Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004058.1 Hibiscus syriacus cultivar Beakdansim tig00008875_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: 59325
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Found at i:272 original size:20 final size:21
Alignment explanation
Indices: 236--310 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 21
226 GATAGATACT
236 TTACA-ATATAACCACTACATA
1 TTACATATATAA-CACTACATA
* *
257 TTACATATATAA-ACTACCTC
1 TTACATATATAACACTACATA
* *
277 TTACATTATATAAGCGCTACCTA
1 TTACA-TATATAA-CACTACATA
300 TTACATCATAT
1 TTACAT-ATAT
311 TTTTAACTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 11 0.24
21 12 0.27
22 7 0.16
23 15 0.33
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (21 bp):
TTACATATATAACACTACATA
Found at i:737 original size:20 final size:21
Alignment explanation
Indices: 707--775 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 21
697 GATAGATACT
*
707 TTACAATATAAGCACTACCTA
1 TTACAATATAAACACTACCTA
*
728 TTAC-ATATAAACGCTACCTA
1 TTACAATATAAACACTACCTA
*
748 TTA-AATTATATTAACGCTACCTA
1 TTACAA-TATA--AACACTACCTA
771 TTACA
1 TTACA
776 TCATATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 18 0.44
21 8 0.20
23 14 0.34
24 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (21 bp):
TTACAATATAAACACTACCTA
Found at i:763 original size:23 final size:23
Alignment explanation
Indices: 721--782 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
711 AATATAAGCA
721 CTACCTATTACA-TATA--AACG
1 CTACCTATTACATTATATTAACG
*
741 CTACCTATTAAATTATATTAACG
1 CTACCTATTACATTATATTAACG
*
764 CTACCTATTACATCATATT
1 CTACCTATTACATTATATT
783 TTTACCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.31
21 4 0.11
23 21 0.58
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (23 bp):
CTACCTATTACATTATATTAACG
Found at i:1064 original size:477 final size:483
Alignment explanation
Indices: 1--1537 Score: 2594
Period size: 477 Copynumber: 3.2 Consensus size: 483
*
1 TTTTATAAAA-ATTATTTAGTATTTAAATTTAACAGTATTAACCAAAG-ATAATAAAAATATGTA
1 TTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGAATAAT--AAATATGTA
64 ATATATATGTTTATTG-TTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTA
64 ATATATATGTTTATTGTTTTTAATTTAATAATAATATATA-CGTAACGTAAAAAATAAATCATTA
*
127 TACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC-AAAGATAACC-TAAATTAATGTTT
128 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTT
*
190 T-CACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTAC
193 TCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTAC
* * * *
254 ATATTACATATATAA-ACTACCTCTTACATTATA-TAAGCGCTACCTATTACATCATATTTTTAA
258 CTATTACATATA-AACGCTACCTATTACATTATATTAAGCGCTACCTATTACATCATATTTTTAC
317 CTA-T-TATTGAAAGTGTC-ATACTTTTTAT-AAAAGGATCGATAC-TTTTTTAAAGTTATGTAA
322 CTATTATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAA
377 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCACCTACAATA-TAATTTAATAATTTCA
387 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCA
441 TTTGCACAAAAAATTATTTGATTG-TTTGATA
452 TTTGCACAAAAAATTATTTGATTGTTTTGATA
*
472 TTTTATAAAATATTATTTAGAATTTAAATTT-ACAATATTAACCAAAGATAATAATAAATATGTA
1 TTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAG--AATAATAAATATGTA
536 AT-TATATG-----TGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTA
64 ATATATATGTTTATTGTTTTTAATTTAATAATAATATATA-CGTAACGTAAAAAATAAATCATTA
* *
595 GACGTCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATGTTT
128 GACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTT
*
660 TCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTAC
193 TCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTAC
*
725 CTATTACATATAAACGCTACCTATTAAATTATATTAA-CGCTACCTATTACATCATATTTTTACC
258 CTATTACATATAAACGCTACCTATTACATTATATTAAGCGCTACCTATTACATCATATTTTTACC
*
789 TATTATATTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAAT
323 TATTATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAAT
854 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCAT
388 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCAT
919 TTGCAC-AAAAATTATTTGATTGTTTTGATA
453 TTGCACAAAAAATTATTTGATTGTTTTGATA
949 TTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACC-AAG-ATAATAAATATGTAAT
1 TTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGAATAATAAATATGTAAT
1012 ATATATGTTTATTGTTTTTAATTTAATAAT-ATATAT-CGTAACGTAAAAAATAAATCATTAGAC
66 ATATATGTTTATTGTTTTTAATTTAATAATAATATATACGTAACGTAAAAAATAAATCATTAGAC
*
1075 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACTTTAAATTAATGTTTTCC
131 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
1140 ACAGTGAAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCT
196 ACAGTG-AAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCT
*
1205 AGTACATTATATAAACGCTACCTATTACATTAT-TTAAGCGCTACCTATTACATCATATTTTTAC
260 ATTAC---ATATAAACGCTACCTATTACATTATATTAAGCGCTACCTATTACATCATATTTTTAC
1269 CTATTATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAA
322 CTATTATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAA
1334 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCCACCTACAATATTAATTTAATAATTTC
387 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTT-CCACCTACAATATTAATTTAATAATTTC
1399 ATTTGCACAAAAAATTATTTGATTGTTTTGATA
451 ATTTGCACAAAAAATTATTTGATTGTTTTGATA
*
1432 TTTTATAAAATATTATTTAGTATTTAAATTTAATAATATTAACCAAAGATAATAATAAATATGTA
1 TTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAG--AATAATAAATATGTA
1497 ATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
64 ATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
1538 CGTGCTCATA
Statistics
Matches: 1006, Mismatches: 22, Indels: 58
0.93 0.02 0.05
Matches are distributed among these distances:
466 2 0.00
467 32 0.03
468 53 0.05
469 10 0.01
470 15 0.01
471 146 0.15
472 34 0.03
473 13 0.01
474 32 0.03
475 19 0.02
476 82 0.08
477 158 0.16
478 73 0.07
479 6 0.01
480 22 0.02
481 150 0.15
482 36 0.04
483 67 0.07
484 3 0.00
487 46 0.05
488 6 0.01
489 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (483 bp):
TTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGAATAATAAATATGTAAT
ATATATGTTTATTGTTTTTAATTTAATAATAATATATACGTAACGTAAAAAATAAATCATTAGAC
GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
ACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTA
TTACATATAAACGCTACCTATTACATTATATTAAGCGCTACCTATTACATCATATTTTTACCTAT
TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
TGTTTCAATTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCATTTG
CACAAAAAATTATTTGATTGTTTTGATA
Found at i:1225 original size:23 final size:23
Alignment explanation
Indices: 1190--1262 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1180 ATACTTTACA
* *
1190 ATATAAGCACTACCTAGTACATT
1 ATATAAGCGCTACCTATTACATT
*
1213 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
1236 ATTTAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1259 ATAT
1 ATAT
1263 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:3848 original size:183 final size:183
Alignment explanation
Indices: 3533--4835 Score: 2206
Period size: 183 Copynumber: 7.1 Consensus size: 183
3523 TAAAATTACT
*
3533 GACACAATATTA-AAACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAATCGGTATATT
1 GACACAATATTAGAAA-GTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTATATT
* *
3597 TATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCG
64 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCG
3662 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
129 ACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* * *
3717 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACATATTCACTCATAAAATCGGTATATTTA
1 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
3782 TACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATTTGTAAATATCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCGAC
