Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000926.1 Hibiscus syriacus cultivar Beakdansim tig00001849_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: 69952
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:4043 original size:2 final size:2
Alignment explanation
Indices: 4036--4074 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
4026 ACGGCAAATC
* * *
4036 AT AT AT AT GT AA AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4075 CACAACCATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9418 original size:181 final size:181
Alignment explanation
Indices: 9114--9458 Score: 672
Period size: 181 Copynumber: 1.9 Consensus size: 181
9104 TGTTTTGTCC
9114 GGATCTTACGGTACTGTTGTTTCAGTTCATTCTCATATCTTAGTTTAGATCCTTAGGATCTTTTT
1 GGATCTTACGGTACTGTTGTTTCAGTTCATTCTCATATCTTAGTTTAGATCCTTAGGATCTTTTT
* *
9179 GTTAAGACATGTGAAACGCAAAATCACTGTTATAAATAAAAATAAGAATTTTGATAAAATAACTA
66 GTTAAGACATGTGAAACGCAAAACCACTGTAATAAATAAAAATAAGAATTTTGATAAAATAACTA
9244 TTTAAAGGGCATTTAATGAATTGGATCTTACGGTTCATTCTCATATCCTTA
131 TTTAAAGGGCATTTAATGAATTGGATCTTACGGTTCATTCTCATATCCTTA
9295 GGATCTTACGGTACTGTTGTTTCAGTTCATTCTCATATCTTAGTTTAGATCCTTAGGATCTTTTT
1 GGATCTTACGGTACTGTTGTTTCAGTTCATTCTCATATCTTAGTTTAGATCCTTAGGATCTTTTT
9360 GTTAAGACATGTGAAACGCAAAACCACTGTAATAAATAAAAATAAGAATTTTGATAAAATAACTA
66 GTTAAGACATGTGAAACGCAAAACCACTGTAATAAATAAAAATAAGAATTTTGATAAAATAACTA
9425 TTTAAAGGGCATTTAATGAATTGGATCTTACGGT
131 TTTAAAGGGCATTTAATGAATTGGATCTTACGGT
9459 ACTTGAAATG
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 162 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (181 bp):
GGATCTTACGGTACTGTTGTTTCAGTTCATTCTCATATCTTAGTTTAGATCCTTAGGATCTTTTT
GTTAAGACATGTGAAACGCAAAACCACTGTAATAAATAAAAATAAGAATTTTGATAAAATAACTA
TTTAAAGGGCATTTAATGAATTGGATCTTACGGTTCATTCTCATATCCTTA
Found at i:10427 original size:200 final size:200
Alignment explanation
Indices: 10020--10440 Score: 426
Period size: 200 Copynumber: 2.1 Consensus size: 200
10010 AATCGCAAGT
* *
10020 GCTT-ATAGGCATGTTCGAGGGATATTTTTGGGTATTTAATCTCAAAATTTTCGTAATTTATAAG
1 GCTTGATAGGCATGTTCGAGGGATATTTTTGGGTAGTTAATCTAAAAATTTTCGTAATTTATAAG
* * * * * *
10084 ATTAGAGACGTAGTATTGAAATTTATCTTTCATCTTAGGCCAATATCGAGACATACGAGATATTG
66 ATTAAAGACGTAGTATTGAAACTTATATTTCATCATAGGCCAATATCGACACATACGAGACATTG
* * * * * * * * * *
10149 TAAGAAGGTTAAAAGTCGCATTGAAAATTATTCCAAAACTTTTTTTGTGTCTGTAGAAAATTCTA
131 TAAGAAGGGTAAAAATCACATTCAAAATGATTCCAAAACTTGTTTTCTGACTGAAGAAAATGCTA
10214 AAATA
196 AAATA
* * * * * *
10219 GTTTGATAGGCATATTCGCGGGTTTTTTTTGGGTAGTTATTCTAAAAAATTTT-GTAATTTATAA
1 GCTTGATAGGCATGTTCGAGGGATATTTTTGGGTAGTTAATCT-AAAAATTTTCGTAATTTATAA
* * *
10283 GATTAAAGGCGTAGTATTGTAACTTATATTTCAATTCAT-GG-TAATATCGACACATACGAGACA
65 GATTAAAGACGTAGTATTGAAACTTATATTTC-A-TCATAGGCCAATATCGACACATACGAGACA
* * * *
10346 TTGTAAG-CGGGTAAAAATCACGTTCAAAATGGTTCCAAAGCTTGGTTTTCT-ACATGAAGAAGA
128 TTGTAAGAAGGGTAAAAATCACATTCAAAATGATTCCAAAACTT-GTTTTCTGAC-TGAAGAA-A
* *
10409 A-GCTAACATG
190 ATGCTAAAATA
*
10419 GCTTGATAGACATGTTCG-GGGA
1 GCTTGATAGGCATGTTCGAGGGA
10441 GGGTAAAAAT
Statistics
Matches: 178, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
199 34 0.19
200 128 0.72
201 13 0.07
202 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (200 bp):
GCTTGATAGGCATGTTCGAGGGATATTTTTGGGTAGTTAATCTAAAAATTTTCGTAATTTATAAG
ATTAAAGACGTAGTATTGAAACTTATATTTCATCATAGGCCAATATCGACACATACGAGACATTG
TAAGAAGGGTAAAAATCACATTCAAAATGATTCCAAAACTTGTTTTCTGACTGAAGAAAATGCTA
AAATA
Found at i:21859 original size:20 final size:20
Alignment explanation
Indices: 21831--21884 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
21821 AATTGGGAAA
*
21831 ATCGTAATGCGATACTTACT
1 ATCGCAATGCGATACTTACT
*
21851 ATCGCAATGCAATACTTACT
1 ATCGCAATGCGATACTTACT
21871 ATCGCAATGCGATA
1 ATCGCAATGCGATA
21885 ATACAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (20 bp):
ATCGCAATGCGATACTTACT
Found at i:21941 original size:20 final size:20
Alignment explanation
Indices: 21893--21945 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
21883 TAATACAAAA
* *
21893 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
21913 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
21933 TCGCAACGCGATT
1 TCGCAACGCGATT
21946 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:22551 original size:19 final size:19
Alignment explanation
Indices: 22504--22545 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
22494 ACGAGAGAAT
*
22504 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
22523 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
22542 CGCA
1 CGCA
22546 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:22563 original size:19 final size:19
Alignment explanation
Indices: 22541--22591 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
22531 GAAACAAAAA
22541 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
22560 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
22579 TCGCATTGCGATT
1 TCGCATTGCGATT
22592 CTCTGGTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:22613 original size:33 final size:33
Alignment explanation
Indices: 22576--22661 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
