Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006617.1 Hibiscus syriacus cultivar Beakdansim tig00016247_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: 123215
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Found at i:2612 original size:15 final size:15
Alignment explanation
Indices: 2592--2626 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
2582 CCATGGACTT
2592 TGACCGGGTTACTAA
1 TGACCGGGTTACTAA
2607 TGACCGGGTTACTAA
1 TGACCGGGTTACTAA
2622 TGACC
1 TGACC
2627 AGACATAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (15 bp):
TGACCGGGTTACTAA
Found at i:6281 original size:22 final size:22
Alignment explanation
Indices: 6256--6300 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6246 ATATCATTTT
6256 AATATATGGTAACATGGTTAAA
1 AATATATGGTAACATGGTTAAA
6278 AATATATGGTAACATGGTTAAA
1 AATATATGGTAACATGGTTAAA
6300 A
1 A
6301 TACATGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (22 bp):
AATATATGGTAACATGGTTAAA
Found at i:9268 original size:4 final size:4
Alignment explanation
Indices: 9259--9424 Score: 224
Period size: 4 Copynumber: 41.5 Consensus size: 4
9249 AATGGAATCA
*
9259 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATGT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * *
9307 ATAT ATAT ATAT GTAT ATGT ATAT ATAT ATAC ATAT ACAT ATGT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * *
9355 ATAT ATAT ATAC ATAT ATAT ATAT ACAT ATGT ATAT GTAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* *
9403 ACAT ATAT ATAT ATGT ATAT AT
1 ATAT ATAT ATAT ATAT ATAT AT
9425 CATCATTCTT
Statistics
Matches: 138, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 138 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (4 bp):
ATAT
Found at i:9270 original size:6 final size:6
Alignment explanation
Indices: 9259--9424 Score: 224
Period size: 6 Copynumber: 27.7 Consensus size: 6
9249 AATGGAATCA
*
9259 ATATAT ATATAT ATATAT ATATAT ATATAT GTATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * *
9307 ATATAT ATATAT GTATAT GTATAT ATATAT ACATAT ACATAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
9355 ATATAT ATATAC ATATAT ATATAT ACATAT GTATAT GTATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
9403 ACATAT ATATAT ATGTAT ATAT
1 ATATAT ATATAT ATATAT ATAT
9425 CATCATTCTT
Statistics
Matches: 142, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 142 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (6 bp):
ATATAT
Found at i:9276 original size:14 final size:14
Alignment explanation
Indices: 9259--9424 Score: 224
Period size: 14 Copynumber: 11.9 Consensus size: 14
9249 AATGGAATCA
9259 ATATATATATATAT
1 ATATATATATATAT
9273 ATATATATATATAT
1 ATATATATATATAT
*
9287 ATGTATATATATAT
1 ATATATATATATAT
9301 ATATATATATATAT
1 ATATATATATATAT
* *
9315 ATATGTATATGTAT
1 ATATATATATATAT
*
9329 ATATATATACATAT
1 ATATATATATATAT
* *
9343 ACATATGTATATAT
1 ATATATATATATAT
*
9357 ATATATATACATAT
1 ATATATATATATAT
*
9371 ATATATATACATAT
1 ATATATATATATAT
* *
9385 GTATATGTATATAT
1 ATATATATATATAT
*
9399 ATATACATATATAT
1 ATATATATATATAT
*
9413 ATATGTATATAT
1 ATATATATATAT
9425 CATCATTCTT
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 131 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:9600 original size:54 final size:54
Alignment explanation
Indices: 9550--9933 Score: 543
Period size: 54 Copynumber: 7.1 Consensus size: 54
9540 TACACACACT
* *
9550 GTGCCAAAATGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACTTA
1 GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* **
9604 GGTGTCGAAATAATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
1 -GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* * * *
9659 GTGCCAAAATGGTTATTCATCCACATAAGATGAATTGCGTGAAACGCACACTTA
1 GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* * * *
9713 GCGCTGAAACGGTTATTCATCTACATAGGATGAATTCCGTGAAATGCACACTTA
1 GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
** * *
9767 GTGCCGAAATAATAATTCATCCACATAGGATGAATTCCGAGAAATGCACACTTA
1 GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* * *
9821 GTGTCGAAATGGTTATTTATCCACATAGGATGAATTCTGTGAAATGCACACTTA
1 GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* ** *
9875 GTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTATGAAATGCACACTCA
1 GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
9929 GTGCC
1 GTGCC
9934 TATTTTGTAA
Statistics
Matches: 289, Mismatches: 40, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
54 240 0.83
55 49 0.17
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
GTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
Found at i:12869 original size:22 final size:21
Alignment explanation
Indices: 12828--12897 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
12818 TGCTCCTCAA
* *
12828 TATCGATA-TCCATACCATGG
1 TATCGATACTCTATACTATGG
12848 TATCGATACTACTATACTATGG
1 TATCGATACT-CTATACTATGG
12870 TA-CTGATACTCT-T-CTATGG
1 TATC-GATACTCTATACTATGG
12889 TATCGATAC
1 TATCGATAC
