Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 20
Found at i:1580365 original size:21 final size:21
Alignment explanation
Indices: 1580320--1580366 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1580310 TATTATATCA
* *
1580320 TATATATATTATTTTACTTAT
1 TATATAAATTATTTTACTTAC
1580341 TATATAAATTATTTTTA-TTAC
1 TATATAAATTA-TTTTACTTAC
1580362 TATAT
1 TATAT
1580367 TTTAAATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATAAATTATTTTACTTAC
Found at i:1584161 original size:20 final size:20
Alignment explanation
Indices: 1584133--1584170 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1584123 AAAAAGACCG
1584133 AGCAAATAGATTAGAAAAAT
1 AGCAAATAGATTAGAAAAAT
*
1584153 AGCAGATAGATTAGAAAA
1 AGCAAATAGATTAGAAAA
1584171 GGAACAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.05, G:0.18, T:0.18
Consensus pattern (20 bp):
AGCAAATAGATTAGAAAAAT
Found at i:1584178 original size:20 final size:20
Alignment explanation
Indices: 1584138--1584178 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1584128 GACCGAGCAA
* *
1584138 ATAGATTAGAAAAATAGCAG
1 ATAGATTAGAAAAAGAACAG
*
1584158 ATAGATTAGAAAAGGAACAG
1 ATAGATTAGAAAAAGAACAG
1584178 A
1 A
1584179 AGAAAGTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.22, T:0.17
Consensus pattern (20 bp):
ATAGATTAGAAAAAGAACAG
Found at i:1591469 original size:20 final size:20
Alignment explanation
Indices: 1591444--1591482 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1591434 ATGTTTTACA
1591444 TATGTTTT-ATATTCATTTAT
1 TATGTTTTCATA-TCATTTAT
1591464 TATGTTTTCATATCATTTA
1 TATGTTTTCATATCATTTA
1591483 CATATCATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (20 bp):
TATGTTTTCATATCATTTAT
Found at i:1592422 original size:20 final size:19
Alignment explanation
Indices: 1592378--1592426 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1592368 CGGTCAAGAG
* *
1592378 CATGTATCTTCATTAAAAT
1 CATGTATTTTCATTAAAAC
1592397 CATGTATTTTCATTAAAACC
1 CATGTATTTTCATTAAAA-C
1592417 CATGTATTTT
1 CATGTATTTT
1592427 TAAAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAC
Found at i:1593174 original size:6 final size:6
Alignment explanation
Indices: 1593163--1593202 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
1593153 TTGCTGCAAC
*
1593163 AAAAAG AAAAAG AAAGAAG AAAAAC AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAA
1593203 GAACTCCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1596641 original size:19 final size:19
Alignment explanation
Indices: 1596617--1596664 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
1596607 CGGTCAAGAG
1596617 CATGTATCTTCATT-AAAAT
1 CATGTAT-TTCATTAAAAAT
1596636 CATGTATTTACATTAAAAAT
1 CATGTATTT-CATTAAAAAT
*
1596656 CGTGTATTT
1 CATGTATTT
1596665 TCAAATGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 11 0.42
20 13 0.50
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (19 bp):
CATGTATTTCATTAAAAAT
Found at i:1600137 original size:3 final size:3
Alignment explanation
Indices: 1600129--1600198 Score: 51
Period size: 3 Copynumber: 23.7 Consensus size: 3
1600119 AGTATATATA
*
1600129 TAT TAT TA- TAG TA- TAT TAT ATAT TA- TAT TAT T-T ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT
*
1600172 T-T TACT TAT TAT ATAT TAT TTT TAT TA
1 TAT TA-T TAT TAT -TAT TAT TAT TAT TA
1600199 ATATGTTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
2 9 0.16
3 37 0.66
4 10 0.18
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1600156 original size:31 final size:34
Alignment explanation
Indices: 1600113--1600190 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
1600103 TGGGACCTTT
*
1600113 TTATATAGTATA-TA-TATATTATTATAGTA-TA
1 TTATATATTATATTATTATATTATTATAGTACTA
**
1600144 TTATATATTATATTATTTATATTATTATTTTACTTA
1 TTATATATTATATTA-TTATATTATTATAGTAC-TA
1600180 TTATATATTAT
1 TTATATATTAT
1600191 TTTTATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
31 11 0.28
32 2 0.05
34 13 0.33
36 13 0.33
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (34 bp):
TTATATATTATATTATTATATTATTATAGTACTA
Found at i:1612942 original size:15 final size:15
Alignment explanation
Indices: 1612922--1612950 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1612912 AATTATCCTT
1612922 TAAAATAATTTTAAG
1 TAAAATAATTTTAAG
1612937 TAAAATAATTTTAA
1 TAAAATAATTTTAA
1612951 CAGATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAAATAATTTTAAG
Found at i:1614593 original size:21 final size:21
Alignment explanation
Indices: 1614540--1614594 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1614530 CGATTATGAC
1614540 TATCGCAATGCGATTTTCCAA
1 TATCGCAATGCGATTTTCCAA
* **
1614561 TTTCGCGTTGCGATTTTCCCAA
1 TATCGCAATGCGATTTT-CCAA
1614583 -ATCGCAATGCGA
1 TATCGCAATGCGA
1614595 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (21 bp):
TATCGCAATGCGATTTTCCAA
Found at i:1614656 original size:20 final size:20
Alignment explanation
Indices: 1614628--1614760 Score: 72
Period size: 20 Copynumber: 6.5 Consensus size: 20
1614618 TGAAAAAATT
*
1614628 GCAATGCGATACTGACTATC
1 GCAACGCGATACTGACTATC
* *
1614648 GCAACGCGATAAT-ACAAAATC
1 GCAACGCGATACTGAC--TATC
* *
1614669 GCAACGCGATAAT-ACAAAATC
1 GCAACGCGATACTGAC--TATC
*
1614690 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTATC
* * * * * *
1614710 ACAACTCGATACTTAATTTT
1 GCAACGCGATACTGACTATC
* * *
1614730 GCAACTCAATACTGACTTTC
1 GCAACGCGATACTGACTATC
*
1614750 GCAACGAGATA
1 GCAACGCGATA
1614761 ATACATAATC
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.02
20 51 0.56
21 36 0.40
22 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (20 bp):
GCAACGCGATACTGACTATC
Found at i:1614671 original size:21 final size:21
Alignment explanation
Indices: 1614645--1614700 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1614635 GATACTGACT
1614645 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
1614666 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
1614687 ATCGCAACGCGATA
1 ATCGCAACGCGATA
1614701 CTGACTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:1615265 original size:20 final size:21
Alignment explanation
Indices: 1615240--1615288 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1615230 TTATTCTCTC
1615240 GTTGCGATAGTCA-AATTTGT
1 GTTGCGATAGTCATAATTTGT
* **
1615260 GTTGCGATTGTCATTTTTTGT
1 GTTGCGATAGTCATAATTTGT
1615281 GTTGCGAT
1 GTTGCGAT
1615289 TTTCATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.16, C:0.10, G:0.27, T:0.47
Consensus pattern (21 bp):
GTTGCGATAGTCATAATTTGT
Found at i:1615281 original size:21 final size:21
Alignment explanation
Indices: 1615255--1615297 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1615245 GATAGTCAAA
1615255 TTTGTGTTGCGATTGTCATTT
1 TTTGTGTTGCGATTGTCATTT
*
1615276 TTTGTGTTGCGATTTTCATTT
1 TTTGTGTTGCGATTGTCATTT
1615297 T
1 T
1615298 CAGAAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.60
Consensus pattern (21 bp):
TTTGTGTTGCGATTGTCATTT
Found at i:1615489 original size:25 final size:24
Alignment explanation
Indices: 1615435--1615489 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1615425 TGTTTATTAT
* *
1615435 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1615459 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1615485 TGTTT
1 TGTTT
1615490 ATTGCTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1617221 original size:20 final size:20
Alignment explanation
Indices: 1617196--1617254 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
1617186 TTTCGTAACA
1617196 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
* * *
1617216 CGAAAATGGCTATAGCAATG
1 CGAAAATGACTATCGCAACG
**
1617236 CG-AAATGAAAATCGCAACG
1 CGAAAATGACTATCGCAACG
1617255 ACAAAATCGC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.15
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:1617252 original size:19 final size:19
Alignment explanation
Indices: 1617230--1617290 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
1617220 AATGGCTATA
1617230 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
1617249 GCAA--CG--A-CAAAATC
1 GCAATGCGAAATGAAAATC
*
1617263 GCAACGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
1617282 GCAATGCGA
1 GCAATGCGA
1617291 TTTGTGTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.53
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:1617323 original size:14 final size:14
Alignment explanation
Indices: 1617304--1617360 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1617294 GTGTTTCGCA
1617304 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
1617318 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
*
1617335 CATTGTGATTTTGTCG
1 --TTGCGATTTTGTCG
1617351 TTGCGATTTT
1 TTGCGATTTT
1617361 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 15 0.44
15 3 0.09
16 4 0.12
17 4 0.12
18 3 0.09
19 5 0.15
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.53
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:1617346 original size:19 final size:19
Alignment explanation
Indices: 1617322--1617376 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
1617312 TTGTCGTTGC
1617322 GATTTTCATTTCGCATTGT
1 GATTTTCATTTCGCATTGT
* *
1617341 GA-TTT--TGTCG--TTGC
1 GATTTTCATTTCGCATTGT
1617355 GATTTTCATTTCGCATTGT
1 GATTTTCATTTCGCATTGT
1617374 GAT
1 GAT
1617377 AGCCATTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
14 5 0.19
15 3 0.11
16 4 0.15
17 4 0.15
18 3 0.11
19 8 0.30
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.51
Consensus pattern (19 bp):
GATTTTCATTTCGCATTGT
Found at i:1617373 original size:33 final size:33
Alignment explanation
Indices: 1617297--1617376 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
1617287 GCGATTTGTG
*
1617297 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGTGATTTTGTCGTTGCGATTTTCA
1617330 TTTCGCATTGTGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGTGATTTTGTCGTTGCGATTTTCA
1617363 TTTCGCATTGTGAT
1 TTTCGCATTGTGAT
1617377 AGCCATTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (33 bp):
TTTCGCATTGTGATTTTGTCGTTGCGATTTTCA
Found at i:1617466 original size:20 final size:20
Alignment explanation
Indices: 1617349--1617475 Score: 132
Period size: 20 Copynumber: 6.4 Consensus size: 20
1617339 GTGATTTTGT
**
1617349 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
1617368 CATTGTGATAGCCA-TTTCTG
1 CGTTGCGATAGTCATTTTC-G
*
1617388 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTTCG
*
1617408 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1617428 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
1617448 CGTTGCGAAAGTAAGTTTCG
1 CGTTGCGATAGTCATTTTCG
*
1617468 TGTTGCGA
1 CGTTGCGA
1617476 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
19 13 0.14
20 74 0.82
21 3 0.03
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1617856 original size:21 final size:21
Alignment explanation
