATCAACACTAATAATTTCGA
131 TCAAACAATTTACACGCAAAATGTATCGATACACATATTTAAAGTATCAATACTAATAATTTTGA
* **
80830 AACCTATTACTTTAATGTAATAGGTAAATTAACAATGTATGCGGTAAACGTTCT-TACCGGTATA
196 AACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAACGTTCTATACCGGTATA
*
80894 ATGAAAATAGGCGTAAATGTCCAAGTATCGATACTTTCATATAAGTATCGATACTTATAATTTTG
261 ATGAAAATAGGCGTAAATGTCCAAGTATCGATACTTTCATATAAGTATAGATACTTATAATTTTG
* *
80959 AAACCAATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACGGTAAAAGTTTATCGGTATATT
326 AAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACGGTAAAAGTCTA-CGGTATATT
* * *
81024 GATAATAGGTGTAAATAACAAGTATCGATACTTTTATATAGGTATGGATACTTTCATTCAAATAT
390 GATAATAGGTGTAAATACCAAGTATCGATACTTTTATATAGGTATGGATACTTTTATTCAAGTAT
* * *
81089 GTTTCTCAAACAATTTGCACGTAAAATGTACTGATACACATATATAAAGTATCAATACTTGGAAT
455 GCTTCTCAAACAATTTGCACGTAAAATGTA-TGATACACATATATAAAGTATCGATACTTGGAAC
* *
81154 TTTGAAACC
519 ATCGAAACC
* *
81163 TATTACTTTAAAGAAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGATATATTGATAA
1 TATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGGTATATTGATAA
* * * * * *
81228 TAGACAGAAATACCAAGTATTGATACTTTTATATAGGTATGTATATTTTTATTCCAGTATGCTTC
66 TAGGCATAAATACCAAGTATCGATACTTTTATATAGGTATGAATACTTTTATTCCAGTATGTTTC
* * * * * *
81293 TCAAACAA--TCCACG-AAAATTGTATCGATACGCATATTTAAATTATCGATACTTAGAATTTTG
131 TCAAACAATTTACACGCAAAA-TGTATCGATACACATATTTAAAGTATCAATACTAATAATTTTG
* * * * *
81355 AAATCTATTACTTTAAAG-AATAGCTAAATTAAC-ATGTGCACGGTAAATGTT-TCTACCGGTAT
195 AAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAACGTTCTATACCGGTAT
* * * *
81417 AATGAAAATAGGTGTAAATGTCTC-AGTATGGATCCTTTCATATAAGTATTGATACTTATAATTT
260 AATGAAAATAGGCGTAAATGTC-CAAGTATCGATACTTTCATATAAGTATAGATACTTATAATTT
* * * *
81481 TGAAACCTATTACTTTAAAATAATAGGTTAATTACCAATGTAAAAGGTAAAAGTCTACATGTATA
324 TGAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACGGTAAAAGTCTAC-GGTATA
* * *
81546 TTAATAATAGGCGTAAATACCAAGTATCGATACTTTTATATAGGTATGGATACTTTTATAT-AGG
388 TTGATAATAGGTGTAAATACCAAGTATCGATACTTTTATATAGGTATGGATACTTTTAT-TCAAG
* * *
81610 TATACTTCTCAAACAATTTACACGCAAAAATGTATCGATACACATATATAAAGTATCGATACT
452 TATGCTTCTCAAACAATTTGCACG-TAAAATGTAT-GATACACATATATAAAGTATCGATACT
81673 AATATTGTAA
Statistics
Matches: 920, Mismatches: 106, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
523 2 0.00
524 216 0.23
525 54 0.06
526 57 0.06
527 2 0.00
528 314 0.34
529 273 0.30
530 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (527 bp):
TATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGGTATATTGATAA
TAGGCATAAATACCAAGTATCGATACTTTTATATAGGTATGAATACTTTTATTCCAGTATGTTTC
TCAAACAATTTACACGCAAAATGTATCGATACACATATTTAAAGTATCAATACTAATAATTTTGA
AACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAACGTTCTATACCGGTATA
ATGAAAATAGGCGTAAATGTCCAAGTATCGATACTTTCATATAAGTATAGATACTTATAATTTTG
AAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACGGTAAAAGTCTACGGTATATTG
ATAATAGGTGTAAATACCAAGTATCGATACTTTTATATAGGTATGGATACTTTTATTCAAGTATG
CTTCTCAAACAATTTGCACGTAAAATGTATGATACACATATATAAAGTATCGATACTTGGAACAT
CGAAACC
Found at i:81296 original size:199 final size:196
Alignment explanation
Indices: 80932--81401 Score: 617
Period size: 199 Copynumber: 2.4 Consensus size: 196
80922 CGATACTTTC
* * *
80932 ATAT-AAGTATCGATACTTATAATTTTGAAACCAATTACTTTAAAGTAATAGGTTAATTAACAAT
1 ATATAAAGTATCGATACTTAGAATTTTGAAACCTATTACTTTAAAG-AATAGGTAAATTAACAAT
* * **
80996 GTAAACGGTAAAAGTTTATCGGTATATTGATAATAGGTGTAAATAACAAGTATCGATACTTTTAT
65 GTAAACGGTAAAAGTCTATCGATATATTGATAATAGCAGTAAATAACAAGTATCGATACTTTTAT
* *
81061 ATAGGTATGGATACTTTCATTCAAATATGTTTCTCAAACAATTTGCACGTAAAA-TGTA-CTGAT
130 ATAGGTATGGATACTTTCATTCAAATATGCTTCTCAAACAA--TCCACG-AAAATTGTATC-GAT
81124 ACACAT
191 ACACAT
* *
81130 ATATAAAGTATCAATACTTGGAATTTTGAAACCTATTACTTTAAAGAAATAGGTAAATTAACAAT
1 ATATAAAGTATCGATACTTAGAATTTTGAAACCTATTACTTTAAAG-AATAGGTAAATTAACAAT
* *
81195 GTAAACGGTAAAAGTCTATCGATATATTGATAATAGACAG-AAATACCAAGTATTGATACTTTTA
65 GTAAACGGTAAAAGTCTATCGATATATTGATAATAG-CAGTAAATAACAAGTATCGATACTTTTA
* * * * * *
81259 TATAGGTATGTATATTTTTATTCCAGTATGCTTCTCAAACAATCCACGAAAATTGTATCGATACG
129 TATAGGTATGGATACTTTCATTCAAATATGCTTCTCAAACAATCCACGAAAATTGTATCGATACA
81324 CAT
194 CAT
* * * *
81327 ATTTAAATTATCGATACTTAGAATTTTGAAATCTATTACTTTAAAGAATAGCTAAATTAAC-ATG
1 ATATAAAGTATCGATACTTAGAATTTTGAAACCTATTACTTTAAAGAATAGGTAAATTAACAATG
**
81391 TGCACGGTAAA
66 TAAACGGTAAA
81402 TGTTTCTACC
Statistics
Matches: 240, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
195 12 0.05
196 18 0.08
197 58 0.24
198 5 0.02
199 146 0.61
200 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (196 bp):
ATATAAAGTATCGATACTTAGAATTTTGAAACCTATTACTTTAAAGAATAGGTAAATTAACAATG
TAAACGGTAAAAGTCTATCGATATATTGATAATAGCAGTAAATAACAAGTATCGATACTTTTATA
TAGGTATGGATACTTTCATTCAAATATGCTTCTCAAACAATCCACGAAAATTGTATCGATACACA
T
Found at i:81597 original size:20 final size:20
Alignment explanation
Indices: 81569--81612 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
81559 TAAATACCAA
81569 GTATCGATACTTTTATATAG
1 GTATCGATACTTTTATATAG
*
81589 GTATGGATACTTTTATATAG
1 GTATCGATACTTTTATATAG
81609 GTAT
1 GTAT
81613 ACTTCTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (20 bp):
GTATCGATACTTTTATATAG
Found at i:82514 original size:17 final size:19
Alignment explanation
Indices: 82492--82528 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
82482 TCGATATTGG
82492 TTGAA-GAA-GTATCGATA
1 TTGAAGGAAGGTATCGATA
82509 TTGAAGTGAAGGTATCGATA
1 TTGAAG-GAAGGTATCGATA
82529 CCAAGGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (19 bp):
TTGAAGGAAGGTATCGATA
Found at i:83336 original size:53 final size:53
Alignment explanation
Indices: 83014--83335 Score: 491
Period size: 53 Copynumber: 6.1 Consensus size: 53
83004 TTATGTGTAC
* * * *
83014 TTTCGACACTATGTGTGCACCCATGGTATTCATAATGATTTTGCGAATTATCA
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
* * *
83067 TTTCGGCACTTTGTGTGCACCCATGGTATTCATAATAATTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
* * *
83120 TTTTGGCACTATTTGTGCACCCATGATATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
* * *
83173 TTTTGGCACTATGTGTGCACCCATTGTATTCATAATGAGTTTGTGAATTATCA
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
* *
83226 TTTCGACACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
* *
83279 TTTCAGCACTATGTGTACACCCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
83332 TTTC
1 TTTC
83336 ATTACCTTAG
Statistics
Matches: 245, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 245 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (53 bp):
TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
Found at i:99905 original size:53 final size:53
Alignment explanation
Indices: 99834--100098 Score: 376
Period size: 53 Copynumber: 5.0 Consensus size: 53
99824 TTATGTGTAC
* * *
99834 TTTCGACACTATGGGTGCACCCATGGTATTCGTAATGAGTTTTTGAATTATCA
1 TTTCGACACTATGTGTGCACCCATGGTATTCATAATGAGTTTTTGAATTACCA
* * *
99887 TTTCAACACTATGTGTGCACCCATGATATTCATAATGAGTTTATGAATTACCA
1 TTTCGACACTATGTGTGCACCCATGGTATTCATAATGAGTTTTTGAATTACCA
* * *
99940 TTTCGGCATTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCGACACTATGTGTGCACCCATGGTATTCATAATGAGTTTTTGAATTACCA
* *
99993 TTTCGGCAC--TGTGTGCATCCATGGTATTCATAATGAGTTTTTGAATTACCA
1 TTTCGACACTATGTGTGCACCCATGGTATTCATAATGAGTTTTTGAATTACCA
*
100044 TTTCGGA-ACTATGTGTGCATCCATGGTATTCATAATGA-TTTTGTGAATTACCA
1 TTTC-GACACTATGTGTGCACCCATGGTATTCATAATGAGTTTT-TGAATTACCA
100097 TT
1 TT
100099 CCGTTACCTT
Statistics
Matches: 193, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
51 46 0.24
52 5 0.03
53 142 0.74
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TTTCGACACTATGTGTGCACCCATGGTATTCATAATGAGTTTTTGAATTACCA
Found at i:100049 original size:104 final size:105
Alignment explanation
Indices: 99834--100098 Score: 388
Period size: 104 Copynumber: 2.5 Consensus size: 105
99824 TTATGTGTAC
* * * * *
99834 TTTCGACACTATGGGTGCACCCATGGTATTCGTAATGAGTTTTTGAATTATCATTTCAACACTAT