22566 TGCGATTTTT
*
22576 ATTTCGCATTGCGATTCTCTGGTCGCGATAGTC
1 ATTTCGCATTGCGATTCTCTCGTCGCGATAGTC
*
22609 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTC
1 ATTTCGCATTGCGATTCTCTCGTCGCGATAGTC
*
22642 ATTTCCGCGTTGCGATTCTC
1 ATTT-CGCATTGCGATTCTC
22662 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTCGCGATAGTC
Found at i:22663 original size:20 final size:20
Alignment explanation
Indices: 22629--22686 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
22619 GCGATTCTCT
**
22629 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
22649 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
22669 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
22687 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:24764 original size:21 final size:21
Alignment explanation
Indices: 24740--24806 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
24730 TCATTCCTCG
24740 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
24761 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
24782 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
24803 AGAG
1 AGAG
24807 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:24764 original size:42 final size:42
Alignment explanation
Indices: 24688--24806 Score: 102
Period size: 42 Copynumber: 2.8 Consensus size: 42
24678 GACTCGCCTG
* * * *
24688 TCATCCCTC-AAGA-GTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCAT-CCTCGAAGAGGTCC-CTCCCACCATTCAAGAGGCCACTA
* *
24730 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCA-TCCTCGAAGAGGT-CCCTCCCACCATTCAAGAGGCCACTA
* *
24772 TCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAG
24807 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.06
42 54 0.86
43 5 0.08
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAGGCCACTA
Found at i:26290 original size:34 final size:34
Alignment explanation
Indices: 26238--26316 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 34
26228 AAAGTACTAT
*
26238 CGCAATGCG-AAATGAAAATCGCAACGAGAGAAA
1 CGCAACGCGAAAATGAAAATCGCAACGAGAGAAA
*
26271 CGCAACGCGAAAATGAAAATCGCAACGAGAGAAT
1 CGCAACGCGAAAATGAAAATCGCAACGAGAGAAA
26305 CGCAACGCGAAA
1 CGCAACGCGAAA
26317 TTAAATTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
33 8 0.19
34 35 0.81
ACGTcount: A:0.47, C:0.22, G:0.24, T:0.08
Consensus pattern (34 bp):
CGCAACGCGAAAATGAAAATCGCAACGAGAGAAA
Found at i:26368 original size:33 final size:32
Alignment explanation
Indices: 26326--26452 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
26316 ATTAAATTCA
26326 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
26359 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
26392 CGTTGCGATTTTCATTTCGCATTGCAATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
26425 CGTTGCGATTTTCATTTTGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
26453 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.04
33 77 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:26415 original size:66 final size:66
Alignment explanation
Indices: 26326--26451 Score: 225
Period size: 66 Copynumber: 1.9 Consensus size: 66
26316 ATTAAATTCA
*
26326 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 CGTTGCGATTTTCATTTCGCATTGCAATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
26391 G
66 G
* *
26392 CGTTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATTTTCATTTTGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCAATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
26452 TAGTAATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCGCATTGCAATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
G
Found at i:26468 original size:39 final size:36
Alignment explanation
Indices: 26326--26472 Score: 141
Period size: 33 Copynumber: 4.2 Consensus size: 36
26316 ATTAAATTCA
** *
26326 CGTTGCGATTTTCATTTCGCATTGCG-AT--TCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGAATAATTTCG
*
26359 CGTTGCGATTTTCATTTCGCATTGCG-A-AA-TTAG
1 CGTTGCGATTTTCATTTCGCATTGCGAATAATTTCG
* *
26392 CGTTGCGATTTTCATTTCGCATTGC-AAT--TCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGAATAATTTCG
*
26425 CGTTGCGATTTTCATTTTGCATTGCGATAGTAATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGA-A-TAATTT-CG
26464 CGTTGCGAT
1 CGTTGCGAT
26473 AGACATTAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
33 78 0.84
34 1 0.01
35 1 0.01
36 1 0.01
38 2 0.02
39 10 0.11
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (36 bp):
CGTTGCGATTTTCATTTCGCATTGCGAATAATTTCG
Found at i:28760 original size:12 final size:12
Alignment explanation
Indices: 28743--28767 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28733 TCTTCGGGGA
28743 CTTTTTCTTCTT
1 CTTTTTCTTCTT
28755 CTTTTTCTTCTT
1 CTTTTTCTTCTT
28767 C
1 C
28768 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:28976 original size:24 final size:24
Alignment explanation
Indices: 28942--28995 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
28932 CTGAAACATC
* *
28942 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
28966 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
28990 ATCAAA
1 ATCAAA
