Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007753.1 Hibiscus syriacus cultivar Beakdansim tig00110019_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: 180811
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:518 original size:15 final size:15
Alignment explanation
Indices: 494--523 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
484 TAATTCGATA
494 GCTATCTGGTCTACT
1 GCTATCTGGTCTACT
*
509 GCTATTTGGTCTACT
1 GCTATCTGGTCTACT
524 AGTCTATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (15 bp):
GCTATCTGGTCTACT
Found at i:6880 original size:24 final size:23
Alignment explanation
Indices: 6839--6893 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 23
6829 CGAAAATTCG
*
6839 ATTTGATTTAAAAAATTGATTTA
1 ATTTGATTAAAAAAATTGATTTA
6862 ATTTGATGTAAAAAAATTGATTTA
1 ATTTGAT-TAAAAAAATTGATTTA
6886 ATTTGATT
1 ATTTGATT
6894 TAATCTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 8 0.27
24 22 0.73
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (23 bp):
ATTTGATTAAAAAAATTGATTTA
Found at i:10427 original size:8 final size:8
Alignment explanation
Indices: 10403--10446 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
10393 GATGCTTGCT
10403 TGAATGCA
1 TGAATGCA
10411 TGAAT---
1 TGAATGCA
10416 TGAATGCA
1 TGAATGCA
10424 TGAATGCA
1 TGAATGCA
10432 TGAATGCA
1 TGAATGCA
10440 TGAATGC
1 TGAATGC
10447 CTGCCAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.15
8 28 0.85
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (8 bp):
TGAATGCA
Found at i:15308 original size:230 final size:222
Alignment explanation
Indices: 14961--15398 Score: 574
Period size: 230 Copynumber: 1.9 Consensus size: 222
14951 TATCGGATCT
* * * * *
14961 ATCCTAACCCATATAGGGACATGATTTGTTTAAACACAGTGTAAAACTAAAAGTCTTACATCTTT
1 ATCCTAACCCACACAAGGACATGATCTGTTTAAACACAATGTAAAACTAAAAGTCTTACATCTTT
** * *
15026 TTAGGATTATTCAATGAGAGAAATCAATGGTTGAGATTAATAGTAAGAAATGAGAATATATTCAT
66 TTAGGACCACTCAATGAGAGAAATCAATGGTTGAGATTAACAGTAAGAAATGAGAATATATTCAT
*
15091 TGGGAAAACAAACAAAGACTTAATCTCAGCCTTTGATTTCCCCCAATCCAATGGTCCTAAAAAGG
131 T--G--AAC-AA-AAAGACTTAATCTCAGCCATTGATTTCCCCCAATCCAATGGTCC--AAAAGG
15156 TGTAAAACTCTTAATTTTACATTGGGTCTATCTGG
188 TGTAAAACTCTTAATTTTACATTGGGTCTATCTGG
* * * * *
15191 ATCCTAACCCACACAAGGACATGATCTGTTTACACCCAATGTAAAATTAAGAGTTTTACATCTTT
1 ATCCTAACCCACACAAGGACATGATCTGTTTAAACACAATGTAAAACTAAAAGTCTTACATCTTT
**
15256 TTAGGACCACT-AGATGAGAGAAATCAAAT-GTTGAGATTAACAGTTGGAAATGAGAATATATTC
66 TTAGGACCACTCA-ATGAGAGAAATC-AATGGTTGAGATTAACAGTAAGAAATGAGAATATATTC
* * * * *
15319 ATTGAACAAGATGAGTTAATCTCAGTCATTGATTTCCCTCAATCCAATGGTCCAAAAGGTGTAAA
129 ATTGAACAAAAAGACTTAATCTCAGCCATTGATTTCCCCCAATCCAATGGTCCAAAAGGTGTAAA
15384 ACTCTTAATTTTACA
194 ACTCTTAATTTTACA
15399 CTGATGTAAG
Statistics
Matches: 184, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
222 27 0.15
224 38 0.21
225 2 0.01
226 3 0.02
228 1 0.01
229 1 0.01
230 109 0.59
231 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (222 bp):
ATCCTAACCCACACAAGGACATGATCTGTTTAAACACAATGTAAAACTAAAAGTCTTACATCTTT
TTAGGACCACTCAATGAGAGAAATCAATGGTTGAGATTAACAGTAAGAAATGAGAATATATTCAT
TGAACAAAAAGACTTAATCTCAGCCATTGATTTCCCCCAATCCAATGGTCCAAAAGGTGTAAAAC
TCTTAATTTTACATTGGGTCTATCTGG
Found at i:15625 original size:109 final size:109
Alignment explanation
Indices: 15421--15625 Score: 241
Period size: 109 Copynumber: 1.9 Consensus size: 109
15411 GAATCTAACC
* * * * * *
15421 TATATAGGGTAGGATCCATTTACACCTAGTGTAAAACTAAGAGTTTTACATCTTTTTAGGATAAT
1 TATATAGGGGAGGATCCATTTACACCCAATGTAAAACTAAGAGTTATACACCTTTTTAGGACAAT
* * *
15486 TGGATTGAGAAAAATCAAATATTAAAATTAACTCTTTGTTTTTT
66 TAGATTGAGAAAAATCAAAGACTAAAATTAACTCTTTGTTTTTT
* ***
15530 TATATAGGGAGAGGATCCGTTTACACCCAATGTAAAACT-CTTGTTATACACCTTTTTAGGACAA
1 TATATAGGG-GAGGATCCATTTACACCCAATGTAAAACTAAGAGTTATACACCTTTTTAGGACAA
* * * *
15594 TTAGATTTAGGAAAATCAAAGGCTAAGATTAA
65 TTAGATTGAGAAAAATCAAAGACTAAAATTAA
15626 TAGTAGGAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
109 53 0.68
110 25 0.32
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (109 bp):
TATATAGGGGAGGATCCATTTACACCCAATGTAAAACTAAGAGTTATACACCTTTTTAGGACAAT
TAGATTGAGAAAAATCAAAGACTAAAATTAACTCTTTGTTTTTT
Found at i:16391 original size:554 final size:557
Alignment explanation
Indices: 15040--16630 Score: 2303
Period size: 556 Copynumber: 2.9 Consensus size: 557
15030 GATTATTCAA
* * * *
15040 TGAGAGAAATCAATGGTTGAGATTAATAGTAAGAAATGAGAATATATTCATTGGGAAAACAAACA
1 TGAGGGAAATCAAAGGTTGAGATTAATAGTAGGAAATGAGAATATATTCACT--G-AAA-AAACA
* * * *
15105 AAGACTTAATCTCAGCCTTTGATTTCCCCCAATCCAATGGTCCTAAAAAGGTGTAAAACTCTTAA
62 AGGAGTTAATCTCA-CCTTTGATTTCCCTCAATCCAATGGTCCTAAAAAGGTATAAAACTCTTAA
* ***
15170 TTTTACATTGGGTCTATCTGGATCCTAACCCACACAAGGACATGATCTGTTTACACCCAATGTAA
126 TTTTACATTGGGTCTAACTGGATCCTAACCCACATGGGGACATGATCTGTTTACACCCAATGTAA
* *
15235 AATTAAGAGTTTTACATCTTTTTAGGACCACTAGATGAGAGAAATCAAATGTTGAGATTAACAGT
191 AACTAAGAGTTTTACATCTTTTTAGGACCACTTGATGAGAGAAATCAAATGTTGAGATTAACAGT
* * * * * *
15300 TGGAAATGAGAATATATTCATTGAACAAGATGAGTTAATCTCAGTCATTGATTTCCCTCAATCCA
256 AGGAAATGAGAAGATATTCACTGAACAAAATGAGTTAATCTCAGCCTTTGATTTCCCTCAATCCA
* * *
15365 ATGGTCC--AAAAGGTGTAAAACTCTTAATTTTACACTGATGTAAGTGGAATCTAACCTATATA-
321 ATGGTCCAAAAAAGGTGTAAAACTCTTAATTTTACATTG-TGTAAGTGGATTCTAACCCATATAG
* **
15427 GGGTAGGATCCATTTACACCTAGTGTAAAACTAAGAGTTTTACATCTTTTTAGGATAATTGGATT
385 GGGTATGATCCATTTACACCTAGTGTAAAACTAAGAGTTTTACATCTTTTTAGGACCATTGGATT
* * * * * * * *
15492 GAGAAAAATCAAATATTAAAATTAACTCTTTGTTTTTTTATATAGGGAGAGGATCCGTTTACACC
450 AAGGAAAATCAAATGTTGAGATTAACTCATTGTTTTTTTATACAGGGAGAGGATCCATTTACACC
15557 CAATGTAAAACTCTTGTTATACACCTTTTTAGGACAATTAGAT
515 CAATGTAAAACTCTTGTTATACACCTTTTTAGGACAATTAGAT
* * * * ** * *
15600 TTAGGAAAATCAAAGGCTAAGATTAATAGTAGGAAATGAGAAGGTATTCACTAAAAAAACATGGA
1 TGAGGGAAATCAAAGGTTGAGATTAATAGTAGGAAATGAGAATATATTCACTGAAAAAACAAGGA
* * *
15665 GTTAATATCAACCTTTGATTTCCCTCAATCCAATGGTTCTAAAAATGTATAAAACTCTTAATTTT
66 GTTAATCTC-ACCTTTGATTTCCCTCAATCCAATGGTCCTAAAAAGGTATAAAACTCTTAATTTT
* * *
15730 ACATTGGGTCTAAATGAATCCTAACCCACATGGGGATATGATCTGTTTACACCCAATGTAAAACT
130 ACATTGGGTCTAACTGGATCCTAACCCACATGGGGACATGATCTGTTTACACCCAATGTAAAACT
* * *
15795 AAGAGTTTTACATTTTTTTAGGACCACATGATGAGAGAAATCAAATGTTGAGATTAACAATAGGA
195 AAGAGTTTTACATCTTTTTAGGACCACTTGATGAGAGAAATCAAATGTTGAGATTAACAGTAGGA
15860 AATGAGAAGATATTCACTGAACAAAATGAGTTAATCTCAGCCTTTGATTTCCCTCAATCCAATGG
260 AATGAGAAGATATTCACTGAACAAAATGAGTTAATCTCAGCCTTTGATTTCCCTCAATCCAATGG
* * * *
15925 TCCAAAAAAGGTGTAAAACCCTTAATTTTATATTGTGTTAGTGGATTCTAACCCATATAGGGGCA
325 TCCAAAAAAGGTGTAAAACTCTTAATTTTACATTGTGTAAGTGGATTCTAACCCATATAGGGGTA
* *
15990 TGATCCATTTACACCTAGTGTAAAACTAAGAGTTTTACATCTTTTTAAGACCATTGGATTCAGGA
390 TGATCCATTTACACCTAGTGTAAAACTAAGAGTTTTACATCTTTTTAGGACCATTGGATTAAGGA
* * * * *
16055 AAATCAAATGTTGAGATTAACTCATTGTTTTTTTATACATGGATA-TATCCATTTACATCCAGTG
455 AAATCAAATGTTGAGATTAACTCATTGTTTTTTTATACAGGGAGAGGATCCATTTACACCCAATG
* * *
16119 TAAAACTCTTGTTTTACACC-TTTTAGGACCATTGGAT
520 TAAAACTCTTGTTATACACCTTTTTAGGACAATTAGAT
* * * *
16156 TGAGGGAAATCAAAGGTTGTGATTAACAATTGGAAATGAGAATATATTCACT-AAAAAACAAGGA
1 TGAGGGAAATCAAAGGTTGAGATTAATAGTAGGAAATGAGAATATATTCACTGAAAAAACAAGGA
*
16220 GTTAATCTCACCTTTAATTTCCCTCAATCCAATGGTCCTAAAAAGGTATAAAACTCTTAATTTTA
66 GTTAATCTCACCTTTGATTTCCCTCAATCCAATGGTCCTAAAAAGGTATAAAACTCTTAATTTTA
* * * *
16285 CACTGGGTCTAACTGGATCCTAATCCACATGGGGGCATGATCTATTTACACCCAATGTAAAACTA
131 CATTGGGTCTAACTGGATCCTAACCCACATGGGGACATGATCTGTTTACACCCAATGTAAAACTA
* *
16350 AGAGTTTTACATCTTTTTAGGACCACTTGATGAGAGAAATCAAAGGTTGAGACTAACAGTAGGAA
196 AGAGTTTTACATCTTTTTAGGACCACTTGATGAGAGAAATCAAATGTTGAGATTAACAGTAGGAA
*
16415 ATGAGAAGATATTCACTGAACAAAATGAGTTAATCTCAACCTTTGATTTCCCTCAATCCAATGGT
261 ATGAGAAGATATTCACTGAACAAAATGAGTTAATCTCAGCCTTTGATTTCCCTCAATCCAATGGT
* * **
16480 CCAAAAAAGGTGTAAAACTCTTAATTTTACACTGGTGTAAGTGGATCCTAACCCATATAGCAGTA
326 CCAAAAAAGGTGTAAAACTCTTAATTTTACA-TTGTGTAAGTGGATTCTAACCCATATAGGGGTA
* * *
16545 TGATACATATACACCTAGTGTAAAACTAAGAGTTTTACATCTTCTTAGGACCATTGGATTAAGGA
390 TGATCCATTTACACCTAGTGTAAAACTAAGAGTTTTACATCTTTTTAGGACCATTGGATTAAGG-
16610 AAAATCAAATGTTGAGATTAA
454 AAAATCAAATGTTGAGATTAA
16631 ATCCTTTTTC
Statistics
Matches: 920, Mismatches: 105, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
554 264 0.29
555 105 0.11
556 322 0.35
557 59 0.06
558 128 0.14
560 42 0.05
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (557 bp):
TGAGGGAAATCAAAGGTTGAGATTAATAGTAGGAAATGAGAATATATTCACTGAAAAAACAAGGA
GTTAATCTCACCTTTGATTTCCCTCAATCCAATGGTCCTAAAAAGGTATAAAACTCTTAATTTTA
CATTGGGTCTAACTGGATCCTAACCCACATGGGGACATGATCTGTTTACACCCAATGTAAAACTA
AGAGTTTTACATCTTTTTAGGACCACTTGATGAGAGAAATCAAATGTTGAGATTAACAGTAGGAA
ATGAGAAGATATTCACTGAACAAAATGAGTTAATCTCAGCCTTTGATTTCCCTCAATCCAATGGT
CCAAAAAAGGTGTAAAACTCTTAATTTTACATTGTGTAAGTGGATTCTAACCCATATAGGGGTAT
GATCCATTTACACCTAGTGTAAAACTAAGAGTTTTACATCTTTTTAGGACCATTGGATTAAGGAA
AATCAAATGTTGAGATTAACTCATTGTTTTTTTATACAGGGAGAGGATCCATTTACACCCAATGT
AAAACTCTTGTTATACACCTTTTTAGGACAATTAGAT
Found at i:16498 original size:224 final size:224
Alignment explanation
Indices: 16129--16626 Score: 664
Period size: 224 Copynumber: 2.2 Consensus size: 224
16119 TAAAACTCTT
* * * * *
16129 GTTTTACA-CCTTTTAGGACCATTGGATTGAGGGAAATCAAAGGTTGTGATTAACAATTGGAAAT
1 GTTTTACATCTTTTTAGGACCATTGGATTGAGAGAAATCAAAGGTTGAGACTAACAATAGGAAAT
*
16193 GAGAATATATTCACTAAAAAACAAGGAGTTAATCTCACCTTTAATTTCCCTCAATCCAATGGTCC
66 GAGAAGATATTCACTAAAAAACAAGGAGTTAATCTCACCTTTAATTTCCCTCAATCCAATGGTCC
* * * **
16258 TAAAAAGGTATAAAACTCTTAATTTTACACTGGGTCTAACTGGATCCTAATCCACATGGGGGCAT
131 AAAAAAGGTATAAAACTCTTAATTTTACACT-GGTCTAACTGGATCCTAACCCACATAGCAGCAT
*
16323 GAT-CTATTTACACCCAATGTAAAACTAAGA
195 GATAC-ATATACACCCAATGTAAAACTAAGA
*
16353 GTTTTACATCTTTTTAGGACCACTT-GA-TGAGAGAAATCAAAGGTTGAGACTAACAGTAGGAAA