Indices: 1617823--1617883 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
1617813 GACTCACCTG
1617823 TCATCCCTCAAGAGTCCCCT-
1 TCATCCCTCAAGAGTCCCCTA
** *
1617843 TCAATCGTTCAAGAGGCCCCTA
1 TC-ATCCCTCAAGAGTCCCCTA
1617865 TCATCCCTCAAGAGTCCCC
1 TCATCCCTCAAGAGTCCCC
1617884 CCCACCGTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.23, C:0.41, G:0.13, T:0.23
Consensus pattern (21 bp):
TCATCCCTCAAGAGTCCCCTA
Found at i:1617910 original size:41 final size:42
Alignment explanation
Indices: 1617820--1617910 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
1617810 CCCGACTCAC
* * *
1617820 CTGTCATCCCTCAAGAGTCCCCTTCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
1617862 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
1617903 CTGTCATC
1 CTGTCATC
1617911 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 22 0.51
42 21 0.49
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:1617919 original size:41 final size:42
Alignment explanation
Indices: 1617823--1617940 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
1617813 GACTCACCTG
* * * *
1617823 TCATCCCTCAAGA-GTCCCCTTCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGGTCCCC-CCCACCGTTCAAGAGGCCACTA
*
1617865 TCATCCCTCAAGA-GTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGGTCCCCCCCACCGTTCAAGAGGCCACTA
** * * * *
1617906 TCATCGTTGAAGAGGTCCCTCCCACCATTCCAGAG
1 TCATCCCTCAAGAGGTCCCCCCCACCGTTCAAGAG
1617941 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 27 0.42
42 37 0.58
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (42 bp):
TCATCCCTCAAGAGGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:1619613 original size:19 final size:20
Alignment explanation
Indices: 1619559--1619625 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
1619549 CGATTTTCTA
1619559 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
****
1619579 GTTGCGATTTTTA-TTTCGC
1 GTTGCGATAGCCATTTTCGC
*
1619598 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
1619618 GTTGCGAT
1 GTTGCGAT
1619626 TTCCCCGTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:1619864 original size:20 final size:20
Alignment explanation
Indices: 1619848--1619905 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1619838 ATTGCGATTT
*
1619848 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGATAG
1619868 TCAGAATCTCGTTGCGATAG
1 TCAGAATCTCGTTGCGATAG
* * *
1619888 TCAGTATCGCATTGCGAT
1 TCAGAATCTCGTTGCGAT
1619906 TTTCCAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
TCAGAATCTCGTTGCGATAG
Found at i:1619938 original size:20 final size:21
Alignment explanation
Indices: 1619894--1619945 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1619884 ATAGTCAGTA
*
1619894 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
1619915 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
1619935 TCGCATTGCGA
1 TCGCATTGCGA
1619946 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:1620584 original size:24 final size:21
Alignment explanation
Indices: 1620536--1620585 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1620526 TTACATTGTA
1620536 TGTTGTTGAACCTAGAAGTAG
1 TGTTGTTGAACCTAGAAGTAG
*
1620557 TGTTGTTGAACCTAGAAGTAT
1 TGTTGTTGAACCTAGAAGTAG
*
1620578 TATTGTTG
1 TGTTGTTG
1620586 GGTCAGTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (21 bp):
TGTTGTTGAACCTAGAAGTAG
Found at i:1620777 original size:24 final size:24
Alignment explanation
Indices: 1620745--1620791 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1620735 AGTCAGTATT
*
1620745 CGAAATTTGATCTTGGCCAATACC
1 CGAAATTTGATATTGGCCAATACC
* *
1620769 CGAACTTTGATATTGGTCAATAC
1 CGAAATTTGATATTGGCCAATAC
1620792 TCAGATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (24 bp):
CGAAATTTGATATTGGCCAATACC
Found at i:1623358 original size:19 final size:18
Alignment explanation
Indices: 1623336--1623466 Score: 97
Period size: 19 Copynumber: 7.7 Consensus size: 18
1623326 GGAAATTACT
1623336 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
1623355 ATCGCAA-CG--A-GATA
1 ATCGCAAGCGAAATGAAA
1623369 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
1623388 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
1623402 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
1623421 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
1623435 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
1623454 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
1623467 TTTAGTTTCG
Statistics
Matches: 88, Mismatches: 8, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
14 27 0.31
15 5 0.06
16 6 0.07
17 6 0.07
18 5 0.06
19 39 0.44
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:1623373 original size:14 final size:14
Alignment explanation
Indices: 1623351--1623441 Score: 56
Period size: 14 Copynumber: 5.8 Consensus size: 14
1623341 AATGCGAAAT
1623351 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
1623365 GATAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
1623383 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
*
1623398 GAGAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
1623416 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
**
1623431 GGGAATCGCAA
1 GAAAATCGCAA
1623442 AGCGAAATGA
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.33
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:1623378 original size:33 final size:33
Alignment explanation
Indices: 1623336--1623462 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
1623326 GGAAATTACT
*
1623336 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1623369 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1623402 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1623435 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1623463 CGAATTTAGT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1623477 original size:19 final size:19
Alignment explanation
Indices: 1623462--1623557 Score: 114
Period size: 19 Copynumber: 5.3 Consensus size: 19
1623452 AAATCGCAAC
*
1623462 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1623481 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1623500 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
1623519 GCGCTTTT-G-TT---GTT
1 GCGATTTTAGTTTCGCGTT
*
1623533 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
1623552 GCGATT
1 GCGATT
1623558 CTCTCGTTGC
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
18 1 0.01
19 52 0.78
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1623518 original size:38 final size:33
Alignment explanation
Indices: 1623462--1623622 Score: 130
Period size: 33 Copynumber: 4.7 Consensus size: 33
1623452 AAATCGCAAC
*
1623462 GCGAATTTAGTTTCGCGTTGCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTTGCGATTTT-G-TT---GTT
*
1623500 GCGATTTTAGTTTCGCGTTGCGCTTTTGTTGTT
1 GCGATTTTAGTTTCGCGTTGCGATTTTGTTGTT
* * * *
1623533 GCGATTTTCA-TTTCGCATTGCGATTCTCTCGTT
1 GCGATTTT-AGTTTCGCGTTGCGATTTTGTTGTT
* * * *
1623566 GCGATTTTCA-TTTCGCATTGCGATTATATCGTT
1 GCGATTTT-AGTTTCGCGTTGCGATTTTGTTGTT
*
1623599 GCGATTTTCA-TTTCGCATTGCGAT
1 GCGATTTT-AGTTTCGCGTTGCGAT
1623623 AGTAATTTTT
Statistics
Matches: 113, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
33 84 0.74
34 1 0.01
36 2 0.02
37 1 0.01
38 25 0.22
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
GCGATTTTAGTTTCGCGTTGCGATTTTGTTGTT
Found at i:1623539 original size:33 final size:33
Alignment explanation
Indices: 1623496--1623622 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
1623486 TTTAGTTTCG
* *
1623496 CGTTGCGATTTT-AGTTTCGCGTTGCGCTTTTGT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTTTGT
* * *
1623529 TGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
* *
1623562 CGTTGCGATTTTCATTTCGCATTGCGATTATAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1623595 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1623623 AGTAATTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
33 84 0.99
34 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:1623587 original size:66 final size:66
Alignment explanation
Indices: 1623496--1623622 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
1623486 TTTAGTTTCG
* * * * *
1623496 CGTTGCGATTTTAGTTTCGCGTTGCGCTTTTGTTGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 CGTTGCGATTTTAGTTTCGCATTGCGATTATATCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1623561 T
66 T
1623562 CGTTGCGATTTTCA-TTTCGCATTGCGATTATATCGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-AGTTTCGCATTGCGATTATATCGTTGCGATTTTCATTTCGCATTGCGAT
1623623 AGTAATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 54 0.98
67 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (66 bp):
CGTTGCGATTTTAGTTTCGCATTGCGATTATATCGTTGCGATTTTCATTTCGCATTGCGATTCTC
T
Found at i:1623588 original size:19 final size:17
Alignment explanation
Indices: 1623462--1623622 Score: 97
Period size: 19 Copynumber: 9.3 Consensus size: 17
1623452 AAATCGCAAC
*
1623462 GCGAATTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
1623481 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
1623500 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
* *
1623519 GCGCTTTT-GTT-G-TT
1 GCGATTTTATTTCGCTT
1623533 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
* *
1623552 GCGA--TTCTCTCG-TT
1 GCGATTTTATTTCGCTT
1623566 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
*
1623585 GCGA--TTATATCG-TT
1 GCGATTTTATTTCGCTT
1623599 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
1623618 GCGAT
1 GCGAT
1623623 AGTAATTTTT
Statistics
Matches: 116, Mismatches: 11, Indels: 30
0.74 0.07 0.19
Matches are distributed among these distances:
14 21 0.18
16 16 0.14
17 16 0.14
19 63 0.54
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (17 bp):
GCGATTTTATTTCGCTT
Found at i:1623748 original size:14 final size:14
Alignment explanation
Indices: 1623729--1623765 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1623719 CATCAATTAA
1623729 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1623743 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1623757 ACAAATCAA
1 ACAAATCAA
1623766 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1625142 original size:21 final size:21
Alignment explanation
Indices: 1625076--1625142 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1625066 GTGAATCGGG
*
1625076 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1625096 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1625118 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1625139 CTCT
1 CTCT
1625143 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1625588 original size:91 final size:91
Alignment explanation
Indices: 1625416--1625600 Score: 275
Period size: 91 Copynumber: 2.0 Consensus size: 91
1625406 ATTTCAAACT
* *
1625416 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACA--GTTAAAGAATAAACAGTTTAAC