12898 CATTTTTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 13 0.30
20 10 0.23
21 4 0.09
22 17 0.39
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (21 bp):
TATCGATACTCTATACTATGG
Found at i:17609 original size:45 final size:45
Alignment explanation
Indices: 17558--17925 Score: 398
Period size: 45 Copynumber: 8.2 Consensus size: 45
17548 ACTTCACCAT
* * * *
17558 TATGCATTTTAAAATATATCATA-TTTTCTATTGATAATGCACCCA
1 TATGCA-TTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * *
17603 TATGCATTTCAACTATAGTATACTTTTCTGTTTATAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
17648 TATACATTTCAACCATAGTATACTTTTCTATTGATAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
17693 TATACATTTCAACTTTAGCATGCTCTTATGTTGATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* *
17738 TTTGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* *
17783 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
17828 TATACATTTCAACTAAAGTATGCTTTTCTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *** *
17873 TATACATTTCAACGATAACAT-TTTTTCATGCCAATAGTGCACCCA
1 TATGCATTTCAACTATAGCATACTTTTC-TGTTGATAATGCACCCA
17918 TATGCATT
1 TATGCATT
17926 AGTATTTTCA
Statistics
Matches: 278, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
44 17 0.06
45 261 0.94
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
TATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:17914 original size:135 final size:135
Alignment explanation
Indices: 17581--17925 Score: 451
Period size: 135 Copynumber: 2.6 Consensus size: 135
17571 ATATATCATA
* * * *
17581 TTTTCTATTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTTATAATGTACC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTAATAATGCACC
* * **
17646 CATATACATTTCAACCATAGTATACTTTTCTATTGATAATGTACCCATATACATTTCAACTTTAG
66 CATATGCATTTCAACCATAGCATACTTTTCTATTGATAATGTACCCATATACATTTCAACTAAAG
17711 CATGC
131 CATGC
* * * * *
17716 TCTTATGTTGATAATGCACCCATTTGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTAATAATGCACC
*
17781 CATATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTAAA
66 CATATGCATTTCAAC-CATAGCATACTTTTCTATTGATAATGTACCCATATACATTTCAACTAAA
*
17845 GTATGC
130 GCATGC
* * * * * ** *
17851 TTTTCTGTTGATAATGTACCCATATACATTTCAACGATAACAT-TTTTTCATGCCAATAGTGCAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC-TGTTAATAATGCAC
17915 CCATATGCATT
65 CCATATGCATT
17926 AGTATTTTCA
Statistics
Matches: 181, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
134 5 0.03
135 175 0.97
136 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (135 bp):
TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTAATAATGCACC
CATATGCATTTCAACCATAGCATACTTTTCTATTGATAATGTACCCATATACATTTCAACTAAAG
CATGC
Found at i:18031 original size:19 final size:19
Alignment explanation
Indices: 17991--18038 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
17981 TTCATATATT
*
17991 CAATAAAACATAATATTTA
1 CAATAAAACATAATATTAA
*
18010 CAATAAAAACATACT-TTAA
1 CAAT-AAAACATAATATTAA
*
18029 CAATTAAACA
1 CAATAAAACA
18039 ATTCATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 9 0.36
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (19 bp):
CAATAAAACATAATATTAA
Found at i:18382 original size:22 final size:20
Alignment explanation
Indices: 18338--18392 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
18328 TAGCCCTTCA
*
18338 GTATCGATACCCCTATAATG
1 GTATCGATACCCCTATAAGG
*
18358 GTATCGATACTGCCCTATTAGG
1 GTATCGATAC--CCCTATAAGG
*
18380 GTATTGATACCCC
1 GTATCGATACCCC
18393 CTTCCAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (20 bp):
GTATCGATACCCCTATAAGG
Found at i:18578 original size:95 final size:95
Alignment explanation
Indices: 18404--18578 Score: 237
Period size: 95 Copynumber: 1.8 Consensus size: 95
18394 TTCCAGTATT
* *
18404 GATACCAAAATTAGCTTCGAAGTAGCCTGGTATCGATACCCTCACCATGGTATTGATAATACTAT
1 GATACCAAAATTAGATTCGAAGTAGCCTGGTATCGATACCCTCACCATGGTATCGATAATACTAT
*
18469 GCTATGGTATCGATACCCTCATTCGATATC
66 GCTATGGTACCGATACCCTCATTCGATATC
* * ** * *
18499 GATACCAAAATTAGATTTGATGTTTCCTGGTATCGATACCCTTACCATGGTATCGATACTAC-AT
1 GATACCAAAATTAGATTCGAAGTAGCCTGGTATCGATACCCTCACCATGGTATCGATAATACTA-
18563 TGCT-TGGGTACCGATA
65 TGCTAT-GGTACCGATA
18579 TTGATTGAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 2 0.03
95 67 0.97
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (95 bp):
GATACCAAAATTAGATTCGAAGTAGCCTGGTATCGATACCCTCACCATGGTATCGATAATACTAT
GCTATGGTACCGATACCCTCATTCGATATC
Found at i:21678 original size:34 final size:37
Alignment explanation
Indices: 21634--21735 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
21624 TTTCGTCCTA
21634 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
21669 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
21704 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
21736 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:21719 original size:37 final size:35
Alignment explanation
Indices: 21634--21769 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