*
3847 ACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
131 ACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
*
3900 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTTA
1 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
3965 TACCGGTTATATTATAAAATTATCTATTACATTATAAATT-TGGGTTCCGATGTGTAAATGTCGA
66 TACCGGTTATATTACAAAATTATCTATTACATTAT-AATTCTGGGTTCCGATTTGTAAATGTCGA
4029 CACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
130 CACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* * * *
4083 GACACATTATTAGAAAGTGTCGATATAGGTTATAGACATATTCGCTCATAAAACTGGTATATTTA
1 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
4148 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCGAC
* *
4213 ACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTATC
131 ACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
4266 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
4331 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCGAC
* *
4396 ACTTTTTGACAAT-GTATCGACACATTTTTCTTTCAATCTGGACATAAAGTACC
131 ACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
4449 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
4514 TACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCGAC
*
4579 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTTCC
131 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
* *
4632 GACACAATATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
1 GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
* *
4697 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA--TC
66 TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA---TTTGTAAATGTC
* *
4760 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACA
128 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
*
4816 GACACAATATTAAAAAGTGT
1 GACACAATATTAGAAAGTGT
4836 GAAAACTTTG
Statistics
Matches: 1065, Mismatches: 44, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
182 10 0.01
183 934 0.88
184 113 0.11
185 3 0.00
186 5 0.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
GACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTA
TACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGTCGAC
ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACC
Found at i:6046 original size:3 final size:3
Alignment explanation
Indices: 6038--6105 Score: 64
Period size: 3 Copynumber: 22.7 Consensus size: 3
6028 ACTTGTTTGG
* * * * * *
6038 ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AGC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
6086 ATC ATC ATC GTC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC AT
6106 TGTCAGCTTC
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.24, C:0.32, G:0.07, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:6055 original size:12 final size:12
Alignment explanation
Indices: 6038--6110 Score: 74
Period size: 12 Copynumber: 6.1 Consensus size: 12
6028 ACTTGTTTGG
*
6038 ATCATCATCATC
1 ATCATCATCGTC
* *
6050 ATCATCGTCATC
1 ATCATCATCGTC
*
6062 ATCTTCATCGTC
1 ATCATCATCGTC
* *
6074 AGCTTCATCGTC
1 ATCATCATCGTC
6086 ATCATCATCGTC
1 ATCATCATCGTC
* *
6098 ATCTTCATTGTC
1 ATCATCATCGTC
6110 A
1 A
6111 GCTTCATCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.23, C:0.32, G:0.08, T:0.37
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:6087 original size:24 final size:24
Alignment explanation
Indices: 6060--6118 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
6050 ATCATCGTCA
6060 TCATCTTCATCGTCAGCTTCATCG
1 TCATCTTCATCGTCAGCTTCATCG
* * *
6084 TCATCATCATCGTCATCTTCATTG
1 TCATCTTCATCGTCAGCTTCATCG
*
6108 TCAGCTTCATC
1 TCATCTTCATC
6119 TTCATTGACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (24 bp):
TCATCTTCATCGTCAGCTTCATCG
Found at i:6089 original size:36 final size:36
Alignment explanation
Indices: 6042--6123 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
6032 GTTTGGATCA
*
6042 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* * *
6078 TCATCGTCATCATCATCGTCATCTTCATTGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
6114 TCATCTTCAT
1 TCATCATCAT
6124 TGACCGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.39
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:6115 original size:12 final size:12
Alignment explanation
Indices: 6064--6118 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
6054 TCGTCATCAT
6064 CTTCATCGTCAG
1 CTTCATCGTCAG
*
6076 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
6088 CATCATCGTCAT
1 CTTCATCGTCAG
*
6100 CTTCATTGTCAG
1 CTTCATCGTCAG
6112 CTTCATC
1 CTTCATC
6119 TTCATTGACC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.18, C:0.33, G:0.11, T:0.38
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:6121 original size:6 final size:6
Alignment explanation
Indices: 6060--6123 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
6050 ATCATCGTCA
* * * * *
6060 TCATCT TCATCG TCAGCT TCATCG TCATCA TCATCG TCATCT TCAT-T
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
6107 GTCAGCT TCATCT TCAT
1 -TCATCT TCATCT TCAT
6124 TGACCGCTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
5 1 0.02
6 44 0.96
7 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (6 bp):
TCATCT
Found at i:6125 original size:18 final size:18
Alignment explanation
Indices: 6060--6123 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
6050 ATCATCGTCA
6060 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
6078 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
*
6096 TCATCTTCATTGTCAGCT
1 TCATCTTCATCGTCAGCT
6114 TCATCTTCAT
1 TCATCTTCAT
6124 TGACCGCTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:6132 original size:18 final size:18
Alignment explanation
Indices: 6060--6132 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
6050 ATCATCGTCA
* *
6060 TCATCTTCATCGTCAGCT
1 TCATCTTCATTGACAGCT
* * * *
6078 TCATCGTCA-TCATCATCG
1 TCATCTTCATTGA-CAGCT
*
6096 TCATCTTCATTGTCAGCT
1 TCATCTTCATTGACAGCT
*
6114 TCATCTTCATTGACCGCT
1 TCATCTTCATTGACAGCT
6132 T
1 T
6133 GGTTGTCCAC
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
18 39 0.98
19 1 0.03
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.40
Consensus pattern (18 bp):
TCATCTTCATTGACAGCT
Found at i:8547 original size:199 final size:200
Alignment explanation
Indices: 7588--8962 Score: 2490
Period size: 200 Copynumber: 6.9 Consensus size: 200
7578 TTTAAATTAG
* * * *
7588 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAACCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
* * *
7650 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTTGTTTTCAATGTTTTTG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
* *
7715 GGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
7780 ACCAAAAA
193 ACCAAAAA
*
7788 TATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
7853 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
7918 TCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
7983 AAAAA
196 AAAAA
*
7988 TATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
8053 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
8118 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
8183 AAAAA
196 AAAAA
*
8188 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
8253 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
8318 TCGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
8383 AAAAA
196 AAAAA
8388 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
8452 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
8517 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
8582 AAAAA
196 AAAAA
8587 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
8652 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATTTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