28996 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:30057 original size:20 final size:20
Alignment explanation
Indices: 30032--30089 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
30022 ATTCATTTGA
30032 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
30052 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
30072 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
30090 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:30132 original size:14 final size:14
Alignment explanation
Indices: 30113--30166 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
30103 GAAAATCGCA
30113 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
30127 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
30144 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
30160 TTGCGAT
1 TTGCGAT
30167 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:30132 original size:33 final size:33
Alignment explanation
Indices: 30095--30165 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
30085 AAAATCGCAA
30095 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
30128 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
30161 TGCGA
1 TGCGA
30166 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:30166 original size:33 final size:33
Alignment explanation
Indices: 30108--30185 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
30098 GAAATGAAAA
***
30108 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
30141 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
30174 TCGCGTTGCGAT
1 TCGCATTGCGAT
30186 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:30292 original size:14 final size:14
Alignment explanation
Indices: 30273--30309 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
30263 CATCAATTAA
30273 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
30287 ACAAATCATCTTTT
1 ACAAATCAACATTT
30301 ACAAATCAA
1 ACAAATCAA
30310 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:32235 original size:19 final size:20
Alignment explanation
Indices: 32180--32247 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
32170 GAAACTTAAA
**
32180 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
32200 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* **
32220 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGACT
32239 ATCGCAACG
1 ATCGCAACG
32248 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:32317 original size:14 final size:14
Alignment explanation
Indices: 32295--32352 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
32285 TTTCATTTCG
*
32295 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
*
32309 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
32325 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
32341 TGTTGCGATTTT
1 CGTTGCGATTTT
32353 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 7 0.19
18 9 0.25
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:32359 original size:33 final size:33
Alignment explanation
Indices: 32278--32368 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
32268 ACAAATTGCA
* *
32278 TTGCGATTTTCATTTCGCGTTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
32311 TTGCGA-TTTCATTTCGCATTGCGATTTTGTTG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
32343 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
32369 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:32387 original size:20 final size:19
Alignment explanation
Indices: 32353--32407 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
32343 TTGCGATTTT
*
32353 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
32372 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
32392 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
32408 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:32915 original size:18 final size:18
Alignment explanation
Indices: 32889--32933 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
32879 GTCAATCAGA
**
32889 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCAAGG
*
32907 TGATAGCTCTGGGCAAGG
1 TGATGGCTCTGGGCAAGG
32925 TGATGGCTC
1 TGATGGCTC
32934 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCAAGG
Found at i:34846 original size:20 final size:20
Alignment explanation
Indices: 34785--34848 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
34775 GATTATGTAT
34785 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
34805 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
34825 TATCGCGTTACGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
34845 TATC
1 TATC
34849 TCATTGCGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:34902 original size:41 final size:41
Alignment explanation
Indices: 34765--34900 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
34755 CGCTTTGAAA
*
34765 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * * *
34806 ATCGCGTTGCGA--AAGTCAGTATCGCGTTACGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * *
34846 ATCTCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
*
34887 ATCGTATTGCGATT
1 ATCGCATTGCGATT
34901 TTCCCAATTC