1 GTTTTACATCTTTTTAGGACCA-TTGGATTGAGAGAAATCAAAGGTTGAGACTAACAATAGGAAA
* * * *
16416 TGAGAAGATATTCACTGAACAA-AATGAGTTAATCTCAACCTTTGATTTCCCTCAATCCAATGGT
65 TGAGAAGATATTCACTAAAAAACAAGGAGTTAATCTC-ACCTTTAATTTCCCTCAATCCAATGGT
* * * * *
16480 CCAAAAAAGGTGTAAAACTCTTAATTTTACACTGGTGTAAGTGGATCCTAACCCATATAGCAGTA
129 CCAAAAAAGGTATAAAACTCTTAATTTTACACTGGTCTAACTGGATCCTAACCCACATAGCAGCA
* *
16545 TGATACATATACACCTAGTGTAAAACTAAGA
194 TGATACATATACACCCAATGTAAAACTAAGA
* * * *
16576 GTTTTACATCTTCTTAGGACCATTGGATTAAGGAAAAATCAAATGTTGAGA
1 GTTTTACATCTTTTTAGGACCATTGGATTGA-GAGAAATCAAAGGTTGAGA
16627 TTAAATCCTT
Statistics
Matches: 239, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
222 2 0.01
223 86 0.36
224 118 0.49
225 31 0.13
226 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (224 bp):
GTTTTACATCTTTTTAGGACCATTGGATTGAGAGAAATCAAAGGTTGAGACTAACAATAGGAAAT
GAGAAGATATTCACTAAAAAACAAGGAGTTAATCTCACCTTTAATTTCCCTCAATCCAATGGTCC
AAAAAAGGTATAAAACTCTTAATTTTACACTGGTCTAACTGGATCCTAACCCACATAGCAGCATG
ATACATATACACCCAATGTAAAACTAAGA
Found at i:22623 original size:11 final size:13
Alignment explanation
Indices: 22598--22635 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
22588 AAGTTATGAT
22598 AATTTGTGAATAAA
1 AATTTGTGAA-AAA
22612 AATTT-TGAAAAA
1 AATTTGTGAAAAA
22624 AATTTGTGAAAA
1 AATTTGTGAAAA
22636 CAAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 10 0.43
14 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (13 bp):
AATTTGTGAAAAA
Found at i:22625 original size:13 final size:14
Alignment explanation
Indices: 22598--22640 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 14
22588 AAGTTATGAT
*
22598 AATTTGTGAATAAA
1 AATTTGTGAAAAAA
22612 AATTT-TG-AAAAA
1 AATTTGTGAAAAAA
22624 AATTTGTGAAAACAA
1 AATTTGTGAAAA-AA
22639 AA
1 AA
22641 GATTATAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 9 0.36
13 4 0.16
14 8 0.32
15 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (14 bp):
AATTTGTGAAAAAA
Found at i:23388 original size:20 final size:20
Alignment explanation
Indices: 23352--23389 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23342 ATCCTATTCC
**
23352 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
23372 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
23390 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:25185 original size:2 final size:2
Alignment explanation
Indices: 25178--25220 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
25168 TTAGACAGGT
25178 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
25220 A
1 A
25221 AGTCAAATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31635 original size:18 final size:17
Alignment explanation
Indices: 31612--31653 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
31602 ATATATTTTA
31612 TAAATT-ATAAAATCGATT
1 TAAATTAATAAAAT--ATT
31630 TAAATTAAATAAAATATT
1 TAAATT-AATAAAATATT
31648 TAAATT
1 TAAATT
31654 TTTATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 15 0.68
20 7 0.32
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAATTAATAAAATATT
Found at i:33547 original size:19 final size:20
Alignment explanation
Indices: 33523--33562 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
33513 TATCATTTCT
33523 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
33542 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
33562 T
1 T
33563 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:33565 original size:19 final size:18
Alignment explanation
Indices: 33519--33565 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
33509 TCTCTATCAT
33519 TTCTT-TATTTCATTTCA
1 TTCTTATATTTCATTTCA
*
33536 TTCTTATTATTTCTTTTCA
1 TTCTTA-TATTTCATTTCA
33555 TTACTTATATT
1 TT-CTTATATT
33566 ATTATTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
19 17 0.65
20 4 0.15
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCTTATATTTCATTTCA
Found at i:41375 original size:21 final size:21
Alignment explanation
Indices: 41345--41391 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
41335 AATGTTCAAC
* *
41345 AATAATAAAATCGCTAGAAAA
1 AATAACAAAACCGCTAGAAAA
* *
41366 AATAACAAAACCGGTAGAAAT
1 AATAACAAAACCGCTAGAAAA
41387 AATAA
1 AATAA
41392 TGTTTCTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (21 bp):
AATAACAAAACCGCTAGAAAA
Found at i:41861 original size:21 final size:21
Alignment explanation
Indices: 41837--41900 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
41827 GCAAATTCGC
41837 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
41858 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
41878 TTTTCATTTTGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
41899 GT
1 GT
41901 CTACAGTTGT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.17, C:0.16, G:0.27, T:0.41
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:42030 original size:6 final size:6
Alignment explanation
Indices: 42019--42054 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
42009 GACACGTATT
42019 ACCACG ACCACG ACCACG ACCACG A-CACG ACC-CG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
42055 GACGGCGGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:42042 original size:18 final size:16
Alignment explanation
Indices: 42019--42054 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
42009 GACACGTATT
42019 ACCACGACCACGACCACG
1 ACCACGA-CACGACC-CG
42037 ACCACGACACGACCCG
1 ACCACGACACGACCCG
42053 AC
1 AC
42055 GACGGCGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 7 0.39
18 7 0.39
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (16 bp):
ACCACGACACGACCCG
Found at i:42524 original size:3 final size:3
Alignment explanation
Indices: 42516--42546 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
42506 CTCGCGCGCT
42516 GCC GCC GCC GCC GCC GCC GCC GCC GCC GCC G
1 GCC GCC GCC GCC GCC GCC GCC GCC GCC GCC G
42547 TCGTCCGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.65, G:0.35, T:0.00
Consensus pattern (3 bp):
GCC
Found at i:42711 original size:22 final size:22
Alignment explanation
Indices: 42684--42736 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
42674 AATTTGGAAA
42684 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
42706 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
42728 ATCGCAACG
1 ATCGCAACG
42737 CGAAATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:42750 original size:22 final size:22
Alignment explanation
Indices: 42725--42785 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
42715 ACAACTGTAG
42725 ACTATCGCAACGCGAAATGGAA
1 ACTATCGCAACGCGAAATGGAA
***
42747 ACTATCGCAATTTGAAATGGAA
1 ACTATCGCAACGCGAAATGGAA
42769 A--ATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
42786 CAACGCAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 13 0.39
22 20 0.61
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (22 bp):
ACTATCGCAACGCGAAATGGAA
Found at i:43079 original size:18 final size:18
Alignment explanation
Indices: 43056--43090 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43046 TATGAACGTC
*
43056 AACGAACTCAAAAATAAA
1 AACGAACACAAAAATAAA
*
43074 AACGAACACAAATATAA
1 AACGAACACAAAAATAA
43091 CTCGATTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.17, G:0.06, T:0.11
Consensus pattern (18 bp):
AACGAACACAAAAATAAA
Found at i:45107 original size:98 final size:98
Alignment explanation
Indices: 44937--45133 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
44927 AATATCATTG
44937 CAGTAGCAGATGCTGATGGAAAATCAAACCTATGGCACCAAAGGGTTGGCCATATGAGCGAGAAA
1 CAGTAGCAGATGCTGATGGAAAATCAAACCTATGGCACCAAAGGGTTGGCCATATGAGCGAGAAA
45002 GGGATGAAGACACTTTTGTCAAAGGGGAAGTTGC
66 GGGATGAAGACA-TTTTGTCAAAGGGGAAGTTGC
45036 CAGTAGCAGATGCTGATGG-AAATCAAACCTATGGCACCAAAGGGTTGGCCATATGAGCGAGAAA
1 CAGTAGCAGATGCTGATGGAAAATCAAACCTATGGCACCAAAGGGTTGGCCATATGAGCGAGAAA
45100 GGGATGAAGACATTTTGTCAAAGGGGAAGTTGC
66 GGGATGAAGACATTTTGTCAAAGGGGAAGTTGC
45133 C
1 C
45134 GGATCTAAAG
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
97 22 0.22
98 57 0.58
99 19 0.19
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.19
Consensus pattern (98 bp):
CAGTAGCAGATGCTGATGGAAAATCAAACCTATGGCACCAAAGGGTTGGCCATATGAGCGAGAAA
GGGATGAAGACATTTTGTCAAAGGGGAAGTTGC
Found at i:51557 original size:20 final size:20
Alignment explanation
Indices: 51532--51704 Score: 233
Period size: 20 Copynumber: 8.6 Consensus size: 20
51522 GATGTTCCAG
* *
51532 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
51552 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51572 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
51592 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51612 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51632 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
51652 AATCGTAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
51673 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
51693 AATCGCAACGCG
1 AATCGCAACGCG
51705 ATTTTTAAAG
Statistics
Matches: 135, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
20 117 0.87
21 18 0.13
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:52038 original size:14 final size:14
Alignment explanation
Indices: 52019--52054 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
52009 ATTGTTTAAT
52019 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
52033 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
52047 TGATTTGT
1 TGATTTGT
52055 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:52256 original size:20 final size:19
Alignment explanation
Indices: 52165--52279 Score: 168
Period size: 19 Copynumber: 6.2 Consensus size: 19
52155 ATGACTATCA
52165 CAATGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
52184 CAATGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
52203 CAATGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