8717 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
8781 AAAAA
196 AAAAA
*
8786 TATCGACACAAACTAAAAAGGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
8851 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAAGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
8916 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACTCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
8963 GGCCATATTG
Statistics
Matches: 1148, Mismatches: 22, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
199 394 0.34
200 746 0.65
201 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:8623 original size:399 final size:399
Alignment explanation
Indices: 7588--8962 Score: 2488
Period size: 399 Copynumber: 3.4 Consensus size: 399
7578 TTTAAATTAG
* * *
7588 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAACCGGT
1 TATCGACACAAAC--TAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
* * *
7650 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTTGTTTTCAATGTTTTTG
62 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
* *
7715 GGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGG
127 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
7780 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAA
192 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAA
*
7845 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGT
257 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
* *
7910 TTTTGGGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCATGTTTTCCATTCAT
322 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAT
7975 TCTGGACCAAAAA
387 TCTGGACCAAAAA
*
7988 TATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
8053 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
8118 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
8183 AAAAATATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCG
8248 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
260 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
*
8313 TGGGATCGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
325 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
8378 GGACCAAAAA
390 GGACCAAAAA
8388 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
8453 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
8518 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
*
8583 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGG
*
8648 TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATTTTTTT
261 TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
8713 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
8777 GACCAAAAA
391 GACCAAAAA
8786 TATCGACACAAACTAAAAAGGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
8851 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAAGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
8916 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACTCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
8963 GGCCATATTG
Statistics
Matches: 947, Mismatches: 23, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
398 48 0.05
399 507 0.54
400 384 0.41
401 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (399 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
AAAATATCGACACAAACTAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGG
TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
GACCAAAAA
Found at i:9092 original size:18 final size:18
Alignment explanation
Indices: 9069--9129 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
9059 TCTCATTCAT
*
9069 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
9087 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
9106 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
9125 AATTA
1 AATTA
9130 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:9105 original size:19 final size:19
Alignment explanation
Indices: 9081--9129 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
9071 TTATATTCAC
9081 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
9100 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
9119 ATACAAAATTA
1 ATACAAAATTA
9130 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:10957 original size:33 final size:33
Alignment explanation
Indices: 10920--10985 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
10910 CATCTTAATA
*
10920 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
10953 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
10986 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:11044 original size:21 final size:21
Alignment explanation
Indices: 11019--11083 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
11009 CCCCTTATGC
* *
11019 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
11040 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
11061 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
11082 CT
1 CT
11084 TGATTGTCTT
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:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:13139 original size:24 final size:24
Alignment explanation
Indices: 13102--13154 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13092 CCGTTCTATC
13102 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
13126 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
13150 TATTT
1 TATTT
13155 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:13332 original size:20 final size:20
Alignment explanation
Indices: 13300--13356 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
13290 ATCAGGTATC
*
13300 ATTT-TACCGGTTTTATCAT
1 ATTTATACCTGTTTTATCAT
13319 -TTTGATACCTGTTTTATCAT
1 ATTT-ATACCTGTTTTATCAT
* *
13339 ATTTTTACCTGTTATATC
1 ATTTATACCTGTTTTATC
13357 GTTGTGGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTTATACCTGTTTTATCAT
Found at i:13510 original size:20 final size:20
Alignment explanation
Indices: 13483--13529 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
13473 TCCGGTAACG
13483 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
13502 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
13523 TTTTACC
1 TTTTACC
13530 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:13637 original size:182 final size:181
Alignment explanation
Indices: 13268--13741 Score: 691
Period size: 182 Copynumber: 2.6 Consensus size: 181
13258 CGTACTTACG
* * * * *
13268 AAAGTATCGACACTTTCAATATATCAGGTATCATTTTACCGGTTTTATCATTTTGATACCTGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* * *
13333 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATTTTTTTTTTAAAGTATCGACACATTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATA-TATTTTTTAAAAGTATCGACACATTA
13398 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
13450 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* *
13515 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
* *
13580 AGGAC-TTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
13632 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACCGGTT
* * * *
13696 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTT
13742 AATTTGGATC
Statistics
Matches: 264, Mismatches: 25, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
181 74 0.28
182 190 0.72
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:14226 original size:2 final size:2
Alignment explanation
Indices: 14216--14280 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
14206 CTATATACTT
*
14216 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14258 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
14281 TAATATAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14325 original size:25 final size:25
Alignment explanation
Indices: 14291--14339 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14281 TAATATAAAT