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.04
40 29 0.39
41 41 0.55
42 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:34918 original size:41 final size:41
Alignment explanation
Indices: 34892--34980 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
34882 TCAGTATCGT
* *
34892 ATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCGC
1 ATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTATTCGC
* *
34933 ATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCGC
1 ATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTATTCGC
34974 ATTGCGA
1 ATTGCGA
34981 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
ATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTATTCGC
Found at i:34919 original size:21 final size:21
Alignment explanation
Indices: 34893--34963 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
34883 CAGTATCGTA
34893 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTCGCG
* ** *
34914 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTCCCAATTCGCG
34934 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTTCCCAATTCGCG
34955 TTGCGATTT
1 TTGCGATTT
34964 ACTTATTCGC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
TTGCGATTTTCCCAATTCGCG
Found at i:34932 original size:20 final size:20
Alignment explanation
Indices: 34907--34980 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
34897 GATTTTCCCA
*
34907 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
34927 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACTT
*
34948 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
34968 ATTCGCATTGCGA
1 ATTCGCATTGCGA
34981 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:35084 original size:20 final size:20
Alignment explanation
Indices: 35059--35104 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
35049 CAACGCGAAT
*
35059 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
35079 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
35098 TTGCGAT
1 TTGCGAT
35105 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:35921 original size:2 final size:2
Alignment explanation
Indices: 35910--35943 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
35900 AGTATAATTA
35910 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35944 ATGCCAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37059 original size:30 final size:29
Alignment explanation
Indices: 37026--37192 Score: 109
Period size: 30 Copynumber: 5.8 Consensus size: 29
37016 TTCTTAAATT
* *
37026 AAATATATTCTATTCTTATCTTAAATTAA
1 AAATATATTTTATTCTTATCTTAATTTAA
* *
37055 TAAATATTTTTTATTATTAT-TTGAATTTAA
1 -AAATATATTTTATTCTTATCTT-AATTTAA
*
37085 AATATATATTTTA-TCATTATCTCAATTTAA
1 AA-ATATATTTTATTC-TTATCTTAATTTAA
* *
37115 AAATATATATTATT-TTAAT-TTCAACTTAA
1 AAATATATTTTATTCTT-ATCTT-AATTTAA
* * *
37144 AATGTATATTTTATT-TT-TGTT--TTAAA
1 AA-ATATATTTTATTCTTATCTTAATTTAA
*
37170 AAATAT-TTTTATTTTTATCTTAA
1 AAATATATTTTATTCTTATCTTAA
37193 CTAAATTTTT
Statistics
Matches: 108, Mismatches: 16, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
24 7 0.06
25 5 0.05
26 8 0.07
28 4 0.04
29 26 0.24
30 57 0.53
31 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
AAATATATTTTATTCTTATCTTAATTTAA
Found at i:37071 original size:27 final size:27
Alignment explanation
Indices: 37012--37089 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 27
37002 ATATATATAC
*
37012 ATTATTCTTAAATTAAATATATTCTATT
1 ATTA-TCTTAAATTAAAAATATTCTATT
* *
37040 CTTATCTTAAATTAATAAATATTTTTTATT
1 ATTATCTTAAATTAA-AAATA--TTCTATT
* *
37070 ATTAT-TTGAATTTAAAATAT
1 ATTATCTTAAATTAAAAATAT
37090 ATATTTTATC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 1 0.02
27 11 0.27
28 12 0.29
29 7 0.17
30 10 0.24
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTATCTTAAATTAAAAATATTCTATT
Found at i:37138 original size:29 final size:29
Alignment explanation
Indices: 37028--37160 Score: 110
Period size: 30 Copynumber: 4.5 Consensus size: 29
37018 CTTAAATTAA
* *
37028 ATATATTCTATTCTTATCTT-AAATTAATAA-
1 ATATATTTTATT-TTAT-TTCAATTTAA-AAT
* *
37058 ATATTTTTTATTATTATTTGAATTTAAAAT
1 ATATATTTTATT-TTATTTCAATTTAAAAT
* *
37088 ATATATTTTATCATTATCTCAATTTAAAA-
1 ATATATTTTAT-TTTATTTCAATTTAAAAT
* *
37117 ATATATATTATTTTAATTTCAACTTAAAAT
1 ATATATTTTATTTT-ATTTCAATTTAAAAT
*
37147 GTATATTTTATTTT
1 ATATATTTTATTTT
37161 TGTTTTAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.02
29 26 0.31
30 56 0.67
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (29 bp):
ATATATTTTATTTTATTTCAATTTAAAAT
Found at i:37144 original size:59 final size:59
Alignment explanation
Indices: 37028--37157 Score: 147
Period size: 59 Copynumber: 2.2 Consensus size: 59
37018 CTTAAATTAA
* * * * * *
37028 ATATATTCTATTCTTATCTTAAATTAATAAATATTTTTTATTATTATTTGAATTTAAAAT
1 ATATATTTTA-TCTTATCTCAAATTAATAAATATATATTATTATTATTTCAACTTAAAAT
*
37088 ATATATTTTATCATTATCTCAATTTAA-AAATATATATTATT-TTAATTTCAACTTAAAAT
1 ATATATTTTATC-TTATCTCAAATTAATAAATATATATTATTATT-ATTTCAACTTAAAAT
*
37147 GTATATTTTAT
1 ATATATTTTAT
37158 TTTTGTTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.03
59 37 0.62
60 21 0.35
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (59 bp):