1625481 AGAATTGGCAGCAACCGAATAAATTTAC
64 AGAATTGGCAGCAACCGAATAAATTTAC
* *
1625509 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACA-TT-GATAATAAACAGTTTAAC
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTTAAAGAATAAACAGTTTAAC
*
1625572 AGTATTGGCAGCAACCGAATAAATTTAC
64 AGAATTGGCAGCAACCGAATAAATTTAC
1625600 T
1 T
1625601 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 42 0.49
92 2 0.02
93 19 0.22
95 22 0.26
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTTAAAGAATAAACAGTTTAACAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:1627321 original size:20 final size:19
Alignment explanation
Indices: 1627294--1627448 Score: 108
Period size: 19 Copynumber: 8.8 Consensus size: 19
1627284 CTTTTTGGTT
1627294 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1627313 GATAATGAAAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
1627334 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1627353 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
1627367 GAAAT-AACTATCGCAACGA
1 GAAATGAA-AATCGCAACGA
*
1627386 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
1627400 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1627419 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
1627433 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1627449 TGCGATTTTG
Statistics
Matches: 105, Mismatches: 12, Indels: 38
0.68 0.08 0.25
Matches are distributed among these distances:
14 31 0.30
16 5 0.05
17 5 0.05
19 32 0.30
20 30 0.29
21 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1627362 original size:14 final size:14
Alignment explanation
Indices: 1627343--1627431 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
1627333 GGAAATGACT
1627343 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
* *
1627357 ATCGCAACGCGAAATAA
1 ATCGCAA--CGAGA-GA
1627374 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
1627390 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
1627409 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
1627423 ATCGCAACG
1 ATCGCAACG
1627432 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 26 0.44
15 1 0.02
16 7 0.12
17 7 0.12
18 1 0.02
19 17 0.29
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:1627438 original size:33 final size:33
Alignment explanation
Indices: 1627294--1627448 Score: 204
Period size: 33 Copynumber: 4.5 Consensus size: 33
1627284 CTTTTTGGTT
1627294 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAG---A-G--AATCGCAACGC
**
1627333 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1627367 GAAAT-AACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAA-AATCGCAACGAGAGAATCGCAACGC
1627400 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1627433 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1627449 TGCGATTTTG
Statistics
Matches: 109, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
32 1 0.01
33 75 0.69
34 13 0.12
36 1 0.01
37 1 0.01
40 18 0.17
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1628072 original size:20 final size:20
Alignment explanation
Indices: 1628031--1628265 Score: 129
Period size: 20 Copynumber: 11.6 Consensus size: 20
1628021 GCTATGTAAA
* *
1628031 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
*
1628051 TCACATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
1628071 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* *
1628092 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
*
1628112 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * * * *
1628132 TTGCATTGCGAATTATGAAAA
1 TCGCATTGCGATTTACG-TAT
* * *
1628153 TCGCAATGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGT-AT
* * * *
1628173 TCGCAATGCGAATTAGGAAAAT
1 TCGCATTGCGATTTACG--TAT
*
1628195 T-GCATTGCGATGGT-CAGTAT
1 TCGCATTGCGAT-TTAC-GTAT
* **
1628215 T-GCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
*
1628235 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACGTAT
1628255 TCGCATTGCGA
1 TCGCATTGCGA
1628266 ATTGGGAAAA
Statistics
Matches: 165, Mismatches: 38, Indels: 24
0.73 0.17 0.11
Matches are distributed among these distances:
19 3 0.02
20 108 0.65
21 50 0.30
22 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:1628164 original size:21 final size:21
Alignment explanation
Indices: 1628138--1628204 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
1628128 GTATTTGCAT
*
1628138 TGCGAATTATGAAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
*
1628159 TGCGAA-TACGTAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* * *
1628179 TGCGAATTAGGAAAATTGCAT
1 TGCGAATTACGAAAATCGCAA
1628200 TGCGA
1 TGCGA
1628205 TGGTCAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCGAATTACGAAAATCGCAA
Found at i:1628183 original size:61 final size:60
Alignment explanation
Indices: 1628023--1628183 Score: 157
Period size: 61 Copynumber: 2.6 Consensus size: 60
1628013 CGAATGGTGC
*
1628023 TATGTAAATCGCATTGCG-ATA-GTAAGATTCACATTGCGATTTACGTATTCGCATTGCGAT
1 TATGTAAATCGCATTGCGAATACGTAA-A-TCGCATTGCGATTTACGTATTCGCATTGCGAT
* * * * * * *
1628083 TTTCCTAATTCGCATTGCGATTTAC-TTAATCGCGTTGCGATTTACGTATTTGCATTGCGAAT
1 TAT-GTAAATCGCATTGCGA-ATACGTAAATCGCATTGCGATTTACGTATTCGCATTGCG-AT
* * *
1628145 TATGAAAATCGCAATGCGAATACGTAAATCGCAATGCGA
1 TATGTAAATCGCATTGCGAATACGTAAATCGCATTGCGA
1628184 ATTAGGAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
60 5 0.06
61 64 0.82
62 5 0.06
63 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (60 bp):
TATGTAAATCGCATTGCGAATACGTAAATCGCATTGCGATTTACGTATTCGCATTGCGAT
Found at i:1628280 original size:41 final size:42
Alignment explanation
Indices: 1628028--1628280 Score: 141
Period size: 41 Copynumber: 6.2 Consensus size: 42
1628018 GGTGCTATGT
* * * *
1628028 AAATCGCATTGCGATAGTA-AG-ATTCACATTGCGATTTACG-
1 AAATCGCATTGCGAT-TTACAGTATTCGCATTGCGAATTAGGA
* * * * * **
1628068 TATTCGCATTGCGATTTTC-CTAATTCGCATTGCGATTTA-CT
1 AAATCGCATTGCGATTTACAGT-ATTCGCATTGCGAATTAGGA
* * * *
1628109 TAATCGCGTTGCGATTTAC-GTATTTGCATTGCGAATTATGA
1 AAATCGCATTGCGATTTACAGTATTCGCATTGCGAATTAGGA
* * * *
1628150 AAATCGCAATGCGA-ATAC-GTAAATCGCAATGCGAATTAGGA
1 AAATCGCATTGCGATTTACAGT-ATTCGCATTGCGAATTAGGA
* * * ***
1628191 AAATTGCATTGCGATGGT-CAGTATT-GCATTGCGATTTTCCA
1 AAATCGCATTGCGAT-TTACAGTATTCGCATTGCGAATTAGGA
* * *
1628232 AATTCGCATTGCGATTTAC-TTATTCGCATTGCGAATTGGGA
1 AAATCGCATTGCGATTTACAGTATTCGCATTGCGAATTAGGA
1628273 AAATCGCA
1 AAATCGCA
1628281 ACGCGAAATT
Statistics
Matches: 161, Mismatches: 41, Indels: 21
0.72 0.18 0.09
Matches are distributed among these distances:
39 1 0.01
40 38 0.24
41 116 0.72
42 3 0.02
43 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATCGCATTGCGATTTACAGTATTCGCATTGCGAATTAGGA
Found at i:1628307 original size:21 final size:22
Alignment explanation
Indices: 1628255--1628307 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1628245 ATTTACTTAT
1628255 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
1628276 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
1628297 TCGCATTGCGA
1 TCGCATTGCGA
1628308 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:1629316 original size:13 final size:13
Alignment explanation
Indices: 1629282--1629318 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1629272 GGGCTTGGAG
**
1629282 GCTTGTTGCTCTT
1 GCTTGTTGGGCTT
1629295 GCTTGTTGGGCTT
1 GCTTGTTGGGCTT
1629308 GCTTGTTGGGC
1 GCTTGTTGGGC
1629319 ATTTGGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.35, T:0.46
Consensus pattern (13 bp):
GCTTGTTGGGCTT
Found at i:1631755 original size:23 final size:23
Alignment explanation
Indices: 1631728--1631771 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1631718 ATAAAATTCC
*
1631728 AATCAAATCAATTCAAATTTTCG
1 AATCAAATCAAATCAAATTTTCG
1631751 AATCAAATCAAATCAAATTTT
1 AATCAAATCAAATCAAATTTT
1631772 ATTTACTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (23 bp):
AATCAAATCAAATCAAATTTTCG
Found at i:1637923 original size:21 final size:21
Alignment explanation
Indices: 1637898--1637938 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1637888 ATTTCAGAGA
1637898 AAAAATAATAAAAACAATAAAC
1 AAAAA-AATAAAAACAATAAAC
* *
1637920 AAAAAAATAATAATAATAA
1 AAAAAAATAAAAACAATAA
1637939 CATTAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAAATAAAAACAATAAAC
Found at i:1637978 original size:24 final size:23
Alignment explanation
Indices: 1637897--1637978 Score: 56
Period size: 27 Copynumber: 3.2 Consensus size: 23
1637887 AATTTCAGAG
1637897 AAAAAATAATAAAAACAATAAACAAA
1 AAAAAATAAT-AAAACAA-AAA-AAA
* **
1637923 AAAATAATAATAATAACATTAGAAGAGG
1 AAAA-AATAATAA-AACA--A-AAAAAA
*
1637951 AAAAAATAATAAAACAAAAAAAC
1 AAAAAATAATAAAACAAAAAAAA
1637974 AAAAA
1 AAAAA
1637979 TGGAATAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
23 8 0.18
24 1 0.02
26 10 0.22
27 18 0.40
28 5 0.11
29 3 0.07
ACGTcount: A:0.76, C:0.06, G:0.05, T:0.13
Consensus pattern (23 bp):
AAAAAATAATAAAACAAAAAAAA
Found at i:1639217 original size:18 final size:17
Alignment explanation
Indices: 1639194--1639245 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
1639184 CCTGGACCAC
1639194 AATAAAATAAAATAAATT
1 AATAAAATAAAATAAA-T
*
1639212 AATAAATTAAAATAAAT
1 AATAAAATAAAATAAAT
1639229 AATAATAATAATAATAA
1 AATAA-AATAA-AATAA
1639246 TCAAAAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 6 0.20
18 19 0.63
19 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAATAAAATAAAT
Found at i:1639237 original size:23 final size:23
Alignment explanation
Indices: 1639196--1639239 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1639186 TGGACCACAA
*
1639196 TAAAATAAAATAAATTAATAAAT
1 TAAAATAAAATAAAATAATAAAT
1639219 TAAAAT-AAATAATAATAATAA
1 TAAAATAAAATAA-AATAATAA
1639240 TAATAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAATAAAATAAAATAATAAAT
Found at i:1639387 original size:37 final size:37
Alignment explanation
Indices: 1639267--1639550 Score: 278
Period size: 37 Copynumber: 7.7 Consensus size: 37
1639257 TTAAAACTAT
* ** * *
1639267 ATATATTATATATAATTTT-AAAA-GGTTTTCAAAACT
1 ATATATTATATA-AGTTTTCAAAATTTTTTTAAAAACC
* **
1639303 ATATATTATAT-AGTTTTCAAAA-TGTTTTAAAAATT
1 ATATATTATATAAGTTTTCAAAATTTTTTTAAAAACC
*
1639338 ATATACTATATATA-TTTTCAAAATATTTTTTAAAAAACC
1 ATATATTATATA-AGTTTTCAAAAT-TTTTTT-AAAAACC
*
1639377 ATATATTATATAAGTTTTCAAAATGTTTTTAAAAACC
1 ATATATTATATAAGTTTTCAAAATTTTTTTAAAAACC
* *
1639414 ATATATTATATAAGTTTTCAAAATGTTTTTAAAAACT
1 ATATATTATATAAGTTTTCAAAATTTTTTTAAAAACC
1639451 ATATATTATATAAGTTTTCAAAATGTTTTTTTAAAAACC
1 ATATATTATATAAGTTTTCAAAA--TTTTTTTAAAAACC
* * * *
1639490 ATATATTATATATA-TCTTCAAAA-TGTTTTCAAAACT
1 ATATATTATATA-AGTTTTCAAAATTTTTTTAAAAACC
* *
1639526 ATATAATATATATA-TTTCCAAAATT
1 ATATATTATATA-AGTTTTCAAAATT
1639551 ATTTGCAAAC
Statistics
Matches: 217, Mismatches: 20, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
34 5 0.02