14291 TATAGTTTATAAACTATATA-CTTTA
1 TATAGTTTATAAA-TATATAGCTTTA
*
14316 TATAGTTTATACATATATAGCTTT
1 TATAGTTTATAAATATATAGCTTT
14340 TCAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (25 bp):
TATAGTTTATAAATATATAGCTTTA
Found at i:16475 original size:81 final size:81
Alignment explanation
Indices: 16340--16582 Score: 414
Period size: 81 Copynumber: 3.0 Consensus size: 81
16330 TTTCGACTTA
* *
16340 AATTGAGTGGGGTTAGAGTCGCCACCGATCACTTTAAAAAAATTTAGGTGGATCAAACACCATCT
1 AATTGAGTGGGGTTAGAGTCGCCACCGATCACTTTAAAAATATTTAGGTGGATCAGACACCATCT
*
16405 TACCTGATCTGTGTTT
66 TACCTGATCTGCGTTT
*
16421 AATTGAGTGGGGTTAGAGTCGCCACCGATCACTTTAAAAATATTTAGGTGGATCAGACATCATCT
1 AATTGAGTGGGGTTAGAGTCGCCACCGATCACTTTAAAAATATTTAGGTGGATCAGACACCATCT
16486 TACCTGATCTGCGTTT
66 TACCTGATCTGCGTTT
* * *
16502 AATTGAGTGGGGTTAGAGTCACCACTGATCACTTTAAAAATATTTAGGTGGATCGGACACCATCT
1 AATTGAGTGGGGTTAGAGTCGCCACCGATCACTTTAAAAATATTTAGGTGGATCAGACACCATCT
*
16567 TACCTGATATGCGTTT
66 TACCTGATCTGCGTTT
16583 TACCAGAAAT
Statistics
Matches: 153, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 153 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (81 bp):
AATTGAGTGGGGTTAGAGTCGCCACCGATCACTTTAAAAATATTTAGGTGGATCAGACACCATCT
TACCTGATCTGCGTTT
Found at i:16706 original size:13 final size:13
Alignment explanation
Indices: 16688--16717 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16678 CTTAGTTACG
16688 AAAATTAAAAATT
1 AAAATTAAAAATT
*
16701 AAAATTAAAATTT
1 AAAATTAAAAATT
16714 AAAA
1 AAAA
16718 ATACGATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:16921 original size:21 final size:20
Alignment explanation
Indices: 16835--16992 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
16825 AAATGACCAA
**
16835 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
16854 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
16874 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
16894 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
16915 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
16936 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
16956 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
16977 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
16993 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:17021 original size:20 final size:20
Alignment explanation
Indices: 16959--17152 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
16949 CGATTTTCCA
* ** *
16959 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
16979 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
16999 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
17019 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
17039 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
17059 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
17079 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
17099 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
17119 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
17140 AAATCGCAACGCG
1 AAATCGCAACGCG
17153 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:17043 original size:60 final size:60
Alignment explanation
Indices: 16959--17152 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
16949 CGATTTTCCA
* ** * *
16959 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
17019 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
17079 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
17140 AAATCGCAACGCG
1 AAATCGCAACGCG
17153 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:17573 original size:33 final size:33
Alignment explanation
Indices: 17534--17604 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
17524 TTCACTTAGA
* *
17534 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
17567 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
17600 TTTCA
1 TTTCA
17605 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:17728 original size:20 final size:20
Alignment explanation
Indices: 17684--17793 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
17674 TGCAGAAGAG
*
17684 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
17705 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
17725 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
17746 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
17760 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
17779 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
17794 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:17741 original size:41 final size:38
Alignment explanation
Indices: 17677--17793 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
17667 TTCAATTTGC
* *
17677 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
17715 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
17756 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
17789 AGAAT
1 AGAAT
17794 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:17763 original size:14 final size:14
Alignment explanation
Indices: 17744--17800 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
17734 GAGAAATGAA
17744 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
17758 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
17777 AATCGCAACGAGAG
1 AATCGCAACGAGAG
17791 AATCGCAACG
1 AATCGCAACG
17801 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:17776 original size:33 final size:33
Alignment explanation
Indices: 17736--17816 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
17726 CGCAACGAGA
17736 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
17769 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
17802 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
17817 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:17834 original size:19 final size:19
Alignment explanation
Indices: 17812--17909 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
17802 GAAACCAAAA
*
17812 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
17831 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
17845 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
17864 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
17878 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
17897 TCGCGTTGCGATT
1 TCGCGTTGCGATT
17910 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:17853 original size:14 final size:14
Alignment explanation
Indices: 17834--17923 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
17824 TTTCATTTCG
17834 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
17848 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
17867 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
17881 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
17898 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
17914 CGTTGCGATT
1 CGTTGCGATT
17924 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:17859 original size:33 final size:33
Alignment explanation
Indices: 17817--17931 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
17807 CAAAATCGCA
17817 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
17850 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
17883 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
17916 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
17932 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:19783 original size:93 final size:93
Alignment explanation
Indices: 19624--20189 Score: 1098
Period size: 93 Copynumber: 6.1 Consensus size: 93
19614 TAGATTGCTT
*
19624 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19689 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
19717 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19782 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