ATATATTTTATCTTATCTCAAATTAATAAATATATATTATTATTATTTCAACTTAAAAT
Found at i:39271 original size:42 final size:43
Alignment explanation
Indices: 39162--39284 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
39152 TGAGAACAAA
* * * *
39162 AAACGCTGCAATAGGTCGAGATCTATAGCGGCGTTTTTTGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGACGTTTTTGGAAC
** * * * *
39205 AAACATCGAAAAATGTCAACATCTATAGCGACGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGACGTTTTTGGAAC
*
39248 AAACGCCGCAAAAGGT-GAGATCTATAGCGACATTTTT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGACGTTTTT
39285 TATTTAAATG
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 18 0.29
43 45 0.71
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGACGTTTTTGGAAC
Found at i:41243 original size:41 final size:41
Alignment explanation
Indices: 41183--41269 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
41173 ATAAACTACT
* * * *
41183 CTATTGCGGCGTTTGTTGAAAAACACCACTATAGATGGACC
1 CTATTGCGACATTTATTGAAAAACACCACTATAGATGAACC
*
41224 CTATTGCGACATTTATTGAAAAACGCCACTATAGATGAACC
1 CTATTGCGACATTTATTGAAAAACACCACTATAGATGAACC
41265 CTATT
1 CTATT
41270 ACGGCGTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (41 bp):
CTATTGCGACATTTATTGAAAAACACCACTATAGATGAACC
Found at i:41360 original size:41 final size:40
Alignment explanation
Indices: 41192--41373 Score: 138
Period size: 41 Copynumber: 4.5 Consensus size: 40
41182 TCTATTGCGG
* * * **
41192 CGTTTGTTGAAAAACACCACTATAGATGGACCCTATTGCGA
1 CGTTTATTGAAAAACGCCACTATAGAT-GAACCTATCACGA
* * *
41233 CATTTATTGAAAAACGCCACTATAGATGAACCCTATTACGG
1 CGTTTATTGAAAAACGCCACTATAGATGAA-CCTATCACGA
* * * *
41274 CGTTGATAT-AAAAACGCCGCTAAAG-T-ACTACTCTATCACGG
1 CGTTTAT-TGAAAAACGCCACTATAGATGA--AC-CTATCACGA
*
41315 CGTTTATTGAAAAAACGCCACTATTGATGAACCTATCACGA
1 CGTTTATTG-AAAAACGCCACTATAGATGAACCTATCACGA
*
41356 CGTTTGTAT-AAAAACGCC
1 CGTTTAT-TGAAAAACGCC
41374 GCTAAAGTTA
Statistics
Matches: 114, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
39 1 0.01
40 14 0.12
41 80 0.70
42 17 0.15
43 1 0.01
44 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (40 bp):
CGTTTATTGAAAAACGCCACTATAGATGAACCTATCACGA
Found at i:41980 original size:21 final size:21
Alignment explanation
Indices: 41954--41994 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41944 GTGCCTGCGA
41954 CTGCTGCTACGACGACTGTGG
1 CTGCTGCTACGACGACTGTGG
* *
41975 CTGCTGCTACTACTACTGTG
1 CTGCTGCTACGACGACTGTG
41995 AGTGTTCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (21 bp):
CTGCTGCTACGACGACTGTGG
Found at i:45096 original size:20 final size:20
Alignment explanation
Indices: 45060--45100 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
45050 TTTTAAATAT
45060 AAATCTAAAACAAATATAAA
1 AAATCTAAAACAAATATAAA
*
45080 AAATACTAAAA-ATATATAAA
1 AAAT-CTAAAACAAATATAAA
45100 A
1 A
45101 GAAATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (20 bp):
AAATCTAAAACAAATATAAA
Found at i:60121 original size:21 final size:21
Alignment explanation
Indices: 60060--60180 Score: 81
Period size: 22 Copynumber: 5.8 Consensus size: 21
60050 TTTTCCTAAT
* **
60060 TCGCCATGCGAA-TACTTAAA
1 TCGCAATGCGAATTACGAAAA
* *
60080 TCGCAACGCG-ATTACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
60100 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
60121 TCGCAATGCGAATATTACG-TAT
1 TCGCAATGCG-A-ATTACGAAAA
* *
60143 TCGCAATGCGAATATTACG-TAT
1 TCGCAATGCG-A-ATTACGAAAA
60165 TCGCAATGCG-ATTACG
1 TCGCAATGCGAATTACG
60181 TATTCGCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.08
20 24 0.27
21 18 0.20
22 34 0.39
23 5 0.06
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:60149 original size:22 final size:22
Alignment explanation
Indices: 60121--60194 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
60111 ATTAGGAAAA
60121 TCGCAATGCGAATATTACGTAT
1 TCGCAATGCGAATATTACGTAT
60143 TCGCAATGCGAATATTACGTAT
1 TCGCAATGCGAATATTACGTAT
60165 TCGCAATGCG---ATTACGTAT
1 TCGCAATGCGAATATTACGTAT
*
60184 TCGCATTGCGA
1 TCGCAATGCGA
60195 TTTTCTTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 18 0.36
22 32 0.64
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (22 bp):
TCGCAATGCGAATATTACGTAT
Found at i:60187 original size:41 final size:41
Alignment explanation
Indices: 60080--60339 Score: 157
Period size: 41 Copynumber: 6.3 Consensus size: 41
60070 AATACTTAAA
* * * * *
60080 TCGCAACGCGATTACGTAAATCGCAATGCGA-ATTAGGAAAA
1 TCGCAATGCGATTACGTAATTCGCAATGCGATATTACG-TAT
60121 TCGCAATGCGAATATTACGT-ATTCGCAATGCGAATATTACGTAT
1 TCGCAATGCG---ATTACGTAATTCGCAATGCG-ATATTACGTAT
* * *
60165 TCGCAATGCGATTACGT-ATTCGCATTGCGAT-TTTCTTAAT
1 TCGCAATGCGATTACGTAATTCGCAATGCGATATTACGT-AT
* * * * *
60205 TTGCATTGCGATTTTCTTAATTCGCATTGCGAT-TTACGTAT
1 TCGCAATGCGA-TTACGTAATTCGCAATGCGATATTACGTAT
* * *
60246 T--CAAGTTGCGATTTCCCTAATTCGCAATGCGA-A-TACGTAAA
1 TCGCAA--TGCGA-TTACGTAATTCGCAATGCGATATTACGT-AT
* *
60287 TCGCAACGCGATTACGTAAATCGCAATGCGA-ATCTGAC-TA-
1 TCGCAATGCGATTACGTAATTCGCAATGCGATAT-T-ACGTAT
60327 TCGCAATGCGATT
1 TCGCAATGCGATT
60340 TACATGGCGT
Statistics
Matches: 178, Mismatches: 24, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