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCAACAC-AT
99899 GTGTGCACCCATGATATTCATAATGAGTTTATGAATTACCA
65 GTGTGCACCCATGATATTCATAATGAGTTTATGAATTACCA
* **
99940 TTTCGGCATTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGGCAC-TG
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCAACACATG
* * *
100004 TGTGCATCCATGGTATTCATAATGAGTTTTTGAATTACCA
66 TGTGCACCCATGATATTCATAATGAGTTTATGAATTACCA
* * *
100044 TTTCGGAACTATGTGTGCATCCATGGTATTCATAATGATTTTGTGAATTACCATT
1 TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCATT
100099 CCGTTACCTT
Statistics
Matches: 144, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
104 90 0.62
106 54 0.38
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (105 bp):
TTTCGGCACTATGTGTGCACCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCAACACATG
TGTGCACCCATGATATTCATAATGAGTTTATGAATTACCA
Found at i:101643 original size:18 final size:18
Alignment explanation
Indices: 101620--101696 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 18
101610 ACCTGTCATA
101620 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* ** *
101638 ACCCGACCGGACCTATTT
1 ACCCGACCCGACCCGTTG
*
101656 ACCTG-----ACCCGTTG
1 ACCCGACCCGACCCGTTG
*
101669 ACCCCACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
101687 ACCCGACCCG
1 ACCCGACCCG
101697 TTGACCGTTG
Statistics
Matches: 43, Mismatches: 11, Indels: 10
0.67 0.17 0.16
Matches are distributed among these distances:
13 8 0.19
18 35 0.81
ACGTcount: A:0.18, C:0.48, G:0.19, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:101665 original size:31 final size:31
Alignment explanation
Indices: 101624--101702 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
101614 GTCATAACCC
* * *
101624 GACCCGACCCGTTGACCCGACCGGACCTATT
1 GACCCGACCCGTTGACCCCACCCGACCCATT
* * *
101655 TACCTGACCCGTTGACCCCACCCGACCCGTT
1 GACCCGACCCGTTGACCCCACCCGACCCATT
101686 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
101703 GTTGACCCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCCACCCGACCCATT
Found at i:101677 original size:13 final size:13
Alignment explanation
Indices: 101674--101717 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
101664 CGTTGACCCC
101674 ACCCGACCCGTTG
1 ACCCGACCCGTTG
101687 ACCCGACCCGTTG
1 ACCCGACCCGTTG
*
101700 ACCGTTGACCCGTTG
1 ACC--CGACCCGTTG
101715 ACC
1 ACC
101718 GTTGACCGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 16 0.57
15 12 0.43
ACGTcount: A:0.16, C:0.43, G:0.23, T:0.18
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:101689 original size:8 final size:8
Alignment explanation
Indices: 101678--101724 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
101668 GACCCCACCC
101678 GACCCGTT
1 GACCCGTT
101686 GACCC---
1 GACCCGTT
101691 GACCCGTT
1 GACCCGTT
101699 GA-CCGTT
1 GACCCGTT
101706 GACCCGTT
1 GACCCGTT
101714 GA-CCGTT
1 GACCCGTT
101721 GACC
1 GACC
101725 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:101706 original size:7 final size:7
Alignment explanation
Indices: 101694--101725 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
101684 TTGACCCGAC
101694 CCGTTGA
1 CCGTTGA
101701 CCGTTGA
1 CCGTTGA
101708 CCCGTTGA
1 -CCGTTGA
101716 CCGTTGA
1 CCGTTGA
101723 CCG
1 CCG
101726 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:101711 original size:15 final size:15
Alignment explanation
Indices: 101678--101724 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
101668 GACCCCACCC
*
101678 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
101691 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
101706 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
101721 GACC
1 GACC
101725 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:104207 original size:48 final size:48
Alignment explanation
Indices: 104155--104286 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
104145 AATATTTTAC
*
104155 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
104203 CTGA-TATCTGACATGGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
104251 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
104287 CTGATTTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:104293 original size:24 final size:24
Alignment explanation
Indices: 104172--104286 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
104162 TCGATTTGAT
104172 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
104196 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
104220 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
104244 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
104267 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
104287 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:104303 original size:24 final size:24
Alignment explanation
Indices: 104223--104296 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
104213 ACATGGATTC
* * *
104223 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
104247 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
104271 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
104295 TG
1 TG
104297 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:105376 original size:108 final size:110
Alignment explanation
Indices: 105227--105605 Score: 305
Period size: 108 Copynumber: 3.4 Consensus size: 110
105217 GTTTCCAGTG
* *
105227 ATTAACCTATTTTGTTATCGTC-ATATTTCTAA-GACTCCATCAGCTTAAACTTTGGTAACATTT
1 ATTAACCTATTTTGTTATCGTCAAGATTTCTAAGGCCTCCATCAGCTTAAACTTTGGTAACATTT
105290 TAGGCGCTACCTAATATGTTTATAATATTGAAAACAAATTAAGTA
66 TAGGCGCTACCTAATATGTTTATAATATTGAAAACAAATTAAGTA
* **
105335 ATTAACCTATTTTGTTATCGTCAAG-TTTCTAAGGCCT-CATCAACTTTAAAC-AGGCGCTACAT
1 ATTAACCTATTTTGTTATCGTCAAGATTTCTAAGGCCTCCATCAGC-TTAAACTTTG-G-----T
* * ** * ** * * * ** *
105397 ATTACATTAAATAAGTACTACTTGTTATG-TTATTATGGTTG-ATA-AGTTTCCAGTA
59 A--ACATT--TTAGGCGCTACCTAATATGTTTATAAT-ATTGAAAACAAATT-AAGTA
* ** *
105452 ATTAACCTATTTTGTTATTGT-TGGATTTCTATGG-CTCCATCAGCTTAAACTTTGGTAACATTT
1 ATTAACCTATTTTGTTATCGTCAAGATTTCTAAGGCCTCCATCAGCTTAAACTTTGGTAACATTT
* * *
105515 TAGGCGTTACCTAATATGTTGATAATATTGATAACAAATTAAGTA
66 TAGGCGCTACCTAATATGTTTATAATATTGAAAACAAATTAAGTA
* * *
105560 ATTAACCTATTTTGTTATCATC-GGATTTCTAAGGAC-CCATCAGCTT
1 ATTAACCTATTTTGTTATCGTCAAGATTTCTAAGGCCTCCATCAGCTT
105606 TAAAAAGGCG
Statistics
Matches: 204, Mismatches: 44, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
107 14 0.07
108 86 0.42
109 20 0.10
111 2 0.01
114 2 0.01
116 18 0.09
117 47 0.23
118 15 0.07
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (110 bp):
ATTAACCTATTTTGTTATCGTCAAGATTTCTAAGGCCTCCATCAGCTTAAACTTTGGTAACATTT
TAGGCGCTACCTAATATGTTTATAATATTGAAAACAAATTAAGTA
Found at i:105482 original size:225 final size:225
Alignment explanation
Indices: 105083--105625 Score: 790
Period size: 225 Copynumber: 2.4 Consensus size: 225
105073 GGAGGTTACA
* * * * *
105083 TTTAGAATATTGAAAACAATTTAAGTAATTAACATATTAT-TTATCATCAAATTTCTAAGGCCCC
1 TTTATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCATCAAGTTTCTAAGG-CCC
* * *
105147 ATCAGCTTTAAACAGACAG-TACCTATTACTCTAAATAAGTGCTACTTGTTATGTTATTTTGGTT
65 ATCAGCTTTAAACAGGC-GCTACCTATTACTCTAAATAAGTACTACTTGTTATGTTATTATGGTT
* *
105211 GATAATGTTTCCAGTGATTAACCTATTTTGTTATCGTCATATTTCTAAGACTCCATCAGCTTAAA
129 GATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGACTCCATCAGCTTAAA
105276 CTTTGGTAACATTTTAGGCGCTACCTAATATG
194 CTTTGGTAACATTTTAGGCGCTACCTAATATG
*
105308 TTTATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAAGTTTCTAAGGCCTC
1 TTTATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCATCAAGTTTCTAAGGCC-C
* *
105373 ATCAACTTTAAACAGGCGCTACATATTACAT-TAAATAAGTACTACTTGTTATGTTATTATGGTT
65 ATCAGCTTTAAACAGGCGCTACCTATTAC-TCTAAATAAGTACTACTTGTTATGTTATTATGGTT
* ** * *
105437 GATAA-GTTTCCAGTAATTAACCTATTTTGTTATTGTTGGATTTCTATGGCTCCATCAGCTTAAA
129 GATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGACTCCATCAGCTTAAA
*
105501 CTTTGGTAACATTTTAGGCGTTACCTAATATG
194 CTTTGGTAACATTTTAGGCGCTACCTAATATG
* * *