21624 TTTCGTCCTA
21634 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
21669 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
21704 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
21741 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
21770 CTACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:22429 original size:27 final size:27
Alignment explanation
Indices: 22391--22442 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
22381 TCTTTATGTG
22391 TTTTTTATTTAT-TTATATA-TATTACC
1 TTTTTTATTTATATT-TATACTATTACC
22417 TTTTTTATTTTATATTTATACTATTA
1 TTTTTTA-TTTATATTTATACTATTA
22443 TTTATTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 9 0.39
28 7 0.30
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTTATTTATATTTATACTATTACC
Found at i:22446 original size:23 final size:23
Alignment explanation
Indices: 22394--22490 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 23
22384 TTATGTGTTT
*
22394 TTTATTTATTTATATATATTA-CC
1 TTTATTTATTTATATAT-TTATAC
22417 TTT-TTTATTT-TATATTTATAC
1 TTTATTTATTTATATATTTATAC
* *
22438 TATTATTTA-TTATCATTTTTATGC
1 T-TTATTTATTTAT-ATATTTATAC
* *
22462 TTTATTTATTTATTTATTTAT-T
1 TTTATTTATTTATATATTTATAC
22484 TTTATTT
1 TTTATTT
22491 TGGTTGAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
20 3 0.05
21 7 0.11
22 18 0.29
23 21 0.34
24 13 0.21
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (23 bp):
TTTATTTATTTATATATTTATAC
Found at i:22471 original size:4 final size:4
Alignment explanation
Indices: 22462--22535 Score: 57
Period size: 4 Copynumber: 18.2 Consensus size: 4
22452 ATTTTTATGC
22462 TTTA TTTA TTTA TTTA TTTA -TT- TTTA TTT- TGGTTGAA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T--TT--A TTTA TTTA
* *
22507 TTTA TTTTA TTTA TTT- TTTT TTTT TTTA T
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA T
22536 ATCTAACATG
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
3 8 0.13
4 43 0.72
5 6 0.10
6 2 0.03
8 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:25538 original size:16 final size:14
Alignment explanation
Indices: 25514--25573 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 14
25504 ATTCAATCAG
*
25514 AACAAAAAGAGCAAA
1 AACAAAAA-AGAAAA
25529 AACAAAAAAGAAAA
1 AACAAAAAAGAAAA
25543 GAAGCAAAAAAGAAGAA
1 -AA-CAAAAAAGAA-AA
25560 AACAAAAAAAGAAA
1 AAC-AAAAAAGAAA
25574 GAACGAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
14 5 0.12
15 12 0.30
16 21 0.52
17 2 0.05
ACGTcount: A:0.78, C:0.08, G:0.13, T:0.00
Consensus pattern (14 bp):
AACAAAAAAGAAAA
Found at i:25582 original size:16 final size:16
Alignment explanation
Indices: 25532--25582 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
25522 GAGCAAAAAC
*
25532 AAAAAAGAAAAGAA-GC
1 AAAAAAG-AAAGAACGA
*
25548 AAAAAAGAAGAAAAC-A
1 AAAAAAGAA-AGAACGA
25564 AAAAAAGAAAGAACGA
1 AAAAAAGAAAGAACGA
25580 AAA
1 AAA
25583 TCAAAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAGAACGA
Found at i:26255 original size:22 final size:22
Alignment explanation
Indices: 26227--26281 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
26217 GCTACCCCAT
*
26227 CAAACCTTTGAGCATTAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
26249 CAAACCTTTGAGTATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
26271 CAAACCTTTGA
1 CAAACCTTTGA
26282 CTAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:27282 original size:36 final size:36
Alignment explanation
Indices: 27239--27586 Score: 220
Period size: 36 Copynumber: 10.0 Consensus size: 36
27229 ACTAGAAGAG
27239 TTTTGTCTCTC-TTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAA
*
27275 TTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AA
* * *
27312 --------ACATTGAAAACA-TTTCCCTTGAAATAAA
1 TTTTGTCTCCATTG-AGACAGTTTCCCTTGAAACAAA
* *
27340 TTTCGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAAC-AAA
*
27377 TTTTGTCTCTC-TTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAA
27413 TTTTGTCTCTC-TTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAA
* * * * * *
27449 ----ATAT---TTGA-ATATGTTTTCTTTGAAATAAA
1 TTTTGTCTCCATTGAGACA-GTTTCCCTTGAAACAAA
* * ** * *
27478 TTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAAC-AAA
* *
27515 TTTTGTCTCTC-TTGAGACTGTTTCTCTTGAAACAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAA
* * *
27551 TTTCGTCTATC-TTGATACAGTTTCCCTTGAAACAAA
1 TTTTGTCT-CCATTGAGACAGTTTCCCTTGAAACAAA
27587 ATCTTTGAAT
Statistics
Matches: 249, Mismatches: 37, Indels: 52
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.02
29 35 0.14
30 4 0.02
32 2 0.01
33 2 0.01
35 4 0.02
36 130 0.52
37 67 0.27
38 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACAAA
Found at i:27363 original size:65 final size:64
Alignment explanation
Indices: 27259--27501 Score: 229
Period size: 65 Copynumber: 3.6 Consensus size: 64
27249 CTTGAGACAG
* * *
27259 TTTCCCTTGAAACAAATTTTGTCTC-CATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAATAAATTTCGTCTCTC-TTGAGACAGTTTCCCTTGAAACA-AAACATTGAAAAC