39 6 0.03
40 48 0.27
41 64 0.36
42 20 0.11
43 16 0.09
44 19 0.11
45 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (41 bp):
TCGCAATGCGATTACGTAATTCGCAATGCGATATTACGTAT
Found at i:60212 original size:21 final size:21
Alignment explanation
Indices: 60182--60239 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
60172 GCGATTACGT
60182 ATTCGCATTGCGATTTTCTTA
1 ATTCGCATTGCGATTTTCTTA
*
60203 ATTTGCATTGCGATTTTCTTA
1 ATTCGCATTGCGATTTTCTTA
60224 ATTCGCATTGCGATTT
1 ATTCGCATTGCGATTT
60240 ACGTATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (21 bp):
ATTCGCATTGCGATTTTCTTA
Found at i:60276 original size:21 final size:21
Alignment explanation
Indices: 60047--60342 Score: 179
Period size: 20 Copynumber: 14.4 Consensus size: 21
60037 ATTCGCGTTA
* * *
60047 CGATTTTCCTAATTCGCCATG
1 CGATTTACGTAATTCGCAATG
* * * *
60068 CGA-ATACTTAAATCGCAACG
1 CGATTTACGTAATTCGCAATG
*
60088 CGA-TTACGTAAATCGCAATG
1 CGATTTACGTAATTCGCAATG
* * * *
60108 CGAATTAGGAAAATCGCAATG
1 CGATTTACGTAATTCGCAATG
60129 CGAATATTACGT-ATTCGCAATG
1 CG-AT-TTACGTAATTCGCAATG
60151 CGAATATTACGT-ATTCGCAATG
1 CG-AT-TTACGTAATTCGCAATG
*
60173 CGA-TTACGT-ATTCGCATTG
1 CGATTTACGTAATTCGCAATG
* * * *
60192 CGATTTTCTTAATTTGCATTG
1 CGATTTACGTAATTCGCAATG
* * *
60213 CGATTTTCTTAATTCGCATTG
1 CGATTTACGTAATTCGCAATG
60234 CGATTTACGT-ATT--CAAGTTG
1 CGATTTACGTAATTCGCAA--TG
* *
60254 CGATTTCCCTAATTCGCAATG
1 CGATTTACGTAATTCGCAATG
* * *
60275 CGA-ATACGTAAATCGCAACG
1 CGATTTACGTAATTCGCAATG
*
60295 CGA-TTACGTAAATCGCAATG
1 CGATTTACGTAATTCGCAATG
*
60315 CGAATCTGAC-T-A-TCGCAATG
1 CG-AT-TTACGTAATTCGCAATG
60335 CGATTTAC
1 CGATTTAC
60343 ATGGCGTCAT
Statistics
Matches: 228, Mismatches: 34, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
18 5 0.02
19 20 0.09
20 90 0.39
21 68 0.30
22 35 0.15
23 10 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (21 bp):
CGATTTACGTAATTCGCAATG
Found at i:60906 original size:19 final size:19
Alignment explanation
Indices: 60861--60908 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
60851 TTCGAGAATG
*
60861 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGCGGAAAC
*
60880 AACTATCGCAACGC-GAAACC
1 AA-AATCGCAACGCGGAAA-C
60900 AAAATCGCA
1 AAAATCGCA
60909 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGGAAAC
Found at i:60945 original size:14 final size:14
Alignment explanation
Indices: 60926--61014 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
60916 TTTCATTTCG
60926 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
60940 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
60957 CATGTTGCGATTCTCT
1 C--GTTGCGATTCTCT
*
60973 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
60992 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
61006 CGTTGCGAT
1 CGTTGCGAT
61015 AGTCATTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 27 0.44
16 8 0.13
17 8 0.13
19 18 0.30
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:60951 original size:33 final size:33
Alignment explanation
Indices: 60909--61035 Score: 191
Period size: 33 Copynumber: 3.8 Consensus size: 33
60899 CAAAATCGCA
**
60909 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
** **
60942 TTGCGATTTTCATTTCATGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
60975 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
61008 TTGCGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATAGTCATTT-CGCGTTGCGATT
61036 TTCATTCTCT
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 75 0.86
34 12 0.14
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:61040 original size:20 final size:21
Alignment explanation
Indices: 61000--61062 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
60990 CGCGTTGCGA
* **
61000 TTCTCTCGTTGCGATAGTCAT
1 TTCTCGCGTTGCGATTTTCAT
61021 TTC-CGCGTTGCGATTTTCA-
1 TTCTCGCGTTGCGATTTTCAT
* *
61040 TTCTCTCATTGCGATTTTCAT
1 TTCTCGCGTTGCGATTTTCAT
61061 TT
1 TT
61063 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.77
21 5 0.14
ACGTcount: A:0.13, C:0.24, G:0.16, T:0.48
Consensus pattern (21 bp):
TTCTCGCGTTGCGATTTTCAT
Found at i:63098 original size:95 final size:93
Alignment explanation
Indices: 62755--63131 Score: 602
Period size: 94 Copynumber: 4.1 Consensus size: 93
62745 TAGATTGCTT
*
62755 AGTAAATTTATTCGGTTGCTGCCAATAT-TGCTAAA-T-TGT-TT-ATTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAAT-TCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
62815 TATTTGTCTTTTGTTTTGTCTTTTGGTTGA
65 TATTTGTC-TTTGTTTTGTCTTTTGGTTGA
62845 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
62910 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
62939 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
63004 ATTTGTCTTTGTGTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGT-TTTGTCTTTTGGTTG-A
* * * * * *
63034 AGTAAATTTGTTCGTTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAATTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
63099 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
63127 AGTAA
1 AGTAA
63132 TGCAATCCAT
Statistics
Matches: 273, Mismatches: 7, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