105533 TTGATAATATTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATC-GGATTTCTAAGGACC
1 TTTATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCATCAAG-TTTCTAAGG-CC
*
105597 CATCAGCTTTAAAAAGGCGCTACCTATTA
64 CATCAGCTTTAAACAGGCGCTACCTATTA
105626 TTGTTGAACT
Statistics
Matches: 286, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
224 1 0.00
225 203 0.71
226 81 0.28
227 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (225 bp):
TTTATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCATCAAGTTTCTAAGGCCCA
TCAGCTTTAAACAGGCGCTACCTATTACTCTAAATAAGTACTACTTGTTATGTTATTATGGTTGA
TAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGACTCCATCAGCTTAAACT
TTGGTAACATTTTAGGCGCTACCTAATATG
Found at i:105784 original size:18 final size:19
Alignment explanation
Indices: 105761--105812 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
105751 AAAATGTTTT
105761 TATGAATAGTATTGTA-TG
1 TATGAATAGTATTGTACTG
*
105779 TATGAATAGTACTGGTACTG
1 TATGAATAGTA-TTGTACTG
*
105799 TATAAATAGTATTG
1 TATGAATAGTATTG
105813 ATATTGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 11 0.38
19 6 0.21
20 12 0.41
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (19 bp):
TATGAATAGTATTGTACTG
Found at i:106348 original size:39 final size:34
Alignment explanation
Indices: 106272--106336 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
106262 AAGGGGTTTT
*
106272 GGTTCTAGCTTAGCCCGTGAAAAGCTAGGGGAAA
1 GGTTCTAGCTTAGCCCGTGAAAAACTAGGGGAAA
*
106306 GGTTCTAGTTTAGCCCGTGAAAAACTAGGGG
1 GGTTCTAGCTTAGCCCGTGAAAAACTAGGGG
106337 GTTATAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (34 bp):
GGTTCTAGCTTAGCCCGTGAAAAACTAGGGGAAA
Found at i:111776 original size:20 final size:20
Alignment explanation
Indices: 111753--111842 Score: 180
Period size: 20 Copynumber: 4.5 Consensus size: 20
111743 GCAAAAGTTG
111753 ATTTTGAAAATCAAAATGAA
1 ATTTTGAAAATCAAAATGAA
111773 ATTTTGAAAATCAAAATGAA
1 ATTTTGAAAATCAAAATGAA
111793 ATTTTGAAAATCAAAATGAA
1 ATTTTGAAAATCAAAATGAA
111813 ATTTTGAAAATCAAAATGAA
1 ATTTTGAAAATCAAAATGAA
111833 ATTTTGAAAA
1 ATTTTGAAAA
111843 ATGATTTAGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTTGAAAATCAAAATGAA
Found at i:112640 original size:19 final size:20
Alignment explanation
Indices: 112616--112657 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
112606 AATATAAAAT
112616 GTGTATCGAT-ACTGCTACA
1 GTGTATCGATAACTGCTACA
*
112635 GTGTATTGATACACTGCTACA
1 GTGTATCGATA-ACTGCTACA
112656 GT
1 GT
112658 AATTTTAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GTGTATCGATAACTGCTACA
Found at i:114356 original size:16 final size:17
Alignment explanation
Indices: 114337--114372 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
114327 TATATATGTA
114337 ATATA-TTTGAAAATAT
1 ATATATTTTGAAAATAT
*
114353 ATATATTTTTAAAATAT
1 ATATATTTTGAAAATAT
114370 ATA
1 ATA
114373 GTATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATATTTTGAAAATAT
Found at i:114382 original size:24 final size:25
Alignment explanation
Indices: 114350--114466 Score: 123
Period size: 24 Copynumber: 4.4 Consensus size: 25
114340 TATTTGAAAA
114350 TATATATATTTTT-AAAATATATAG
1 TATATATATTTTTAAAAATATATAG
114374 TATATATATTATTTTAAAATATATATAG
1 TATATATA-T-TTTTAAAA-ATATATAG
*
114402 TACTAGGTATATTATTTTAAAATATATA-
1 TA-TA--TATATT-TTTAAAAATATATAG
114430 T-TATATATTATTTAAAAATATGATAG
1 TATATATATT-TTTAAAAATAT-ATAG
114456 TATATATATTT
1 TATATATATTT
114467 AAGAATATAT
Statistics
Matches: 80, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
24 25 0.31
25 4 0.05
26 8 0.10
27 11 0.14
28 11 0.14
29 10 0.12
30 7 0.09
31 4 0.05
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (25 bp):
TATATATATTTTTAAAAATATATAG
Found at i:114397 original size:17 final size:17
Alignment explanation
Indices: 114375--114433 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
114365 AATATATAGT
114375 ATATATATTATTTTAAA
1 ATATATATTATTTTAAA
* **
114392 ATATATA-TA--GTACT
1 ATATATATTATTTTAAA
**
114406 AGGTATATTATTTTAAA
1 ATATATATTATTTTAAA
114423 ATATATATTAT
1 ATATATATTAT
114434 ATATTATTTA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
14 7 0.24
15 2 0.07
16 2 0.07
17 18 0.62
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
ATATATATTATTTTAAA
Found at i:114413 original size:55 final size:54
Alignment explanation
Indices: 114350--114457 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 54
114340 TATTTGAAAA
114350 TATATATATTTTTAAAATATATAGTATATATATTATTTTAAAATATAT-ATAGTACTAGG
1 TATAT-TA-TTTTAAAATATATA-T-TATATATTA-TTTAAAA-ATATGATAGTACTAGG
114409 TATATTATTTTAAAATATATATTATATATTATTTAAAAATATGATAGTA
1 TATATTATTTTAAAATATATATTATATATTATTTAAAAATATGATAGTA
114458 TATATATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
53 4 0.08
54 13 0.27
55 9 0.19
56 1 0.02
57 14 0.29
58 2 0.04
59 5 0.10
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (54 bp):
TATATTATTTTAAAATATATATTATATATTATTTAAAAATATGATAGTACTAGG
Found at i:114416 original size:31 final size:28
Alignment explanation
Indices: 114349--114465 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 28
114339 ATATTTGAAA
*
114349 ATATATA-TATTTTTAAA-ATATATAGT
1 ATATATATTATTTTAAAATATATATAGT
114375 ATATATATTATTTTAAAATATATATAGT
1 ATATATATTATTTTAAAATATATATAGT
114403 ACTAGGTATATTATTTT-AAA-ATATATA-T
1 A-TA--TATATTATTTTAAAATATATATAGT
114431 -TATATATTA-TTTAAAA-ATATGATAGT
1 ATATATATTATTTTAAAATATAT-ATAGT
114457 ATATATATT
1 ATATATATT
114466 TAAGAATATA
Statistics
Matches: 81, Mismatches: 1, Indels: 17
0.82 0.01 0.17
Matches are distributed among these distances:
23 3 0.04
24 14 0.17
25 3 0.04
26 10 0.12
27 17 0.21
28 11 0.14
29 9 0.11
30 3 0.04
31 11 0.14
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (28 bp):
ATATATATTATTTTAAAATATATATAGT
Found at i:114467 original size:24 final size:23
Alignment explanation
Indices: 114408--114477 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
114398 ATAGTACTAG
*
114408 GTATAT-TATTTTAAAATATATA
1 GTATATATATTTAAAAATATATA
*
114430 TTATATATTATTTAAAAATATGATA
1 GTATATA-TATTTAAAAATAT-ATA
*
114455 GTATATATATTTAAGAATATATA
1 GTATATATATTTAAAAATATATA
114478 TTCGTATATC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 5 0.12
23 3 0.07
24 24 0.59
25 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
GTATATATATTTAAAAATATATA
Found at i:114486 original size:24 final size:23
Alignment explanation
Indices: 114352--114479 Score: 82
Period size: 24 Copynumber: 5.0 Consensus size: 23
114342 TTTGAAAATA
114352 TATATATT-TTTAAAATATATAGT
1 TATATATTATTTAAAATATATA-T
114375 ATATATATTATTTTAAAATATATATAGT
1 -TATATATTA-TTT-AAA-ATATATA-T
*
114403 ACTAGGTATATTATTTTAAA-ATATATAT
1 --TA--TATATTATTTAAAATATA--TAT
*
114431 TATATATTATTTAAAAATATGATAG
1 TATATATTATTT-AAAATAT-ATAT
114456 TATATA-TATTTAAGAATATATAT
1 TATATATTATTTAA-AATATATAT
114479 T
1 T
114480 CGTATATCTT
Statistics
Matches: 86, Mismatches: 5, Indels: 27
0.73 0.04 0.23
Matches are distributed among these distances:
23 6 0.07
24 28 0.33
25 11 0.13
26 7 0.08
27 7 0.08
28 11 0.13
29 6 0.07
30 3 0.03
31 7 0.08
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (23 bp):
TATATATTATTTAAAATATATAT
Found at i:135027 original size:16 final size:18
Alignment explanation
Indices: 135006--135147 Score: 72
Period size: 17 Copynumber: 8.1 Consensus size: 18
134996 CAATTATATT
135006 TAGTATTT-TATA-AATA
1 TAGTATTTATATATAATA
135022 TAGTATTTATATATAATA
1 TAGTATTTATATATAATA
135040 TA-T-TTGTATAGTATATTATA
1 TAGTATT-TATA-TATA--ATA
*
135060 TAGTATGTTCTATAT-ATA
1 TAGTAT-TTATATATAATA
*
135078 -A-TATTTGAAAATATAA-A
1 TAGTATTT--ATATATAATA
* * *
135095 TAATTTTTATATATTATA
1 TAGTATTTATATATAATA
*
135113 TA-TATATATATAT-ATA
1 TAGTATTTATATATAATA
* *
135129 TA-TATATATATATATTA
1 TAGTATTTATATATAATA
135146 TA
1 TA
135148 TTTAGAAAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
15 2 0.02
16 29 0.29
17 34 0.34
18 18 0.18
19 4 0.04
20 5 0.05
21 4 0.04
22 4 0.04
23 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (18 bp):