19810 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19875 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
19903 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAAC-CTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19967 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
19995 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
20060 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
20088 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
20153 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
20181 AGTAAATTT
1 AGTAAATTT
20190 ATCCATTCAA
Statistics
Matches: 469, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 0.20
93 377 0.80
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:19995 original size:278 final size:279
Alignment explanation
Indices: 19624--20191 Score: 1102
Period size: 278 Copynumber: 2.0 Consensus size: 279
19614 TAGATTGCTT
*
19624 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
19689 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
19754 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
131 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
19819 GTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
196 GTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
19884 GTTTTGTCTTTTGGTTGAA
261 GTTTTGTCTTTTGGTTGAA
*
19903 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAAC-CTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
19967 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
20032 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
131 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
20097 GTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
196 GTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
20162 GTTTTGTCTTTTGGTTGAA
261 GTTTTGTCTTTTGGTTGAA
20181 AGTAAATTTAT
1 AGTAAATTTAT
20192 CCATTCAAGT
Statistics
Matches: 285, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
278 236 0.83
279 49 0.17
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (279 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
GTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
GTTTTGTCTTTTGGTTGAA
Found at i:20273 original size:19 final size:19
Alignment explanation
Indices: 20233--20361 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
20223 TAGTTTACTT
* *
20233 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
20253 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
20272 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
20291 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
20305 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
20324 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
20338 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
20357 TCGCA
1 TCGCA
20362 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:20312 original size:33 final size:32
Alignment explanation
Indices: 20269--20361 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
20259 CGCGAAACCA
**
20269 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
20301 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
20334 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
20362 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:20359 original size:52 final size:52
Alignment explanation
Indices: 20233--20361 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
20223 TAGTTTACTT
**
20233 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
20285 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
20338 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
20362 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:20379 original size:19 final size:19
Alignment explanation
Indices: 20357--20491 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
20347 GAAACCAAAA
*
20357 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
20376 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
20392 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
20409 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
20425 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
20442 TCGCGTAGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
20461 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
20481 TCGTGTTGCGA
1 TCGCGTTGCGA
20492 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 44 0.47
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:20398 original size:14 final size:14
Alignment explanation
Indices: 20379--20435 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
20369 TTTCATTTCG
20379 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
20393 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
20410 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
20426 CGTTGCGATT
1 CGTTGCGATT
20436 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:20404 original size:33 final size:33
Alignment explanation
Indices: 20362--20454 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
20352 CAAAATCGCA
*
20362 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
20395 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
20428 TTGCGATTTTCATTTCGCGTAGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
20455 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:22434 original size:14 final size:14
Alignment explanation
Indices: 22415--22450 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
22405 ATTGTTTAAT
22415 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
22429 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
22443 TGATTTGT
1 TGATTTGT
22451 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:22581 original size:19 final size:19
Alignment explanation
Indices: 22557--22654 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
22547 AAAATTGACT
22557 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
22576 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
22595 ATCGCAA--CG--AT-AGA
1 ATCGCAATGCGAAATGAAA
22609 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
22628 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
22648 ATCGCAA
1 ATCGCAA
22655 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 9 0.13
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 38 0.54
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:22686 original size:53 final size:53
Alignment explanation
Indices: 22557--22673 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
22547 AAAATTGACT
*
22557 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGATAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
22609 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
22662 ATCGCAATGCGA
1 ATCGCAATGCGA
22674 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:25216 original size:24 final size:24
Alignment explanation
Indices: 25182--25228 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
25172 CTGAAACATC
25182 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
25206 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
25229 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:25938 original size:20 final size:20
Alignment explanation
Indices: 25910--26179 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
25900 AAATTTCAGT
* * *
25910 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
25930 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
**
25950 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
25970 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
25990 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
26010 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
26030 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
26050 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
26070 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