27323 A
64 A
* *
27324 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA--------C-AT
*
27389 TG-AGACA
57 TGAAAACA
* * * *
27396 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 -TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACA-TTGAAAAC
*
27461 G
64 A
* * *
27462 TTTTCTTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTC
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTC
27502 TTTTGGAACT
Statistics
Matches: 148, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
64 3 0.02
65 83 0.56
66 3 0.02
72 5 0.03
73 54 0.36
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (64 bp):
TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTGAAAACA
Found at i:27393 original size:138 final size:136
Alignment explanation
Indices: 27239--27649 Score: 525
Period size: 138 Copynumber: 3.0 Consensus size: 136
27229 ACTAGAAGAG
*
27239 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCATTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCC-TTGAGACAGTTTCCCTTG
* * * * *
27304 AAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTG
65 AAACA-AAACATTGAATATATTTCCCTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTG
27369 AAACAAAA
129 AAACAAAA
*
27377 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTC-CTTGAGACAGTTTCCCTTG
* * * * *
27442 AAACAAAATATTTGAATATGTTTTCTTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTTTTG
65 AAACAAAACA-TTGAATATATTTCCCTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTG
* * *
27507 GAACTAAG
129 AAACAAAA
* * * * *
27515 TTTTGTCTCTCTTGAGACTGTTTCTCTTGAAACAAATTTCGTCTATCTTGATACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCT-CCTTGAGACAGTTTCCCTTG
* * * * * * *
27580 AAACAAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTG
65 AAACAAAA-CATTGAATATATTTCCCTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTG
27645 AAACA
129 AAACA
27650 CAAAGTCTTC
Statistics
Matches: 234, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
137 4 0.02
138 229 0.98
139 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.40
Consensus pattern (136 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCTTGAGACAGTTTCCCTTGA
AACAAAACATTGAATATATTTCCCTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAA
ACAAAA
Found at i:27443 original size:73 final size:73
Alignment explanation
Indices: 27324--27593 Score: 306
Period size: 73 Copynumber: 3.8 Consensus size: 73
27314 ATTGAAAACA
*
27324 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
27389 TGAGACAG
66 TGAGACAG
* *
27397 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-------TAT-T
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
*
27454 TGA-ATATG
66 TGAGACA-G
* * * ** * * *
27462 TTTTCTTTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
*
27527 TGAGACTG
66 TGAGACAG
* * * *
27535 TTTCTCTTGAAACAAATTTCGTCTATCTTGATACAGTTTCCCTTGAAACAAAATCTTTG
1 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT-TTTG
27594 AATTTATTTC
Statistics
Matches: 158, Mismatches: 28, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
64 2 0.01
65 49 0.31
66 2 0.01
72 2 0.01
73 98 0.62
74 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (73 bp):
TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
TGAGACAG
Found at i:27472 original size:102 final size:102
Alignment explanation
Indices: 27366--27550 Score: 273
Period size: 102 Copynumber: 1.8 Consensus size: 102
27356 ATAGTTTCCC
* *
27366 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCTTGAGA
1 TTGAAA-AAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGA
27430 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
65 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
* ** * *
27468 TTGAAATAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAAAAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGAC
* *
27533 TGTTTCTCTTGAAACAAA
66 AGTTTCCCTTGAAACAAA
27551 TTTCGTCTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 27 0.37
102 46 0.63
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (102 bp):
TTGAAAAAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:27648 original size:65 final size:66
Alignment explanation
Indices: 27544--27718 Score: 217
Period size: 65 Copynumber: 2.6 Consensus size: 66
27534 GTTTCTCTTG
* ** * * **
27544 AAACAAATTTCGTCTATCTTGATACAGTTTCCCTTGAAACAAAA-TCTTTGAATTTATTTCCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAGTCTTCAAATTTATTTCCCCT
27608 A
66 A
* *
27609 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAGTCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAAGTCTTCAAATTTATTTCCCC
27674 TA
65 TA
* * *
27676 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
27719 CAGATATCTT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
65 35 0.37
66 3 0.03
67 24 0.26
68 32 0.34
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (66 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAGTCTTCAAATTTATTTCCCCT
A