TAGTATTTATATATAATA
Found at i:135114 original size:2 final size:2
Alignment explanation
Indices: 135102--135166 Score: 82
Period size: 2 Copynumber: 34.0 Consensus size: 2
135092 AAATAATTTT
135102 TA TA TA T- 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 TA TA
* * *
135143 T- TA TA TT TA GA -A AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
135167 GTAGTAGGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 3 0.05
2 53 0.95
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:135159 original size:18 final size:18
Alignment explanation
Indices: 135138--135201 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
135128 ATATATATAT
135138 ATATATTATATTTAGAAA
1 ATATATTATATTTAGAAA
* * *
135156 ATATA-TATATAGTAGTAG
1 ATATATTATAT-TTAGAAA
*
135174 GTATATTAT-TTTA-AAA
1 ATATATTATATTTAGAAA
*
135190 ATATATTTTATT
1 ATATATTATATT
135202 ATTTAAAATA
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
16 8 0.24
17 9 0.26
18 14 0.41
19 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (18 bp):
ATATATTATATTTAGAAA
Found at i:135165 original size:34 final size:33
Alignment explanation
Indices: 135070--135195 Score: 112
Period size: 34 Copynumber: 3.7 Consensus size: 33
135060 TAGTATGTTC
* * * * *
135070 TATATATAATATTTGAAAATATAAATA-ATTTT
1 TATATATTATATTTAAAAATATATATATATATA
* *
135102 TATATATTATATATATATATATATATATATATATA
1 TATATATTATAT-T-TAAAAATATATATATATATA
135137 TATATATTATATTTAGAAAATATATATATAGTAGTA
1 TATATATTATATTTA-AAAATATATATATA-TA-TA
**
135173 GGTATATTAT-TTTAAAAATATAT
1 TATATATTATATTTAAAAATATAT
135196 TTTATTATTT
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
32 11 0.14
33 3 0.04
34 32 0.42
35 21 0.27
36 10 0.13
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (33 bp):
TATATATTATATTTAAAAATATATATATATATA
Found at i:141733 original size:226 final size:228
Alignment explanation
Indices: 141264--142175 Score: 1190
Period size: 226 Copynumber: 4.0 Consensus size: 228
141254 ACTAGAAACA
* * * *
141264 TTATCAATCATAATAACATATTAGTTAGCGCTTATATAACATAATA--T-GTACCGTCTTTTTAA
1 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGTACC-T-TTTTAAA
* ** * * *
141326 GTTGATGG-GGTCATAGAAATCCGACGAAAACAAGATAGGTTAATTACTTAATTTGTTATCAGTA
64 GCTGATGGAGACCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTA
* *
141390 TTATCAACATATTAGGTAACGCCTAAAATGTTA-CTAAATTTTAAGCTAATGGAGCCTTAGAAAT
129 TTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAAGTTTAAGCTAATGGAGCCTTAGAAAT
* * * **
141454 CCAACGATAACATAA-CTGGTTAATTACTAAATTTG
194 CCGACGATAACATAATC-GATTAATTATTTGATTTG
* *
141489 TTATCAACCATAATAACATATTAGGTAACACTTATGTAACATAATAGGTAGTACCTTTTTAAAGC
1 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGTACCTTTTTAAAGC
* *
141554 TGATGGAG-CCTTAGAAATCCGATGATAATAAAATAGG-TAATTACTTAATTTGTTATCAGTATT
66 TGATGGAGACCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATT
* * * *
141617 ATCAACATATTAGGTAATGCCTAAAATGTTACCAAAAGTTTAAGCTGATGGAGCCTTAAAAATTC
131 ATCAACATATTAGGTAACGCCTAAAATGTTACCAAAAGTTTAAGCTAATGGAGCCTTAGAAATCC
*
141682 GACGATAACATAATCGATTAATTAATTGATTTG
196 GACGATAACATAATCGATTAATTATTTGATTTG
* * * *
141715 TTATCAACCATAATAACATATTAAGTAGCGTTTATGTAACGTAATAGATAGAGTA--TTTTTAAA
1 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGT--AGTACCTTTTTAAA
* ** * *
141778 GCTGATGG-GCCCTTAGAAATTTGACGATAATAAAATAGGTTAATTACTTAATTTGTTATTAGTA
64 GCTGATGGAGACCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTA
* * * *
141842 TTATCAACATATTAGATAACG-TTGAAAATGTTACC-AAAGTTTAAGCTGATAGAGCCTTAGAAA
129 TTATCAACATATTAGGTAACGCCT-AAAATGTTACCAAAAGTTTAAGCTAATGGAGCCTTAGAAA
* *
141905 TCCGATGATAACATAATCGGTTAATTATTTGATTTG
193 TCCGACGATAACATAATCGATTAATTATTTGATTTG
* * *
141941 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCACCTTTTTAAAAC
1 TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGTACCTTTTTAAAGC
* * *
142006 TGAT-GAGACCTTAGAAATCCGACGATAACAAAATATGTTAATTACTTAATTTATTATTAGTATT
66 TGATGGAGACCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATT
* *
142070 ATCAACATATTAGGTAACGCCTAAAATGTTACCAAAA-TTTAAGCTAATTGAGCCTTAGAAATCT
131 ATCAACATATTAGGTAACGCCTAAAATGTTACCAAAAGTTTAAGCTAATGGAGCCTTAGAAATCC
*
142134 GAGGATAACATAATC-AGTTAATTATTTGATTTG
196 GACGATAACATAATCGA-TTAATTATTTGATTTG
*
142167 TTATTAACC
1 TTATCAACC
142176 TAAAATTAAG
Statistics
Matches: 608, Mismatches: 62, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
224 3 0.00
225 99 0.16
226 436 0.72
227 61 0.10
228 9 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (228 bp):
TTATCAACCATAATAACATATTAGGTAGCGCTTATGTAACATAATAGGTAGTACCTTTTTAAAGC
TGATGGAGACCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATT
ATCAACATATTAGGTAACGCCTAAAATGTTACCAAAAGTTTAAGCTAATGGAGCCTTAGAAATCC
GACGATAACATAATCGATTAATTATTTGATTTG
Found at i:143036 original size:228 final size:228
Alignment explanation
Indices: 142636--143088 Score: 658
Period size: 228 Copynumber: 2.0 Consensus size: 228
142626 AGTAAAACGG
* * * * * *
142636 TTTCCTTCAAAGGAATGAGAGTAGTCTCTACTACATGTATCGATACATTTATATAACCTACAATA
1 TTTCCTTCAAAGGAATAAGAATACTCTCTACTACAAGTATCGATACATTTATACAACATACAATA
*
142701 TCATTTTCTACCTATAATATTATATAAAAGTATTGATATTTATTTTCTACCTAAAATATCACTTT
66 TCATTTTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTCTACCTAAAATATCACTTT
** *
142766 CTAACTGTAATCGGTCTCAAATTATTCTTTACTTCAAAAACCCCAAACCCATAAACATAATCCCT
131 AGAACTGTAATCGGTCTCAAATTATTCTTTACTTCAAAAACCCCAAACCCATAAACATAACCCCT
* *
142831 ATTTTTGAATATTGTAATACTATAAAAATACGA
196 ATTTTTGAATACTGTAATACTAAAAAAATACGA
* * *
142864 TTTCCTTCAAAGGAATAAGAATACTCTCTACTAGAAGTA-CTGGTACCTTTATACAACATACAAT
1 TTTCCTTCAAAGGAATAAGAATACTCTCTACTACAAGTATC-GATACATTTATACAACATACAAT
*
142928 ATCATTTTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTCTACCTATAATATCACTT
65 ATCATTTTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTCTACCTAAAATATCACTT
* * * * * *
142993 TAGAATTGTAGTCGGTCTCAAA-TATTTTTTTACTTCGAAAACCCCAAACTCATAAACCTAACCC
130 TAGAACTGTAATCGGTCTCAAATTA-TTCTTTACTTCAAAAACCCCAAACCCATAAACATAACCC
* *
143057 CTATTTTTTATTACTGTAATACTAAAAAAATA
194 CTATTTTTGAATACTGTAATACTAAAAAAATA
143089 GGGTTTCGAC
Statistics
Matches: 199, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
227 3 0.02
228 196 0.98
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (228 bp):
TTTCCTTCAAAGGAATAAGAATACTCTCTACTACAAGTATCGATACATTTATACAACATACAATA
TCATTTTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTCTACCTAAAATATCACTTT
AGAACTGTAATCGGTCTCAAATTATTCTTTACTTCAAAAACCCCAAACCCATAAACATAACCCCT
ATTTTTGAATACTGTAATACTAAAAAAATACGA
Found at i:143356 original size:9 final size:10
Alignment explanation
Indices: 143337--143362 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
143327 TTTCGATCCG
143337 TTTTCATTTT
1 TTTTCATTTT
143347 TTTTCATTTT
1 TTTTCATTTT
143357 TTTTCA
1 TTTTCA
143363 ATTCCTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:143521 original size:21 final size:21
Alignment explanation
Indices: 143495--143546 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
143485 ATATTGACAT
*
143495 GTATCGATACATGTGTCTAAG
1 GTATCGATACATGTGTCTAAA
143516 GTATCGATACATGTGTCTAAA
1 GTATCGATACATGTGTCTAAA
143537 GTATCGATAC
1 GTATCGATAC
143547 TTTATAGGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTGTCTAAA
Found at i:146109 original size:21 final size:21
Alignment explanation
Indices: 146056--146128 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
146046 TTTAAATGTT
* *
146056 ATAA-TAAAATATTAATTATG
1 ATAATTAATATATTAATAATG
146076 ATAATT-A-A-ATTAATAAAT-
1 ATAATTAATATATTAAT-AATG
* *
146094 ATATTTAATATATTAATTATG
1 ATAATTAATATATTAATAATG
146115 ATAATTAATATATT
1 ATAATTAATATATT
146129 TTACATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 11 0.26
19 4 0.09
20 8 0.19
21 20 0.47
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
ATAATTAATATATTAATAATG
Found at i:146167 original size:22 final size:22
Alignment explanation
Indices: 146134--146242 Score: 93
Period size: 22 Copynumber: 4.9 Consensus size: 22