26090 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
26110 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
26130 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
26150 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
26170 GTTGCGATTT
1 GTTGCGATTT
26180 TGGAAAATCG
Statistics
Matches: 222, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 221 1.00
21 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:26196 original size:21 final size:21
Alignment explanation
Indices: 26166--26248 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
26156 ATTTTCATAT
*
26166 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
26187 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
26208 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
26229 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
26249 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:26239 original size:42 final size:43
Alignment explanation
Indices: 26146--26244 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
26136 ATTTATGTGT
* *
26146 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
26187 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
26229 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
26245 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:27616 original size:12 final size:12
Alignment explanation
Indices: 27599--27647 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
27589 AAAAAAAATA
27599 ATTAATAATAAT
1 ATTAATAATAAT
27611 ATTAATAATAA-
1 ATTAATAATAAT
*
27622 ATAAATAATATAAT
1 ATTAAT-A-ATAAT
27636 ATTATATAATAA
1 ATTA-ATAATAA
27648 AAAATTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 5 0.16
12 12 0.39
13 8 0.26
14 4 0.13
15 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTAATAATAAT
Found at i:27619 original size:19 final size:18
Alignment explanation
Indices: 27595--27647 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
27585 TACAAAAAAA
27595 AATAATTAATAATAATATT
1 AATAATTAATAATAATA-T
*
27614 AATAATAAATAAATAATAT
1 AATAATTAAT-AATAATAT
27633 AAT-ATTATATAATAA
1 AATAATTA-ATAATAA
27648 AAAATTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 15 0.50
20 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATTAATAATAATAT
Found at i:27623 original size:26 final size:26
Alignment explanation
Indices: 27594--27653 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
27584 CTACAAAAAA
27594 AAATAATTAATAATAATATTA-ATAAT
1 AAATAATTAAT-ATAATATTATATAAT
*
27620 AAATAAATAATATAATATTATATAAT
1 AAATAATTAATATAATATTATATAAT
*
27646 AAAAAATT
1 AAATAATT
27654 TTGTAGACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATAATTAATATAATATTATATAAT
Found at i:27630 original size:23 final size:25
Alignment explanation
Indices: 27601--27652 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 25
27591 AAAAAATAAT
27601 TAATAATAATATTA-ATAATAAATAAA
1 TAAT-ATAATATTATATAATAAA-AAA
27627 TAATATAATATTATATAATAAAAAA
1 TAATATAATATTATATAATAAAAAA
27652 T
1 T
27653 TTTGTAGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAATATAATATTATATAATAAAAAA
Found at i:28007 original size:84 final size:84
Alignment explanation
Indices: 27908--28063 Score: 258
Period size: 84 Copynumber: 1.9 Consensus size: 84
27898 TGACAGATAA
* * *
27908 CCCTTCTCGCCTTGAGCAATGCTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGCCTTGAGCAATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCGAACTCGAAG
27973 GTCTTTGGTTGGAAAATAG
66 GTCTTTGGTTGGAAAATAG
* * *
27992 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGCCTTGAGCAATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCGAACTCGAAG
28057 GTCTTTG
66 GTCTTTG
28064 TGTTTCAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (84 bp):
CCCTTCTCGCCTTGAGCAATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTGGTTGGAAAATAG
Found at i:28099 original size:35 final size:35
Alignment explanation
Indices: 28060--28161 Score: 153
Period size: 35 Copynumber: 3.1 Consensus size: 35
28050 CTCGAAGGTC
28060 TTTGTGTTTCAAGAGAAAC-ATCTTCAAAGGTTTTT
1 TTTGTGTTTCAAGAGAAACGAT-TTCAAAGGTTTTT
28095 TTTGTGTTTCAAGAGAAACGATTTCAAAGG---TT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTTT
28127 TTT-T-TTTCAAGAGAAACGATTTCAAAGGTTTTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTTT
28160 TT
1 TT
28162 CAAGAGAAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
30 24 0.38
31 1 0.02
32 5 0.08
33 4 0.06
35 27 0.43
36 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (35 bp):
TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTTT
Found at i:28136 original size:30 final size:30
Alignment explanation
Indices: 28066--28180 Score: 130
Period size: 30 Copynumber: 3.7 Consensus size: 30
28056 GGTCTTTGTG
*
28066 TTTCAAGAGAAACATCTTCAAAGGTTTTTTTTGT
1 TTTCAAGAGAAACATATTCAAAGG---TTTTT-T
28100 GTTTCAAGAGAAACGAT-TTCAAAGGTTTTTT
1 -TTTCAAGAGAAAC-ATATTCAAAGGTTTTTT
28131 TTTCAAGAGAAACGAT-TTCAAAGG--TTTT
1 TTTCAAGAGAAAC-ATATTCAAAGGTTTTTT
28159 TTTCAAGAGAAACATATTCAAA
1 TTTCAAGAGAAACATATTCAAA
28181 TATTGGTGTT
Statistics
Matches: 78, Mismatches: 0, Indels: 11
0.88 0.00 0.12
Matches are distributed among these distances:
27 2 0.03
28 23 0.29
30 24 0.31
31 1 0.01
32 5 0.06
35 21 0.27
36 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (30 bp):
TTTCAAGAGAAACATATTCAAAGGTTTTTT
Found at i:28195 original size:30 final size:29
Alignment explanation
Indices: 28061--28201 Score: 126
Period size: 30 Copynumber: 4.6 Consensus size: 29
28051 TCGAAGGTCT
28061 TTGTGTTTCAAGAGAAAC-ATCTTCAAAGG
1 TTGTGTTTCAAGAGAAACGAT-TTCAAAGG
28090 TTTTTTTTGTGTTTCAAGAGAAACGATTTCAAAGG
1 ------TTGTGTTTCAAGAGAAACGATTTCAAAGG
* *
28125 TTTTTTTTTCAAGAGAAACGATTTCAAAGG
1 -TTGTGTTTCAAGAGAAACGATTTCAAAGG
* **
28155 TT-TTTTTCAAGAGAAAC-ATATTCAAATA
1 TTGTGTTTCAAGAGAAACGAT-TTCAAAGG
28183 TTGGTGTTTCAAGAGAAAC
1 TT-GTGTTTCAAGAGAAAC
28202 TGTCTCAAGA
Statistics
Matches: 97, Mismatches: 5, Indels: 13
0.84 0.04 0.11
Matches are distributed among these distances:
27 2 0.02
28 23 0.24
29 2 0.02
30 42 0.43
35 26 0.27
36 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (29 bp):
TTGTGTTTCAAGAGAAACGATTTCAAAGG
Found at i:28264 original size:73 final size:73
Alignment explanation
Indices: 28187--28345 Score: 223
Period size: 73 Copynumber: 2.2 Consensus size: 73
28177 CAAATATTGG
* **
28187 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTA-TTTCAAGGGAAACTGTCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-TTAGTTCCAAAAGAAACTGTCTCAAGAGA
28251 GACAAAATT
65 GACAAAATT
* * * *
28260 TGTTTTAAGAGAAATTTTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAG
*
28325 ACGAAATT
66 ACAAAATT
28333 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
28346 AGATATTCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
72 7 0.09
73 69 0.91
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAG
ACAAAATT
Found at i:28288 original size:36 final size:37
Alignment explanation
Indices: 28187--28345 Score: 207
Period size: 37 Copynumber: 4.4 Consensus size: 37
28177 CAAATATTGG
28187 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* *
28224 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* * *
28260 TGTTTTAAGAGAAATTTTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* * * * *
28297 AGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
28333 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
28346 AGATATTCAA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
35 4 0.04
36 39 0.38
37 60 0.58
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:28729 original size:106 final size:106
Alignment explanation
Indices: 28534--28867 Score: 515
Period size: 106 Copynumber: 3.2 Consensus size: 106
28524 TCCAAGTAAG
* * * * * * *