Found at i:28612 original size:105 final size:105
Alignment explanation
Indices: 28322--28875 Score: 737
Period size: 105 Copynumber: 5.3 Consensus size: 105
28312 GCCATCCGCG
* * * * * * *
28322 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAATGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * * * *
28387 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTTAAAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
*
28431 ATTTCAACTTCACAACGAAGGATATTGG--TTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
28494 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
28534 ATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
28599 ACCGCTGCTTGTCAACAACAACTTCCCAATCTT-AGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TTCAGAGCCA
28639 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
28704 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* * *
28739 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * ** *
28804 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* *
28845 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
28876 TGGAACAATG
Statistics
Matches: 402, Mismatches: 33, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
99 2 0.00
100 81 0.20
101 3 0.01
102 3 0.01
103 52 0.13
104 47 0.12
105 151 0.38
106 38 0.09
107 3 0.01
109 22 0.05
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
Found at i:29467 original size:34 final size:37
Alignment explanation
Indices: 29423--29524 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
29413 TTTCGTCCTA
29423 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
29458 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
29493 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
29525 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:29508 original size:37 final size:35
Alignment explanation
Indices: 29423--29558 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
29413 TTTCGTCCTA
29423 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
29458 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
29493 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
29530 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
29559 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:30184 original size:4 final size:4
Alignment explanation
Indices: 30175--30333 Score: 66
Period size: 4 Copynumber: 38.2 Consensus size: 4
30165 TTATGTGTAT
* * *
30175 TTTA TTTA TTTA TATA TATTA CCTTT- TTTA TTT- TATA TTTA TACTA
1 TTTA TTTA TTTA TTTA T-TTA --TTTA TTTA TTTA TTTA TTTA T-TTA
**
30221 -TTA TTTA TTATCA TTT- TTTA -TGC TTTA TTTA TTTA TTTA -TTA TTTTA
1 TTTA TTTA TT-T-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
30268 TTTTA TTTA -TT- TTTA TTT- TGGTTGAA TTTA TTTA TTTA TTTTA TTTA
1 -TTTA TTTA TTTA TTTA TTTA T--TT--A TTTA TTTA TTTA -TTTA TTTA
*
30315 TTTTA TTTTA TTTT TTTA T
1 -TTTA -TTTA TTTA TTTA T
30334 ATCTAACATG
Statistics
Matches: 121, Mismatches: 12, Indels: 44
0.68 0.07 0.25
Matches are distributed among these distances:
3 19 0.16
4 64 0.53
5 29 0.24
6 7 0.06
7 1 0.01
8 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:30226 original size:77 final size:72
Alignment explanation
Indices: 30104--30285 Score: 178
Period size: 77 Copynumber: 2.5 Consensus size: 72
30094 TTCTAACATC
* * *
30104 TATTTACATATATTACCTTTTTATCATTATTATA--TATATTATATTTATTGCTTCATTTTCTTT
1 TATTTATATATATTACCTTTTT-T-ATT-TTATATTTATACTATATTTATT--ATCA-TTT-TTT
30167 ATG-TGTATTTTATT
59 ATGCTGTA-TTTATT
*
30181 TATTTATATATATTACCTTTTTTATTTTATATTTATACTATTATTTATTATCATTTTTTATGCTT
1 TATTTATATATATTACCTTTTTTATTTTATATTTATACTA-TATTTATTATCATTTTTTATGCTG
30246 TATTTATT
65 TATTTATT
* *
30254 TATTTAT-TATTTTA-TTTTATTTATTTT-TATTT
1 TATTTATATATATTACCTTT-TTTATTTTATATTT
30286 TGGTTGAATT
Statistics
Matches: 94, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
71 8 0.09
72 14 0.15
73 19 0.20
74 11 0.12
75 6 0.06
76 7 0.07
77 29 0.31
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (72 bp):
TATTTATATATATTACCTTTTTTATTTTATATTTATACTATATTTATTATCATTTTTTATGCTGT
ATTTATT
Found at i:30227 original size:23 final size:23
Alignment explanation
Indices: 30175--30277 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 23
30165 TTATGTGTAT
*
30175 TTTATTTATTTATATATATTACC
1 TTTATTTATTTATATATATTAAC
30198 TTT-TTTATTT-TATAT-TTATAC
1 TTTATTTATTTATATATATTA-AC
* * *
30219 TATTATTTA-TTATCATTTTTTATGC
1 T-TTATTTATTTAT-ATATATTA-AC
*
30244 TTTATTTATTTAT-T-TATT-AT
1 TTTATTTATTTATATATATTAAC
30264 TTTATTTTATTTAT
1 TTTA-TTTATTTAT
30278 TTTTATTTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
20 7 0.11
21 16 0.24
22 14 0.21
23 9 0.14
24 10 0.15
25 10 0.15
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (23 bp):
TTTATTTATTTATATATATTAAC
Found at i:30256 original size:25 final size:26
Alignment explanation
Indices: 30207--30333 Score: 74
Period size: 25 Copynumber: 4.9 Consensus size: 26
30197 CTTTTTTATT
30207 TTATATTTATACTATTATTTA-TTA-TCA