89 1 0.00
90 33 0.12
91 1 0.00
92 3 0.01
93 28 0.10
94 118 0.43
95 89 0.33
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:63100 original size:189 final size:183
Alignment explanation
Indices: 62755--63131 Score: 596
Period size: 189 Copynumber: 2.0 Consensus size: 183
62745 TAGATTGCTT
62755 AGTAAATTTATTCGGTTGCTGCCAATATTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATATTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
*
62820 GTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTG
66 GTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTACCAATTCTGCTAAACTGTG
* *
62885 TATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TATTCTTTAACACTCTGAAATTAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
62939 AGTAAATTTGTTCGGTTGCTGCCAAT-TCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATAT-TGCTAAA-T-TGT-TT-ATTAACACTGTGAAGTTAG
* *
63003 TATTTGTC-TTTGTGTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGTTTGCTACCAATTCTGCTA
61 TATTTGTCTTTTGT-TTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTACCAATTCTGCTA
*
63067 AACTGTGTATTCTTTAATACTCTGAAATTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
124 AACTGTGTATTCTTTAACACTCTGAAATTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
63127 AGTAA
1 AGTAA
63132 TGCAATCCAT
Statistics
Matches: 178, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
183 1 0.01
184 32 0.18
185 1 0.01
186 3 0.02
187 7 0.04
188 47 0.26
189 87 0.49
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATATTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTACCAATTCTGCTAAACTGTG
TATTCTTTAACACTCTGAAATTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:63249 original size:14 final size:14
Alignment explanation
Indices: 63228--63267 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
63218 GGTTGAAATG
*
63228 AAAATCGCAACGAG
1 AAAATCGCAACGAC
* *
63242 AGAATCGCAACAAC
1 AAAATCGCAACGAC
63256 AAAATCGCAACG
1 AAAATCGCAACG
63268 CGAAACCAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.25, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:63281 original size:20 final size:20
Alignment explanation
Indices: 63256--63293 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
63246 TCGCAACAAC
63256 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
63276 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
63294 TATAATCGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:63321 original size:19 final size:19
Alignment explanation
Indices: 63299--63401 Score: 108
Period size: 19 Copynumber: 5.6 Consensus size: 19
63289 GAAACTATAA
*
63299 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
63318 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
63332 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
63351 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
63370 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
*
63390 TCACGTTGCGAT
1 TCGCGTTGCGAT
63402 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
14 9 0.13
16 2 0.03
17 2 0.03
19 38 0.55
20 18 0.26
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:63379 original size:20 final size:19
Alignment explanation
Indices: 63332--63425 Score: 107
Period size: 19 Copynumber: 4.8 Consensus size: 19
63322 ATTGCGATTC
*
63332 TCTCGTTGCGATTTTTATT
1 TCTCGTTGCGATTTTCATT
*
63351 TCGCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
63370 CTCTCGTTGCGATTTTCATT
1 -TCTCGTTGCGATTTTCATT
* **
63390 TCACGTTGCGATAGTCATTT
1 TCTCGTTGCGATTTTCA-TT
*
63410 TTTACGTTGCGATTTT
1 TCT-CGTTGCGATTTT
63426 AAGTTCCAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 31 0.50
20 21 0.34
21 10 0.16
ACGTcount: A:0.13, C:0.19, G:0.18, T:0.50
Consensus pattern (19 bp):
TCTCGTTGCGATTTTCATT
Found at i:63382 original size:39 final size:39
Alignment explanation
Indices: 63328--63425 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
63318 TCGCATTGCG
* * **
63328 ATTCTCTCGTTGCGATTTTTATTTCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTCATTTCACGTTGCGATAGTC
63367 ATTCTCTCGTTGCGATTTTCATTTCACGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTCATTTCACGTTGCGATAGTC
* *
63406 ATTTTTTACGTTGCGATTTT
1 ATTCTCT-CGTTGCGATTTT
63426 AAGTTCCAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 40 0.77
40 12 0.23
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.50
Consensus pattern (39 bp):
ATTCTCTCGTTGCGATTTTCATTTCACGTTGCGATAGTC
Found at i:63905 original size:42 final size:42
Alignment explanation
Indices: 63826--63941 Score: 99
Period size: 42 Copynumber: 2.8 Consensus size: 42
63816 GACTCGCCTG
* * * *
63826 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAAAGGCCCCTA
* * * * *
63868 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAAAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAAAGGCCCCTA
** * *
63910 TCATCGTTGAAGAGGTCC-CTCCCACCATTCAA
1 TCATCCCTCAAGA-GTCCACTCCCACCGTTCAA
63942 GAGCCCGATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAAAGGCCCCTA
Found at i:65315 original size:14 final size:14
Alignment explanation
Indices: 65296--65331 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