35 24 0.11
36 50 0.23
37 68 0.31
38 11 0.05
39 58 0.27
40 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTATATAAGTTTTCAAAATTTTTTTAAAAACC
Found at i:1639418 original size:76 final size:74
Alignment explanation
Indices: 1639267--1639537 Score: 338
Period size: 76 Copynumber: 3.7 Consensus size: 74
1639257 TTAAAACTAT
** *
1639267 ATATATTATATATAATTTT-AAAA-GGTTTTCAAAACTATATATTATAT-AGTTTTCAAAATG-T
1 ATATATTATATAT-ATTTTCAAAATTTTTTTAAAAACTATATATTATATAAGTTTTCAAAATGTT
**
1639328 TTTAAAAATT
65 TTTAAAAACC
* *
1639338 ATATACTATATATATTTTCAAAATATTTTTTAAAAAACCATATATTATATAAGTTTTCAAAATGT
1 ATATATTATATATATTTTCAAAAT-TTTTTT-AAAAACTATATATTATATAAGTTTTCAAAATGT
1639403 TTTTAAAAACC
64 TTTTAAAAACC
*
1639414 ATATATTATATA-AGTTTTCAAAATGTTTTTAAAAACTATATATTATATAAGTTTTCAAAATGTT
1 ATATATTATATATA-TTTTCAAAATTTTTTTAAAAACTATATATTATATAAGTTTTCAAAATG--
1639478 TTTTTAAAAACC
63 TTTTTAAAAACC
* * * *
1639490 ATATATTATATATATCTTCAAAA-TGTTTTCAAAACTATATAATATATA
1 ATATATTATATATATTTTCAAAATTTTTTTAAAAACTATATATTATATA
1639538 TATTTCCAAA
Statistics
Matches: 175, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
70 5 0.03
71 16 0.09
73 4 0.02
74 47 0.27
75 40 0.23
76 62 0.35
77 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (74 bp):
ATATATTATATATATTTTCAAAATTTTTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTT
TTAAAAACC
Found at i:1639572 original size:2 final size:2
Alignment explanation
Indices: 1639561--1639591 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1639551 ATTTGCAAAC
1639561 TA TA -A 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
1639592 AAATAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1639576 original size:76 final size:73
Alignment explanation
Indices: 1639246--1639580 Score: 269
Period size: 74 Copynumber: 4.5 Consensus size: 73
1639236 ATAATAATAA
* * * * * *
1639246 TCAAAAAGATTTTAAAACTATATATAT-TATATATAATTTTAAAAGGTTTTCAAAACTATATATT
1 TCAAAATG-TTTTTAAACTATATATATATATATAT-ATTTCAAAATGTTTTAAAAACTATATAAT
1639310 ATAT-AGTTT
64 ATATAAGTTT
* * * *
1639319 TCAAAATGTTTTAAAAAT-TATATACTATATATAT-TTTCAAAATATTTTTTAAAAAACCATATA
1 TCAAAATGTTTTTAAACTATATATA-TATATATATATTTC-AAA-ATGTTTT-AAAAACTATATA
*
1639382 TTATATAAGTTT
62 ATATATAAGTTT
*
1639394 TCAAAATGTTTTTAAAAACCATATAT-TATATA-AGT-TTTCAAAATGTTTTTAAAAACTATATA
1 TCAAAATGTTTTT--AAACTATATATATATATATA-TATTTCAAAATG-TTTTAAAAACTATATA
*
1639456 TTATATAAGTTT
62 ATATATAAGTTT
* * *
1639468 TCAAAATGTTTTTTTAAAAACCATATAT-TATATATAT-CTTCAAAATGTTTTCAAAACTATATA
1 TCAAAATG--TTTTT--AAACTATATATATATATATATATTTCAAAATGTTTTAAAAACTATATA
1639531 ATATATATA-TTT
62 ATATATA-AGTTT
* *
1639543 CCAAAAT-TATTTGCAAACTATAATATATATATATATAT
1 TCAAAATGT-TTT-TAAACTAT-ATATATATATATATAT
1639581 ATATATATAT
Statistics
Matches: 223, Mismatches: 19, Indels: 38
0.80 0.07 0.14
Matches are distributed among these distances:
71 9 0.04
72 20 0.09
73 26 0.12
74 58 0.26
75 55 0.25
76 46 0.21
77 4 0.02
78 5 0.02
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (73 bp):
TCAAAATGTTTTTAAACTATATATATATATATATATTTCAAAATGTTTTAAAAACTATATAATAT
ATAAGTTT
Found at i:1640582 original size:85 final size:85
Alignment explanation
Indices: 1640350--1640758 Score: 444
Period size: 85 Copynumber: 4.8 Consensus size: 85
1640340 ATGTGTCATC
* * * * ** * * * *
1640350 GAGCTGAATGGAATCGAAATCGATA-GTTTTTGTTGACAAATAACTTTTCTTGACTTAAGCTATG
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
* *
1640414 CTGTAAATTTGACATGCCCTT
65 CTGTAAATTTGATATGTCCTT
* * * * * * *
1640435 GAGCTGAAATGGAATCGAACTCGAAAGTATTTATTTACAGATAACCCTTCTTGCCTTAAGTTATG
1 GAGCTG-AATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
1640500 CTGTAAATTTGATATGTCCTT
65 CTGTAAATTTGATATGTCCTT
* * *
1640521 GAGCTGAATTTAATCGAACTCGAAGGCCTTTGTTGACAGATAACACTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
*
1640586 TATAAATTTGATATG-CCTTT
66 TGTAAATTTGATATGTCC-TT
** * * *
1640606 GAGCTGAATGTAATCGAACTCGAAGGTCTTTACTAACAGATAACTCTTCTCGCCTTGAGTTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
*
1640671 TGTAAATTTGGTATGTCCTT
66 TGTAAATTTGATATGTCCTT
* * * * * * *
1640691 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTTGATGGCATATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGG-TCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
1640756 CTG
65 CTG
1640759 CTAATAATTC
Statistics
Matches: 277, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
84 2 0.01
85 170 0.61
86 105 0.38
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
TGTAAATTTGATATGTCCTT
Found at i:1640688 original size:170 final size:172
Alignment explanation
Indices: 1640350--1640757 Score: 491
Period size: 171 Copynumber: 2.4 Consensus size: 172
1640340 ATGTGTCATC
* * * ** * * *
1640350 GAGCTGAATGGAATCGAAATCGATA-GT-TTTTGTTGACAAATAACTTTTCTTGACTTAAGCTAT
1 GAGCTGAATGTAATCGAACTCGA-AGGTCCTTTGTTGACAAATAACACTTCTCGCCTTGAGCTAT
* * *
1640413 GCTGTAAATTTGACATGCCCTTGAGCTGAAATGGAATCGAACTCGAAAGTATTTATTTACAGATA
65 GCTATAAATTTGACATGCCCTTGAGCTGAAATGGAATCGAACTCGAAAGTATTTACTAACAGATA
*
1640478 ACCCTTCTTGCCTTAAGTTATGCTGTAAATTTGATATGTCCTT
130 ACCCTTCTCGCCTTAAGTTATGCTGTAAATTTGATATGTCCTT
* * *
1640521 GAGCTGAATTTAATCGAACTCGAAGG-CCTTTGTTGACAGATAACACTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCCTTTGTTGACAAATAACACTTCTCGCCTTGAGCTATG
* * * * *
1640585 CTATAAATTTGATATGCCTTTGAGCTG-AATGTAATCGAACTCGAAGGTCTTTACTAACAGATAA
66 CTATAAATTTGACATGCCCTTGAGCTGAAATGGAATCGAACTCGAAAGTATTTACTAACAGATAA
* * * *
1640649 CTCTTCTCGCCTTGAGTTATGTTGTAAATTTGGTATGTCCTT
131 CCCTTCTCGCCTTAAGTTATGCTGTAAATTTGATATGTCCTT
* ** * * * * *
1640691 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTTGATGGCATATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCCTTTGTTGACAAATAACACTTCTCGCCTTGAGCTATG
1640756 CT
66 CT
1640758 GCTAATAATT
Statistics
Matches: 200, Mismatches: 34, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
170 94 0.47
171 106 0.53
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (172 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCCTTTGTTGACAAATAACACTTCTCGCCTTGAGCTATG
CTATAAATTTGACATGCCCTTGAGCTGAAATGGAATCGAACTCGAAAGTATTTACTAACAGATAA
CCCTTCTCGCCTTAAGTTATGCTGTAAATTTGATATGTCCTT
Found at i:1647466 original size:21 final size:21
Alignment explanation
Indices: 1647442--1647495 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1647432 TCTGGATAAT
1647442 AGTATCGGTACTGGTTGAGTA
1 AGTATCGGTACTGGTTGAGTA
1647463 AGTATCGGTACTGGTTGAGTA
1 AGTATCGGTACTGGTTGAGTA
*
1647484 AGTATCGATACT
1 AGTATCGGTACT
1647496 ACAAGGCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (21 bp):
AGTATCGGTACTGGTTGAGTA
Found at i:1661313 original size:18 final size:18
Alignment explanation
Indices: 1661286--1661320 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1661276 CCCCTTTCTT
*
1661286 AGTATTGATACTCCCATG
1 AGTATCGATACTCCCATG
1661304 AGTATCGATACTCCCAT
1 AGTATCGATACTCCCAT
1661321 TATTATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (18 bp):
AGTATCGATACTCCCATG
Found at i:1661406 original size:18 final size:20
Alignment explanation
Indices: 1661363--1661414 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
1661353 GAAAAATACA
1661363 TCAGTATCAATACTTCACCT
1 TCAGTATCAATACTTCACCT
*
1661383 TCAGTATCGATAC-TC-CCT
1 TCAGTATCAATACTTCACCT
* *
1661401 TTAGTACCAATACT
1 TCAGTATCAATACT
1661415 AAAATTGGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (20 bp):
TCAGTATCAATACTTCACCT
Found at i:1665664 original size:24 final size:25
Alignment explanation
Indices: 1665612--1665664 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
1665602 TTTAAGGATT
* **
1665612 GTGATGTTAATGTTGGATTTGGTTA
1 GTGATGTTAATGTTGGAGTTGGGCA
1665637 -TGATGTTAATGTTGG-GTTGGGCA
1 GTGATGTTAATGTTGGAGTTGGGCA
1665660 GTGAT
1 GTGAT
1665665 CAAATGAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.43
Consensus pattern (25 bp):
GTGATGTTAATGTTGGAGTTGGGCA
Found at i:1667667 original size:18 final size:18
Alignment explanation
Indices: 1667641--1667676 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1667631 ATAATTTTTT
* *
1667641 AAATTTTATTTAAAAATA
1 AAATATTATTGAAAAATA
1667659 AAATATTATTGAAAAATA
1 AAATATTATTGAAAAATA
1667677 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAATATTATTGAAAAATA
Found at i:1668701 original size:90 final size:89
Alignment explanation
Indices: 1668542--1668718 Score: 291
Period size: 90 Copynumber: 2.0 Consensus size: 89
1668532 CCTAACACAC
* *
1668542 CCTTTTATAACGAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCAATA
1 CCTTTTATAACCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAACCAATA
* *
1668607 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
* *
1668631 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAACCTAT
1 CCTTTTATAACCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAACCAAT
1668696 ATTTAATTAATTGAAATTAAATA
65 ATTTAATTAATTGAAATTAAATA
1668719 TTCGGGATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 33 0.41
90 48 0.59
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
CCTTTTATAACCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAACCAATA
TTTAATTAATTGAAATTAAATAAT
Found at i:1669014 original size:18 final size:18
Alignment explanation
Indices: 1668991--1669039 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
1668981 CCTTTATATC
1668991 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
1669009 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
* *
1669027 TGGAATAGTCACA
1 TAGAATAGGCACA
1669040 CTTGTATAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (18 bp):
TAGAATAGGCACAAGTCT
Found at i:1669588 original size:243 final size:243
Alignment explanation
Indices: 1669132--1669618 Score: 859
Period size: 243 Copynumber: 2.0 Consensus size: 243
1669122 TTCGAGCATG
*
1669132 GCCATGCGTTTCTAGTCTTACTCAATCAAGTGGCCTATGATATATTTCCTATTATGTAGGAAGGA
1 GCCATGCGTTTCTAGTCTTACTCAATCAAGTGACCTATGATATATTTCCTATTATGTAGGAAGGA
*
1669197 CAAATCCTATCTTAATCATACACACCCACTACATATATTGAAATATATTAATAACAGTCTTTATA
66 CAAATCCTATCTTAATCATACACACCCACTACATATATTGAAATATATTAATAACAATCTTTATA
* *
1669262 GAGCAACTAGTTACAGAGCTTGTTTAGTTGCATCAAAACATACAACAATATATGTTGGGATAGTA
131 GAGCAACCAGTTACAGAGCTTGTTTAGCTGCATCAAAACATACAACAATATATGTTGGGATAGTA
*
1669327 TTGATCTCAAGTCTGAGGATTATACATATAGTCACCACCATGAGCAAT
196 TTGATCTCAAGTCTGAGGATCATACATATAGTCACCACCATGAGCAAT
*
1669375 GCCATGCGTTTCTAGTCTTACTCAATCAAGTGACCTATGATATATTTCCTATTATGTATGAAGGA
1 GCCATGCGTTTCTAGTCTTACTCAATCAAGTGACCTATGATATATTTCCTATTATGTAGGAAGGA
* *
1669440 CAAATCCTATCTTAATCATACACACCCACTATATATATTGAGATATATTCAATAACAATCTTTAT
66 CAAATCCTATCTTAATCATACACACCCACTACATATATTGAAATATATT-AATAACAATCTTTAT
* *
1669505 AGAGCAACCAGTTACGGAGCTTGTTTAGCTGCATTAAAACATACAACAATATATGTTGGGATAGT
130 AGAGCAACCAGTTACAGAGCTTGTTTAGCTGCATCAAAACATACAACAATATATGTTGGGATAGT
*
1669570 ATTGATCTCAAG-CTGAGGATCATACATATAGTCATCACCATGAGCAAT
195 ATTGATCTCAAGTCTGAGGATCATACATATAGTCACCACCATGAGCAAT