1 TTAT-TTTAT-CT-TTATTTATTTATTCA
*
30234 TT-TTTTATGCTTTATTTATTTATTTA
1 TTATTTTAT-CTTTATTTATTTATTCA
30260 TTATTTTAT-TTTATTTATTT-TT-A
1 TTATTTTATCTTTATTTATTTATTCA
* *
30283 TT-TTGGTTGA-ATTTATTTATTTATTTTA
1 TTATT--TT-ATCTTTATTTATTTA-TTCA
*
30311 TTTATTTTAT-TTTATTTTTTTAT
1 -TTATTTTATCTTTATTTATTTAT
30334 ATCTAACATG
Statistics
Matches: 84, Mismatches: 3, Indels: 27
0.74 0.03 0.24
Matches are distributed among these distances:
22 2 0.02
23 3 0.04
24 11 0.13
25 33 0.39
26 6 0.07
27 22 0.26
28 3 0.04
29 2 0.02
30 2 0.02
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (26 bp):
TTATTTTATCTTTATTTATTTATTCA
Found at i:30270 original size:5 final size:5
Alignment explanation
Indices: 30260--30328 Score: 65
Period size: 5 Copynumber: 14.4 Consensus size: 5
30250 TATTTATTTA
** * *
30260 TTATT TTATT TTA-T TTATTT TTATT TTGGT TGAAT TTA-T TTA-T TTATT
1 TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT
30308 TTA-T TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TT
30329 TTTATATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 16 0.30
5 34 0.63
6 4 0.07
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:30272 original size:32 final size:31
Alignment explanation
Indices: 30200--30273 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
30190 ATATTACCTT
30200 TTTTATTTTATATTTATACTATTATTTATTA
1 TTTTATTTTATATTTATACTATTATTTATTA
* * *
30231 TCATT-TTTTATGCTTTAT-TTATTTATTTATTA
1 T-TTTATTTTAT-ATTTATACTA-TTATTTATTA
30263 TTTTATTTTAT
1 TTTTATTTTAT
30274 TTATTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
31 11 0.31
32 24 0.69
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (31 bp):
TTTTATTTTATATTTATACTATTATTTATTA
Found at i:30282 original size:42 final size:46
Alignment explanation
Indices: 30235--30329 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
30225 TTATTATCAT
*
30235 TTTTTA-TGCTT-TATTTATTTATTTATTAT-TTTATTTTA-TTTA
1 TTTTTATTGCTTGAATTTATTTATTTATTATATTTATTTTATTTTA
* *
30277 TTTTTATTTTGGTTGAATTTATTTATTTATTTTATTTATTTTATTTTA
1 TTTTTA--TTGCTTGAATTTATTTATTTATTATATTTATTTTATTTTA
30325 TTTTT
1 TTTTT
30330 TTATATCTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 6 0.14
45 4 0.09
46 16 0.36
47 9 0.20
48 9 0.20
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (46 bp):
TTTTTATTGCTTGAATTTATTTATTTATTATATTTATTTTATTTTA
Found at i:59747 original size:194 final size:194
Alignment explanation
Indices: 59418--59805 Score: 760
Period size: 194 Copynumber: 2.0 Consensus size: 194
59408 AAATGAACAA
59418 TGATGAGATAATTACGCAAATCCCTCTTTATAATCTAAGTTAACTTAACCGTCCAATATTTACCC
1 TGATGAGATAATTACGCAAATCCCTCTTTATAATCTAAGTTAACTTAACCGTCCAATATTTACCC
59483 TCGTTAAGGCTTCGATCGATATTGTGTGGGCTTTGCCAAAGCACTGGCACATAATCTATCTTGGT
66 TCGTTAAGGCTTCGATCGATATTGTGTGGGCTTTGCCAAAGCACTGGCACATAATCTATCTTGGT
59548 TAAACGCGAAGAATAAGCAAGTGATATTCACCGGTTGAAATATTGGTAATAACTTAGCTAGGTT
131 TAAACGCGAAGAATAAGCAAGTGATATTCACCGGTTGAAATATTGGTAATAACTTAGCTAGGTT
59612 TGATGAGATAATTACGCAAATCCCTCTTTATAATCTAAGTTAACTTAACCGTCCAATATTTACCC
1 TGATGAGATAATTACGCAAATCCCTCTTTATAATCTAAGTTAACTTAACCGTCCAATATTTACCC
59677 TCGTTAAGGCTTCGATCGATA-TGTGTGGGCTTTGCCAAAGCACTGGCACATAAATCTATCTTGG
66 TCGTTAAGGCTTCGATCGATATTGTGTGGGCTTTGCCAAAGCACTGGCACAT-AATCTATCTTGG
59741 TTAAACGCGAAGAATAAGCAAGTGATATTCACCGGTTGAAATATTGGTAATAACTTAGCTAGGTT
130 TTAAACGCGAAGAATAAGCAAGTGATATTCACCGGTTGAAATATTGGTAATAACTTAGCTAGGTT
59806 ATTCTAATAG
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
193 30 0.16
194 163 0.84
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (194 bp):
TGATGAGATAATTACGCAAATCCCTCTTTATAATCTAAGTTAACTTAACCGTCCAATATTTACCC
TCGTTAAGGCTTCGATCGATATTGTGTGGGCTTTGCCAAAGCACTGGCACATAATCTATCTTGGT
TAAACGCGAAGAATAAGCAAGTGATATTCACCGGTTGAAATATTGGTAATAACTTAGCTAGGTT
Found at i:66306 original size:84 final size:82
Alignment explanation
Indices: 66118--66307 Score: 181
Period size: 84 Copynumber: 2.3 Consensus size: 82
66108 TAATTTTATC
* * * *
66118 TTTAGGAATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAGGATATTATTTTTAATA
1 TTTAGAAATTTAAGTATAAATAGTTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTAATA
* *
66183 TATTTTATATTTTCTTTGT
66 TATCTTATA--TGCTTTGT
* * * *
66202 TTTAGAAATTTTAGTTTAAATAGTTTTAAGTGTTTTTATTAGGATTTAAGATATTATTTTATGAA
1 TTTAGAAATTTAAGTATAAATAGTTTTAAGTATTTTAATTAGGATTTAAGATATTATTTT-T-AA
66267 T-TATCTT-TA-GC-TTGTT
64 TATATCTTATATGCTTTG-T
*
66283 TTTAGGAATTTGAAGGCTATAAATA
1 TTTAGAAATTT-AA-G-TATAAATA
66308 TCCTCTCAGG
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
80 3 0.03
81 12 0.13
82 1 0.01
83 1 0.01
84 65 0.71
85 6 0.07
86 3 0.03
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (82 bp):
TTTAGAAATTTAAGTATAAATAGTTTTAAGTATTTTAATTAGGATTTAAGATATTATTTTTAATA
TATCTTATATGCTTTGT
Found at i:75715 original size:100 final size:99
Alignment explanation
Indices: 75543--75742 Score: 319
Period size: 100 Copynumber: 2.0 Consensus size: 99
75533 ATCCTACCCA
* *
75543 TACAATATATAATAGAAATACATTTAACAGTAAATAGTAATATCAGGATCGTGATCCAATAAAAT