65286 ATTGTTTAAT
65296 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
65310 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
65324 TGATTTGT
1 TGATTTGT
65332 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:65454 original size:19 final size:19
Alignment explanation
Indices: 65438--65484 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
65428 AAAAATGACT
*
65438 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
65457 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
65476 ATCGTAACG
1 ATCGCAACG
65485 ACAAAACCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:65556 original size:33 final size:33
Alignment explanation
Indices: 65513--65606 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
65503 ACTAAATTCG
* * *
65513 CGTTGTGATTTTTATTTCGCTTTACGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTACGATTCCCT
** *
65546 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTACGATTCCCT
* *
65579 CGTTGCAATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTACGAT
65607 AGTCATTTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTACGATTCCCT
Found at i:65625 original size:20 final size:20
Alignment explanation
Indices: 65590--65672 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
65580 GTTGCAATTT
*
65590 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCGTTGCGATAG
65609 TCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
* ** *
65629 ACA-TTAAGATGATTGCGA-ACG
1 TCATTTCCG-CG-TTGCGATA-G
*
65650 TCATTTCCGTGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
65670 TCA
1 TCA
65673 AATGAATGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.18
20 26 0.52
21 12 0.24
22 3 0.06
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATAG
Found at i:68174 original size:24 final size:24
Alignment explanation
Indices: 68140--68193 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
68130 CTGAAAAATC
68140 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
68164 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
68188 ATCAAA
1 ATCAAA
68194 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:68207 original size:24 final size:24
Alignment explanation
Indices: 68140--68207 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
68130 CTGAAAAATC
* * *
68140 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
68164 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
68188 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
68208 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:69120 original size:21 final size:20
Alignment explanation
Indices: 69062--69135 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
69052 TCGTTGCGAT
*
69062 TTAC-TAAATCGCAATGCGA
1 TTACGTAAATCGCAATACGA
69081 TTACGTAAATCG-AAGTACGGA
1 TTACGTAAATCGCAA-TAC-GA
* *
69102 TTAGGAAAATCGCAATACGA
1 TTACGTAAATCGCAATACGA
69122 TTACGTAAATCGCA
1 TTACGTAAATCGCA
69136 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.13
20 23 0.50
21 15 0.33
22 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (20 bp):
TTACGTAAATCGCAATACGA
Found at i:69156 original size:21 final size:21
Alignment explanation
Indices: 69131--69248 Score: 202
Period size: 21 Copynumber: 5.7 Consensus size: 21
69121 ATTACGTAAA
69131 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
69152 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
69173 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
* * *
69194 TCTCATTGCGATTTACGT-AT
1 TCGCATTGCGATTTTCCTAAT
69214 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
69235 TCGCATTGCGATTT
1 TCGCATTGCGATTT
69249 AGGAAAATCG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 17 0.19
21 73 0.81
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:69275 original size:22 final size:21
Alignment explanation
Indices: 69245--69287 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
69235 TCGCATTGCG
69245 ATTTAGGAAAATCGCAACGCGA
1 ATTTAGG-AAATCGCAACGCGA
* *
69267 ATTTGGGAAATCGCAATGCGA
1 ATTTAGGAAATCGCAACGCGA
69288 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (21 bp):
ATTTAGGAAATCGCAACGCGA
Found at i:69287 original size:83 final size:84
Alignment explanation
Indices: 69108--69288 Score: 204
Period size: 83 Copynumber: 2.2 Consensus size: 84
69098 CGGATTAGGA
* * *
69108 AAATCGCAATACGA-TTACGTAAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTAA
1 AAATCGCAATGCGATTTACGTAAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACCAAA
* ** * *
69172 TTCGCATTGCGATTTTCCT
66 ATCGCAACGCGAATTTCCG
* * * * **
69191 AATTCTCATTGCGATTTACGT-ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTAGGAAA
1 AAATCGCAATGCGATTTACGTAAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACCAAA
**
69255 ATCGCAACGCGAATTTGGG
66 ATCGCAACGCGAATTTCCG
69274 AAATCGCAATGCGAT
1 AAATCGCAATGCGAT
69289 AGTCAGAATC
Statistics
Matches: 78, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
83 72 0.92
84 6 0.08
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (84 bp):
AAATCGCAATGCGATTTACGTAAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACCAAA
ATCGCAACGCGAATTTCCG
Done.