*
52222 CAA--CG--A-GAGAATCG
1 CAATGCGAAATGAAAATCG
52236 CAATGCGGAAATGAAAATCG
1 CAATGC-GAAATGAAAATCG
52256 CAATGCGGAAATGAAAATCG
1 CAATGC-GAAATGAAAATCG
52276 CAAT
1 CAAT
52280 CGATTTTCAT
Statistics
Matches: 88, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 1 0.01
17 3 0.03
19 42 0.48
20 31 0.35
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
CAATGCGAAATGAAAATCG
Found at i:52304 original size:19 final size:19
Alignment explanation
Indices: 52280--52575 Score: 433
Period size: 19 Copynumber: 16.3 Consensus size: 19
52270 AAATCGCAAT
52280 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52299 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52318 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52337 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52356 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52375 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52394 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
52413 CGA--TTC-TCTCG--TTG
1 CGATTTTCATTTCGCATTG
52427 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52446 CGATTTTCATTTCCGCATTG
1 CGATTTTCATTT-CGCATTG
* *
52466 CGA--TTC-TCTCG--TTA
1 CGATTTTCATTTCGCATTG
52480 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52499 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52518 CGATTTTCATTTCCGCATTG
1 CGATTTTCATTT-CGCATTG
52538 CGATTTTCA--T-G--TTG
1 CGATTTTCATTTCGCATTG
*
52552 GGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52571 CGATT
1 CGATT
52576 CTCTCGTTGC
Statistics
Matches: 252, Mismatches: 8, Indels: 34
0.86 0.03 0.12
Matches are distributed among these distances:
14 22 0.09
16 14 0.06
17 14 0.06
18 4 0.02
19 172 0.68
20 26 0.10
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:54887 original size:12 final size:12
Alignment explanation
Indices: 54870--54894 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54860 TCTTCGGGGA
54870 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54882 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54894 C
1 C
54895 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:55103 original size:24 final size:24
Alignment explanation
Indices: 55069--55115 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
55059 CTGAAACATC
55069 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
55093 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
55116 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:55835 original size:20 final size:20
Alignment explanation
Indices: 55807--56035 Score: 235
Period size: 20 Copynumber: 11.4 Consensus size: 20
55797 AAATTTCAGT
* * *
55807 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
55827 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
55847 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
55867 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
55887 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
55907 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
55927 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
55947 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
55967 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
55987 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
56007 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
56027 GTTGCGATT
1 GTTGCGATT
56036 CTTGAAAATC
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:56088 original size:21 final size:20
Alignment explanation
Indices: 56003--56100 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
55993 ATTTATGTGT
* *
56003 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
56023 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
56044 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
56065 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
56086 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
56101 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:56096 original size:42 final size:43
Alignment explanation
Indices: 56003--56101 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
55993 ATTTATGTGT
* *
56003 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
56044 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
56086 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
56102 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:56771 original size:2 final size:2
Alignment explanation
Indices: 56764--56800 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
56754 CTATTACAAA
56764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56801 ATAACTACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58124 original size:40 final size:38
Alignment explanation
Indices: 58070--58144 Score: 105
Period size: 40 Copynumber: 1.9 Consensus size: 38
58060 GTTTATTTTT
*
58070 TTTTTGTTTCATTTTAGTACTTCACCATTAAAAATTTTAG
1 TTTTTGTTTAATTTTAGTA--TCACCATTAAAAATTTTAG
* *
58110 TTTTTGTTTAATTTTAGTATCCCCATTCAAAATTT
1 TTTTTGTTTAATTTTAGTATCACCATTAAAAATTT
58145 AACGTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 14 0.44
40 18 0.56
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (38 bp):
TTTTTGTTTAATTTTAGTATCACCATTAAAAATTTTAG
Found at i:59886 original size:23 final size:23
Alignment explanation
Indices: 59824--59887 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
59814 TGAAAACTAC
*
59824 TAAAAGACAGAGAAAAACGTGTCA
1 TAAAA-ACAGAGATAAACGTGTCA
* * * *
59848 CAAAGACATA-ACTAAATGTGTCA
1 TAAAAACAGAGA-TAAACGTGTCA
59871 TAAAAACAGAGATAAAC
1 TAAAAACAGAGATAAAC
59888 ATATTATAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 5
0.67 0.21 0.12
Matches are distributed among these distances:
22 1 0.03
23 24 0.83
24 4 0.14
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.16
Consensus pattern (23 bp):
TAAAAACAGAGATAAACGTGTCA
Found at i:71100 original size:13 final size:13
Alignment explanation
Indices: 71082--71109 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
71072 CAGAGGATTT
71082 TCCCAGCTGCTTC
1 TCCCAGCTGCTTC
71095 TCCCAGCTGCTTC
1 TCCCAGCTGCTTC
71108 TC
1 TC
71110 TAACATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.46, G:0.14, T:0.32
Consensus pattern (13 bp):
TCCCAGCTGCTTC
Found at i:75037 original size:39 final size:39
Alignment explanation
Indices: 74994--75097 Score: 138
Period size: 39 Copynumber: 2.7 Consensus size: 39
74984 TCTGATTCTC
* * * *
74994 TATTTCACCCTAATATTCTATATTCTTAATTTCTTAAAT
1 TATTTCACCCTAACAATCTAAATTATTAATTTCTTAAAT
*
75033 TATTTCACCATAACAATCTAAATTATTAATTTCTTAAAT
1 TATTTCACCCTAACAATCTAAATTATTAATTTCTTAAAT
* *
75072 TA-TTCAGCCTAACAACCTAAATTATT
1 TATTTCACCCTAACAATCTAAATTATT
75098 TCTCAAATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 21 0.37
39 36 0.63
ACGTcount: A:0.37, C:0.18, G:0.01, T:0.44
Consensus pattern (39 bp):
TATTTCACCCTAACAATCTAAATTATTAATTTCTTAAAT
Found at i:75094 original size:38 final size:39
Alignment explanation
Indices: 75019--75097 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
75009 TTCTATATTC
*
75019 TTAATTTCTTAAATTATTTCACCATAACAATCTAAATTA
1 TTAATTTCTTAAATTATTTCACCATAACAACCTAAATTA
75058 TTAATTTCTTAAATTA-TTCAGCC-TAACAACCTAAATTA
1 TTAATTTCTTAAATTATTTCA-CCATAACAACCTAAATTA
75096 TT
1 TT
75098 TCTCAAATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
38 20 0.53
39 18 0.47
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.43
Consensus pattern (39 bp):
TTAATTTCTTAAATTATTTCACCATAACAACCTAAATTA
Found at i:75508 original size:17 final size:17
Alignment explanation
Indices: 75469--75509 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
75459 AACCCTATTA
* *
75469 AAAATCATAAGCTCCTC
1 AAAATCATAACCTCCAC
*
75486 ATAATCATAACCTCCAC
1 AAAATCATAACCTCCAC
75503 AAAATCA
1 AAAATCA
75510 ATCTAATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAATCATAACCTCCAC
Found at i:76041 original size:14 final size:15
Alignment explanation
Indices: 76012--76094 Score: 80
Period size: 14 Copynumber: 5.5 Consensus size: 15
76002 GTATGGATTG
76012 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
76027 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
** * *
76041 ATTTATTAGTATGGATTG
1 ATTTATT--T-TAAAATA
76059 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
76074 GTTTATTTT-AAATA
1 ATTTATTTTAAAATA
76088 ATTTATT
1 ATTTATT
76095 AGTATGGATT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
14 23 0.42
15 20 0.36
16 2 0.04
17 1 0.02
18 9 0.16
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:76050 original size:47 final size:47
Alignment explanation
Indices: 75994--76173 Score: 246
Period size: 47 Copynumber: 3.9 Consensus size: 47
75984 TAATAAGGTT
75994 ATTTATTAGTATGGATTGATTTATTTTAAAATAATTTATTTTAAATA
1 ATTTATTAGTATGGATTGATTTATTTTAAAATAATTTATTTTAAATA
*
76041 ATTTATTAGTATGGATTGATTTATTTTAAAATAGTTTATTTTAAATA
1 ATTTATTAGTATGGATTGATTTATTTTAAAATAATTTATTTTAAATA
* *
76088 ATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA-TTT--ATT
1 ATTTATTAGTATGGATTGATTTATTTT-AAA-ATA-ATTTATTTTAAATA
76135 ATTGTAGTT-GTATGGATTGATTT-TTTT-AAATAATTTATT
1 ATT-TA-TTAGTATGGATTGATTTATTTTAAAATAATTTATT
76174 AGTATGGATT
Statistics
Matches: 122, Mismatches: 5, Indels: 15
0.86 0.04 0.11
Matches are distributed among these distances:
43 4 0.03
44 4 0.03
45 2 0.02
47 82 0.67
48 19 0.16
49 8 0.07
50 3 0.02
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (47 bp):
ATTTATTAGTATGGATTGATTTATTTTAAAATAATTTATTTTAAATA
Found at i:76162 original size:79 final size:80
Alignment explanation
Indices: 76075--76372 Score: 555
Period size: 79 Copynumber: 3.8 Consensus size: 80
76065 TTTAAAATAG
*
76075 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTGT
1 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
76140 AGTTGTATGGATTGA
66 AGTTGTATGGATTGA