1 TACAATATATAATAGAAATACATTTAACAGTAAACAATAATATCAGGATCGTGATCCAATAAAAT
75608 ATCGTAAGAGTGACCATGAAATAAACCACATAAC
66 ATCGTAAGAGTGACCATGAAATAAACCACATAAC
* * * * *
75642 TACAATATCTAGTAGAAATTAGATTTGACAGTAAACAATAATATCAGGATCGTGATCCAGTAAAA
1 TACAATATATAATAGAAA-TACATTTAACAGTAAACAATAATATCAGGATCGTGATCCAATAAAA
*
75707 TCTCGTAAGAGTGACCATGAAATAAACCACATAAC
65 TATCGTAAGAGTGACCATGAAATAAACCACATAAC
75742 T
1 T
75743 TCCCTCCACC
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 16 0.17
100 76 0.83
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.26
Consensus pattern (99 bp):
TACAATATATAATAGAAATACATTTAACAGTAAACAATAATATCAGGATCGTGATCCAATAAAAT
ATCGTAAGAGTGACCATGAAATAAACCACATAAC
Found at i:81332 original size:23 final size:23
Alignment explanation
Indices: 81284--81332 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
81274 GGTCCATCTC
* *
81284 TATATATAATATAATTCAGATTT
1 TATATATAATAAAATTCAGATAT
*
81307 TATATATAATTAAAATT-TGATAT
1 TATATATAA-TAAAATTCAGATAT
81330 TAT
1 TAT
81333 TGATTAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TATATATAATAAAATTCAGATAT
Found at i:92975 original size:2 final size:2
Alignment explanation
Indices: 92970--93003 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
92960 TTTAGGTTGA
92970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93004 CAATTACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95435 original size:3 final size:3
Alignment explanation
Indices: 95429--95485 Score: 78
Period size: 3 Copynumber: 18.0 Consensus size: 3
95419 ATAATAATAT
*
95429 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTAA CTTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A -TTA TTA TTA TTA TTA
95477 TTA TTA TTA
1 TTA TTA TTA
95486 CATGATCTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
3 42 0.86
4 5 0.10
5 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:99799 original size:31 final size:31
Alignment explanation
Indices: 99702--99802 Score: 193
Period size: 31 Copynumber: 3.3 Consensus size: 31
99692 TAACTTGATT
99702 TTTTGTCTTGTTTTTACTAACATATATTTCC
1 TTTTGTCTTGTTTTTACTAACATATATTTCC
*
99733 TTTTTTCTTGTTTTTACTAACATATATTTCC
1 TTTTGTCTTGTTTTTACTAACATATATTTCC
99764 TTTTGTCTTGTTTTTACTAACATATATTTCC
1 TTTTGTCTTGTTTTTACTAACATATATTTCC
99795 TTTTGTCT
1 TTTTGTCT
99803 GGTCTTGTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.18, C:0.16, G:0.06, T:0.60
Consensus pattern (31 bp):
TTTTGTCTTGTTTTTACTAACATATATTTCC
Found at i:102924 original size:54 final size:54
Alignment explanation
Indices: 102829--103264 Score: 386
Period size: 53 Copynumber: 8.0 Consensus size: 54
102819 TGTCTTGATA
* *
102829 TGATGTTTTCAAACGAA-TTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * *
102882 TGATGTTTTCAAATGAATTTTGAAATAATCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * *
102936 TGATGTTTTCAAATGAATTTTGAAATAATCTAAGCCTAATTTTTA-GGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* *
102989 TGATGTTTTTAAA--AATAGTTT-AAAGAAGCTAAGCCTGATTTTTAGGGCTTTCT
1 TGATGTTTTCAAATGAAT--TTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * * * * *
103042 TGATGATTATTTCCAAATGAGTTTTGAAATAGGCTAATCTTAATTTTTAGGGGTTTCT
1 TGATG--T-TTT-CAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * * * *
103100 TGATGTTTTCATGACGAGTTTT--AAGAAACTTAGCCTGATTTTTAGGGGTTTCT
1 TGATGTTTTCA-AATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * * * ** *
103153 TGATGTTTATTTCCAAGGAATTTTTAAAGAAACTAAGCCTGATTTCCAAGGGTTTCT
1 TGATG--T-TTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * * *
103210 TGATGATTATTTCCAAA-GAATTTTTAAAGATGCTAATCCT-AATTTTAGGAGGTTT
1 TGATG--T-TTT-CAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGG-GGTTT
103265 TTTATGATAA
Statistics
Matches: 320, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
51 3 0.01
52 20 0.06
53 80 0.25
54 79 0.25
55 20 0.06
56 13 0.04
57 69 0.22
58 34 0.11
59 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.42
Consensus pattern (54 bp):
TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
Found at i:103264 original size:57 final size:53
Alignment explanation
Indices: 102829--103264 Score: 325
Period size: 54 Copynumber: 8.0 Consensus size: 53
102819 TGTCTTGATA
* *
102829 TGATG-TTTTCAAACGAA-TTTGAAAGAAGCTAAGCCTGATTTTCAGGGGTTTCT
1 TGATGTTTTTCAAA-GAATTTTTAAAGAAGCTAAGCCTAATTTT-AGGGGTTTCT
* * *
102882 TGATG-TTTTCAAATGAATTTTGAAATAATCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTTCAAA-GAATTTTTAAAGAAGCTAAGCCTAA-TTTTAGGGGTTTCT
* * *
102936 TGATG-TTTTCAAATGAATTTTGAAATAATCTAAGCCTAATTTTTA-GGGTTTCT
1 TGATGTTTTTCAAA-GAATTTTTAAAGAAGCTAAGCCTAA-TTTTAGGGGTTTCT
* * *
102989 TGATGTTTTT-AAA-AATAGTTTAAAGAAGCTAAGCCTGATTTTTAGGGCTTTCT
1 TGATGTTTTTCAAAGAAT-TTTTAAAGAAGCTAAGCCT-AATTTTAGGGGTTTCT
* * * * * *
103042 TGATGATTATTTCCAAATGAGTTTTGAAATAGGCTAATCTTAATTTTTAGGGGTTTCT
1 TGATG-TT-TTT-CAAA-GAATTTTTAAAGAAGCTAAGCCTAA-TTTTAGGGGTTTCT
* * * * *
103100 TGATG-TTTTC-ATGACGAGTTTT-AAGAAACTTAGCCTGATTTTTAGGGGTTTCT
