Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_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: 2340112
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:640861 original size:205 final size:209
Alignment explanation
Indices: 640049--641122 Score: 1618
Period size: 205 Copynumber: 5.1 Consensus size: 209
640039 GCCATCCGCG
* * * * * *
640049 ATTTCAACTCCACGACGGAGAATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGGAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
640114 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAA-TTCAACTTCACAACGAAGG
63 GGGACCGCTGGTTGTCAAC-AACAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
** * *
640178 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
126 ATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
* *
640243 ATTTTCCCAATTTCAGAGCCA
190 ACTTT-CCAATCTCAGAGCCA
* *
640264 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
640329 ACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGGTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
640394 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
130 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
640459 CCAATCTCAGAGCCA
195 CCAATCTCAGAGCCA
640474 ATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
640539 ACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGG--AT
66 ACCGCTGGTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
640602 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
130 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
640667 CCAATCTCAGAGCCA
195 CCAATCTCAGAGCCA
640682 ATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
640747 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
66 ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* *
640808 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCC
131 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
*
640873 CAATCCCAGAGCCA
196 CAATCTCAGAGCCA
* * *
640887 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAATGG
1 ATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
640952 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGATTCAATTTCAACTTCACAACGAAGGATATT
66 ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* ** * * *
641013 GGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC-ACAAACAA-TTT
131 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTT
**
641076 CCCGGT-TCCAGAGCCA
195 -CCAATCT-CAGAGCCA
*
641092 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGGAGGATATTGGACT
641123 TGGAACAATG
Statistics
Matches: 811, Mismatches: 41, Indels: 24
0.93 0.05 0.03
Matches are distributed among these distances:
203 30 0.04
204 6 0.01
205 291 0.36
206 2 0.00
207 2 0.00
208 164 0.20
210 139 0.17
211 30 0.04
212 124 0.15
213 3 0.00
215 20 0.02
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (209 bp):
ATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
CAATCTCAGAGCCA
Found at i:642136 original size:15 final size:15
Alignment explanation
Indices: 642103--642145 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
642093 AGTCCCTTTA
* *
642103 TTTATT-ATGGATAT
1 TTTATTCATGTATTT
*
642117 TTTATTCATTTATTT
1 TTTATTCATGTATTT
642132 TTTATTCATGTATT
1 TTTATTCATGTATT
642146 ATTATTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (15 bp):
TTTATTCATGTATTT
Found at i:643568 original size:26 final size:24
Alignment explanation
Indices: 643518--643568 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
643508 GGAATTGGAA
643518 TAAAGCTTTTCAAAGTTTGGGTTT
1 TAAAGCTTTTCAAAGTTTGGGTTT
*
643542 TAAAGTTTTTCCAAAGTTTTGGGTTT
1 TAAAGCTTTT-CAAAG-TTTGGGTTT
643568 T
1 T
643569 TTAAAATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 9 0.38
25 5 0.21
26 10 0.42
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.49
Consensus pattern (24 bp):
TAAAGCTTTTCAAAGTTTGGGTTT
Found at i:650876 original size:33 final size:32
Alignment explanation
Indices: 650839--650913 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 32
650829 CTATTACATG
650839 AATTTTTTTAAAAAAAT-ATAAAAATTATAATAT
1 AATTTTTTTAAAAAAATAATAAAAA--ATAATAT
**
650872 AA---TTTTAAAATTATAATAAAAAATAATAT
1 AATTTTTTTAAAAAAATAATAAAAAATAATAT
650901 ATATTTTTTTAAA
1 A-ATTTTTTTAAA
650914 TGTCGCTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
29 8 0.23
30 11 0.31
31 7 0.20
33 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AATTTTTTTAAAAAAATAATAAAAAATAATAT