76155 TTT-TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
1 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
76219 AGTTGTATGGATTGA
66 AGTTGTATGGATTGA
* *
76234 TTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTAAAATATGGAATGATTTATTATTGA
1 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
76298 AGTTGTATGGATTGA
66 AGTTGTATGGATTGA
76313 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
76373 TTAAAAAAAA
Statistics
Matches: 212, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
79 155 0.73
80 57 0.27
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (80 bp):
TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
AGTTGTATGGATTGA
Found at i:76190 original size:18 final size:18
Alignment explanation
Indices: 76167--76214 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
76157 TTTTTAAATA
*
76167 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
76185 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
76207 ATTTATTA
1 ATTTATTA
76215 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:76325 original size:159 final size:159
Alignment explanation
Indices: 76075--76372 Score: 553
Period size: 159 Copynumber: 1.9 Consensus size: 159
76065 TTTAAAATAG
* *
76075 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTGT
1 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGAATGATTTATTATTGA
76140 AGTTGTATGGATTGATTTTTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
66 AGTTGTATGGATTGATTTTTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
76205 TGATTTATTATTGTAGTTGTATGGATTGA
131 TGATTTATTATTGTAGTTGTATGGATTGA
*
76234 TTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTAAAATATGGAATGATTTATTATTGA
1 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGAATGATTTATTATTGA
76298 AGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGA
66 AGTTGTATGGATTGATTT-TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGA
76363 TTGATTTATT
130 TTGATTTATT
76373 TTAAAAAAAA
Statistics
Matches: 135, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
158 43 0.32
159 92 0.68
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (159 bp):
TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGAATGATTTATTATTGA
AGTTGTATGGATTGATTTTTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
TGATTTATTATTGTAGTTGTATGGATTGA
Found at i:76360 original size:22 final size:22
Alignment explanation
Indices: 76335--76378 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
76325 AATTTATTAG
76335 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
76357 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
76379 AAAATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:77409 original size:17 final size:17
Alignment explanation
Indices: 77389--77451 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
77379 TTTTTGGGTT
77389 TGATTTTGTGGAGCTTA
1 TGATTTTGTGGAGCTTA
*
77406 TGATTTTCAATGG-G-TTA
1 TGATTTT--GTGGAGCTTA
77423 TGA-TTTGTGGAGCTTA
1 TGATTTTGTGGAGCTTA
*
77439 TGATTTTTTGGAG
1 TGATTTTGTGGAG
77452 GTTAGGGCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 3 0.08
15 1 0.03
16 9 0.24
17 21 0.55
18 1 0.03
19 3 0.08
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.48
Consensus pattern (17 bp):
TGATTTTGTGGAGCTTA
Found at i:77420 original size:33 final size:33
Alignment explanation
Indices: 77383--77445 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
77373 GATAGGTTTT
77383 TGGGTT-TGATTTTGTGGAGCTTATGATTTTCAA
1 TGGGTTATGA-TTTGTGGAGCTTATGATTTTCAA
77416 TGGGTTATGATTTGTGGAGCTTATGATTTT
1 TGGGTTATGATTTGTGGAGCTTATGATTTT
77446 TTGGAGGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.17, C:0.05, G:0.29, T:0.49
Consensus pattern (33 bp):
TGGGTTATGATTTGTGGAGCTTATGATTTTCAA
Found at i:77441 original size:16 final size:16
Alignment explanation
Indices: 77393--77444 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
77383 TGGGTTTGAT
77393 TTTGTGGAGCTTATGA
1 TTTGTGGAGCTTATGA
*
77409 TTTTCAATGG-G-TTATGA
1 -TTT--GTGGAGCTTATGA
77426 TTTGTGGAGCTTATGA
1 TTTGTGGAGCTTATGA
77442 TTT
1 TTT
77445 TTTGGAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 1 0.03
16 12 0.41
17 9 0.31
18 1 0.03
19 3 0.10
ACGTcount: A:0.19, C:0.06, G:0.27, T:0.48
Consensus pattern (16 bp):
TTTGTGGAGCTTATGA
Found at i:89791 original size:24 final size:24
Alignment explanation
Indices: 89760--89811 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
89750 AATGTCACGA
* *
89760 ACTG-GACTCCGGCTCCTGCTTCT
1 ACTGCGACTCCGGCTCCAGCTCCT
* *
89783 ACTGCGACTTCTGCTCCAGCTCCT
1 ACTGCGACTCCGGCTCCAGCTCCT
89807 ACTGC
1 ACTGC
89812 TTCTGAGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.12, C:0.40, G:0.19, T:0.29
Consensus pattern (24 bp):
ACTGCGACTCCGGCTCCAGCTCCT
Found at i:94825 original size:2 final size:2
Alignment explanation
Indices: 94818--94842 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94808 CTTTTGCAGT
94818 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
94843 TGTTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98932 original size:29 final size:30
Alignment explanation
Indices: 98899--98956 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
98889 AATTTTTCTA
**
98899 GTGATTAAAATGTAAGTTTTG-AAAGTTTG
1 GTGATTAAAATGTAAACTTTGAAAAGTTTG
*
98928 GTGATTAAAGTGTAAACTTTGAAAAGTTT
1 GTGATTAAAATGTAAACTTTGAAAAGTTT
98957 AGGGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (30 bp):
GTGATTAAAATGTAAACTTTGAAAAGTTTG
Found at i:100603 original size:21 final size:21
Alignment explanation
Indices: 100572--100751 Score: 215
Period size: 21 Copynumber: 8.6 Consensus size: 21
100562 TTTCAGATTT
*
100572 GCAACGCGAACTTCGACTATC
1 GCAATGCGAACTTCGACTATC
*
100593 ACAATGCGAACTTCGACTATC
1 GCAATGCGAACTTCGACTATC
* *
100614 GCAATACGAACTTGGACTATC
1 GCAATGCGAACTTCGACTATC
*
100635 GCAATGCGAA-TAT-GTA-AATC
1 GCAATGCGAACT-TCG-ACTATC
*
100655 GCAATGCGATA-GTCGACTATC
1 GCAATGCGA-ACTTCGACTATC
*
100676 GCAATGCGAACTTGGACTATC
1 GCAATGCGAACTTCGACTATC
* *
100697 GCAACGCGAACTTGGACTATC
1 GCAATGCGAACTTCGACTATC
*
100718 GCAACGCGAACTTCGACTATC
1 GCAATGCGAACTTCGACTATC
100739 GCAATGCGAACTT
1 GCAATGCGAACTT
100752 GCGAACTTGG
Statistics
Matches: 139, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
20 17 0.12
21 122 0.88
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (21 bp):
GCAATGCGAACTTCGACTATC
Found at i:100673 original size:41 final size:41
Alignment explanation
Indices: 100628--100900 Score: 182
Period size: 41 Copynumber: 6.4 Consensus size: 41
100618 TACGAACTTG
100628 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
* * * * *
100669 GACTATCGCAATGCGAACT-TGGACTATCGCAACGCGA-ACTTG
1 GACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGATA-GTC
* * * *
100711 GACTATCGCAACGCGAACT-TCG-ACTATCGCAATGCGAACTTGCGAACTTG
1 GACTATCGCAATGCGAA-TAT-GTA-AATCGCAATGCG-A--T----A-GTC
* *
100761 GACTATCGTAATGCGAATATGTAAATTGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
100802 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
* ** * *
100843 GAAGT-TCGCGTTGCG-ATA-GTCCAAGTTCGCATTGCGATAGTC
1 G-ACTATCGCAATGCGAATATGT--AA-ATCGCAATGCGATAGTC
*
100885 GACTATCGCATTGCGA
1 GACTATCGCAATGCGA
100901 TTTACATATT
Statistics
Matches: 190, Mismatches: 22, Indels: 38
0.76 0.09 0.15
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 74 0.39
42 73 0.38
43 2 0.01
46 1 0.01
48 1 0.01
49 12 0.06
50 22 0.12
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
Found at i:100795 original size:20 final size:20
Alignment explanation
Indices: 100765--100837 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
100755 AACTTGGACT
*
100765 ATCGTAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
* *
100785 ATTGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
100806 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
100826 ATCGCAATGCGA
1 ATCGCAATGCGA
100838 TAGTCGAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
18 2 0.05
19 3 0.07
20 22 0.51
21 11 0.26
22 3 0.07
23 2 0.05
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:100803 original size:133 final size:125
Alignment explanation
Indices: 100572--100818 Score: 377
Period size: 133 Copynumber: 1.9 Consensus size: 125
100562 TTTCAGATTT
*
100572 GCAACGCGAACTTCGACTATCACAATGCGAACTTCGACTATCGCAATACGAACTTGGACTATCGC
1 GCAACGCGAACTTCGACTATCACAACGCGAACTTCGACTATCGCAATACGAACTTGGACTATCGC
100637 AATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGGACTATC
66 AATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGGACTATC
* *
100697 GCAACGCGAACTTGGACTATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGCGAACTTGG
1 GCAACGCGAACTTCGACTATCACAACGCGAACTTCGACTATCGCAAT----A----CGAACTTGG
* *
100762 ACTATCGTAATGCGAATATGTAAATTGCAATGCGATAGTCGACTATCGCAATGCGAA
58 ACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCAATGCGAA
100819 TATGTAAATC
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
125 44 0.40
129 1 0.01
133 64 0.59
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (125 bp):
GCAACGCGAACTTCGACTATCACAACGCGAACTTCGACTATCGCAATACGAACTTGGACTATCGC
AATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTGGACTATC
Found at i:100814 original size:21 final size:21
Alignment explanation
Indices: 100788--100901 Score: 85
Period size: 21 Copynumber: 5.5 Consensus size: 21
100778 TATGTAAATT
100788 GCAATGCGATAGTCGACTATC
1 GCAATGCGATAGTCGACTATC
*
100809 GCAATGCGAATA-T-GTA-AATC
1 GCAATGCG-ATAGTCG-ACTATC
*
100829 GCAATGCGATAGTCGAAGT-TC
1 GCAATGCGATAGTCG-ACTATC
** * *
100850 GCGTTGCGATAGTCCAAGT-TC
1 GCAATGCGATAGT-CGACTATC
*
100871 GCATTGCGATAGTCGACTATC
1 GCAATGCGATAGTCGACTATC
*
100892 GCATTGCGAT
1 GCAATGCGAT
100902 TTACATATTC
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.04
20 16 0.21
21 54 0.70
22 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (21 bp):