1669618 G
1 G
1669619 TTATGACTCT
Statistics
Matches: 232, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
243 145 0.62
244 87 0.38
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (243 bp):
GCCATGCGTTTCTAGTCTTACTCAATCAAGTGACCTATGATATATTTCCTATTATGTAGGAAGGA
CAAATCCTATCTTAATCATACACACCCACTACATATATTGAAATATATTAATAACAATCTTTATA
GAGCAACCAGTTACAGAGCTTGTTTAGCTGCATCAAAACATACAACAATATATGTTGGGATAGTA
TTGATCTCAAGTCTGAGGATCATACATATAGTCACCACCATGAGCAAT
Found at i:1677580 original size:26 final size:27
Alignment explanation
Indices: 1677551--1677601 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1677541 TCTGTTAGAC
*
1677551 TGTTAAAG-AACATGCACGTGTATTGT
1 TGTTAAAGAAACATGCACATGTATTGT
*
1677577 TGTTAAAGAAATATGCACATGTATT
1 TGTTAAAGAAACATGCACATGTATT
1677602 AAGCAGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (27 bp):
TGTTAAAGAAACATGCACATGTATTGT
Found at i:1679246 original size:36 final size:36
Alignment explanation
Indices: 1679199--1679407 Score: 296
Period size: 36 Copynumber: 5.8 Consensus size: 36
1679189 TAAGAAGAAT
*
1679199 GAAAGGAAGCATCAGCACTTTCGATTCAAAGTGAAC
1 GAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAAC
*
1679235 GAAAGGAAGCATCGGCACTTTCGATTC-AAGAAGAAC
1 GAAAGGAAGCATCGGCACTTTCGATTCAAAG-TGAAC
*
1679271 GAAATGAAGCATCGGCACTTTCGATTCAAAGTGAAC
1 GAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAAC
* * *
1679307 GGAAGGAAGCATCCGCACTTTCGATTC-AAGAAGAAC
1 GAAAGGAAGCATCGGCACTTTCGATTCAAAG-TGAAC
* *
1679343 GAAAGGAAGCATCGGCAATTTCGATTCAGAGTGAAC
1 GAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAAC
* *
1679379 GGAAGGAAGCATCCGCACTTTCGATTCAA
1 GAAAGGAAGCATCGGCACTTTCGATTCAA
1679408 TTGTTCATCT
Statistics
Matches: 152, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
35 6 0.04
36 141 0.93
37 5 0.03
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (36 bp):
GAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAAC
Found at i:1679307 original size:72 final size:72
Alignment explanation
Indices: 1679190--1679407 Score: 373
Period size: 72 Copynumber: 3.0 Consensus size: 72
1679180 GAAGGTGAAT
* * * *
1679190 AAGAAGAATGAAAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGAAAGGAAGCATCGGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1679255 TCGATTC
66 TCGATTC
*
1679262 AAGAAGAACGAAATGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1679327 TCGATTC
66 TCGATTC
* *
1679334 AAGAAGAACGAAAGGAAGCATCGGCAATTTCGATTCAGAGTGAACGGAAGGAAGCATCCGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1679399 TCGATTC
66 TCGATTC
1679406 AA
1 AA
1679408 TTGTTCATCT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
TCGATTC
Found at i:1679486 original size:26 final size:27
Alignment explanation
Indices: 1679457--1679508 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1679447 GAATGTTAGA
*
1679457 CTGTTAAAG-AACATGCACGTGTATTG
1 CTGTTAAAGAAACATGCACATGTATTG
*
1679483 CTGTTAAAGAAATATGCACATGTATT
1 CTGTTAAAGAAACATGCACATGTATT
1679509 AAGCAGTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (27 bp):
CTGTTAAAGAAACATGCACATGTATTG
Found at i:1684139 original size:21 final size:21
Alignment explanation
Indices: 1684113--1684174 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
1684103 GGTTCTACAC
*
1684113 GGTCCTTCGGGATATATATGT
1 GGTCCTTCGGGACATATATGT
*
1684134 GGTCCTTCAGGACATATATGT
1 GGTCCTTCGGGACATATATGT
*
1684155 GGTCCTTCGAGACATTATAT
1 GGTCCTTCGGGACA-TATAT
1684175 ATGGCACTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 31 0.86
22 5 0.14
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (21 bp):
GGTCCTTCGGGACATATATGT
Found at i:1693989 original size:11 final size:11
Alignment explanation
Indices: 1693973--1694001 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1693963 TCTAATGTTT
1693973 ATACTTAAAAC
1 ATACTTAAAAC
1693984 ATACTT-AAAC
1 ATACTTAAAAC
1693994 ATACTTAA
1 ATACTTAA
1694002 TTTATAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (11 bp):
ATACTTAAAAC
Found at i:1695131 original size:12 final size:12
Alignment explanation
Indices: 1695116--1695146 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1695106 ACTCAAGCTT
1695116 GAAATATGGAAA
1 GAAATATGGAAA
1695128 GAAATATGGAAA
1 GAAATATGGAAA
1695140 GAAATAT
1 GAAATAT
1695147 TCTTACATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (12 bp):
GAAATATGGAAA
Found at i:1700725 original size:101 final size:102
Alignment explanation
Indices: 1700581--1700792 Score: 282
Period size: 102 Copynumber: 2.1 Consensus size: 102
1700571 CAGTCGCGAT
*
1700581 AAATCTTTGTAAAACATATCTACTCCACTCTTGCTTCAAGGAGATAAAATCCAA-GGAAGACGAA
1 AAATCTTTGTAAAACAGATCTACTCCACTCTTGCTTCAAGGAGATAAAATCCAAGGGAAGACGAA
* * *
1700645 TGTGCTCCACTCTTGTTTTATGGAGATAAGACTCGAG
66 TCTGCTCCACTCTTGTTTCAGGGAGATAAGACTCGAG
* * * * * * * * *
1700682 GAATCTTTTTAAAATAGATCTGCTCTACTCTTGTTTCAGGGAGATAAGATGCAAGGGAAGACGAA
1 AAATCTTTGTAAAACAGATCTACTCCACTCTTGCTTCAAGGAGATAAAATCCAAGGGAAGACGAA
* *
1700747 TCTGCTCTACTCTTGTTTCAGGGAGATAAGAGTCGAG
66 TCTGCTCCACTCTTGTTTCAGGGAGATAAGACTCGAG
1700784 AAATCTTTG
1 AAATCTTTG
1700793 GATATCCCTC
Statistics
Matches: 93, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
101 44 0.47
102 49 0.53
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (102 bp):
AAATCTTTGTAAAACAGATCTACTCCACTCTTGCTTCAAGGAGATAAAATCCAAGGGAAGACGAA
TCTGCTCCACTCTTGTTTCAGGGAGATAAGACTCGAG
Found at i:1701062 original size:137 final size:136
Alignment explanation
Indices: 1700805--1701508 Score: 879
Period size: 137 Copynumber: 5.1 Consensus size: 136
1700795 TATCCCTCTT
* * **
1700805 TTTAGGGATCATGGAGATAACATGGTTCCTACGCAATGAGGAAGTCTGGCTATCTAAGGATGTTG
1 TTTAGGGATAATGGAGATAACATGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACG
* * * * * **
1700870 TGGCTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATTTTTCCTTCCTGATGAGGACATCT
66 CGACTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
1700935 GACCATC
131 G-CCATC
* * * * * *
1700942 TTTAAGGATAATGGAGAGAATATGGTTCATACGCGATGAGGAATTATGGCTATCTAAGGATGACG
1 TTTAGGGATAATGGAGATAACATGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACG
* * * * * * *
1701007 TGGCTCCTACATGATGAGGAGATCTAGTCGATGGATGACATTGTTCCTTCGTGATGAGAACGTCT
66 CGACTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
1701072 GCCATC
131 GCCATC
* * ** * * * * *
1701078 TTTAGTGATAATGAAGATAACACAGTTTCTACGCGATAAGGAAGTCTGACTATCTAAGTATGACA
1 TTTAGGGATAATGGAGATAACATGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACG
* *
1701143 CGACTCCTATGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGAATGTCT
66 CGACTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
*
1701208 AGTCATC
131 -GCCATC
* * * *
1701215 TTTAGGGATAATGGAGATAACATGGTTCCTACACGATGAGGAATTATGGCTATCTAAGGATGACA
1 TTTAGGGATAATGGAGATAACATGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACG
* * *
1701280 CGACTCCTACGTGATGAGGAGATCTGGTCGATGGATGGCATTGTTCCTTCATGATGAGGATGTCT
66 CGACTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
*
1701345 GGCCATA
131 -GCCATC
* * **
1701352 TTTAGGGATAATGAAGATAACATGGTTCCTACGTGATGAGGAAGTCTAACTATCTAAGGATGACG
1 TTTAGGGATAATGGAGATAACATGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACG
* * * *
1701417 CAACTTCTACATGATGAGGAGATCTGGTTGGTGGATGAC-TATGTTCCTTCGTGATGAGGATGTC
66 CGACTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACAT-TGTTCCTTCGTGATGAGGATGTC
1701481 TTGCCATC
130 -TGCCATC
*
1701489 TTTAGGGATAATTGAGATAA
1 TTTAGGGATAATGGAGATAA
1701509 GGATCTGCTC
Statistics
Matches: 486, Mismatches: 78, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
136 114 0.23
137 371 0.76
138 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (136 bp):
TTTAGGGATAATGGAGATAACATGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACG
CGACTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
GCCATC
Found at i:1701312 original size:273 final size:273
Alignment explanation
Indices: 1700805--1701508 Score: 962
Period size: 273 Copynumber: 2.6 Consensus size: 273
1700795 TATCCCTCTT
* * * * **
1700805 TTTAGGGATCATGGAGATAACATGGTTCCTACGCAATGAGGAAGTCTGGCTATCTAAGGATGTTG
1 TTTAGGGATAATGAAGATAACATGGTTCCTACGCGATGAGGAAGTCTGACTATCTAAGGATGACG
* * * * **
1700870 TGGCTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATTTTTCCTTCCTGATGAGGACATCT
66 CGACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
* * * *
1700935 GACCATCTTTAAGGATAATGGAGAGAATATGGTTCATACGCGATGAGGAATTATGGCTATCTAAG
131 G-CCATCTTTAGGGATAATGGAGATAACATGGTTCATACACGATGAGGAATTATGGCTATCTAAG
** * *
1701000 GATGACGTGGCTCCTACATGATGAGGAGATCTAGTCGATGGATGACATTGTTCCTTCGTGATGAG
195 GATGACACGACTCCTACATGATGAGGAGATCTAGTCGATGGATGACATTGTTCCTTCATGATGAG
*
1701065 AACGTCT-GCCATC
260 AACGTCTGGCCATA
* ** * * * *
1701078 TTTAGTGATAATGAAGATAACACAGTTTCTACGCGATAAGGAAGTCTGACTATCTAAGTATGACA
1 TTTAGGGATAATGAAGATAACATGGTTCCTACGCGATGAGGAAGTCTGACTATCTAAGGATGACG
* * *
1701143 CGACTCCTATGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGAATGTCT
66 CGACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
* *
1701208 AGTCATCTTTAGGGATAATGGAGATAACATGGTTCCTACACGATGAGGAATTATGGCTATCTAAG
131 -GCCATCTTTAGGGATAATGGAGATAACATGGTTCATACACGATGAGGAATTATGGCTATCTAAG
* * *
1701273 GATGACACGACTCCTACGTGATGAGGAGATCTGGTCGATGGATGGCATTGTTCCTTCATGATGAG
195 GATGACACGACTCCTACATGATGAGGAGATCTAGTCGATGGATGACATTGTTCCTTCATGATGAG
* *
1701338 GATGTCTGGCCATA
260 AACGTCTGGCCATA
* *
1701352 TTTAGGGATAATGAAGATAACATGGTTCCTACGTGATGAGGAAGTCTAACTATCTAAGGATGACG
1 TTTAGGGATAATGAAGATAACATGGTTCCTACGCGATGAGGAAGTCTGACTATCTAAGGATGACG
* * *
1701417 CAACTTCTACATGATGAGGAGATCTGGTTGGTGGATGAC-TATGTTCCTTCGTGATGAGGATGTC
66 CGACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACAT-TGTTCCTTCGTGATGAGGATGTC
*
1701481 TTGCCATCTTTAGGGATAATTGAGATAA
130 -TGCCATCTTTAGGGATAATGGAGATAA
1701509 GGATCTGCTC
Statistics
Matches: 372, Mismatches: 55, Indels: 7
0.86 0.13 0.02
Matches are distributed among these distances:
273 229 0.62
274 142 0.38
275 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (273 bp):
TTTAGGGATAATGAAGATAACATGGTTCCTACGCGATGAGGAAGTCTGACTATCTAAGGATGACG
CGACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATTGTTCCTTCGTGATGAGGATGTCT
GCCATCTTTAGGGATAATGGAGATAACATGGTTCATACACGATGAGGAATTATGGCTATCTAAGG
ATGACACGACTCCTACATGATGAGGAGATCTAGTCGATGGATGACATTGTTCCTTCATGATGAGA
ACGTCTGGCCATA
Found at i:1701857 original size:62 final size:62
Alignment explanation
Indices: 1701755--1702036 Score: 322
Period size: 62 Copynumber: 4.6 Consensus size: 62
1701745 ATAAAATTAG
* * *
1701755 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACT-GTGAAATCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTAG-GGAGTCAAGAATAAT
* * ** *
1701817 AAA-AGTTGACTTCTCTTCATGAGGAAGTCAAGTATTGACTCTACTAGGGAGTC-AG--GGAC
1 AAAGA-TTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTAGGGAGTCAAGAATAAT
* * * *