28534 TTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTAGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* * * *
28599 GTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGC
66 GTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
* * *
28640 TTGTGCTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
28705 GTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
66 GTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
*
28746 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATT
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
* *
28811 ATTTGTTGACAACCAGCCGTCCCTTTGTTGTGAAGTTGAAC
66 GTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
28852 TTGTGTTGTCTCGAGT
1 TTGTGTTGTCTCGAGT
28868 GGCACGATAT
Statistics
Matches: 208, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 208 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (106 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATT
GTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
Found at i:29153 original size:110 final size:110
Alignment explanation
Indices: 29027--29341 Score: 526
Period size: 110 Copynumber: 2.9 Consensus size: 110
29017 TATTGTTTCA
*
29027 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTCTGAATGAAACTGTGAA-GTTGTTTGTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGT-AATGTTGTTTGTTG
*
29091 ACAG-CGAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
65 ACAGTC-AGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
* * *
29137 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAATGTTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGTAATGTTGTTTGTTGA
*
29202 CAGTCAGTCGCCCCTTCGCTGTGAAATTGAGCTTGTGTTGTCTCG
66 CAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
*
29247 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTATAATGTTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGTAATGTTGTTTGTTGA
*
29312 CAGTCAGTCGCCCCTTCACTGTGAAGTTGA
66 CAGTCAGTCGCCCCTTCGCTGTGAAGTTGA
29342 ACAACCACCA
Statistics
Matches: 191, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
109 2 0.01
110 188 0.98
111 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (110 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGTAATGTTGTTTGTTGA
CAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
Found at i:34095 original size:10 final size:10
Alignment explanation
Indices: 34082--34126 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
34072 AAAAATAAAA
34082 AATAATTAAT
1 AATAATTAAT
34092 AATAA-TAAT
1 AATAATTAAT
*
34101 AATAAATAAT
1 AATAATTAAT
34111 -ATAATATAAT
1 AATAAT-TAAT
34121 -ATAATT
1 AATAATT
34127 TTTTGTAGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AATAATTAAT
Found at i:34100 original size:13 final size:13
Alignment explanation
Indices: 34075--34125 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
34065 CCTACAAAAA
*
34075 AATAAAAAATAATT
1 AATAAATAATAA-T
34089 AAT-AATAATAAT
1 AATAAATAATAAT
34101 AATAAATAAT-AT
1 AATAAATAATAAT
34113 AATATAAT-ATAAT
1 AATA-AATAATAAT
34126 TTTTTGTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 12 0.36
13 18 0.55
14 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:34102 original size:23 final size:23
Alignment explanation
Indices: 34075--34121 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
34065 CCTACAAAAA
34075 AATAAAAAATAAT-TAATAATAAT
1 AATAAAAAATAATATAAT-ATAAT
*
34098 AATAATAAATAATATAATATAAT
1 AATAAAAAATAATATAATATAAT
34121 A
1 A
34122 TAATTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAAAAAATAATATAATATAAT
Found at i:34103 original size:16 final size:15
Alignment explanation
Indices: 34082--34125 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
34072 AAAAATAAAA
*
34082 AATAATTAATAATAAT
1 AATAATAAATAAT-AT
34098 AATAATAAATAATAT
1 AATAATAAATAATAT
34113 AAT-ATAATATAAT
1 AATAATAA-ATAAT
34126 TTTTTGTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATAAATAATAT
Found at i:48396 original size:2 final size:2
Alignment explanation
Indices: 48385--48418 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
48375 TGTCAATCTA
48385 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48419 ATTTACGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48599 original size:85 final size:85
Alignment explanation
Indices: 48446--48603 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
48436 ACGACCCCTG
* * * * *
48446 AATGTGTGTCATCTTTTTTAATGACGGGAGCTTCAATGACGCTCAATGTAAGTCATACATGTGTG
1 AATGTGTGTCATCTTATTTAATGACGGGAGCTTCAATGACGCTCAATGCAAGTCATAAATGAGCG
48511 TCATAAATTTATGACATACA
66 TCATAAATTTATGACATACA
* * *
48531 AATGTGTGTCATCTTAATTT-ATGACGGGGGCTTCAATGACGCTCAATGCATGTCCTAAATGAGC
1 AATGTGTGTCATCTT-ATTTAATGACGGGAGCTTCAATGACGCTCAATGCAAGTCATAAATGAGC
48595 GTCATAAAT
65 GTCATAAAT
48604 GCGTGTCATA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 61 0.95
86 3 0.05
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (85 bp):
AATGTGTGTCATCTTATTTAATGACGGGAGCTTCAATGACGCTCAATGCAAGTCATAAATGAGCG
TCATAAATTTATGACATACA
Found at i:48602 original size:13 final size:13
Alignment explanation
Indices: 48586--48648 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
48576 ATGCATGTCC
*
48586 TAAATGAGCGTCA
1 TAAATGCGCGTCA
*
48599 TAAATGCGTGTCA
1 TAAATGCGCGTCA
48612 TAAATGCGCGTCA
1 TAAATGCGCGTCA
* *
48625 TAAATGTGTGTCA
1 TAAATGCGCGTCA
*
48638 TAAATGTGCGT
1 TAAATGCGCGT
48649 AATAGATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (13 bp):
TAAATGCGCGTCA
Found at i:48605 original size:26 final size:26
Alignment explanation
Indices: 48575--48648 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
48565 AATGACGCTC
* *
48575 AATGCATGTCCTAAATGAGCGTCATA
1 AATGCGTGTCATAAATGAGCGTCATA
*
48601 AATGCGTGTCATAAATGCGCGTCATA
1 AATGCGTGTCATAAATGAGCGTCATA
* *
48627 AATGTGTGTCATAAATGTGCGT
1 AATGCGTGTCATAAATGAGCGT
48649 AATAGATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (26 bp):
AATGCGTGTCATAAATGAGCGTCATA
Found at i:48955 original size:14 final size:14
Alignment explanation
Indices: 48936--48966 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48926 GTGAAAGTGT
48936 AAAAGATAAAAATA
1 AAAAGATAAAAATA
*
48950 AAAAGATAAAAGTA
1 AAAAGATAAAAATA
48964 AAA
1 AAA
48967 GGGAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAAGATAAAAATA
Found at i:52272 original size:186 final size:187
Alignment explanation
Indices: 51959--52324 Score: 709
Period size: 186 Copynumber: 2.0 Consensus size: 187
51949 TTGTGGCTCT
51959 ACTTGCCATGGTATTCTTCCAGTAGAATATTATGCATACAAATAGTGGGACTTATCCCCTTCAAA
1 ACTTGCCATGGTATTCTTCCAGTAGAATATTATGCATACAAATAGTGGGACTTATCCCCTTCAAA
52024 TCTGCCATAGTTTATCCTGACACTTTTTTATGCCGCAACAAAACACTTAGCAAACTAGGTTATTG
66 TCTGCCATAGTTTATCCTGACACTTTTTTATGCCGCAACAAAACACTTAGCAAACTAGGTTATTG
52089 GTTAGCAATAATGATAGAGGAGATAATAACAAGT-AAG-TTCATCACTACTCTATGG
131 GTTAGCAATAATGATAGAGGAGATAATAACAAGTAAAGTTTCATCACTACTCTATGG
52144 ACTTGCCATGGTATTCTTCCAGTAGAATATTATGCATACAAATAGTGGGACTTATCCCCTTCAAA
1 ACTTGCCATGGTATTCTTCCAGTAGAATATTATGCATACAAATAGTGGGACTTATCCCCTTC-AA
52209 ATCTGCCATAGTTTATCCTGACACTTTTTTATGCCGCAACAAAACACTTAGCAAACTAGGTTATT
65 ATCTGCCATAGTTTATCCTGACACTTTTTTATGCCGCAACAAAACACTTAGCAAACTAGGTTATT
52274 GGTTAGCAATAATGATAGAGGAGATAATAACAAGTAAAGTTTCATCACTAC
130 GGTTAGCAATAATGATAGAGGAGATAATAACAAGTAAAGTTTCATCACTAC
52325 CCAAGTAAGA
Statistics
Matches: 178, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
185 62 0.35
186 102 0.57
187 3 0.02
188 11 0.06
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (187 bp):
ACTTGCCATGGTATTCTTCCAGTAGAATATTATGCATACAAATAGTGGGACTTATCCCCTTCAAA
TCTGCCATAGTTTATCCTGACACTTTTTTATGCCGCAACAAAACACTTAGCAAACTAGGTTATTG
GTTAGCAATAATGATAGAGGAGATAATAACAAGTAAAGTTTCATCACTACTCTATGG
Found at i:56689 original size:922 final size:920
Alignment explanation
Indices: 54320--57074 Score: 4499
Period size: 922 Copynumber: 3.0 Consensus size: 920