Found at i:652217 original size:18 final size:18
Alignment explanation
Indices: 652194--652231 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
652184 ATTAAATATA
652194 AAAGTTAATTTTTATAAT
1 AAAGTTAATTTTTATAAT
652212 AAAGTTAATTTTTATAAT
1 AAAGTTAATTTTTATAAT
652230 AA
1 AA
652232 TTTAGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
AAAGTTAATTTTTATAAT
Found at i:657671 original size:30 final size:30
Alignment explanation
Indices: 657635--657715 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
657625 TTGGATTTTC
* * *
657635 AAAAAATGACCAAATATATTATTAGACGCT
1 AAAAAATGATCAAAAATATTACTAGACGCT
*
657665 AAAAAATGATCAAAAACATTACTAGACGCT
1 AAAAAATGATCAAAAATATTACTAGACGCT
*
657695 AAAAAATAATCAAAAATATTA
1 AAAAAATGATCAAAAATATTA
657716 AAAAAATATC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.23
Consensus pattern (30 bp):
AAAAAATGATCAAAAATATTACTAGACGCT
Found at i:659359 original size:15 final size:14
Alignment explanation
Indices: 659335--659364 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
659325 TTTTAATATT
659335 AGGATAAAAGAATG
1 AGGATAAAAGAATG
659349 AGGACTAAAAGAATG
1 AGGA-TAAAAGAATG
659364 A
1 A
659365 TTAACCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.57, C:0.03, G:0.27, T:0.13
Consensus pattern (14 bp):
AGGATAAAAGAATG
Found at i:663841 original size:32 final size:32
Alignment explanation
Indices: 663752--663860 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 32
663742 TCCAAAATAA
* * *
663752 TACCTAATATTT-ACTTTTTATTTCATTTTAG
1 TACCTAATTTTTAACTTCTTGTTTCATTTTAG
* * *
663783 TACCCAGA-ATTT-ACTTTTTGTTTCATTTTAG
1 TACCTA-ATTTTTAACTTCTTGTTTCATTTTAG
663814 TAGCCT-ATTTTTAACTTCTTGTTTCATTTTAG
1 TA-CCTAATTTTTAACTTCTTGTTTCATTTTAG
663846 TACCTAAATTTTTAA
1 TACCT-AATTTTTAA
663861 TGGTGGGGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
30 1 0.01
31 35 0.52
32 23 0.34
33 8 0.12
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (32 bp):
TACCTAATTTTTAACTTCTTGTTTCATTTTAG
Found at i:671239 original size:24 final size:24
Alignment explanation
Indices: 671212--671272 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 24
671202 TGTTTAATAC
671212 TTAAAT-TATTAATTTTGATTTATA
1 TTAAATATATTAATTTT-ATTTATA
* *
671236 TT-AATATCTTAATTTTATTTTTA
1 TTAAATATATTAATTTTATTTATA
671259 -TAAATCATACTTAA
1 TTAAAT-ATA-TTAA
671273 AGTTTAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.03
23 12 0.40
24 13 0.43
25 4 0.13
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (24 bp):
TTAAATATATTAATTTTATTTATA
Found at i:671271 original size:25 final size:24
Alignment explanation
Indices: 671220--671272 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
671210 ACTTAAATTA
*
671220 TTAATTTTGATTTATATTAATATC
1 TTAATTTTGATTTATATAAATATC
*
671244 TTAATTTT-ATTTTTATAAATCATAC
1 TTAATTTTGATTTATATAAAT-AT-C
671269 TTAA
1 TTAA
671273 AGTTTAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 10 0.40
25 5 0.20
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
TTAATTTTGATTTATATAAATATC
Found at i:684841 original size:20 final size:20
Alignment explanation
Indices: 684790--684842 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
684780 AAATATGATA
684790 TGGCAAGAAATTTTATGAAG
1 TGGCAAGAAATTTTATGAAG
* * **
684810 TGAACAAG-AATTTTGTGTCG
1 TG-GCAAGAAATTTTATGAAG
684830 TGGCAAGAAATTT
1 TGGCAAGAAATTT
684843 ATGCAAGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.32
Consensus pattern (20 bp):
TGGCAAGAAATTTTATGAAG
Found at i:702856 original size:21 final size:22
Alignment explanation
Indices: 702828--702878 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 22
702818 ATGTTGGGTT
702828 CATAACATCTCATGCCTACATA
1 CATAACATCTCATGCCTACATA
702850 CATACATGCATCTCATGCCTACATA
1 CATA-A--CATCTCATGCCTACATA
702875 CATA
1 CATA
702879 CTTTTGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 4 0.15
23 1 0.04
25 21 0.81
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.27
Consensus pattern (22 bp):
CATAACATCTCATGCCTACATA
Found at i:703965 original size:59 final size:60
Alignment explanation
Indices: 703843--703969 Score: 175
Period size: 59 Copynumber: 2.1 Consensus size: 60
703833 ATAGTTGGAT
* * *
703843 GACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACTCTCTAGTCAAAG
1 GACCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACTCTATAATCAAAG
* * * **