146124 ATATTTTACA
*
146134 TTTAATAC-TTATATTATATAG
1 TTTAATACTTTATATTATATAC
146155 TTTAATACTTTATATTATATAC
1 TTTAATACTTTATATTATATAC
* *
146177 TTTAGTACTTATGTACTTATATAC
1 TTTAATACTT-TATA-TTATATAC
*
146201 TTT-ATA-TTTAATACT-TATA-
1 TTTAATACTTT-ATATTATATAC
146220 TTTATATACTTTAATACTTATAT
1 TTTA-ATACTTT-ATA-TTATAT
146243 CCAAAAACTT
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
19 3 0.04
20 4 0.06
21 13 0.18
22 32 0.44
23 6 0.08
24 14 0.19
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (22 bp):
TTTAATACTTTATATTATATAC
Found at i:146185 original size:8 final size:7
Alignment explanation
Indices: 146138--146238 Score: 59
Period size: 8 Copynumber: 13.9 Consensus size: 7
146128 TTTACATTTA
146138 ATAC-TT
1 ATACTTT
146144 ATA-TTAT
1 ATACTT-T
*
146151 ATAGTTT
1 ATACTTT
146158 AATACTTT
1 -ATACTTT
146166 ATA-TTAT
1 ATACTT-T
146173 ATACTTT
1 ATACTTT
146180 AGTACTTAT
1 A-TACTT-T
*
146189 GTACTTAT
1 ATACTT-T
146197 ATACTTT
1 ATACTTT
146204 ATA-TTT
1 ATACTTT
146210 AATAC-TT
1 -ATACTTT
*
146217 ATATTTAT
1 ATACTT-T
146225 ATACTTT
1 ATACTTT
146232 AATACTT
1 -ATACTT
146239 ATATCCAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 24
0.73 0.05 0.23
Matches are distributed among these distances:
6 12 0.16
7 25 0.32
8 39 0.51
9 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (7 bp):
ATACTTT
Found at i:146193 original size:16 final size:14
Alignment explanation
Indices: 146193--146242 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
146183 ACTTATGTAC
146193 TTATATACTTTATA
1 TTATATACTTTATA
146207 TT-TAATAC-TTATA
1 TTAT-ATACTTTATA
146220 TTTATATACTTTAATA
1 -TTATATACTTT-ATA
146236 CTTATAT
1 -TTATAT
146243 CCAAAAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 3 0.10
16 9 0.30
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATATACTTTATA
Found at i:146220 original size:13 final size:14
Alignment explanation
Indices: 146193--146230 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
146183 ACTTATGTAC
146193 TTATATACTTTATAT
1 TTATATAC-TTATAT
146208 TTA-ATACTTATAT
1 TTATATACTTATAT
146221 TTATATACTT
1 TTATATACTT
146231 TAATACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 10 0.45
15 3 0.14
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATATACTTATAT
Found at i:146252 original size:22 final size:22
Alignment explanation
Indices: 146207--146265 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
146197 ATACTTTATA
** * *
146207 TTTAATACTTATATTTATATAC
1 TTTAATACTTATATCCAAAAAC
146229 TTTAATACTTATATCCAAAAAC
1 TTTAATACTTATATCCAAAAAC
*
146251 TTTATTACTTTATAT
1 TTTAATAC-TTATAT
146266 ATATATACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 25 0.81
23 6 0.19
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTAATACTTATATCCAAAAAC
Found at i:146271 original size:73 final size:72
Alignment explanation
Indices: 146122--146283 Score: 186
Period size: 73 Copynumber: 2.2 Consensus size: 72
146112 ATGATAATTA
* * * * *
146122 ATATATTTTACATTTAATACTTATATTATATAGTTTAATACTTTATATTATATACTTTAGTACTT
1 ATATACTTTACATTTAATACTTATATTATATACTTTAATACTTTATATCAAAAACTTTAGTACTT
*
146187 ATGTACTT
66 ATATAC-T
* *
146195 ATATACTTTATATTTAATACTTATATTTATATACTTTAATAC-TTATATCCAAAAACTTTATTAC
1 ATATACTTTACATTTAATACTTATA-TTATATACTTTAATACTTTATAT-CAAAAACTTTAGTAC
146259 TTTATATA-T
64 -TTATATACT
146268 ATATAC-TTACACTTTA
1 ATATACTTTACA-TTTA
146284 TCATTTAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
72 4 0.05
73 40 0.53
74 26 0.34
75 6 0.08
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.51
Consensus pattern (72 bp):
ATATACTTTACATTTAATACTTATATTATATACTTTAATACTTTATATCAAAAACTTTAGTACTT
ATATACT
Found at i:146281 original size:29 final size:30
Alignment explanation
Indices: 146193--146284 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 30
146183 ACTTATGTAC
* *
146193 TTATATACTTTATATTTA-ATACTTATA-T
1 TTATATACTTTATATATATATACTTAAACT
* **
146221 TTATATACTTTA-ATACTTATATCCAAAAACT
1 TTATATACTTTATATA--TATATACTTAAACT
*
146252 TTAT-TACTTTATATATATATACTTACACT
1 TTATATACTTTATATATATATACTTAAACT
146281 TTAT
1 TTAT
146285 CATTTAAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.04
28 12 0.24
29 16 0.32
30 12 0.24
31 8 0.16
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (30 bp):
TTATATACTTTATATATATATACTTAAACT
Found at i:146732 original size:2 final size:2
Alignment explanation
Indices: 146721--146769 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
146711 TTAAAACAAT
146721 TA TA -A 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 TA TA
146762 TA TA TA TA
1 TA TA TA TA
146770 ATGTTATGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:147313 original size:4 final size:4
Alignment explanation
Indices: 147306--151569 Score: 6611
Period size: 4 Copynumber: 1069.2 Consensus size: 4
147296 ATAGACACAC
* *
147306 ACAT ACAT ACAT ACAT ACAT ACATT ATAT ACAT ACAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
147355 ACAA ACGT ACGT ACAT ATAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147403 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147451 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147499 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147547 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147595 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147643 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147691 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147739 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147786 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147834 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
147882 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
147930 ACGT ACGA- ACAT ACAT ACAT ACAT ACGT ACGT ACAT ACAT ACGT ACAT
1 ACAT AC-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * *
147978 ATAT ATAT ACAT ACAT ACGT ACGT ACAT ACGT ACGT ACGT ATAT ATAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * * *
148026 ACGT ACCT ATAT ACGT ATAT ACAT ACGT ACGT ATAT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * *
148074 ACGT ACGT ACGT ACCT ACAT ACGT ACGT ACAT ACAT ACGT ACGT ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
148122 ACAT ACAT ACGT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
148170 ACCT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148218 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
148266 ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * **
148314 ACAT ACGT ACGT ACAT ACGT ACGT ACAT ACAT ACGT ACAT ATGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
** * * * * * *
148362 ATGT ACAT ACAT ACGT ACGT ACAT ACAT ACGT ACGT ACGT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
148410 ACGT ACGT ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148458 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148505 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148553 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148601 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148649 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148697 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148745 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148793 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148841 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148889 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148937 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
148985 ACAT ACAT ACAT ACA- ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149030 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149078 ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149124 ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149170 ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
149216 ACAT ACAT ACAT ACAT ACAT AC-T ACGT ACAT ACAT AC-T ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