GCAATGCGATAGTCGACTATC
Found at i:100889 original size:83 final size:83
Alignment explanation
Indices: 100792--100963 Score: 233
Period size: 83 Copynumber: 2.1 Consensus size: 83
100782 TAAATTGCAA
* * * *
100792 TGCGATAGTCGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGACTATCGCAATGCG-AT-T-TACATATTCACAATGCGATAGTCCAAGTTCACAT
100854 TGCGATAGTCCAAGTTCGCAT
63 TGCGATAGTCCAAGTTCGCAT
* *
100875 TGCGATAGTCGACTATCGCATTGCGATTTACATATTCACATTGCGATAGTCCAAGTTCACATTGC
1 TGCGATAGTCGACTATCGCAATGCGATTTACATATTCACAATGCGATAGTCCAAGTTCACATTGC
*
100940 GATAGTCCAAGTTCGCGT
66 GATAGTCCAAGTTCGCAT
100958 TGCGAT
1 TGCGAT
100964 TTATTCCAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
80 2 0.03
81 2 0.03
82 3 0.04
83 72 0.91
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (83 bp):
TGCGATAGTCGACTATCGCAATGCGATTTACATATTCACAATGCGATAGTCCAAGTTCACATTGC
GATAGTCCAAGTTCGCAT
Found at i:100935 original size:21 final size:21
Alignment explanation
Indices: 100827--100991 Score: 151
Period size: 21 Copynumber: 7.9 Consensus size: 21
100817 AATATGTAAA
* *
100827 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
100848 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
100869 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
100889 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
*
100910 TCACATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
100931 TCACATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
100952 TCGCGTTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAGT
100975 TCG--TTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
100992 AATCGCAACG
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.06
20 16 0.13
21 86 0.71
22 1 0.01
23 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:101071 original size:21 final size:21
Alignment explanation
Indices: 101045--101109 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
101035 TCTCTAAAAA
* *
101045 GATAGTCCAAGTTCGCATTGT
1 GATAGTCGAAGTTCGCATTGC
101066 GATAGTCGAAGTTCGCATTGC
1 GATAGTCGAAGTTCGCATTGC
*
101087 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCGAAGTTCGCATTGC
101108 GA
1 GA
101110 ATCTGGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (21 bp):
GATAGTCGAAGTTCGCATTGC
Found at i:101723 original size:29 final size:29
Alignment explanation
Indices: 101713--101775 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
101703 TAATTTAATA
* *
101713 TAAAAATATATATTATTTGTATCTTCACT
1 TAAAAATATATTTTATTTGTATCTTCAAT
* *
101742 TAAAAATATATTTTATTTTTATCTTCACT
1 TAAAAATATATTTTATTTGTATCTTCAAT
101771 TAAAA
1 TAAAA
101776 TAAAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.49
Consensus pattern (29 bp):
TAAAAATATATTTTATTTGTATCTTCAAT
Found at i:101840 original size:27 final size:25
Alignment explanation
Indices: 101803--101853 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
101793 AAATTAATAA
*
101803 TAAAATATTTAAATATATTTTAAAT
1 TAAAATATTTAAAAATATTTTAAAT
101828 TAAAATATTTTTAAAAATATTTTAAA
1 TAAAATA--TTTAAAAATATTTTAAA
101854 GTGGTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAAATATTTAAAAATATTTTAAAT
Found at i:106185 original size:36 final size:36
Alignment explanation
Indices: 106138--106447 Score: 548
Period size: 36 Copynumber: 8.6 Consensus size: 36
106128 AGACACATCA
*
106138 TTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
*
106174 TTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
*
106210 TTCCGTTCGACTTGAATCGGAAGTGCCAATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
106246 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
*
106282 TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
106318 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
*
106354 CTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
* *
106390 CTCCGTTCGACTTGAATCGGAAGTGCAGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
*
106426 CTCCGTTCGACTTGAATCGGAA
1 TTCCGTTCGACTTGAATCGGAA
106448 CAAACTTTTG
Statistics
Matches: 267, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 267 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (36 bp):
TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
Found at i:109825 original size:21 final size:21
Alignment explanation
Indices: 109774--109869 Score: 70
Period size: 20 Copynumber: 4.7 Consensus size: 21
109764 GTTTCCAGAT
**
109774 TCGCAACGCGATTTTG-ACTA
1 TCGCAACGCGATTTTGTAAAA
**
109794 TCGCATTGCGATTTTGTAAAA
1 TCGCAACGCGATTTTGTAAAA
* * *
109815 TCGCAAAGCGAATATGT-AAA
1 TCGCAACGCGATTTTGTAAAA
** **
109835 TCGCAACGCGATAATACAAAA
1 TCGCAACGCGATTTTGTAAAA
*
109856 TCGCAATGCGATTT
1 TCGCAACGCGATTT
109870 GCAAAGCGCC
Statistics
Matches: 58, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (21 bp):
TCGCAACGCGATTTTGTAAAA
Found at i:110462 original size:20 final size:19
Alignment explanation
Indices: 110428--110532 Score: 76
Period size: 20 Copynumber: 5.6 Consensus size: 19
110418 AAAATCGCAA
*
110428 CGATAGTCAAATTCGCGTTG
1 CGATAGTC-ATTTCGCGTTG
* *
110448 TGATAGTCATTTTCGTGTTG
1 CGATAGTCA-TTTCGCGTTG
**
110468 CGATTTTCATTTCGCGTTG
1 CGATAGTCATTTCGCGTTG
*
110487 CGAT--T-A--TCTCGTTG
1 CGATAGTCATTTCGCGTTG
* *
110501 CGATAGTCAAATTCGCGTTA
1 CGATAGTC-ATTTCGCGTTG
110521 CGATAGTCATTT
1 CGATAGTCATTT
110533 TTGTGTTGCG
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 1 0.01
18 1 0.01
19 17 0.25
20 35 0.52
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (19 bp):
CGATAGTCATTTCGCGTTG
Found at i:110486 original size:19 final size:20
Alignment explanation
Indices: 110439--110491 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
110429 GATAGTCAAA
* *
110439 TTCGCGTTGTGATAGTCATT
1 TTCGCGTTGCGATTGTCATT
* *
110459 TTCGTGTTGCGATTTTCA-T
1 TTCGCGTTGCGATTGTCATT
110478 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
110492 ATCTCGTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCGATTGTCATT
Found at i:110566 original size:73 final size:73
Alignment explanation
Indices: 110428--110566 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
110418 AAAATCGCAA
** * * ***
110428 CGATAGTCAAATTCGCGTTGTGATAGTCATTTTCGTGTTGCGATTTTCATTTCGCGTTGCGATTA
1 CGATAGTCAAATTCGCGTTACGATAGTCATTTTCGTGTTGCGATTTTAATTTCGAGAAACGATTA
110493 TCTCGTTG
66 TCTCGTTG
* *
110501 CGATAGTCAAATTCGCGTTACGATAGTCATTTTTGTGTTGCGATTTTAAGTTTC-AGAAACTATT
1 CGATAGTCAAATTCGCGTTACGATAGTCATTTTCGTGTTGCGATTTTAA-TTTCGAGAAACGATT
110565 AT
65 AT
110567 TCTTCTGCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 52 0.93
74 4 0.07
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.42
Consensus pattern (73 bp):
CGATAGTCAAATTCGCGTTACGATAGTCATTTTCGTGTTGCGATTTTAATTTCGAGAAACGATTA
TCTCGTTG
Found at i:113795 original size:103 final size:103
Alignment explanation
Indices: 113616--113827 Score: 379
Period size: 103 Copynumber: 2.1 Consensus size: 103
113606 GGTCTACGCA
*
113616 GTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
1 GTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
* *
113681 CTTGGCATATGTATATGATTCTTAAGGAATGATATATG
66 CCTAGCATATGTATATGATTCTTAAGGAATGATATATG
113719 GTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
1 GTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
* *
113784 CCTAGTATATGTATATGATTCTTAAGGAATGATATGTG
66 CCTAGCATATGTATATGATTCTTAAGGAATGATATATG
113822 GTCCTT
1 GTCCTT
113828 ATGGACATTA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
CCTAGCATATGTATATGATTCTTAAGGAATGATATATG
Found at i:113877 original size:23 final size:23
Alignment explanation
Indices: 113846--113911 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
113836 TATTATATGG
113846 CACTACGGTGCAATTCTACGTGA
1 CACTACGGTGCAATTCTACGTGA
* * *
113869 CACTCCGGTGTAATTCTACGTGG
1 CACTACGGTGCAATTCTACGTGA
** *
113892 CACTTTGGTGCAATTATACG
1 CACTACGGTGCAATTCTACG
113912 AGTTGTGGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (23 bp):
CACTACGGTGCAATTCTACGTGA
Found at i:115731 original size:20 final size:20
Alignment explanation
Indices: 115706--115774 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
115696 CGAAACTTAA
**
115706 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAGTTGACT
115726 ATCGCAACGCGAAGTTGACT
1 ATCGCAACGCGAAGTTGACT
115746 ATCGCAACGCGAAGTTGACT
1 ATCGCAACGCGAAGTTGACT
115766 ATCGCAACG
1 ATCGCAACG
115775 GGATAATCGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAGTTGACT
Found at i:115896 original size:20 final size:20
Alignment explanation
Indices: 115871--115939 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
115861 GCGATTATCC
*
115871 CGTTGCGATAGTCAACTTCG
1 CGTTGCGATAGTCAATTTCG
115891 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
* *
115911 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
*
115931 TGTTGCGAT
1 CGTTGCGAT
115940 TTAAGTTTCG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:115950 original size:19 final size:20
Alignment explanation
Indices: 115926--115968 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
115916 CGATAGTCAT
115926 TTTCGTGTTGCGA-TTTAAG
1 TTTCGTGTTGCGATTTTAAG
115945 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
115965 TTTC
1 TTTC
115969 AGAAACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:116496 original size:21 final size:22
Alignment explanation
Indices: 116472--116532 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
116462 CTCCTATCGT
116472 TCAAGAGGCCCCTATCATCC-C
1 TCAAGAGGCCCCTATCATCCAC
* ** *
116493 TCAAGAGTCCCCTCCCA-CCAT
1 TCAAGAGGCCCCTATCATCCAC
*
116514 TCAAGAGGCCCCTGTCATC
1 TCAAGAGGCCCCTATCATC
116533 GTTGAAGAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.15, T:0.20
Consensus pattern (22 bp):
TCAAGAGGCCCCTATCATCCAC
Found at i:116517 original size:42 final size:42
Alignment explanation
Indices: 116471--116562 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