703903 GACCATTTTATAACTTTTAATAGTCGA-GGACTTAATAAAGCAATACTCTATAATCAGGG
1 GACCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACTCTATAATCAAAG
703962 GACCATTT
1 GACCATTT
703970 ACTCTATAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 33 0.56
60 26 0.44
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACTCTATAATCAAAG
Found at i:703976 original size:23 final size:23
Alignment explanation
Indices: 703946--703992 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
703936 AATAAAGCAA
703946 TACTCTATAATCAGGGGACCATT
1 TACTCTATAATCAGGGGACCATT
703969 TACTCTATAATCAGGGGACCATT
1 TACTCTATAATCAGGGGACCATT
703992 T
1 T
703993 GTGTACTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (23 bp):
TACTCTATAATCAGGGGACCATT
Found at i:717302 original size:2 final size:2
Alignment explanation
Indices: 717295--717338 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
717285 CTAATGATCT
* * *
717295 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TG TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
717337 TA
1 TA
717339 CTTCTTTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:720115 original size:27 final size:28
Alignment explanation
Indices: 720071--720123 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
720061 TATGACTATT
*
720071 ATTCTAAATTTATCTCTAAATTATGAAC
1 ATTCTAAATTTATCTCTAAACTATGAAC
720099 ATTCT-AATTTCAT-TCTAAACTATGA
1 ATTCTAAATTT-ATCTCTAAACTATGA
720124 CCCTCATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (28 bp):
ATTCTAAATTTATCTCTAAACTATGAAC
Found at i:720156 original size:58 final size:56
Alignment explanation
Indices: 719992--720169 Score: 153
Period size: 58 Copynumber: 3.0 Consensus size: 56
719982 TGTACCACAA
* * *
719992 ATTCTCAAACTATGACTTTC-TTCTTAAATTAGTCTTCAAATTTTTAAATATTCTATTTC
1 ATTCT-AAACTATGACTATCATTC-TAAATTAGTC-TCAAA-TTTTGAACATTCTATTTC
* * * *
720051 ATCCCCAAACTATGACTATTATTCTAAATTTA-TCTCTAAATTATGAACATTCTAATTTC
1 AT-TCTAAACTATGACTATCATTCTAAA-TTAGTCTC-AAATTTTGAACATTCT-ATTTC
** * *
720110 ATTCTAAACTATGACCCTCATTCTAAATTGGTCTCAAACTTTTGAACATTTCGATTTC
1 ATTCTAAACTATGACTATCATTCTAAATTAGTCTCAAA-TTTTGAACA-TTCTATTTC
720168 AT
1 AT
720170 CCCCAATCTA
Statistics
Matches: 96, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
57 5 0.05
58 51 0.53
59 33 0.34
60 7 0.07
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (56 bp):
ATTCTAAACTATGACTATCATTCTAAATTAGTCTCAAATTTTGAACATTCTATTTC
Found at i:722723 original size:20 final size:20
Alignment explanation
Indices: 722684--722723 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
722674 TGCCACATGT
*
722684 CATGTCATACAAGATGATGG
1 CATGTCATACAAGATAATGG
* *
722704 CATGTCATCCAAGGTAATGG
1 CATGTCATACAAGATAATGG
722724 TTTTCTGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (20 bp):
CATGTCATACAAGATAATGG
Found at i:722866 original size:26 final size:28
Alignment explanation
Indices: 722804--722866 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 28
722794 CGAGTATTGC
722804 TGAGCTCGACTCGACTCGAAAACTCTGAAA
1 TGAGCTCGACTCGACTCGAAAACTCTG--A
722834 TGAAGCTCGACTCGACTCGAAAACTC-G-
1 TG-AGCTCGACTCGACTCGAAAACTCTGA
722861 TGAGCT
1 TGAGCT
722867 TAAAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.12
27 2 0.06
30 3 0.09
31 23 0.72
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (28 bp):
TGAGCTCGACTCGACTCGAAAACTCTGA
Found at i:726176 original size:28 final size:29
Alignment explanation
Indices: 726119--726185 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
726109 TCATATTTTA
* * *
726119 TTAGTCCCTTACTACATAAGCTGTTGA-T
1 TTAGTCCCTTACTACATAAACTGATCATT
*
726147 TTAGTCCCTTGC-ACACTAAACTGATCATT
1 TTAGTCCCTTACTACA-TAAACTGATCATT
726176 TTAGTCCCTT
1 TTAGTCCCTT
726186 TTAATTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.09
28 19 0.58
29 11 0.33
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (29 bp):
TTAGTCCCTTACTACATAAACTGATCATT
Found at i:726464 original size:15 final size:15
Alignment explanation
Indices: 726440--726470 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
726430 GTGAAAGGGA
726440 TGGGACTTATAAAAT
1 TGGGACTTATAAAAT
*
726455 TGGGATTTATAAAAT
1 TGGGACTTATAAAAT
726470 T
1 T
726471 TTAGGAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (15 bp):
TGGGACTTATAAAAT
Found at i:731497 original size:13 final size:13
Alignment explanation
Indices: 731479--731503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
731469 TTAGCTACTT