54310 ACTTGTTGGC
* * * *
54320 TTTTGTGAGTACTTAATATGGATGCGAAATATGTGTAAGTATACACAATCGAACAAGTAATATAG
1 TTTTGTGAGTACTTAATATGGACGCGAAATATGTGCAAGCATACACAATCGAACAAGTAATACAG
* * *
54385 TGATGAGTGAGTATCATCTCCATAAGTATTCGAGGAAATTTATAGGTTCAGTTAAAGCAAATATC
66 TGATGAGTGAGTATCATCTCCACAAGGATTAGAGGAAATTTATAGGTTCAGTTAAAGCAAATATC
** **
54450 TACTTTATTTAAGTGTAGTTAGTGTGATATTATGTACTAATGAGAACAATGAGGCAATGTGAAA-
131 TACTTTATTTAAGTGTAGTTAGTGTGATGGTATGTACTAATGAGAACGCTGAGGCAATGTGAAAT
* * * * *
54514 GTATGTTGGTGAGGATTGAATGATAGTGTGATGTGGCACTAAATGGAGATGTCGTGGCAGAATAA
196 GTATGTTGGTGAGGATTGAATGATAGTGTGATATGGTAATAAATGGTGATGTCGTTGCAGAATAA
* *
54579 ATTGTGTAGTGAAATCAAATGAAAAAGTAAAGGCAAAACAAAATGTAAACATTGGATTTGAATAT
261 ATTGTGTAGTGAAATCAAATG-AAAAGTAAAGGCAAAACAAAATGTAAACACTGGATTTGAATAG
* * *
54644 AATAACTAGATAATCTTCACACAACAAGCTACTATGGGAATGAATGATAGGAGTCACTTAGGAAA
325 AATAACTTGATAATCCTCACACAACAAGATACTATGGGAATGAATGATAGGAGTCACTTAGGAAA
* * *
54709 CTTATGTTTATCTTCTCAAGATGGTCTTACTTCTATGCCTTACTTG-CCTACAGAGTTTACCAAA
390 CTTAAGTTTATCTTCTCAAGATGGTTTTACTTCTATGCCTTACTTGCCCGACAGAGTTTACCAAA
*
54773 GGTGCCCTATGCTATCTCTAGTCAAGGGACTCGACAGGTTGAAAATACCATGGTATTACCTCTCG
455 GGTGCCCTATGCTATCTCTAGTCAAGGGACTCGACAGGTTGAAAATACCATGGTAATACCTCTCG
* * * * *
54838 ACGTTAGCAGGTGCAGGGATCCCACCAGTTCAAATCAACAGAATATGTCATAGCAATACCACTCA
520 GCGTTAGCAGGTGCAGGGATCCCATCAGTTCAAATCAACAGAATATGTGACAGTAATACCACTCA
* * * *
54903 ACGTTAGCACTAGCATCTAACCTCTCGACTGAGCACTACTTCTTTTAGTTGATTGAAATCCTAGC
585 ATGTTAGCACTAGCATCTAACCTCTCGACCGAGCACTACTCCTTTTAATTGATTGAAATCCTAGC
* * *
54968 CTTATGTCTAATGGTGGATTAAGTAC-AATTATTATCTAAAACCCATTTTTATGATAATCCTCCT
650 CTTATGTCTAATGGTGGATTAAGT-CTAGTTACTATCTAAAACCCATTTTTATGTTAATCCTCCT
** *
55032 CAGTTTCTCTTGAACACTAAATATGAGTTACTTAGTTTCTCTCGAACACTAAGTATTTTCCTAAG
714 TTGTTTCTC-TGAACACTAAAGATGAGTTACTTAGTTTCTCTCGAACACTAAGTATTTTCCTAAG
* *
55097 GAATGATTACTCTCATAGCTCCTACAACCTTAAGTCATTTAGCACTATAAACAAAACAAATAAAC
778 GAATGATTACTCTCATAGCTCCTACAACCTTAAGTCATTAAGCACCATAAACAAAACAAATAAAC
* *
55162 ACATAAAAAAAGAATAACCATCCATTAAAGAAAAACTTAAGCATCCAAAATGAACTCCCACCAAA
843 ACATAGAAAAAGAACAACCATCCATTAAAGAAAAACTTAAGCATCCAAAATGAACTCCCACCAAA
55227 TAAAGCTAGTACT
908 TAAAGCTAGTACT
* * * *
55240 TTTTGTGAGTACTT-ATATAGACGCGACATATGTGCAAGCATACACAATCGAACAAGTAATAGAA
1 TTTTGTGAGTACTTAATATGGACGCGAAATATGTGCAAGCATACACAATCGAACAAGTAATACAG
*
55304 TGATGAGTGAGTATCATCTCCACAAGGATTGGAGGAAATTTATAGGTTCAGTTAAAGCAAATATC
66 TGATGAGTGAGTATCATCTCCACAAGGATTAGAGGAAATTTATAGGTTCAGTTAAAGCAAATATC
55369 TACTTTATTTAAGTGTAGTTAGTGTGATGGTATGTACTAATGAGAACGCTGAGGCAATGTGAAAT
131 TACTTTATTTAAGTGTAGTTAGTGTGATGGTATGTACTAATGAGAACGCTGAGGCAATGTGAAAT
* *
55434 GTATGTTGGTGAGGATTGAATGATAGTGTGATATGGTAGTAAATGGTGATGTCATTGCAGAATAA
196 GTATGTTGGTGAGGATTGAATGATAGTGTGATATGGTAATAAATGGTGATGTCGTTGCAGAATAA
*
55499 ATTGTATATAGTGAAATCAAATGAAAATGTAAAGGCAAAACAAAATGTAAACACTGGATTTGAAT
261 ATTG--TGTAGTGAAATCAAATGAAAA-GTAAAGGCAAAACAAAATGTAAACACTGGATTTGAAT
* * *
55564 AGAATAACTTGATAATCCTCACACAATAAGATATTATGGGAATGAATGATAGCAGTCACTTAGGA
323 AGAATAACTTGATAATCCTCACACAACAAGATACTATGGGAATGAATGATAGGAGTCACTTAGGA
* *
55629 AACTTAAGTTTATCTTCTCAAGAAGGTTTTAATTCTATGCCTTACTTGCCCGACAGAGTTTACCA
388 AACTTAAGTTTATCTTCTCAAGATGGTTTTACTTCTATGCCTTACTTGCCCGACAGAGTTTACCA
* * *
55694 AAGGTACCCTATGCTATCTCTAGTCAAGAGACTCGACAGGTTGAAAATTCCATGGTAATACCTCT
453 AAGGTGCCCTATGCTATCTCTAGTCAAGGGACTCGACAGGTTGAAAATACCATGGTAATACCTCT
* * * *
55759 CAGCGTTAGCAGGTACAGGGATCTCATCAGTTCAAATCAACAGAATATGTGACGGTAATACCACT
518 CGGCGTTAGCAGGTGCAGGGATCCCATCAGTTCAAATCAACAGAATATGTGACAGTAATACCACT
* *
55824 CAATGTTAGCACTAGCATTTAACCTCTCGACCGAGCACTACTCCTTTTAATCGATTGAAATCCTA
583 CAATGTTAGCACTAGCATCTAACCTCTCGACCGAGCACTACTCCTTTTAATTGATTGAAATCCTA
55889 GCCTTATGTCTAATGGTGGATTAAGTCTAGTTACTATCTAAAACCCATTATTTATGTTAATCCTC
648 GCCTTATGTCTAATGGTGGATTAAGTCTAGTTACTATCTAAAACCCATT-TTTATGTTAATCCTC
*
55954 CTTTGTTTCTCTCGACCACTAAAGATGAGTTACTTAGTTTCTCTCGAACACTAAGTATTTTCCTA
712 CTTTGTTTCTCT-GAACACTAAAGATGAGTTACTTAGTTTCTCTCGAACACTAAGTATTTTCCTA
* *
56019 AGGAATGGTTACTCTCATAGCTCCTACAACCTTAAGTCATTAAGCACCATAAACAAAACAAATAG
776 AGGAATGATTACTCTCATAGCTCCTACAACCTTAAGTCATTAAGCACCATAAACAAAACAAATAA
56084 ACACATAGAAAAAGAACAACCATCCATTAAAGAAAAACTTAAGCATCCAAAATGAACTCCCACCA
841 ACACATAGAAAAAGAACAACCATCCATTAAAGAAAAACTTAAGCATCCAAAATGAACTCCCACCA
56149 AATAAAGCTAGTACT
906 AATAAAGCTAGTACT
56164 TTTTGTGAGTACTTAATATGGACGCGAAATATGTGCAAG-AGTACACAATCGAACAAGTAATACA
1 TTTTGTGAGTACTTAATATGGACGCGAAATATGTGCAAGCA-TACACAATCGAACAAGTAATACA
*
56228 GTGATGAGTGAGTATCATCTCCACAAGGATTAAAGGAAATTTATAGGTTCAGTTAAAGCAAATAT
65 GTGATGAGTGAGTATCATCTCCACAAGGATTAGAGGAAATTTATAGGTTCAGTTAAAGCAAATAT
*
56293 CTACTTTATTTAACTGTAGTTAGTGTGATGGTATGTACTAATGAGAACGCTGAGGCAATGTGAAA
130 CTACTTTATTTAAGTGTAGTTAGTGTGATGGTATGTACTAATGAGAACGCTGAGGCAATGTGAAA
* * *
56358 TGTATATTGGCGAGGATTGAATGATAGTGTGATATGGTAATAAATGGTGATGTCGTTGCATAATA
195 TGTATGTTGGTGAGGATTGAATGATAGTGTGATATGGTAATAAATGGTGATGTCGTTGCAGAATA
* *
56423 AAATGTGTAGTGAAATCAAATGAAAAGTAAAGGCAAAACAAAATTTAAACACTGGATTTGAATAG
260 AATTGTGTAGTGAAATCAAATGAAAAGTAAAGGCAAAACAAAATGTAAACACTGGATTTGAATAG
* * *
56488 AATAACTTGATAATCCTCACACAACAATATACTATGGGAATGAATGATAGGAGTAAATTAGGAAA
325 AATAACTTGATAATCCTCACACAACAAGATACTATGGGAATGAATGATAGGAGTCACTTAGGAAA
*
56553 CTTAAGTTTATCTTCTCAAGATGGTTTTACTTCTATGCCTTACTTGCCCGAAAGAGTTTACCAAA
390 CTTAAGTTTATCTTCTCAAGATGGTTTTACTTCTATGCCTTACTTGCCCGACAGAGTTTACCAAA
*
56618 GGTGCCCTATGCTATCTCTAGTCAAGGGACTCGACAGGTTGAAAATGCCATGGTAATACCTCTCG
455 GGTGCCCTATGCTATCTCTAGTCAAGGGACTCGACAGGTTGAAAATACCATGGTAATACCTCTCG
* * *
56683 GCGTTAGTAGGTGCAGGGATCCCATCAGTTCAAATCAACATAATATGTGACATTAATACCACTCA
520 GCGTTAGCAGGTGCAGGGATCCCATCAGTTCAAATCAACAGAATATGTGACAGTAATACCACTCA
*
56748 GTGTTAGCACTAGCATCTAACCTCTCGACC--G-A--ACTCCTTTTAATTGATTGAAATCCTAGC
585 ATGTTAGCACTAGCATCTAACCTCTCGACCGAGCACTACTCCTTTTAATTGATTGAAATCCTAGC
* * * *
56808 CTTATGTCTAATGATGGATTAAGTCTAGTTACTATCTAAAACCCATTGTTTATTTTAATCATTCT
650 CTTATGTCTAATGGTGGATTAAGTCTAGTTACTATCTAAAACCCATT-TTTATGTTAATCCTCCT
*
56873 TTG-TT-TCTGAACATTAAAGATGAGTTACTTAGTTTCTCTCGAACACTAAGTATTTTCCTAAGG
714 TTGTTTCTCTGAACACTAAAGATGAGTTACTTAGTTTCTCTCGAACACTAAGTATTTTCCTAAGG
* *
56936 AATGATTACTCTCATAGCTCCTACAACCTTAAGTTATTAAGAACCATAAACAAAACAAATAAACA
779 AATGATTACTCTCATAGCTCCTACAACCTTAAGTCATTAAGCACCATAAACAAAACAAATAAACA
*
57001 CATAGAAAAAGAACAACCATCTATTAAAGAAAAACTTAAGCATCCAAAATGAACTCCCACCAAAT
844 CATAGAAAAAGAACAACCATCCATTAAAGAAAAACTTAAGCATCCAAAATGAACTCCCACCAAAT
57066 AAAGCTAGT
909 AAAGCTAGT
57075 TCATGGTGGA
Statistics
Matches: 1710, Mismatches: 115, Indels: 26
0.92 0.06 0.01
Matches are distributed among these distances:
914 187 0.11
915 3 0.00
916 2 0.00
917 90 0.05
919 166 0.10
920 78 0.05
921 4 0.00
922 462 0.27
923 257 0.15
924 227 0.13
925 234 0.14
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (920 bp):
TTTTGTGAGTACTTAATATGGACGCGAAATATGTGCAAGCATACACAATCGAACAAGTAATACAG
TGATGAGTGAGTATCATCTCCACAAGGATTAGAGGAAATTTATAGGTTCAGTTAAAGCAAATATC
TACTTTATTTAAGTGTAGTTAGTGTGATGGTATGTACTAATGAGAACGCTGAGGCAATGTGAAAT
GTATGTTGGTGAGGATTGAATGATAGTGTGATATGGTAATAAATGGTGATGTCGTTGCAGAATAA
ATTGTGTAGTGAAATCAAATGAAAAGTAAAGGCAAAACAAAATGTAAACACTGGATTTGAATAGA
ATAACTTGATAATCCTCACACAACAAGATACTATGGGAATGAATGATAGGAGTCACTTAGGAAAC
TTAAGTTTATCTTCTCAAGATGGTTTTACTTCTATGCCTTACTTGCCCGACAGAGTTTACCAAAG
GTGCCCTATGCTATCTCTAGTCAAGGGACTCGACAGGTTGAAAATACCATGGTAATACCTCTCGG
CGTTAGCAGGTGCAGGGATCCCATCAGTTCAAATCAACAGAATATGTGACAGTAATACCACTCAA
TGTTAGCACTAGCATCTAACCTCTCGACCGAGCACTACTCCTTTTAATTGATTGAAATCCTAGCC
TTATGTCTAATGGTGGATTAAGTCTAGTTACTATCTAAAACCCATTTTTATGTTAATCCTCCTTT
GTTTCTCTGAACACTAAAGATGAGTTACTTAGTTTCTCTCGAACACTAAGTATTTTCCTAAGGAA
TGATTACTCTCATAGCTCCTACAACCTTAAGTCATTAAGCACCATAAACAAAACAAATAAACACA
TAGAAAAAGAACAACCATCCATTAAAGAAAAACTTAAGCATCCAAAATGAACTCCCACCAAATAA
AGCTAGTACT
Done.