1701876 AAAGATTGACTTTTCTTTACGAGGAAGTCAAGGATTAACTCTACTAGGGAGTCAGGAATAAT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTAGGGAGTCAAGAATAAT
* * * ** * * *
1701938 ATAGATTGAATTCTTTTCACGAGGAAGTCAAATATTGACTCTACTGGGGAGTCAGGGATAAT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTAGGGAGTCAAGAATAAT
*
1702000 AAAGATTGACTTCTCTTCACGAGGAAGTCAAAGATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTG
1702037 CAAAGATTAA
Statistics
Matches: 185, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
59 48 0.26
60 2 0.01
61 3 0.02
62 131 0.71
63 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (62 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTAGGGAGTCAAGAATAAT
Found at i:1701962 original size:121 final size:122
Alignment explanation
Indices: 1701755--1702035 Score: 370
Period size: 121 Copynumber: 2.3 Consensus size: 122
1701745 ATAAAATTAG
*
1701755 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGTGAAATCAAGAATAACAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCTACTGTGAAATCAAGAATAACAAA
* * *
1701820 AGTTGACTTCTCTTCATGAGGAAGTCAAGTATTGACTCTACTAGGGAGTCAGGG-AC
66 AGTTGAATTCTCTTCACGAGGAAGTCAAATATTGACTCTACTAGGGAGTCAGGGAAC
* * * * * *
1701876 AAAGATTGACTTTTCTTTACGAGGAAGTCAAGGATTAACTCTACTAG-GGAGTCAGGAATAA-TA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCTACT-GTGAAATCAAGAATAACAA
* * * *
1701939 TAGATTGAATTCTTTTCACGAGGAAGTCAAATATTGACTCTACTGGGGAGTCAGGGATAAT
65 AAG-TTGAATTCTCTTCACGAGGAAGTCAAATATTGACTCTACTAGGGAGTCAGGG--AAC
*
1702000 AAAGATTGACTTCTCTTCACGAGGAAGTCAAAGATT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATT
1702036 GCAAAGATTA
Statistics
Matches: 138, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
120 3 0.02
121 100 0.72
122 1 0.01
124 34 0.25
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (122 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTAACTCTACTGTGAAATCAAGAATAACAAA
AGTTGAATTCTCTTCACGAGGAAGTCAAATATTGACTCTACTAGGGAGTCAGGGAAC
Found at i:1703129 original size:40 final size:40
Alignment explanation
Indices: 1703038--1703145 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 40
1703028 TTCTGTAAGA
*
1703038 TGATATGAGACTTCAAAATGCCCCAACA-TTATTTCATAC
1 TGATATGAGCCTTCAAAATGCCCCAACATTTATTTCATAC
* * * * **
1703077 TGGTATGGGCCTTCAAAATGCTCCAACATTTATTTCTTGT
1 TGATATGAGCCTTCAAAATGCCCCAACATTTATTTCATAC
1703117 TGATATGAGCCTT-AAAATGCCCCAACATT
1 TGATATGAGCCTTCAAAATGCCCCAACATT
1703146 CCAAGTTGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 39 0.67
40 19 0.33
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (40 bp):
TGATATGAGCCTTCAAAATGCCCCAACATTTATTTCATAC
Found at i:1706004 original size:21 final size:21
Alignment explanation
Indices: 1705978--1706018 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1705968 TCTGTTATAG
1705978 CTATTTTAGTTATTTAAGTTT
1 CTATTTTAGTTATTTAAGTTT
* *
1705999 CTATTTTATTTATTTTAGTT
1 CTATTTTAGTTATTTAAGTT
1706019 CTTTAACTTT
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:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (21 bp):
CTATTTTAGTTATTTAAGTTT
Found at i:1706034 original size:30 final size:30
Alignment explanation
Indices: 1705952--1706037 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
1705942 GAAATTACTA
* * * *
1705952 TTTAGTCCATTAACTTTCTGTTATAGCTAT
1 TTTAGTTCTTTAACTTTCTATTTTAGCTAT
* * **
1705982 TTTAGTTATTTAAGTTTCTATTTTATTTAT
1 TTTAGTTCTTTAACTTTCTATTTTAGCTAT
1706012 TTTAGTTCTTTAACTTTCTATTTTAG
1 TTTAGTTCTTTAACTTTCTATTTTAG
1706038 TTTTTGCTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (30 bp):
TTTAGTTCTTTAACTTTCTATTTTAGCTAT
Found at i:1706099 original size:21 final size:21
Alignment explanation
Indices: 1706009--1706100 Score: 62
Period size: 21 Copynumber: 4.3 Consensus size: 21
1705999 CTATTTTATT
*
1706009 TATTTTAGTTCTTTAACTTTC
1 TATTTTAGTTCTTTAAATTTC
***
1706030 TATTTTAGTT-TTTGCTGTTTAAC
1 TATTTTAGTTCTTT-AAATTT--C
** *
1706053 CCTTTTAGTTTCTTTTAA-TTC
1 TATTTTAG-TTCTTTAAATTTC
*
1706074 CATTTTAGTTCTTTAAATTTC
1 TATTTTAGTTCTTTAAATTTC
1706095 TATTTT
1 TATTTT
1706101 TGCTATTTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
20 11 0.20
21 29 0.54
23 9 0.17
24 2 0.04
25 3 0.06
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (21 bp):
TATTTTAGTTCTTTAAATTTC
Found at i:1710021 original size:2 final size:2
Alignment explanation
Indices: 1710014--1710078 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
1710004 AGAAATGGTA
1710014 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1710056 TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
1710079 ATACAGTAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:1711034 original size:27 final size:27
Alignment explanation
Indices: 1711004--1711066 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
1710994 CCTGGTGGAA
* *
1711004 AATGAAGATAAACTGAATCAGGGATAG
1 AATGAAGACAAACTGAATCAGAGATAG
1711031 AATGAAGACAAACTGAATCAGAGATAG
1 AATGAAGACAAACTGAATCAGAGATAG
*
1711058 AATAAAGAC
1 AATGAAGAC
1711067 TGCTCAAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.52, C:0.10, G:0.22, T:0.16
Consensus pattern (27 bp):
AATGAAGACAAACTGAATCAGAGATAG
Found at i:1711470 original size:37 final size:38
Alignment explanation
Indices: 1711424--1711512 Score: 121
Period size: 37 Copynumber: 2.4 Consensus size: 38
1711414 TATCGTCTTT
1711424 GAGATAATTTCTTTTAAAAACAAA-T-TTTTTCTCACTA
1 GAGATAATTTCTTTTAAAAACAAAGTATTTTT-TCACTA
* * *
1711461 GAGACAATTT-TCTTAAAAACAAAGTATTTTTTCACTT
1 GAGATAATTTCTTTTAAAAACAAAGTATTTTTTCACTA
1711498 GAGATAATTTCTTTT
1 GAGATAATTTCTTTT
1711513 GAGAAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
36 12 0.27
37 24 0.55
38 8 0.18
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (38 bp):
GAGATAATTTCTTTTAAAAACAAAGTATTTTTTCACTA
Found at i:1711573 original size:66 final size:65
Alignment explanation
Indices: 1711496--1711682 Score: 232
Period size: 66 Copynumber: 2.8 Consensus size: 65
1711486 ATTTTTTCAC
* * * * *
1711496 TTGAGATAATTTCTTTTGAGAAAAAATCTTTGATTTTGTTTCTTTTGAAATAGAATTTTTTCCTT
1 TTGAGACAATTTCTTTTGA-AAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTATCCTT
1711561 T
65 T
* * *
1711562 TTGAGACAATTTCTTTTGAAGGAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTATCTTT
1 TTGAGACAATTTCTTTTGAA-AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTATCCTT
1711627 T
65 T
* * *
1711628 TTGAGGCAGTTTCTTTT-AAAGGAAAATCTTTGAGTTTGTTTCTCTTGAAACAAAA
1 TTGAGACAATTTCTTTTGAAA--AAAATCTTTGAGTTTGTTTCTTTTGAAACAAAA
1711683 GTCTTTGAGT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
65 3 0.03
66 102 0.97
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (65 bp):
TTGAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTATCCTTT
Found at i:1711603 original size:29 final size:29
Alignment explanation
Indices: 1711571--1711706 Score: 83
Period size: 29 Copynumber: 4.4 Consensus size: 29
1711561 TTTGAGACAA
*
1711571 TTTCTTTTGAAGGAAAATCTTTGAGTTTG
1 TTTCTTTTGAAGGAAAATCTTTGAGTCTG
* ** * *
1711600 TTTCTTTGGAAACAAAATTTTATCTTTTTTGAGGCAG
1 TTTCTTTTG-AAGGAAA----ATC---TTTGAGTCTG
* *
1711637 TTTCTTTTAAAGGAAAATCTTTGAGTTTG
1 TTTCTTTTGAAGGAAAATCTTTGAGTCTG
* **
1711666 TTTCTCTTGAAACAAAAGTCTTTGAGTCTG
1 TTTCTTTTGAAGGAAAA-TCTTTGAGTCTG
*
1711696 TTTCTCTTGAA
1 TTTCTTTTGAA
1711707 ACATCATCTT
Statistics
Matches: 80, Mismatches: 18, Indels: 17
0.70 0.16 0.15
Matches are distributed among these distances:
29 28 0.35
30 27 0.34
32 3 0.04
34 3 0.04
36 5 0.06
37 14 0.17
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (29 bp):
TTTCTTTTGAAGGAAAATCTTTGAGTCTG
Found at i:1711689 original size:30 final size:29
Alignment explanation
Indices: 1711650--1711722 Score: 110
Period size: 30 Copynumber: 2.5 Consensus size: 29
1711640 CTTTTAAAGG
1711650 AAAATCTTTGAGTTTGTTTCTCTTGAAAC
1 AAAATCTTTGAGTTTGTTTCTCTTGAAAC
*
1711679 AAAAGTCTTTGAGTCTGTTTCTCTTGAAAC
1 AAAA-TCTTTGAGTTTGTTTCTCTTGAAAC
**
1711709 ATCATCTTTGAGTT
1 AAAATCTTTGAGTT
1711723 GGTTCCCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 13 0.33
30 26 0.67
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (29 bp):
AAAATCTTTGAGTTTGTTTCTCTTGAAAC
Found at i:1711964 original size:132 final size:133
Alignment explanation
Indices: 1711762--1712283 Score: 612
Period size: 132 Copynumber: 4.0 Consensus size: 133
1711752 TGGCCAGTCG
* ** * * * * *
1711762 TCCTCATCACATAGGAACTATGTCATCCCCCGACCAGACCTCCTTATCATGTAGGAGTCGTGTCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGCCGTGTCA
* * * * * * *
1711827 TCACTAGATGACCAGCCGTCATCATTATGTAGGAACCGTGTTATCACCCTTCCTAAAGATGGTC-
66 -CCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGG-CA
*
1711891 TGTCA
129 TGCCA
* * * *
1711896 TCCTCATCATGCA-GAACCGTGTCGTCC-CCTGACCA-ACCTCCTCATCACGTATGAGCCGTGTC
1 TCCTCATCACGTAGGAACCGTGTCATCCACC-GACCAGACCTCCTCATCACGTAAGAGCCGTGTC
* *
1711958 ACCACTAGATAA-CAAGCCATCCTCATTACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGC
65 ACC-CTAGATAACCAA-CCGTCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGC
1712022 ATGCCA
128 ATGCCA
* *
1712028 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGACCTTCTCATCGCGTAAGAGCCGTGTCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGCCGTGTCA
* * *
1712093 CCCTAGATATCCAACCGTCCTTATCACGTAGGAACCGTGTTATCA---TCCCTAGAGATGGCATG
66 CCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGCATG
1712155 CCA
131 CCA
* * * * *
1712158 TCCTCA-CACGTAGGAACCTTGTCATCCACCGATCAGAACTCATCATCACGTAAGAGCCATGTCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGCCGTGTCA
** * *
1712222 CCCTAGATAACCAACCGTCCTCATCGTGTAGGAACCGTGTTATCACCTTTCCTAAAGATGGC
66 CCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGC
1712284 CAGAACTATT
Statistics
Matches: 335, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
129 92 0.27
130 25 0.07
131 4 0.01
132 103 0.31
133 69 0.21
134 42 0.13
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (133 bp):
TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGCCGTGTCA
CCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGCATG
CCA
Found at i:1712280 original size:262 final size:264
Alignment explanation
Indices: 1711762--1712283 Score: 610
Period size: 262 Copynumber: 2.0 Consensus size: 264
1711752 TGGCCAGTCG
* * * * * *
1711762 TCCTCATCACATAGGAACTATGTCATCCCCCGACCAGACCTCCTTATCATGTAGGAGTCGTGTCA
1 TCCTCATCACATAGGAACCATGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGCCGTGTCA
* * * *
1711827 TCACTAGATGACCAGCCGTCATCATTATGTAGGAACCGTGTTATCACCCTTCCTAAAGATGGTCT
66 TCACTAGATGACCAACCGTCATCATCACGTAGGAACCGTGTTATCA--CTCCCTAAAGATGGTCT
* * * * * * *
1711892 GTCATCCTCATCATGCAGAACCGTGTCGTCCCCTGACCAACCTCCTCATCACGTATGAGCCGTGT
129 GCCATCCTCATCACGCAGAACCGTGTCATCCCCTGACCAAACTCATCATCACGTAAGAGCCATGT
*
1711957 CACCACTAGATAACAAGCCATCCTCATTACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGC
194 CACCACTAGATAACAAGCCATCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGC
1712022 ATGCCA
259 ATGCCA
* * * *