149262 ACGT ACAT ACAT ACGT AC-T ACAT ATAT ACAT ACAT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * * *
149309 ACGT ACGT ACGTAT ATAT ACGT ACCT ATAT ACGT ATAT ACAT ACGT ACGT
1 ACAT ACAT AC--AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * ** * * *
149359 ATAT ACGT ACGT ACAT ACGT ACGT ATGT ACCT ACAT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
149407 ACAT ACGT ACAC ACAT ACAT ACGT ACAT ACAT ATAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
149455 ACAT ACGT ACCT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149503 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149551 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149599 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149647 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149695 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149743 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
149791 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
149839 ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
149887 ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACGT ACAT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
149935 ACGT ACAT ACGT ACGT ACGT ACGT ACGT ACAT ACAT ACAT ACCT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
149983 ACGT ACCT ACAT ACGT ACGT ACAT ACAT ACGT ACGT ACCT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
150031 ACCT ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150079 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150127 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150175 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150223 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150270 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150317 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150365 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150413 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACACT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT
150462 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150510 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150558 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150605 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150653 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
150701 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
150749 ATAT ACAT ACAT ACGT ACGT ACAT ACAT ACAT ACAT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
150797 ACAT ACGT ACAT ACAT ATAT ACAT ACAT ACGT ACGT ACAT ACGT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * * * *
150845 ACGT ATAT ATAT ACGT ACCT ATAT ACGT ATAT ACAT ACGT ACGT ATAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * *
150893 ACGT ACGT ACAT ACGT ACGT ACGT ACCT ACAT ACGT ACGT ACCT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
150941 ACGT ACGT ACAC ACAT ACAT ACGT ACAT ACAT ACAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
150989 ACAT ACAT ACGT ACCT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
151037 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
151085 ACAT ACAT ACAA ACAT ACAT ACAT ACAT ATAT ACAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
151133 ACGT ACGT ACAT ACGT ACGT ACAT ACGT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* ** * * * * *
151181 ACGT ACAT ATGT ACAT ACAT ACGT ACGT ACAT ACAT ACGT ACGT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
151229 ACAT ACGT ACGT ACGT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
151277 ACAT ACGT ACAT ACAT ACGT ACGT ACAT ACAT ACGT ACGT ACCT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
151325 ACAT ACCT ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
151373 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
151421 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
151469 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
151517 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
151565 ACAT A
1 ACAT A
151570 AATTTTTTTA
Statistics
Matches: 3980, Mismatches: 257, Indels: 46
0.93 0.06 0.01
Matches are distributed among these distances:
2 8 0.00
3 28 0.01
4 3935 0.99
5 7 0.00
6 2 0.00
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:152009 original size:2 final size:2
Alignment explanation
Indices: 151998--152383 Score: 242
Period size: 2 Copynumber: 195.0 Consensus size: 2
151988 AACTATAAAG
*
151998 TA TA TA -A TA TA TA TA TA TA TA TA AA GTA TA -A GTA 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
* * *
152039 -A GTA TA TA TA CTT TA TA CTA -A AA CTT TA 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
* * *
152080 -A TT TA TA T- TA TA TA CT- TA TA TA TA TA TA TA TA TA AA GT- TT
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
152120 TA -A TA TA AA GTA TA TA TA TA -A TA -A TA AA GTA TA -A GTA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
152159 TA TA TA TA TA TA TA TA TA TA CTA 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 TA TA
* * *
152202 TA CTT TA TA T- TA T- TA TA TA -A AA TA TA TA AA TA TA TA TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
152241 AA GTA TA TA CA TA TA TA TA TA CTT TA CA GTT TA TA TA TC T- TA
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
*
152283 TA CA T- 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 TA TA
*
152324 TA TA TA TA TA TA TA TA T- TA TA GTA TA TA TA CT- TA TA TA CTT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA
* *
152365 TA TA TT TA -A TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
152384 CTTATATTTA
Statistics
Matches: 303, Mismatches: 39, Indels: 84
0.71 0.09 0.20
Matches are distributed among these distances:
1 23 0.08
2 261 0.86
3 19 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:152085 original size:31 final size:34
Alignment explanation
Indices: 152041--152361 Score: 124
Period size: 31 Copynumber: 9.9 Consensus size: 34
152031 ATATTATAAG
*
152041 TATATATACTTTATACTA-AAACTT-TATATATA
1 TATATATAATTTATACTATAAACTTATATATATA
* *
152073 T-TATATAATTTATATTATATACTTATATATATA
1 TATATATAATTTATACTATAAACTTATATATATA
* *
152106 TATATATAAAGTTT-TAATATAAA-GTATATATATA
1 TATATAT-AA-TTTATACTATAAACTTATATATATA
* *
152140 -ATA-AT-A---A-AGTAT-AA-GTATATATATA
1 TATATATAATTTATACTATAAACTTATATATATA
* *
152165 TATATAT-ATATATACTATATA--TATATATATA
1 TATATATAATTTATACTATAAACTTATATATATA
*
152196 TATATATACTTTATA-T-T--A-TTATATA-A-A
1 TATATATAATTTATACTATAAACTTATATATATA
* ** *
152223 -ATATATAA-ATATA-TATAAAAGTATATACATA
1 TATATATAATTTATACTATAAACTTATATATATA
* * * *
152254 TATATATACTTTACAGTTTATATATCTTATACATTATATA
1 TATATATAATTTATA--CTATA-AACTTAT--A-TATATA
* *
152294 TATATATATATATATA-TATATA-TATATATATATA
1 TATATATA-ATTTATACTATAAACT-TATATATATA
*
152328 TATATATATATATTATAGTATATATACTTATATA
1 TATATATA-AT-TTATACTATA-A-ACTTATATA
152362 CTTTATATTT
Statistics
Matches: 224, Mismatches: 28, Indels: 68
0.70 0.09 0.21
Matches are distributed among these distances:
25 18 0.08
26 15 0.07
27 4 0.02
28 3 0.01
29 12 0.05
30 4 0.02
31 37 0.17
32 21 0.09
33 15 0.07
34 32 0.14
35 14 0.06
36 12 0.05
37 7 0.03
38 11 0.05
39 2 0.01
40 13 0.06
41 4 0.02
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (34 bp):
TATATATAATTTATACTATAAACTTATATATATA
Found at i:152088 original size:14 final size:15
Alignment explanation
Indices: 152067--152551 Score: 125
Period size: 15 Copynumber: 31.8 Consensus size: 15
152057 TAAAACTTTA
152067 TATATATTATATAAT
1 TATATATTATATAAT
*
152082 T-TATATTATATACT
1 TATATATTATATAAT
152096 TATATA-TATAT-AT
1 TATATATTATATAAT
*
152109 ATATAAAGTT-T-TAAT
1 -TATATA-TTATATAAT
*
152124 ATAAAGTATATATATAA-
1 -TATA-TAT-TATATAAT
* *
152141 TA-ATA-AAGTATAAG
1 TATATATTA-TATAAT
152155 TATATATATATATATAT
1 TATATAT-TATATA-AT
*
152172 ATATATACTATATATAT
1 -TATATATTATATA-AT
*
152189 ATATATATATATATACT
1 -TATATAT-TATATAAT
152206 T-TATATTAT-T-A-
1 TATATATTATATAAT
* *
152217 TATAAAATATATAA-
1 TATATATTATATAAT
* *