116461 TCTCCTATCG
116471 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCA
1 TTCAAGAGGCCCCTATCATCCCTCAAGAGGT-CCCTCCCACCA
* ** *
116513 TTCAAGAGGCCCCTGTCATCGTTGAAGAGGTCCCTCCCACCA
1 TTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCACCA
116555 TTCAAGAG
1 TTCAAGAG
116563 CCCGATTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.24, C:0.38, G:0.17, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCACCA
Found at i:116561 original size:21 final size:21
Alignment explanation
Indices: 116493--116562 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
116483 CTATCATCCC
116493 TCAAGA-GTCCCCTCCCACCAT
1 TCAAGAGGT-CCCTCCCACCAT
* ** * *
116514 TCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGTCCCTCCCACCAT
*
116535 TGAAGAGGTCCCTCCCACCAT
1 TCAAGAGGTCCCTCCCACCAT
116556 TCAAGAG
1 TCAAGAG
116563 CCCGATTCAT
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.20
Consensus pattern (21 bp):
TCAAGAGGTCCCTCCCACCAT
Found at i:117966 original size:14 final size:14
Alignment explanation
Indices: 117947--118008 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
117937 TTGCTTGTTT
117947 AATTGATTTGTAAA
1 AATTGATTTGTAAA
117961 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
117975 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
117990 TATTGATGTGTAAA
1 AATTGATTTGTAAA
118004 TAATT
1 -AATT
118009 CTTATTTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:117981 original size:28 final size:29
Alignment explanation
Indices: 117949--118003 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
117939 GCTTGTTTAA
*
117949 TTGATTTG-TAAAAATTGATTTGTAAAAG
1 TTGATTTGTTAAAAATTGATGTGTAAAAG
* *
117977 TTGATTTGTTTAATATTGATGTGTAAA
1 TTGATTTGTTAAAAATTGATGTGTAAA
118004 TAATTCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (29 bp):
TTGATTTGTTAAAAATTGATGTGTAAAAG
Found at i:118127 original size:20 final size:20
Alignment explanation
Indices: 118102--118155 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
118092 AGGTACACTT
*
118102 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
*
118122 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
*
118142 TTGCAACGCGAAAG
1 TCGCAACGCGAAAG
118156 TCAATTCGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:118226 original size:20 final size:20
Alignment explanation
Indices: 118198--118348 Score: 170
Period size: 20 Copynumber: 7.8 Consensus size: 20
118188 GCGATTTTCT
* * *
118198 CGTTTCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
* *
118218 CGTTGCGATAATTAAATTCG
1 CGTTGCGATAGTCAAATTCG
118238 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
118258 CGTTGCGATAGTCAAATTTA
1 CGTTGCGATAGTCAAATTCG
*
118278 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
118292 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
118312 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
118332 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
118349 GAATGTGTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.11
16 1 0.01
18 1 0.01
20 98 0.88
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:118267 original size:94 final size:93
Alignment explanation
Indices: 118149--118348 Score: 280
Period size: 94 Copynumber: 2.1 Consensus size: 93
118139 AAATTGCAAC
* * *
118149 GCGAAAGTC-AATTCGCGTTGCGATAGTCTAA-TACGATTTGCGATTTTCT-CGTTTCGATAGTC
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTACG--TTGCGATTTT-TGCGTTGCGATAGTC
*
118211 AAATACCCGTTGCGATAATTAAATTCGCGTT
63 AAATACCCGTTGCGATAATCAAATTCGCGTT
118242 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTTACGTTGCGATTTTTGCGTTGCGATAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAA-TTACGTTGCGATTTTTGCGTTGCGATAGTCAA
* *
118307 ATTCGCGTTGCGATAATCAAATTCGCGTT
65 ATACCCGTTGCGATAATCAAATTCGCGTT
*
118336 GCGATATTCAAAT
1 GCGATAGTCAAAT
118349 GAATGTGTAA
Statistics
Matches: 96, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
93 9 0.09
94 83 0.86
96 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (93 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTACGTTGCGATTTTTGCGTTGCGATAGTCAAA
TACCCGTTGCGATAATCAAATTCGCGTT
Found at i:118295 original size:54 final size:54
Alignment explanation
Indices: 118237--118340 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
118227 AATTAAATTC
* *
118237 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTTACGTTGCGATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGATTTTT
*
118291 GCGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGAT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGAT
118341 ATTCAAATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (54 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGATTTTT
Found at i:118575 original size:140 final size:140
Alignment explanation
Indices: 118323--118601 Score: 531
Period size: 140 Copynumber: 2.0 Consensus size: 140
118313 GTTGCGATAA
*
118323 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATGGC
1 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGC
118388 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
118453 CACATAATAG
131 CACATAATAG
*
118463 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTTATAACAACTGAACAGATCATAGC
1 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGC
*
118528 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAACGTTTACACATAAAATA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
118593 CACATAATA
131 CACATAATA
118602 CAACGTTTGC
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 136 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (140 bp):
TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGC
AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
CACATAATAG
Found at i:118682 original size:18 final size:18
Alignment explanation
Indices: 118659--118693 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
118649 AAGCCGGTTG
*
118659 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
118677 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
118694 GCCTTTTTCT
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:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:119955 original size:35 final size:35
Alignment explanation
Indices: 119909--119976 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
119899 ACTATCGACC
119909 TTAAATGTGCTCCGTCAACTATAATAACTGGGCCT
1 TTAAATGTGCTCCGTCAACTATAATAACTGGGCCT
119944 TTAAATGTGCTCCGTCAACTATAATAACTGGGC
1 TTAAATGTGCTCCGTCAACTATAATAACTGGGC
119977 GCATGCAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (35 bp):
TTAAATGTGCTCCGTCAACTATAATAACTGGGCCT
Found at i:121067 original size:256 final size:260
Alignment explanation
Indices: 120712--121226 Score: 954
Period size: 256 Copynumber: 2.0 Consensus size: 260
120702 CTGGCATATT
120712 CAGTTATACTCCCGTGGCATTTCTTCGGGACTTCTTCTTCTTCTTTTTCTTTTCAAGGTTATATG
1 CAGTTATACTCCCGTGGCATTTCTTCGGGACTTCTTCTTCTTCTTTTTCTTTTCAAGGTTATATG
120777 AATTACAGAATGGATGTTCAACATGTTCATTCACAGTCGTAACTTCCTCCTCATTATCATCAACA
66 AATTACAGAATGGATGTTCAACATGTTCATTCACAGTCGTAACTTCCTCCTCATTATCATCAACA
120842 ACATC-T-C-CGGCAGCGGCTGTTTCATCATCAAAATTCGAGTATTGACC-A-ATCAAAATCATT
131 ACATCTTCCTCGGCAGCGGCTGTTTCATCATCAAAATTCGAGTATTGACCAATATCAAAATCATT
120902 ACAC-CAGGGTCTGTTTCTTCTTCTGAAACATCATC-AAATCCGATTATTGACCAAGATCAAAGC
196 ACACGCAGGGTCTGTTTCTTCTTCTGAAACATCATCAAAATCCGATTATTGACCAAGATCAAAGC
120965 CAGTTATACTCCCGTGGCATTTTCTTCGGGGACTTCTTCTTCTTCTTTTTCTTTTTCAAGGTTAT
1 CAGTTATACTCCCGTGGCA-TTTCTTC-GGGACTTCTTCTTCTTCTTTTTC-TTTTCAAGGTTAT
121030 ATGAATTACAGAATGGATGTTCAACATGTTCATTCACAGTCGTAACTTCCTCCTCATTATCATCA
63 ATGAATTACAGAATGGATGTTCAACATGTTCATTCACAGTCGTAACTTCCTCCTCATTATCATCA
121095 ACAACATCTTCCTCGGCAGCGGCTGTTTCATCATCAAAATTCGAGTATTGACCAATATCAAAATC
128 ACAACATCTTCCTCGGCAGCGGCTGTTTCATCATCAAAATTCGAGTATTGACCAATATCAAAATC
121160 ATTACACGCAGGGTCTGTTTCTTCTTCTGAAACATCATCAAAATCCGATTATTGACCAAGATCAA
193 ATTACACGCAGGGTCTGTTTCTTCTTCTGAAACATCATCAAAATCCGATTATTGACCAAGATCAA
121225 AG
258 AG
121227 TCCGGGTATT
Statistics
Matches: 252, Mismatches: 0, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
253 19 0.08
254 7 0.03
255 23 0.09
256 86 0.34
257 1 0.00
258 1 0.00
259 40 0.16
260 1 0.00
261 16 0.06
262 31 0.12
263 27 0.11
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (260 bp):
CAGTTATACTCCCGTGGCATTTCTTCGGGACTTCTTCTTCTTCTTTTTCTTTTCAAGGTTATATG
AATTACAGAATGGATGTTCAACATGTTCATTCACAGTCGTAACTTCCTCCTCATTATCATCAACA
ACATCTTCCTCGGCAGCGGCTGTTTCATCATCAAAATTCGAGTATTGACCAATATCAAAATCATT
ACACGCAGGGTCTGTTTCTTCTTCTGAAACATCATCAAAATCCGATTATTGACCAAGATCAAAGC
Found at i:121230 original size:24 final size:24
Alignment explanation
Indices: 121196--121249 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
121186 CTGAAACATC
*
121196 ATCAAAATCCGATTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
121220 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
121244 ATCAAA
1 ATCAAA
121250 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:122117 original size:20 final size:20
Alignment explanation
Indices: 122070--122117 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
122060 GAAATTCAGT
* *
122070 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGA
122090 GTTGCGATAGTCAGAATCGA
1 GTTGCGATAGTCAGAATCGA
122110 GTTGCGAT
1 GTTGCGAT
122118 TTACATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGA
Found at i:122215 original size:19 final size:19
Alignment explanation
Indices: 122187--122298 Score: 143
Period size: 19 Copynumber: 5.8 Consensus size: 19
122177 GATAGTCAAA
*
122187 ATCGCGTTGCGATTTAGAG
1 ATCGCATTGCGATTTAGAG
* *
122206 ATCGCATTGCGATACTGGAG
1 ATCGCATTGCGAT-TTAGAG
*
122226 ATCGCGTTGCGATTTAGAG
1 ATCGCATTGCGATTTAGAG
* *
122245 ATCGCATTGCGATACTGGAG
1 ATCGCATTGCGAT-TTAGAG
122265 ATCGCATTGCGATTTAGAG
1 ATCGCATTGCGATTTAGAG
*
122284 ATCACATTGCGATTT