1712028 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGACCTTCTCATCGCGTAAGAGCCGTGTCA
1 TCCTCATCACATAGGAACCATGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGCCGTGTCA
* * * *
1712093 -CCCTAGAT-ATCCAACCGTCCTTATCACGTAGGAACCGTGTTATCA-TCCCTAGAGATGG-CAT
66 TCACTAGATGA-CCAACCGTCATCATCACGTAGGAACCGTGTTATCACTCCCTAAAGATGGTC-T
* * *
1712154 GCCATCCTCA-CACGTAGGAACCTTGTCATCCACC-GATCAGAACTCATCATCACGTAAGAGCCA
129 GCCATCCTCATCACGCA-GAACCGTGTCATCC-CCTGACCA-AACTCATCATCACGTAAGAGCCA
* ** * *
1712217 TGTCACC-CTAGATAACCAA-CCGTCCTCATCGTGTAGGAACCGTGTTATCACCTTTCCTAAAGA
191 TGTCACCACTAGATAA-CAAGCCATCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGA
1712280 TGGC
255 TGGC
1712284 CAGAACTATT
Statistics
Matches: 216, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
261 5 0.02
262 87 0.40
263 31 0.14
264 1 0.00
265 37 0.17
266 55 0.25
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (264 bp):
TCCTCATCACATAGGAACCATGTCATCCACCGACCAGACCTCCTCATCACGTAAGAGCCGTGTCA
TCACTAGATGACCAACCGTCATCATCACGTAGGAACCGTGTTATCACTCCCTAAAGATGGTCTGC
CATCCTCATCACGCAGAACCGTGTCATCCCCTGACCAAACTCATCATCACGTAAGAGCCATGTCA
CCACTAGATAACAAGCCATCCTCATCACGTAGGAACCGTGTTATCACCCTCCCTAAAGATGGCAT
GCCA
Found at i:1713998 original size:30 final size:30
Alignment explanation
Indices: 1713964--1714058 Score: 127
Period size: 30 Copynumber: 3.2 Consensus size: 30
1713954 TGATTTTAGC
* *
1713964 TATTTTAGTCATTTAAGTTTCTATTTTTGT
1 TATTTTAGTCATTTAAATTTCTGTTTTTGT
* * * *
1713994 TATTTTAGTCCTTTAACTTTCTGTTTTAGA
1 TATTTTAGTCATTTAAATTTCTGTTTTTGT
*
1714024 TATTTTAGTCTTTTAAATTTCTGTTTTTGT
1 TATTTTAGTCATTTAAATTTCTGTTTTTGT
1714054 TATTT
1 TATTT
1714059 AGCCCTTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.19, C:0.08, G:0.09, T:0.63
Consensus pattern (30 bp):
TATTTTAGTCATTTAAATTTCTGTTTTTGT
Found at i:1714028 original size:60 final size:58
Alignment explanation
Indices: 1713957--1714128 Score: 177
Period size: 60 Copynumber: 2.9 Consensus size: 58
1713947 ATGTTTGTGA
* *
1713957 TTTTAGCTATTTTAGTCATTTAAGTTTCTATTTTTGTTATTTTAGTCCTTTAACTTTCTG
1 TTTTAGATATTTTAGTC-TTTAAATTTCTATTTTTGTTATTTTAGTCCTTTAACTTTC-G
* * ***
1714017 TTTTAGATATTTTAGTCTTTTAAATTTCTGTTTTTGTTA-TTTAGCCCTTTTTGTTTCG
1 TTTTAGATATTTTAGTC-TTTAAATTTCTATTTTTGTTATTTTAGTCCTTTAACTTTCG
* * **
1714075 GTTAATTTCATTTTAGTCTTTAAAATTTCTATTTTT-TCTATTTTAGTCCTTTAA
1 TTTTAGAT-ATTTTAGTCTTT-AAATTTCTATTTTTGT-TATTTTAGTCCTTTAA
1714129 ATCGAATTTG
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
58 9 0.10
59 38 0.41
60 45 0.49
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.60
Consensus pattern (58 bp):
TTTTAGATATTTTAGTCTTTAAATTTCTATTTTTGTTATTTTAGTCCTTTAACTTTCG
Found at i:1714118 original size:30 final size:29
Alignment explanation
Indices: 1713963--1714130 Score: 110
Period size: 30 Copynumber: 5.6 Consensus size: 29
1713953 GTGATTTTAG
* *
1713963 CTATTTTAGTCATTTAAGTTTCTATTTTTGT
1 CTATTTTAGTC-TTTAAATTTCTGTTTTT-T
* **
1713994 -TATTTTAGTCCTTTAACTTTCTGTTTTAG
1 CTATTTTAGT-CTTTAAATTTCTGTTTTTT
*
1714023 ATATTTTAGTCTTTTAAATTTCTGTTTTTGT
1 CTATTTTAGTC-TTTAAATTTCTGTTTTT-T
* *** * *
1714054 -TA-TTTAGCCCTTTTTGTTTCGGTTAATTT
1 CTATTTTAG-TCTTTAAATTTCTGTT-TTTT
*
1714083 C-ATTTTAGTCTTTAAAATTTCTATTTTTT
1 CTATTTTAGTCTTT-AAATTTCTGTTTTTT
1714112 CTATTTTAGTCCTTTAAAT
1 CTATTTTAGT-CTTTAAAT
1714131 CGAATTTGAT
Statistics
Matches: 106, Mismatches: 20, Indels: 23
0.71 0.13 0.15
Matches are distributed among these distances:
29 26 0.25
30 75 0.71
31 5 0.05
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (29 bp):
CTATTTTAGTCTTTAAATTTCTGTTTTTT
Found at i:1720962 original size:3 final size:3
Alignment explanation
Indices: 1720954--1720987 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1720944 TGGGCTTGTA
1720954 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1720988 CTATAAAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1722463 original size:27 final size:28
Alignment explanation
Indices: 1722403--1722468 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
1722393 ACGTAAGTAT
1722403 ATAAAATTATTTTTTGTCAAAATAGATAC
1 ATAAAA-TATTTTTTGTCAAAATAGATAC
*
1722432 TTAAAATATTTTTAT-T-AAAATATG-TAC
1 ATAAAATATTTTT-TGTCAAAATA-GATAC
*
1722459 ATAAAGTATT
1 ATAAAATATT
1722469 CAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 17 0.53
28 9 0.28
29 6 0.19
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (28 bp):
ATAAAATATTTTTTGTCAAAATAGATAC
Found at i:1722645 original size:30 final size:30
Alignment explanation
Indices: 1722576--1722645 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
1722566 TAATTTTAAC
1722576 TTAAGTACTTAAATAAAGAAGAAAATAATT
1 TTAAGTACTTAAATAAAGAAGAAAATAATT
* *
1722606 TTAAATACTTAAATAAAGAAGAAAATACTT
1 TTAAGTACTTAAATAAAGAAGAAAATAATT
*
1722636 TTTAGTACTT
1 TTAAGTACTT
1722646 TTAAGCTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (30 bp):
TTAAGTACTTAAATAAAGAAGAAAATAATT
Found at i:1727748 original size:20 final size:21
Alignment explanation
Indices: 1727723--1727765 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1727713 AAACTAAAAA
*
1727723 TAAGTTTAA-TATTTTTATTT
1 TAAGTTAAATTATTTTTATTT
1727743 TAAGTTAAATTATTTTTATTT
1 TAAGTTAAATTATTTTTATTT
1727764 TA
1 TA
1727766 TTATTTGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TAAGTTAAATTATTTTTATTT
Found at i:1727888 original size:110 final size:105
Alignment explanation
Indices: 1727754--1727976 Score: 277
Period size: 110 Copynumber: 2.1 Consensus size: 105
1727744 AAGTTAAATT
* * * * *
1727754 ATTTTTATTTTATTATTTGGATTCTCTAAATAATTTTAATACAATTTTATTTTTTAATATAATTT
1 ATTTTTATCTTGTGATTTGAATTCTATAAATAATTTTAATACAATTTTA--TTTTAATAT-ATTT
*
1727819 -ATATATTATTATTTAAAAAATAATTTAAATAAAAATCTTAAACTC
63 GATATATTATTATTT-AAAAATAA-TTAAA-AAAAATATTAAACTC
* * * *
1727864 GTTTTTATCTTGTGATTTGAATTCTATAAATAATTTTAATATAATTTTATTTTCATATATTTGGT
1 ATTTTTATCTTGTGATTTGAATTCTATAAATAATTTTAATACAATTTTATTTTAATATATTTGAT
* *
1727929 ATATTATTATTTTAAAATAATTATAAAAAATATTAAACTC
66 ATATTATTATTTAAAAATAATTAAAAAAAATATTAAACTC
1727969 ATTTTTAT
1 ATTTTTAT
1727977 TTTGAGTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
105 21 0.21
106 4 0.04
107 11 0.11
108 21 0.21
110 42 0.42
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (105 bp):
ATTTTTATCTTGTGATTTGAATTCTATAAATAATTTTAATACAATTTTATTTTAATATATTTGAT
ATATTATTATTTAAAAATAATTAAAAAAAATATTAAACTC
Found at i:1731164 original size:25 final size:26
Alignment explanation
Indices: 1731136--1731191 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
1731126 ATCGGGCAAG
1731136 ATAATAACCTATCAAATCGAGGTG-A
1 ATAATAACCTATCAAATCGAGGTGAA
*
1731161 ATAATAACCTATCAAGTCGAGGTGAA
1 ATAATAACCTATCAAATCGAGGTGAA
1731187 ATAAT
1 ATAAT
1731192 CTGTTTCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (26 bp):
ATAATAACCTATCAAATCGAGGTGAA
Found at i:1749089 original size:4 final size:4
Alignment explanation
Indices: 1749080--1749133 Score: 63
Period size: 4 Copynumber: 13.2 Consensus size: 4
1749070 CTAATTTTAT
** * *
1749080 TGTA TGTA TGTA TGCC TGTAA TGTA TGTA TGTA TTTG TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGT-A TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1749129 TGTA T
1 TGTA T
1749134 ATATACATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
4 38 0.93
5 3 0.07
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:1749183 original size:27 final size:27
Alignment explanation
Indices: 1749131--1749193 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
1749121 TGTATGTATG
* * *
1749131 TATATATACATATTTGTATATAATATC
1 TATATTTACATATTTGTATACAATATA
*
1749158 TATATTTAC-TATTTTTATACACATATA
1 TATATTTACATATTTGTATACA-ATATA
*
1749185 TTTATTTAC
1 TATATTTAC
1749194 CTTTTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.52
Consensus pattern (27 bp):
TATATTTACATATTTGTATACAATATA
Found at i:1756864 original size:6 final size:6
Alignment explanation
Indices: 1756853--1756898 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
1756843 AATTCCGTTA
1756853 TATTTT TATTTT TATTTT TATTTT TATTTT T-TCTTT TA-TTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTT
1756899 CCCAATTAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 6 0.16
6 31 0.84
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:1763785 original size:14 final size:14
Alignment explanation
Indices: 1763766--1763802 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1763756 TCCTTTGGCT
1763766 GACGAATTTTTAAA
1 GACGAATTTTTAAA
1763780 GACGAATTTTTAAA
1 GACGAATTTTTAAA
*
1763794 GACTAATTT
1 GACGAATTT
1763803 CTCTTTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (14 bp):
GACGAATTTTTAAA
Found at i:1779637 original size:18 final size:21
Alignment explanation
Indices: 1779599--1779636 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1779589 ATATAAAATT
1779599 ATATTATTTAAATTATTTTTA
1 ATATTATTTAAATTATTTTTA
1779620 ATATT-TTTAAATT-TTTT
1 ATATTATTTAAATTATTTT
1779637 ATTAGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATATTATTTAAATTATTTTTA
Found at i:1801451 original size:10 final size:10
Alignment explanation
Indices: 1801436--1801460 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1801426 ATTTAATTGA
1801436 TGATGGATTT
1 TGATGGATTT
1801446 TGATGGATTT
1 TGATGGATTT
1801456 TGATG
1 TGATG
1801461 TTATTGAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (10 bp):
TGATGGATTT
Found at i:1802126 original size:12 final size:12
Alignment explanation
Indices: 1802109--1802133 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1802099 AAAGAATTTG
1802109 TAGAAAATTATT
1 TAGAAAATTATT
1802121 TAGAAAATTATT
1 TAGAAAATTATT
1802133 T
1 T
1802134 TCTATTGTGT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TAGAAAATTATT
Found at i:1803175 original size:24 final size:25
Alignment explanation
Indices: 1803146--1803197 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
1803136 CATTGTTTAT
*
1803146 TATATACGATGGTTATCATGAAT-A
1 TATATACGATAGTTATCATGAATGA
* *
1803170 TATATATGATATTTATCATGAATGA
1 TATATACGATAGTTATCATGAATGA
1803195 TAT
1 TAT
1803198 TTCAAGTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (25 bp):
TATATACGATAGTTATCATGAATGA
Found at i:1812989 original size:19 final size:19
Alignment explanation
Indices: 1812965--1813035 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
1812955 TGCAAAAATG
* *
1812965 GTATCGGTACCGTAATAGA
1 GTATCGATACCCTAATAGA
1812984 GTATCGATACCCTAATATAGTA
1 GTATCGATACCCT-A-ATAG-A
* **
1813006 GTATCGATACCATGGTGAGA
1 GTATCGATACCCTAAT-AGA
1813026 GTATCGATAC
1 GTATCGATAC
1813036 TAGTGAGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 11 0.26
20 13 0.30
21 6 0.14
22 13 0.30
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (19 bp):
GTATCGATACCCTAATAGA
Found at i:1813043 original size:18 final size:20
Alignment explanation
Indices: 1812981--1813043 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 20
1812971 GTACCGTAAT