1 TGATGTTTTTCAAAGA--ATTTTTAAAGAAGCTAAGCCT-AATTTTAGGGGTTTCT
* * * * *
103153 TGATGTTTATTTCCAAGGAATTTTTAAAGAAACTAAGCCTGATTTCCAAGGGTTTCT
1 TGATG-TT-TTT-CAAAGAATTTTTAAAGAAGCTAAGCCTAATTT-TAGGGGTTTCT
* *
103210 TGATGATTATTTCCAAAGAATTTTTAAAGATGCTAATCCTAATTTTAGGAGGTTT
1 TGATG-TT-TTT-CAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTAGG-GGTTT
103265 TTTATGATAA
Statistics
Matches: 314, Mismatches: 45, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
51 3 0.01
52 22 0.07
53 73 0.23
54 84 0.27
55 11 0.04
56 14 0.04
57 71 0.23
58 34 0.11
59 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.42
Consensus pattern (53 bp):
TGATGTTTTTCAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTAGGGGTTTCT
Found at i:103437 original size:41 final size:42
Alignment explanation
Indices: 103351--103437 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 42
103341 GGGCTATCAG
** * * * *
103351 TAAGTCTTTCGAGCACGATGCTTAAATCCTTCAGGTCATCTA
1 TAAGTCTTTCGAGCAAAATGCATAAATCATTCAGGCCATCCA
*
103393 TAAGTCTTTCGAGCAAAATG-ATAAGTCATTCAGGCCATCCA
1 TAAGTCTTTCGAGCAAAATGCATAAATCATTCAGGCCATCCA
103434 TAAG
1 TAAG
103438 ACCATCGGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 20 0.53
42 18 0.47
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
TAAGTCTTTCGAGCAAAATGCATAAATCATTCAGGCCATCCA
Found at i:103665 original size:41 final size:42
Alignment explanation
Indices: 103560--103665 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 42
103550 AAATCAACAA
* * * * *
103560 AAGTCCTTTAGGCCAT-CAGTAATTGTTTCGAGCATGATGCTT
1 AAGTCCTTTGGGCCATCCA-TAAGTCTTTCGAGCAAGATGCAT
* * ** *
103602 AAATCCTTCGGGTTATCTATAAGTCTTTCGAGCAAGATG-AT
1 AAGTCCTTTGGGCCATCCATAAGTCTTTCGAGCAAGATGCAT
103643 AAGTCCTTTGGGCCATCCATAAG
1 AAGTCCTTTGGGCCATCCATAAG
103666 ACCTTCGGGC
Statistics
Matches: 48, Mismatches: 15, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
41 19 0.40
42 28 0.58
43 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
AAGTCCTTTGGGCCATCCATAAGTCTTTCGAGCAAGATGCAT
Found at i:103781 original size:59 final size:60
Alignment explanation
Indices: 103702--103827 Score: 166
Period size: 59 Copynumber: 2.1 Consensus size: 60
103692 TCCTTTTCTT
* *
103702 GATTCACAACACTTTGAATCAGCAA-TGCCACACTTGAGGGATTAAAATTTCCT-TTGCAC
1 GATTCACAACACTTCGAATCAGCAACT-CCACACTTAAGGGATTAAAATTTCCTATTGCAC
* * * **
103761 GATTCACAATACTTCGAATCAGCAACTCCCCACTTAAGGGATTAATATTTCCTATTGTTC
1 GATTCACAACACTTCGAATCAGCAACTCCACACTTAAGGGATTAAAATTTCCTATTGCAC
103821 GATTCAC
1 GATTCAC
103828 CGCATTCCGA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
59 46 0.79
60 12 0.21
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (60 bp):
GATTCACAACACTTCGAATCAGCAACTCCACACTTAAGGGATTAAAATTTCCTATTGCAC
Found at i:103930 original size:21 final size:21
Alignment explanation
Indices: 103906--103954 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
103896 CGGGTCATCT
*
103906 ATAAGTCTTTCGAGAAAGATG
1 ATAAGTCTTTCAAGAAAGATG
* *
103927 ATAAATCTTTCAAGTAAGATG
1 ATAAGTCTTTCAAGAAAGATG
103948 ATAAGTC
1 ATAAGTC
103955 CTTCTGGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
ATAAGTCTTTCAAGAAAGATG
Found at i:108229 original size:19 final size:19
Alignment explanation
Indices: 108207--108243 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
108197 TTTTTTATTG
108207 AATAAAAATAATATTTTTT
1 AATAAAAATAATATTTTTT
* *
108226 AATAAATATATTATTTTT
1 AATAAAAATAATATTTTT
108244 GATAGGGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATAAAAATAATATTTTTT
Found at i:108648 original size:6 final size:7
Alignment explanation
Indices: 108631--108656 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
108621 AAATTCAAAA
108631 AAAAATT
1 AAAAATT
108638 AAAAATT
1 AAAAATT
108645 AAAAATT
1 AAAAATT
108652 AAAAA
1 AAAAA
108657 AATTCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:110546 original size:10 final size:11
Alignment explanation
Indices: 110522--110550 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
110512 GTCAAAAACA
110522 ACCAAATCAGT
1 ACCAAATCAGT
110533 ACCAAATCAG-
1 ACCAAATCAGT
110543 ACCAAATC
1 ACCAAATC
110551 CACTGAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.48, C:0.31, G:0.07, T:0.14
Consensus pattern (11 bp):
ACCAAATCAGT
Found at i:117123 original size:2 final size:2
Alignment explanation
Indices: 117118--117151 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
117108 TATGTGTGTG
117118 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
117152 ATTCCTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:118851 original size:24 final size:23
Alignment explanation
Indices: 118824--118881 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
118814 TTTGCATAGT
*
118824 ATTTTTAGTTTTCTATTATTTAAA
1 ATTTTTAGTTTTC-ATTAATTAAA
* * **
118848 ATTTTTAATATTCATTAATTAGG
1 ATTTTTAGTTTTCATTAATTAAA
118871 ATTTTTAGTTT
1 ATTTTTAGTTT
118882 GTTAGGGATC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.60
Consensus pattern (23 bp):
ATTTTTAGTTTTCATTAATTAAA
Done.