1 ATCGCATTGCGATTT
122299 TGTTGGGCAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 46 0.58
20 33 0.42
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (19 bp):
ATCGCATTGCGATTTAGAG
Found at i:122217 original size:39 final size:39
Alignment explanation
Indices: 122167--122296 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 39
122157 AATTTGGAAA
* *
122167 ATCGCAATGCGATAGTCAAAATCGCGTTGCGATTTAGAG
1 ATCGCATTGCGATACTCAAAATCGCGTTGCGATTTAGAG
** *
122206 ATCGCATTGCGATACTGGAGATCGCGTTGCGATTTAGAG
1 ATCGCATTGCGATACTCAAAATCGCGTTGCGATTTAGAG
** * *
122245 ATCGCATTGCGATACTGGAGATCGCATTGCGATTTAGAG
1 ATCGCATTGCGATACTCAAAATCGCGTTGCGATTTAGAG
*
122284 ATCACATTGCGAT
1 ATCGCATTGCGAT
122297 TTTGTTGGGC
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (39 bp):
ATCGCATTGCGATACTCAAAATCGCGTTGCGATTTAGAG
Found at i:128781 original size:32 final size:32
Alignment explanation
Indices: 128735--128801 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
128725 ATGAAATTGC
* *
128735 TTTTCCTCTGCTCTCCTCTTCTTTCCATTCTG
1 TTTTACTCTGCTCTCCTCTTCTTTCCATTATG
128767 TTTTACTCTGCTCTCCTCTTCTTTCCATTATG
1 TTTTACTCTGCTCTCCTCTTCTTTCCATTATG
128799 TTT
1 TTT
128802 GCTTACATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (32 bp):
TTTTACTCTGCTCTCCTCTTCTTTCCATTATG
Found at i:129972 original size:32 final size:32
Alignment explanation
Indices: 129924--129986 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
129914 TTAACTCAAT
*
129924 CTGAAAGCAACCCGAACCAAATTTAACCCGAC
1 CTGAAAGCAACCCGAACCAAAATTAACCCGAC
** * *
129956 CTGAAAGCAATTCGAACGAAAATTAATCCGA
1 CTGAAAGCAACCCGAACCAAAATTAACCCGA
129987 ACTAAAAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (32 bp):
CTGAAAGCAACCCGAACCAAAATTAACCCGAC
Found at i:130434 original size:65 final size:65
Alignment explanation
Indices: 130360--130503 Score: 186
Period size: 65 Copynumber: 2.2 Consensus size: 65
130350 TGCACTACTT
** *
130360 CATGCATCGATGCACTC-CT-AAT-TTAATTGAAATTTCCAATGCATTTAGTGCACCGATGCACA
1 CATGCATCGATGCAC-CGCTGAATATT--TTGAAACATCCAATGCATTCAGTGCACCGATGCACA
*
130422 AGC
63 AGA
* *
130425 CATGCATCGATGCACCGTTGAATATTTTGAAACATCGAATGCATTCAGTGCACCGATGCACAAGA
1 CATGCATCGATGCACCGCTGAATATTTTGAAACATCCAATGCATTCAGTGCACCGATGCACAAGA
130490 CATGCATCGATGCA
1 CATGCATCGATGCA
130504 GCCTGGTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
64 1 0.01
65 64 0.91
66 3 0.04
67 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (65 bp):
CATGCATCGATGCACCGCTGAATATTTTGAAACATCCAATGCATTCAGTGCACCGATGCACAAGA
Found at i:130548 original size:64 final size:63
Alignment explanation
Indices: 130397--130550 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 63
130387 TGAAATTTCC
*
130397 AATGCATTTAGTGCACCGATGCACAAGCCATGCATCGATGCACCGTTGAATATTTTGAAACATCG
1 AATGCATTT-GTGCACCGATGCACAAGACATGCATCGATGCACCG-TGAATATTTTGAAACATCG
* ** *
130462 AATGCATTCAGTGCACCGATGCACAAGACATGCATCGATGCAGCC-TGGTTATTTTGTAACATCG
1 AATGCATT-TGTGCACCGATGCACAAGACATGCATCGATGCA-CCGTGAATATTTTGAAACATCG
*
130526 AA-GAAGATTTGTGCACCGATGCACA
1 AATG--CATTTGTGCACCGATGCACA
130551 CCCTAGTGCA
Statistics
Matches: 78, Mismatches: 7, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
63 1 0.01
64 33 0.42
65 42 0.54
66 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (63 bp):
AATGCATTTGTGCACCGATGCACAAGACATGCATCGATGCACCGTGAATATTTTGAAACATCG
Found at i:137062 original size:2 final size:2
Alignment explanation
Indices: 137055--137094 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
137045 GCCATATAAC
137055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
137095 CATGTTAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141257 original size:23 final size:23
Alignment explanation
Indices: 141227--141285 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
141217 CGTATAAATG
*
141227 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACATAGAATTA
* * *
141250 CACTGAAGTGCCGCATAGAATTG
1 CACCGAAGTGCCACATAGAATTA
141273 CACCGAAGTGCCA
1 CACCGAAGTGCCA
141286 TATAAAATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTA
Found at i:143341 original size:32 final size:31
Alignment explanation
Indices: 143303--143379 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
143293 CGGGGCTGTG
*
143303 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
143335 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
143366 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
143380 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:144275 original size:17 final size:17
Alignment explanation
Indices: 144255--144293 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
144245 GAAAGTCAAC
* *
144255 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCA
144272 GGTCAACAGTCGGGTCA
1 GGTCAACAGTCGGGTCA
144289 GGTCA
1 GGTCA
144294 GTCGGGTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.23, G:0.41, T:0.18
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCA
Found at i:144326 original size:19 final size:19
Alignment explanation
Indices: 144304--144352 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
144294 GTCGGGTCGA
*
144304 GTCAGACCGGTCC-AGACCG
1 GTCAAACCGGTCCGA-ACCG
*
144323 GTCAAACCGGTTCGAACCG
1 GTCAAACCGGTCCGAACCG
144342 GTCAAACCGGT
1 GTCAAACCGGT
144353 TCAAAACTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (19 bp):
GTCAAACCGGTCCGAACCG
Found at i:144333 original size:9 final size:9
Alignment explanation
Indices: 144304--144367 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
144294 GTCGGGTCGA
*
144304 GTCAGACCG
1 GTCAAACCG
*
144313 GTCCAGACCG
1 GT-CAAACCG
144323 GTCAAACCG
1 GTCAAACCG
*
144332 GTTCGAACCG
1 G-TCAAACCG
144342 GTCAAACCG
1 GTCAAACCG
*
144351 GTTCAAAACTG
1 G-TC-AAACCG
144362 GTCAAA
1 GTCAAA
144368 TCGATTTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
9 20 0.43
10 21 0.45
11 6 0.13
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.16
Consensus pattern (9 bp):
GTCAAACCG
Found at i:144340 original size:10 final size:10
Alignment explanation
Indices: 144309--144357 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
144299 GTCGAGTCAG
* *
144309 ACCGGTCCAG
1 ACCGGTTCAA
144319 ACCGG-TCAA
1 ACCGGTTCAA
*
144328 ACCGGTTCGA
1 ACCGGTTCAA
144338 ACCGG-TCAA
1 ACCGGTTCAA
144347 ACCGGTTCAA
1 ACCGGTTCAA
144357 A
1 A
144358 ACTGGTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 15 0.45
10 18 0.55
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:150625 original size:32 final size:31
Alignment explanation
Indices: 150589--150665 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
150579 CGGGGCCGTG
*
150589 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
150621 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
150652 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
150666 GTCACATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:150648 original size:63 final size:63
Alignment explanation
Indices: 150542--150665 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
150532 CCCTAAGGGA
* * * ** *
150542 ACATCTTAGGGCATGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCACGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
150605 ACATCTTAGGGC-CGCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCACG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
150666 GTCACATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCACGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:151535 original size:7 final size:7
Alignment explanation
Indices: 151523--151560 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
151513 GTCAAAGAAA
151523 GTCAACG
1 GTCAACG
151530 GTCAACG
1 GTCAACG
*
151537 GTCAATG
1 GTCAACG
151544 GTCAACG
1 GTCAACG
151551 GTCAACG
1 GTCAACG
151558 GTC
1 GTC
151561 GGGTCAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:154696 original size:65 final size:65
Alignment explanation
Indices: 154534--154689 Score: 244
Period size: 65 Copynumber: 2.4 Consensus size: 65
154524 TAATTGAATT
* *
154534 TCGAATGCATTTAGTGCACTGATGCACAAGCCATGCATCGATGCACCCCTGAATATTTTGAAACA
1 TCGAATGCATTTAGTGCACCGATGCACAAGACATGCATCGATGCACCCCTGAATATTTTGAAACA
**
154599 TCGAATGCATTTAGTGCACCGATGCACAAGACATGCATCGATGCA-CCCTGGTTATTTTGAAACA
1 TCGAATGCATTTAGTGCACCGATGCACAAGACATGCATCGATGCACCCCTGAATATTTTGAAACA
*
154663 TCGAA-GCATATTTGTGCACCGATGCAC
1 TCGAATGCAT-TTAGTGCACCGATGCAC
154690 TTAGACAACC
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
63 4 0.05
64 38 0.45
65 43 0.51
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (65 bp):
TCGAATGCATTTAGTGCACCGATGCACAAGACATGCATCGATGCACCCCTGAATATTTTGAAACA
Found at i:155891 original size:48 final size:47
Alignment explanation
Indices: 155830--155933 Score: 172
Period size: 48 Copynumber: 2.2 Consensus size: 47
155820 CTTGTAATAA
* *
155830 AAATATTAGATTTATAATAAAATTAATAGAAAACAATTAAAACAAATG
1 AAATAATATATTTATAATAAAATTAATAGAAAACAATTAAAA-AAATG
*
155878 AAATAATATATTTATAATAAAATTAATAGAAAATAATTAAAAAAATG
1 AAATAATATATTTATAATAAAATTAATAGAAAACAATTAAAAAAATG
155925 AAATAATAT
1 AAATAATAT
155934 TAGATTTGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 14 0.26
48 39 0.74
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (47 bp):
AAATAATATATTTATAATAAAATTAATAGAAAACAATTAAAAAAATG
Found at i:161589 original size:21 final size:20
Alignment explanation
Indices: 161522--161660 Score: 73
Period size: 21 Copynumber: 6.8 Consensus size: 20
161512 AAATGACCAA
***
161522 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
161542 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
161562 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
161583 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
161604 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
161624 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