* * *
1812981 AGAGTATCGATACCCTAATAT
1 AGAGTATCGATACCATAGT-G
*
1813002 AGTAGTATCGATACCATGGTG
1 AG-AGTATCGATACCATAGTG
1813023 AGAGTATCGATA-C-TAGTG
1 AGAGTATCGATACCATAGTG
1813041 AGA
1 AGA
1813044 CAGAAATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.19
19 1 0.03
20 10 0.28
21 4 0.11
22 14 0.39
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (20 bp):
AGAGTATCGATACCATAGTG
Found at i:1813818 original size:68 final size:68
Alignment explanation
Indices: 1813700--1814577 Score: 1186
Period size: 68 Copynumber: 12.8 Consensus size: 68
1813690 AAAGATTAAT
* * * *
1813700 AGGCCTAATTGTGCATTTGACAGAAAGATGTCATTTATGCCAGTTTGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1813765 TTG
66 TTG
** * * *
1813768 AGGAGTAATTGTGCATTTGACATAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1813833 TTG
66 TTG
* *
1813836 AGGCCTAACTATGCATTTGACAGAAAGGTGT-AATTATGCCAGTTAGATGAAAGGCTAAGT-CTC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC-C
*
1813899 TTAG
65 TTTG
* *
1813903 AGGCCAAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGCAAGT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCT----AAGT
1813968 GCCTTTG
62 GCCTTTG
* * * * * * *
1813975 AGGCCTAACTGTGTATTTGATAGAAAGGTGTCATTTATGCCAGCTAGTTGAAAAGCTAAGAGCCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1814040 TTG
66 TTG
* * * *
1814043 AGGCCTAACTATGCATTTGATAGAAAGGTGTCATTTATGCCAATTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1814108 TTG
66 TTG
** * * ** * *
1814111 ACACCTAAGTGTGCATTTGATAGAAATATGTCATTTATGCTAGTTAGATGAAAGGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1814176 TTG
66 TTG
*
1814179 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTCATGCCAGTTAGATGAAAGGCTAAGTAAGT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGC----TAAGT
1814244 GCCTTTG
62 GCCTTTG
* * *
1814251 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATTCCAGTTAGATTAAAGGCTAAGTAAGT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT--GC
*
1814316 GTATGTG
64 CT-T-TG
* *
1814323 ATGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1814388 TTG
66 TTG
* * *
1814391 AGGCCTAACTGTGCATTTGACAGAAATGTGTTATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1814456 TTG
66 TTG
* * *
1814459 ACGCCTAACTGTGCATTTGATAGAAAGGTGTCATTTATTCCAG-TAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1814523 TTG
66 TTG
* *
1814526 AGGCCTAACTGTTCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
1814578 CGGTTAAATA
Statistics
Matches: 714, Mismatches: 80, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
66 1 0.00
67 120 0.17
68 403 0.56
69 1 0.00
70 3 0.00
71 1 0.00
72 184 0.26
73 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1814410 original size:348 final size:343
Alignment explanation
Indices: 1813700--1814577 Score: 1274
Period size: 348 Copynumber: 2.5 Consensus size: 343
1813690 AAAGATTAAT
* * * * *
1813700 AGGCCTAATTGTGCATTTGACAGAAAGATGTCATTTATGCCAGTTTGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
* * * * *
1813765 TTGAGGA-GTAATTGTGCATTTGACATAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
66 TTGA-CACCTAACTGTGCATTTGATAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
* *
1813829 GCCTTTGAGGCCTAACTATGCATTTGACAGAAAGGTGTAATTATGCCAGTTAGATGAAAGGCTAA
130 GCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTATGCCAGTTAGATGAAAGGCTAA
*
1813894 GTCTCTTAGAGGCCAAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGC
195 GTCTCTTAGAGGCCAAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGC
* * * * *
1813959 TAAGCAAGTGCCTTTGAGGCCTAACTGTGTATTTGATAGAAAGGTGTCATTTATGCCAGCTAGTT
260 TAAGCAAGTGCATGTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGCTAGAT
1814024 GAAAAGCTAAGAGCCCTTG
325 GAAAAGCTAAGAGCCCTTG
* * *
1814043 AGGCCTAACTATGCATTTGATAGAAAGGTGTCATTTATGCCAATTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
* ** * * *
1814108 TTGACACCTAAGTGTGCATTTGATAGAAATATGTCATTTATGCTAGTTAGATGAAAGGCTAAGTT
66 TTGACACCTAACTGTGCATTTGATAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGTG
1814173 CCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTCATGCCAGTTAGATGAAAGGCTAA
131 CCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATT-ATGCCAGTTAGATGAAAGGCTAA
* * * * *
1814238 GTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATTCCAGTTAGATTAA
195 GT--CT--CTTAGAGGCCAAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
* * * *
1814303 AGGCTAAGTAAGTGTATGTGATGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTT
256 AGGCTAAGCAAGTGCATGTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGCT
* ** *
1814368 AGATGAAAGGCTAAGTTCCTTTG
321 AGATGAAAAGCTAAGAGCCCTTG
* *
1814391 AGGCCTAACTGTGCATTTGACAGAAATGTGTTATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
*
1814456 TTGACGCCTAACTGTGCATTTGATAGAAAGGTGTCATTTATTCCAG-TAGATGAAAGGCTAAGTG
66 TTGACACCTAACTGTGCATTTGATAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGTG
* *
1814520 CCTTTGAGGCCTAACTGTTCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAA
131 CCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCA-TTATGCCAGTTAGATGAA
1814578 CGGTTAAATA
Statistics
Matches: 475, Mismatches: 53, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
342 1 0.00
343 149 0.31
344 25 0.05
346 1 0.00
347 70 0.15
348 229 0.48
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (343 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
TTGACACCTAACTGTGCATTTGATAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGTG
CCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTATGCCAGTTAGATGAAAGGCTAAG
TCTCTTAGAGGCCAAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCT
AAGCAAGTGCATGTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGCTAGATG
AAAAGCTAAGAGCCCTTG
Found at i:1814673 original size:80 final size:81
Alignment explanation
Indices: 1814529--1814903 Score: 483
Period size: 79 Copynumber: 4.7 Consensus size: 81
1814519 GCCTTTGAGG
* * ** *
1814529 CCTAACTGTTCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAACGGTTAAATACCGTTG
1 CCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
1814594 AGTAAAAGAATAATGA
66 AGTAAAAGAATAATGA
* *
1814610 CCTAGCTATGCATTTGGTAGAAATGTGTCAATTA-GCCAGTTAGATGAACAGTTAAATACCGTTG
1 CCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * *
1814674 AGTAAAATAATTATGG
66 AGTAAAAGAATAATGA
** * * * *
1814690 CCTAGCT-TGCATTTGACAGAAAGGTGTCATTTATG-C-TTTAGATGAATGGTTAAATACCGTTG
1 CCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* *
1814752 AGTAAAAGATTAATGG
66 AGTAAAAGAATAATGA
* * *
1814768 CCTAACTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTA-ATGAA-TGATAAATACCGTTG
1 CCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
1814831 AGTAAAAGAATAATGA
66 AGTAAAAGAATAATGA
* * * *
1814847 CCTAGCTGTGCATTTGTTAGAAAGGTGTTAATTATGCCAATTAGATGAACGGTTAAA
1 CCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
1814904 CGTTGTTGAG
Statistics
Matches: 251, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
78 42 0.17
79 112 0.45
80 61 0.24
81 36 0.14
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (81 bp):
CCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
AGTAAAAGAATAATGA
Found at i:1814859 original size:158 final size:161
Alignment explanation
Indices: 1814529--1814921 Score: 535
Period size: 158 Copynumber: 2.5 Consensus size: 161
1814519 GCCTTTGAGG
* * * *
1814529 CCTAACTGTTCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAACGGTTAAATACCGTTG
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCATTTATGCCAATTAGATGAACGGTTAAATACCGTTG
* *
1814594 AGTAAAAGAATAATGACCTAGCTATGCATTTGGTAGAAATGTGTCAATTAGCCAGTTAGATGAAC
66 AGTAAAAGATTAATGACCTAACTATGCATTTGGTAGAAATGTGTCAATTAGCCAGTTAGATGAAC
* * * *
1814659 AGTTAAATACCGTTGAGTAAAATAATTATGG
131 AGATAAATACCGTTGAGTAAAAGAATAATGA
* *
1814690 CCTAGCT-TGCATTTGACAGAAAGGTGTCATTTATG-C-TTTAGATGAATGGTTAAATACCGTTG
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCATTTATGCCAATTAGATGAACGGTTAAATACCGTTG
* *
1814752 AGTAAAAGATTAATGGCCTAACTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTA-ATGAA
66 AGTAAAAGATTAATGACCTAACTATGCATTTGGTAGAAATGTGTCAATTA-GCCAGTTAGATGAA
*
1814816 -TGATAAATACCGTTGAGTAAAAGAATAATGA
130 CAGATAAATACCGTTGAGTAAAAGAATAATGA
** * * ****
1814847 CCTAGCTGTGCATTTGTTAGAAAGGTGTTAATTATGCCAATTAGATGAACGGTTAAACGTTGTTG
1 CCTAGCTGTGCATTTGACAGAAAGGTGTCATTTATGCCAATTAGATGAACGGTTAAATACCGTTG
1814912 AGTAAAAGAT
66 AGTAAAAGAT
1814922 GAACAGTTAA
Statistics
Matches: 204, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
157 33 0.16
158 99 0.49
159 10 0.05
160 56 0.27
161 6 0.03
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (161 bp):
CCTAGCTGTGCATTTGACAGAAAGGTGTCATTTATGCCAATTAGATGAACGGTTAAATACCGTTG
AGTAAAAGATTAATGACCTAACTATGCATTTGGTAGAAATGTGTCAATTAGCCAGTTAGATGAAC
AGATAAATACCGTTGAGTAAAAGAATAATGA
Found at i:1814931 original size:29 final size:29
Alignment explanation
Indices: 1814889--1815036 Score: 197
Period size: 29 Copynumber: 5.1 Consensus size: 29
1814879 TATGCCAATT
* **
1814889 AGATGAACGGTTAAACGTTGTTGAGTAAA
1 AGATGAACAGTTAAACAATGTTGAGTAAA
*
1814918 AGATGAACAGTTAAACGATGTTGAGTAAA
1 AGATGAACAGTTAAACAATGTTGAGTAAA
* *
1814947 AGATGAACAGTTAAACACTATTGAGTAAA
1 AGATGAACAGTTAAACAATGTTGAGTAAA
* * * *
1814976 ATATGAACGGTTAAACACTGTTGAGTCAA
1 AGATGAACAGTTAAACAATGTTGAGTAAA
*
1815005 AGATGAACAATTAAACAATGTTGAGTAAA
1 AGATGAACAGTTAAACAATGTTGAGTAAA
1815034 AGA
1 AGA
1815037 ATAATGGACT
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 105 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.25
Consensus pattern (29 bp):
AGATGAACAGTTAAACAATGTTGAGTAAA
Found at i:1814937 original size:15 final size:15
Alignment explanation
Indices: 1814914--1814961 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
1814904 CGTTGTTGAG
1814914 TAAAAGATGAACAGT
1 TAAAAGATGAACAGT
* ***
1814929 TAAACGATGTTGAG-
1 TAAAAGATGAACAGT
1814943 TAAAAGATGAACAGT
1 TAAAAGATGAACAGT
1814958 TAAA
1 TAAA
1814962 CACTATTGAG
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.23
Consensus pattern (15 bp):
TAAAAGATGAACAGT
Found at i:1817800 original size:18 final size:18
Alignment explanation
Indices: 1817769--1817809 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1817759 TATATTTAAT
*
1817769 ATGA-AAAATGAAATAAA
1 ATGATAAAATAAAATAAA
1817786 ATGATAAAATAAAATAAA
1 ATGATAAAATAAAATAAA
1817804 A-GATAA
1 ATGATAA
1817810 TCATTCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (18 bp):
ATGATAAAATAAAATAAA
Found at i:1820404 original size:25 final size:23
Alignment explanation
Indices: 1820376--1820421 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
1820366 AATTTCTCTT
*
1820376 CTTCCTTTTTTCTTTCTATTTTTCA
1 CTTCATTTTTTC-TTCT-TTTTTCA
1820401 CTTCATTTTTTCTTCTTTTTT
1 CTTCATTTTTTCTTCTTTTTT
1820422 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.72
Consensus pattern (23 bp):
CTTCATTTTTTCTTCTTTTTTCA
Done.