152231 -ATATA-TATAAAAG
1 TATATATTATATAAT
*
152244 TATATA-CATAT-A-
1 TATATATTATATAAT
* *
152256 TATATACTT-TACAGTT
1 TATATA-TTATATA-AT
152272 TATATATCT-TATACAT
1 TATATAT-TATATA-AT
152288 TATATATATATATATAT
1 TATATAT-TATATA-AT
152305 ATATATATATATATATAT
1 -TATATAT-TATATA-AT
152323 ATATATATATATATATAT
1 -TATATAT-TATATA-AT
*
152341 TATAGTA-TATATACT
1 TATA-TATTATATAAT
*
152356 TATATACTT-TATATT
1 TATATA-TTATATAAT
*
152371 TA-ATATTTATATACT
1 TATATA-TTATATAAT
152386 TATAT-TTAATACTTATAT
1 TATATATT-ATA--TA-AT
*
152404 T-TATATTATATACT
1 TATATATTATATAAT
* * *
152418 TATAT-TTTTTTATT
1 TATATATTATATAAT
*
152432 TA-ATACTTATATACT
1 TATATA-TTATATAAT
**
152447 T-TATATTTATATACC
1 TATATA-TTATATAAT
152462 TATATACTT-TATAATAT
1 TATATA-TTATAT-A-AT
**
152479 TATATACGCATATAAAT
1 TATATA-TTATAT-AAT
* *
152496 TTTATATT-TAATACT
1 TATATATTAT-ATAAT
*
152511 TATATATTTTAT-AT
1 TATATATTATATAAT
152525 TATATACTTATATAAT
1 TATATA-TTATATAAT
152541 T-TATATTATAT
1 TATATATTATAT
152552 GCTTATATAC
Statistics
Matches: 366, Mismatches: 52, Indels: 105
0.70 0.10 0.20
Matches are distributed among these distances:
11 1 0.00
12 19 0.05
13 17 0.05
14 72 0.20
15 93 0.25
16 51 0.14
17 52 0.14
18 61 0.17
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (15 bp):
TATATATTATATAAT
Found at i:152381 original size:13 final size:13
Alignment explanation
Indices: 152366--152458 Score: 64
Period size: 13 Copynumber: 6.8 Consensus size: 13
152356 TATATACTTT
152366 ATATTTAATATTTA
1 ATATTT-ATATTTA
*
152380 TATACTTATATTTA
1 -ATATTTATATTTA
*
152394 ATACTTATATTT-
1 ATATTTATATTTA
*
152406 ATATTATATACTTA
1 ATATT-TATATTTA
* *
152420 TATTTTTTTATTTA
1 -ATATTTATATTTA
152434 ATACTTATATACTTT-
1 ATA-TT-TATA-TTTA
152449 ATATTTATAT
1 ATATTTATAT
152459 ACCTATATAC
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
12 5 0.08
13 24 0.38
14 17 0.27
15 15 0.23
16 3 0.05
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:152390 original size:8 final size:8
Alignment explanation
Indices: 152271--152980 Score: 158
Period size: 8 Copynumber: 94.2 Consensus size: 8
152261 ACTTTACAGT
152271 TTATATATC
1 TTATATA-C
*
152280 TTATACA-
1 TTATATAC
152287 TTATATA-
1 TTATATAC
152294 -TATATA-
1 TTATATAC
152300 TATATATA-
1 T-TATATAC
152308 TATATATA-
1 T-TATATAC
152316 TATATATA-
1 T-TATATAC
152324 TATATATA-
1 T-TATATAC
152332 TATATATA-
1 T-TATATAC
152340 TTATAGTA-
1 TTATA-TAC
152348 -TATATAC
1 TTATATAC
152355 TTATATAC
1 TTATATAC
*
152363 TT-TATAT
1 TTATATAC
*
152370 TTA-ATAT
1 TTATATAC
152377 TTATATAC
1 TTATATAC
152385 TTATAT--
1 TTATATAC
152391 TTA-ATAC
1 TTATATAC
152398 -T-TATA-
1 TTATATAC
152403 TT-TATA-
1 TTATATAC
152409 TTATATAC
1 TTATATAC
152417 TTATAT--
1 TTATATAC
* * *
152423 TTTTTTAT
1 TTATATAC
152431 TTA-ATAC
1 TTATATAC
152438 TTATATAC
1 TTATATAC
*
152446 TT-TATAT
1 TTATATAC
152453 TTATATAC
1 TTATATAC
*
152461 CTATATAC
1 TTATATAC
152469 TTTATAATA-
1 -TTAT-ATAC
152478 TTATATAC
1 TTATATAC
** *
152486 GCATATAAA
1 TTATAT-AC
* *
152495 TTTTATAT
1 TTATATAC
152503 TTA-ATAC
1 TTATATAC
152510 TTATATA-
1 TTATATAC
*
152517 TTTTATA-
1 TTATATAC
152524 TTATATAC
1 TTATATAC
*
152532 TTATATAA
1 TTATATAC
152540 TT-TATA-
1 TTATATAC
*
152546 TTATATGC
1 TTATATAC
152554 TTATATACC
1 TTATATA-C
152563 TTAT-T-C
1 TTATATAC
*
152569 TTTGTAAATAC
1 --T-TATATAC
152580 TT-TATA-
1 TTATATAC
* *
152586 TATACACAC
1 T-TATATAC
** *
152595 ACATACAC
1 TTATATAC
*
152603 TT-TATAG
1 TTATATAC
152610 TT-TATA-
1 TTATATAC
152616 -TATATAC
1 TTATATAC
152623 TT-T-TAC
1 TTATATAC
*
152629 TT-TATAG
1 TTATATAC
152636 TT-TAT--
1 TTATATAC
152641 TTATATA-
1 TTATATAC
152648 -TATATAC
1 TTATATAC
152655 TT-TAGT-C
1 TTATA-TAC
152662 TT-TATA-
1 TTATATAC
*
152668 -AATATAC
1 TTATATAC
*
152675 TT-TATAT
1 TTATATAC
152682 TTA-ATAC
1 TTATATAC
152689 TTATATA-
1 TTATATAC
*
152696 TTTTATA-
1 TTATATAC
*
152703 TTATATAT
1 TTATATAC
152711 TTATATAC
1 TTATATAC
152719 TT-TATA-
1 TTATATAC
*
152725 TTATATGC
1 TTATATAC
*
152733 TTATACAC
1 TTATATAC
152741 TT-TAGT-C
1 TTATA-TAC
152748 TT-TATA-
1 TTATATAC
*
152754 AT-TATAC
1 TTATATAC
152761 TT-TATA-
1 TTATATAC
152767 TATATATAC
1 T-TATATAC
152776 ATATATATA-
1 -T-TATATAC
*
152785 TAATATAC
1 TTATATAC
*
152793 TTATAT-T
1 TTATATAC
152800 TTATATTA-
1 TTATA-TAC
*
152808 TTATATATG
1 TTATATA-C
152817 TATATATAC
1 T-TATATAC
152826 TT-TATAC
1 TTATATAC
*
152833 -TAAAT-C
1 TTATATAC
*
152839 TTTATAAAC
1 -TTATATAC
*
152848 CTATATA-
1 TTATATAC
152855 -TATATA-
1 TTATATAC
152861 -TATATAC
1 TTATATAC
*
152868 TT-TATAGT
1 TTATATA-C
152876 TTATATAC
1 TTATATAC
* *
152884 ATACATA-
1 TTATATAC
152891 TATATATA-
1 T-TATATAC
152899 TATATATA-
1 T-TATATAC
152907 TATATATAC
1 T-TATATAC
*
152916 ATACTTATAC
1 TTA--TATAC
152926 TTTATATA-
1 -TTATATAC
*
152934 TATATGTACAC
1 T-TA--TATAC
152945 TTTATATAC
1 -TTATATAC
152954 TTATATAC
1 TTATATAC
152962 TTTATATAC
1 -TTATATAC
152971 TTATATAC
1 TTATATAC
152979 TT
1 TT
152981 TAGTCTTTAT
Statistics
Matches: 546, Mismatches: 71, Indels: 169
0.69 0.09 0.22
Matches are distributed among these distances:
5 5 0.01
6 77 0.14
7 166 0.30
8 222 0.41
9 44 0.08
10 26 0.05
11 5 0.01
12 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (8 bp):
TTATATAC
Found at i:152457 original size:6 final size:6
Alignment explanation
Indices: 152287--152458 Score: 98
Period size: 6 Copynumber: 27.0 Consensus size: 6
152277 ATCTTATACA
* * * * * * *
152287 TTATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
* *
152335 ATATAT TATAGTAT ATATACT TATATACT TTATAT TTAATAT TTATAT
1 TTATAT T-TA-TAT TTATA-T T-TATA-T TTATAT TT-ATAT TTATAT
* *
152383 ACTTATAT TTAATAC TTATAT TTATAT TATATAC TTATAT TT-T-T TTAT-T
1 --TTATAT TT-ATAT TTATAT TTATAT T-TATAT TTATAT TTATAT TTATAT
*
152432 TAATACT TATATACT TTATAT TTATAT
1 TTATA-T T-TATA-T TTATAT TTATAT
152459 ACCTATATAC
Statistics
Matches: 143, Mismatches: 10, Indels: 26
0.80 0.06 0.15
Matches are distributed among these distances:
4 3 0.02
5 6 0.04
6 81 0.57
7 31 0.22
8 22 0.15
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.56
Consensus pattern (6 bp):
TTATAT
Found at i:152519 original size:22 final size:23
Alignment explanation
Indices: 152270--152980 Score: 172
Period size: 22 Copynumber: 31.5 Consensus size: 23
152260 TACTTTACAG
*
152270 TTTATATATCTTATACA--TTATA
1 TTTATATA-CTTATATATTTTATA
* *
152292 TATATATA--TATATA-TATATA
1 TTTATATACTTATATATTTTATA
* *
152312 TATATATA--TATATA-TATATA
1 TTTATATACTTATATATTTTATA
* *
152332 TATATATA-TTATAGTA-TATATA
1 TTTATATACTTATA-TATTTTATA
* *
152354 CTTATATACTT-TATATTTAATA
1 TTTATATACTTATATATTTTATA
*
152376 TTTATATACTTATATTTAATACTTATA
1 TTTATATACTTATA--T-AT-TTTATA
152403 TTTATATTA-TATACTTATATTTT-T-
1 TTTATA-TACT-TA--TATATTTTATA
* *
152427 TTATTTAATACTTATATACTTTATA
1 TT-TAT-ATACTTATATATTTTATA
* *
152452 TTTATATACCTATATACTTTATAA
1 TTTATATACTTATATATTTTAT-A
* *
152476 TATTATATACGCATATAAATTTTATA
1 T-TTATATA--CTTATATATTTTATA
152502 TTTA-ATACTTATATATTTTATA
1 TTTATATACTTATATATTTTATA
*
152524 -TTATATACTTATATAATTTATA
1 TTTATATACTTATATATTTTATA
* *
152546 -TTATATGCTTATATACCTTATTCT-
1 TTTATATACTTATATA--TT-TTATA
* ** *
152570 TTGTAAATACTT-TATATATACACA
1 TT-TATATACTTATATAT-TTTATA
*** * *
152594 CACATACACTT-TATAGTTTATA
1 TTTATATACTTATATATTTTATA
*
152616 --TATATACTT-T-TACTTTATA
1 TTTATATACTTATATATTTTATA
* *
152635 GTTTATTTATA-TATATATACTTTAGTC
1 -TTTA--TATACT-TATATATTTTA-TA
*
152662 TTTATA-A---ATATACTTTATA
1 TTTATATACTTATATATTTTATA
152681 TTTA-ATACTTATATATTTTATA
1 TTTATATACTTATATATTTTATA
* *
152703 -TTATATATTTATATACTTTATA
1 TTTATATACTTATATATTTTATA
* * * *
152725 -TTATATGCTTATACACTTTAGTC
1 TTTATATACTTATATATTTTA-TA
*
152748 TTTATA-A--T-TATACTTTATA
1 TTTATATACTTATATATTTTATA
* **
152767 TATATATACATATATATATAATATA
1 TTTATATAC-T-TATATATTTTATA
* * *
152792 CTTATAT-TTTATATTATTATATA
1 TTTATATACTTATA-TATTTTATA
* ** *
152815 TGTATATATACTT-TATACTAAATC
1 T-T-TATATACTTATATATTTTATA
* *
152839 TTTATAAACCTATATA---TATA
1 TTTATATACTTATATATTTTATA
* *
152859 TATATATACTT-TATAGTTTATA