161645 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
161661 ACACATAAAT
Statistics
Matches: 88, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.01
20 41 0.47
21 46 0.52
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:161689 original size:20 final size:20
Alignment explanation
Indices: 161628--161836 Score: 222
Period size: 20 Copynumber: 10.4 Consensus size: 20
161618 GATTTTCCAG
** *
161628 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
161648 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
* *
161668 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
161688 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
161708 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
161728 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
**
161748 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
161768 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
161788 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
161808 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
*
161828 AATCACAAC
1 AATCGCAAC
161837 ACTGAAATTT
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 164 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:162883 original size:19 final size:19
Alignment explanation
Indices: 162814--162970 Score: 199
Period size: 19 Copynumber: 8.7 Consensus size: 19
162804 GCAACGAGAG
162814 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
162833 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
162847 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
162867 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
162886 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
162905 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
162919 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
162939 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
162958 AATCGCATTGCGA
1 AATCGCAATGCGA
162971 TTCTCTCGTT
Statistics
Matches: 121, Mismatches: 5, Indels: 24
0.81 0.03 0.16
Matches are distributed among these distances:
14 22 0.18
15 1 0.01
16 2 0.02
17 4 0.03
19 63 0.52
20 29 0.24
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:162907 original size:72 final size:72
Alignment explanation
Indices: 162814--162970 Score: 271
Period size: 72 Copynumber: 2.2 Consensus size: 72
162804 GCAACGAGAG
162814 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGCGGAAATGAAAATCGCAATGC
162878 GAAATGAA
65 GAAATGAA
* *
162886 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
162951 AAATGAA
66 AAATGAA
*
162958 AATCGCATTGCGA
1 AATCGCAATGCGA
162971 TTCTCTCGTT
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
72 80 0.99
73 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:162935 original size:53 final size:52
Alignment explanation
Indices: 162800--162964 Score: 214
Period size: 53 Copynumber: 3.1 Consensus size: 52
162790 CGGAAATTAC
*
162800 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
162847 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
162905 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
162958 AATCGCA
1 AATCGCA
162965 TTGCGATTCT
Statistics
Matches: 103, Mismatches: 3, Indels: 18
0.83 0.02 0.15
Matches are distributed among these distances:
47 8 0.08
49 1 0.01
50 1 0.01
52 14 0.14
53 63 0.61
55 2 0.02
56 1 0.01
58 13 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:163004 original size:53 final size:52
Alignment explanation
Indices: 162941--163056 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 52
162931 GAAATGAAAA
*
162941 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** ** *
162993 TCCGCATTGCGATTTTCATTTCGCATTGTGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
163046 TCGCATTGCGA
1 TCGCATTGCGA
163057 TTTTCATTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 11 0.20
53 44 0.80
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:163071 original size:53 final size:53
Alignment explanation
Indices: 162960--163077 Score: 211
Period size: 53 Copynumber: 2.2 Consensus size: 53
162950 GAAATGAAAA
162960 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
163013 TCGCATTGTGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
163065 TCCGCATTGCGAT
1 T-CGCATTGCGAT
163078 AGTCATTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 19 0.31
53 43 0.69
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:163085 original size:20 final size:19
Alignment explanation
Indices: 162979--163077 Score: 127
Period size: 20 Copynumber: 5.4 Consensus size: 19
162969 GATTCTCTCG
162979 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
162999 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
163018 TTGTGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
163032 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
163051 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
163071 TTGCGAT
1 TTGCGAT
163078 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
14 5 0.07
16 7 0.10
17 7 0.10
19 24 0.35
20 26 0.38
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:163203 original size:14 final size:14
Alignment explanation
Indices: 163184--163220 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
163174 CATCAATTAC
163184 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
163198 ACAAATCATCTTTT
1 ACAAATCAACTTTT
163212 ACAAATCAA
1 ACAAATCAA
163221 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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:163509 original size:20 final size:20
Alignment explanation
Indices: 163484--163589 Score: 124
Period size: 20 Copynumber: 5.3 Consensus size: 20
163474 TCATTTTGCA
163484 GCGATTTACGGATACGCGTT
1 GCGATTTACGGATACGCGTT
*
163504 GCGATTTACGGATACACGTT
1 GCGATTTACGGATACGCGTT
*
163524 GCGATTTACAGATACGCGTT
1 GCGATTTACGGATACGCGTT
* *
163544 GCGATTTATGTG-TTCGCGTT
1 GCGATTTACG-GATACGCGTT
* ** *
163564 GCGATTTTCATATTCGCGTT
1 GCGATTTACGGATACGCGTT
163584 GCGATT
1 GCGATT
163590 CTGGAAAATC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 73 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
GCGATTTACGGATACGCGTT
Found at i:172577 original size:21 final size:20
Alignment explanation
Indices: 172510--172648 Score: 73
Period size: 21 Copynumber: 6.8 Consensus size: 20
172500 AAATGACCAA
***
172510 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
172530 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
172550 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
172571 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
172592 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
172612 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
172633 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
172649 ACACATAAAT
Statistics
Matches: 88, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.01
20 41 0.47
21 46 0.52
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:172680 original size:19 final size:19
Alignment explanation
Indices: 172656--172715 Score: 93
Period size: 19 Copynumber: 3.1 Consensus size: 19
172646 CGAACACATA
*
172656 AATCGCAACGCGTATCTGT
1 AATCGCAACGCGTATCCGT
*
172675 AATCGCAACGTGTATCCGT
1 AATCGCAACGCGTATCCGT
172694 AAATCGCAACGCGTATCCGT
1 -AATCGCAACGCGTATCCGT
172714 AA
1 AA
172716 ACGCTGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 19 0.51
20 18 0.49
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (19 bp):
AATCGCAACGCGTATCCGT
Found at i:172700 original size:20 final size:20
Alignment explanation
Indices: 172616--172716 Score: 107
Period size: 20 Copynumber: 5.1 Consensus size: 20
172606 GATTTTCCAG
* ** *
172616 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
172636 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
172656 AATCGCAACGCGTATCTGT-
1 AATCGCAACGCGTATCCGTA
*
172675 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
172695 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
172715 AA
1 AA
172717 CGCTGCAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 18 0.27
20 47 0.70
21 2 0.03
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:172999 original size:14 final size:14
Alignment explanation
Indices: 172980--173015 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
172970 ATTGTTTAAT
172980 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
172994 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
173008 TGATTTGT
1 TGATTTGT
173016 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:173140 original size:19 final size:19
Alignment explanation
Indices: 173118--173215 Score: 116
Period size: 19 Copynumber: 5.4 Consensus size: 19
173108 CAAAATGACT
173118 ATCGCAATGCGGAATGAAA
1 ATCGCAATGCGGAATGAAA
*
173137 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAATGAAA
*
173156 ATCGCAA--C-G-A-GAGA
1 ATCGCAATGCGGAATGAAA
* *
173170 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGGAATGAAA
173189 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGG-AATGAAA
173209 ATCGCAA
1 ATCGCAA
173216 CGAGAGAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 38 0.58
20 14 0.22
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGGAATGAAA
Found at i:173247 original size:53 final size:53
Alignment explanation
Indices: 173122--173234 Score: 201
Period size: 53 Copynumber: 2.2 Consensus size: 53
173112 ATGACTATCG
*
173122 CAATGCGGAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCA
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
*
173174 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
173227 CAATGCGA
1 CAATGCGA
173235 TTTTCATTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 24 0.41
53 34 0.59
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (53 bp):
CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
Done.