1 TTTATATACTTATATATTTTATA
* * *
152881 --TACATACATATATA-TATATA
1 TTTATATACTTATATATTTTATA
* * *
152901 TATATATA-TATATACATACTTATA
1 TTTATATACT-TATATAT-TTTATA
* * *
152925 CTT-TATA--TATATA-TGTACA
1 TTTATATACTTATATATTTTATA
152944 CTTTATATACTTATATACTTTATATA
1 -TTTATATACTTATATA-TTT-TATA
*
152970 CTTATATACTT
1 TTTATATACTT
152981 TAGTCTTTAT
Statistics
Matches: 523, Mismatches: 92, Indels: 145
0.69 0.12 0.19
Matches are distributed among these distances:
18 1 0.00
19 32 0.06
20 83 0.16
21 26 0.05
22 155 0.30
23 65 0.12
24 38 0.07
25 60 0.11
26 31 0.06
27 25 0.05
28 5 0.01
30 2 0.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTATATACTTATATATTTTATA
Found at i:152615 original size:7 final size:7
Alignment explanation
Indices: 152601--152766 Score: 68
Period size: 7 Copynumber: 24.1 Consensus size: 7
152591 ACACACATAC
152601 ACTTTAT
1 ACTTTAT
*
152608 AGTTTAT
1 ACTTTAT
*
152615 A-TATAT
1 ACTTTAT
152621 ACTTT-T
1 ACTTTAT
152627 ACTTTAT
1 ACTTTAT
*
152634 AGTTTAT
1 ACTTTAT
152641 --TTATAT
1 ACTT-TAT
*
152647 A-TATAT
1 ACTTTAT
152653 ACTTTAGT
1 ACTTTA-T
152661 -CTTTAT
1 ACTTTAT
**
152667 A-AATAT
1 ACTTTAT
152673 ACTTTAT
1 ACTTTAT
152680 A-TTTAAT
1 ACTTT-AT
152687 ACTTATAT
1 ACTT-TAT
*
152695 ATTTTAT
1 ACTTTAT
152702 A-TTATAT
1 ACTT-TAT
*
152709 ATTTATAT
1 ACTT-TAT
152717 ACTTTAT
1 ACTTTAT
152724 A-TTATAT
1 ACTT-TAT
* *
152731 GCTTATAC
1 ACTT-TAT
152739 ACTTTAGT
1 ACTTTA-T
152747 -CTTTAT
1 ACTTTAT
*
152753 A-ATTAT
1 ACTTTAT
152759 ACTTTAT
1 ACTTTAT
152766 A
1 A
152767 TATATATACA
Statistics
Matches: 123, Mismatches: 18, Indels: 36
0.69 0.10 0.20
Matches are distributed among these distances:
5 2 0.02
6 36 0.29
7 59 0.48
8 25 0.20
9 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (7 bp):
ACTTTAT
Found at i:152630 original size:26 final size:26
Alignment explanation
Indices: 152601--152677 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
152591 ACACACATAC
152601 ACTTTATAGTTTATATATATACTTTT
1 ACTTTATAGTTTATATATATACTTTT
* *
152627 ACTTTATAGTTTATTTATATA-TATAT
1 ACTTTATAGTTTATATATATACT-TTT
* *
152653 ACTTTAGT-CTTTATAAATATACTTT
1 ACTTTA-TAGTTTATATATATACTTT
152678 ATATTTAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 39 0.93
27 2 0.05
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
ACTTTATAGTTTATATATATACTTTT
Found at i:152805 original size:38 final size:40
Alignment explanation
Indices: 152755--152978 Score: 142
Period size: 42 Copynumber: 5.5 Consensus size: 40
152745 GTCTTTATAA
152755 TTATACTTTATATATATATACATATATATATA-ATATAC-
1 TTATACTTTATATATATATACATATATATATATATATACT
*
152793 TTATA-TTT-TATAT-TAT---TATATATGTATATATACT
1 TTATACTTTATATATATATACATATATATATATATATACT
** * * *
152827 TTATACTAAATCTTTATAAACCTATATATATATATATATACT
1 TTATACTTTATATATATATA-C-ATATATATATATATATACT
* * *
152869 TTATAGTTTATATACATACATATATATATATATATATATA-T
1 TTATACTTTATAT--ATATATACATATATATATATATATACT
* * * * * *
152910 ATATACATACTTATACTTTATATATATATGTACACTTTATATACT
1 TTATAC-T--TTATA-TATATATACATATATATA-TATATATACT
152955 TATATACTTTATATACTTATATAC
1 T-TATACTTTATATA--TATATAC
152979 TTTAGTCTTT
Statistics
Matches: 140, Mismatches: 25, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
32 9 0.06
33 6 0.04
34 5 0.04
35 4 0.03
36 8 0.06
37 5 0.04
38 5 0.04
41 5 0.04
42 45 0.32
43 18 0.13
44 22 0.16
45 3 0.02
46 5 0.04
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (40 bp):
TTATACTTTATATATATATACATATATATATATATATACT
Found at i:152832 original size:40 final size:39
Alignment explanation
Indices: 152747--153017 Score: 138
Period size: 42 Copynumber: 6.9 Consensus size: 39
152737 ACACTTTAGT
* * *
152747 CTTTATAATTATACTTTATATA-TATATACATATATATA
1 CTTTATACTTATATTTTATATATTATATATATATATATA
* *
152785 -TAATATACTTATATTTTATATTATTATATATGTATATATA
1 CT-TTATACTTATATTTTATA-TATTATATATATATATATA
* *
152825 CTTTATAC-TAAATCTTTATAAACCTATATATATATATATATA
1 CTTTATACTTATAT-TTTATATA--T-TATATATATATATATA
* ** *
152867 CTTTATAGTTTATATACATACATATATATATATATATATATA
1 CTTTATA-CTTATAT-TTTATATAT-TATATATATATATATA
* * * *
152909 -TATATAC--ATA-CTTATACT-TTATATATATATGTACA
1 CTTTATACTTATATTTTATA-TATTATATATATATATATA
*
152944 CTTTATATACTTATATACTTTATATACTTATATACT-T-TA-GT-
1 C-TT-TATACTTATAT--TTTATATA-TTATATA-TATATATATA
* *
152985 CTTTATAATTTTATTTTATATA-TATATAT-TATA
1 CTTTATACTTATATTTTATATATTATATATATATA
153018 ATTGTTTCAA
Statistics
Matches: 181, Mismatches: 29, Indels: 49
0.70 0.11 0.19
Matches are distributed among these distances:
34 2 0.01
35 22 0.12
36 5 0.03
37 11 0.06
38 23 0.13
39 16 0.09
40 30 0.17
41 8 0.04
42 41 0.23
43 6 0.03
44 16 0.09
45 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (39 bp):
CTTTATACTTATATTTTATATATTATATATATATATATA
Found at i:152952 original size:2 final size:2
Alignment explanation
Indices: 152763--152938 Score: 103
Period size: 2 Copynumber: 87.5 Consensus size: 2
152753 AATTATACTT
* *
152763 TA TA TA TA TA TA CA TA TA TA TA TA -A TA TA CT- TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * *
152803 TA T- TA T- TA TA TA TG TA TA TA TA CTT TA TA CTA AA TC TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* ** * * * *
152845 AA CC TA TA TA TA TA TA TA TA TA CTT TA TA GTT TA TA TA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* *
152889 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA CT- TA TA CTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
152932 TA TA TA T
1 TA TA TA T
152939 GTACACTTTA
Statistics
Matches: 132, Mismatches: 29, Indels: 26
0.71 0.16 0.14
Matches are distributed among these distances:
1 6 0.05
2 118 0.89
3 8 0.06
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:153838 original size:6 final size:6
Alignment explanation
Indices: 153827--153852 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
153817 TTACATCCCT
153827 AGGGAG AGGGAG AGGGAG AGGGAG AG
1 AGGGAG AGGGAG AGGGAG AGGGAG AG
153853 AGGGGTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:153886 original size:15 final size:14
Alignment explanation
Indices: 153836--153882 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
153826 TAGGGAGAGG
153836 GAGAGGGAGAGGG-A
1 GAGAGGGAG-GGGAA
153850 GAGAGGGGTAGGGGAA
1 GAGA-GGG-AGGGGAA
153866 CGAGAGGGAGGGGAA
1 -GAGAGGGAGGGGAA
153881 GA
1 GA
153883 AGAGAGGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.21
15 13 0.45
16 6 0.21
17 4 0.14
ACGTcount: A:0.34, C:0.02, G:0.62, T:0.02
Consensus pattern (14 bp):
GAGAGGGAGGGGAA
Found at i:155413 original size:20 final size:21
Alignment explanation
Indices: 155388--155426 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
155378 TGATCATGAT
155388 TTGATT-CAAAGAAAATAAAA
1 TTGATTACAAAGAAAATAAAA
*
155408 TTGATTACAAAGAACATAA
1 TTGATTACAAAGAAAATAA
155427 GTAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (21 bp):
TTGATTACAAAGAAAATAAAA
Found at i:157064 original size:19 final size:21
Alignment explanation
Indices: 157031--157096 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
157021 TGCAATTTGT
157031 TTTTTCATTAAG-AAACCAGA
1 TTTTTCATTAAGAAAACCAGA
* *
157051 TTTTTCA-TATGAAAACCTGA
1 TTTTTCATTAAGAAAACCAGA
* * *
157071 TTTTATTATTATGAAAACTAGA
1 TTTT-TCATTAAGAAAACCAGA
157093 TTTT
1 TTTT
157097 AGGGTGGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 3 0.08
20 18 0.47
21 2 0.05
22 15 0.39
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (21 bp):
TTTTTCATTAAGAAAACCAGA
Found at i:157066 original size:20 final size:22
Alignment explanation
Indices: 157030--157097 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
157020 TTGCAATTTG
* *
157030 TTTTTTCATTAAG-AAACCAGA
1 TTTTATCATTATGAAAACCAGA
*
157051 TTTT-TCA-TATGAAAACCTGA
1 TTTTATCATTATGAAAACCAGA
* *
157071 TTTTATTATTATGAAAACTAGA
1 TTTTATCATTATGAAAACCAGA
157093 TTTTA
1 TTTTA
157098 GGGTGGATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.08
20 14 0.36
21 6 0.15
22 16 0.41
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (22 bp):
TTTTATCATTATGAAAACCAGA
Done.