731479 TTTTACATTTACC
1 TTTTACATTTACC
731492 TTTTACATTTAC
1 TTTTACATTTAC
731504 GTTTACAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTACATTTACC
Found at i:738289 original size:42 final size:42
Alignment explanation
Indices: 738228--738308 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
738218 AATTCGCAAC
*
738228 GCGATAGTCCAAGTCCGCGTTGTGATTTATTTCAAGTTCATT
1 GCGATAGTCCAAGTCCGCGTTGCGATTTATTTCAAGTTCATT
* *
738270 GCGATAGTCGAAGTTCGCGTTGCGATTTATTTCAAGTTC
1 GCGATAGTCCAAGTCCGCGTTGCGATTTATTTCAAGTTC
738309 GCGTTGCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (42 bp):
GCGATAGTCCAAGTCCGCGTTGCGATTTATTTCAAGTTCATT
Found at i:738309 original size:23 final size:23
Alignment explanation
Indices: 738237--738330 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 23
738227 CGCGATAGTC
* *
738237 CAAGTCCGCGTTGTGATTTATTT
1 CAAGTTCGCGTTGCGATTTATTT
* *
738260 CAAGTT--CATTGCGA--TA-GT
1 CAAGTTCGCGTTGCGATTTATTT
738278 CGAAGTTCGCGTTGCGATTTATTT
1 C-AAGTTCGCGTTGCGATTTATTT
*
738302 CAAGTTCGCGTTGCGATTTATTC
1 CAAGTTCGCGTTGCGATTTATTT
738325 CAAGTT
1 CAAGTT
738331 TGTTGCGATA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
18 2 0.03
19 7 0.12
21 13 0.22
23 34 0.59
24 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (23 bp):
CAAGTTCGCGTTGCGATTTATTT
Found at i:738337 original size:21 final size:22
Alignment explanation
Indices: 738235--738339 Score: 83
Period size: 23 Copynumber: 4.8 Consensus size: 22
738225 AACGCGATAG
* *
738235 TCCAAGTCCGCGTTGTGATTTAT
1 TCCAAGTTC-CGTTGCGATTTAT
* * *
738258 TTCAAGTT-CATTGCGA--TAG
1 TCCAAGTTCCGTTGCGATTTAT
*
738277 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTC-CGTTGCGATTTAT
*
738300 TTCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTC-CGTTGCGATTTAT
*
738323 TCCAAGTT-TGTTGCGAT
1 TCCAAGTTCCGTTGCGAT
738340 AGTCCAAAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
19 8 0.12
21 21 0.32
23 36 0.55
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (22 bp):
TCCAAGTTCCGTTGCGATTTAT
Found at i:739095 original size:20 final size:20
Alignment explanation
Indices: 739070--739183 Score: 126
Period size: 20 Copynumber: 5.6 Consensus size: 20
739060 TTTTGGACTA
739070 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
739090 TCGCATTGCGA-TAATCGA-AGT
1 TCGCATTGCGATTTA-C-ATA-T
739111 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
***
739131 TCGCATTGCGATAGCCGACTA-
1 TCGCATTGCGATTTAC-A-TAT
739152 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
739172 TCGCATTGCGAT
1 TCGCATTGCGAT
739184 AGTCCAAGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.05
20 41 0.53
21 29 0.37
22 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:739115 original size:21 final size:20
Alignment explanation
Indices: 739089--739224 Score: 109
Period size: 21 Copynumber: 6.6 Consensus size: 20
739079 GATTTACATA
*
739089 TTCGCATTGCGATAATCGAAG
1 TTCGCATTGCGATAGTC-AAG
*
739110 TTCGCATTGCGAT-TTACATA-
1 TTCGCATTGCGATAGT-CA-AG
* * *
739130 TTCGCATTGCGATAGCCGAC
1 TTCGCATTGCGATAGTCAAG
*
739150 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGT-CA-AG
739171 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CAAG
739192 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CAAG
*
739213 TTCGCGTTGCGA
1 TTCGCATTGCGA
739225 ATCTGGAAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.01
20 30 0.31
21 64 0.67
22 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCAAG
Found at i:739115 original size:41 final size:41
Alignment explanation
Indices: 739070--739204 Score: 218
Period size: 41 Copynumber: 3.3 Consensus size: 41
739060 TTTTGGACTA
*
739070 TCGCATTGCGATTTACATATTCGCATTGCGATAATCGAAGT
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGT
* *
739111 TCGCATTGCGATTTACATATTCGCATTGCGATAGCCG-ACT
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGT
*
739151 ATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGT
739193 TCGCATTGCGAT
1 TCGCATTGCGAT
739205 AGTCCAAGTT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 2 0.02
41 82 0.95
42 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (41 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGT
Found at i:740626 original size:19 final size:20
Alignment explanation
Indices: 740590--740641 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
740580 ACTCCACGTC
*
740590 AACATTTCGTT-ATTTTAA-T
1 AACATTT-GTTAATGTTAAGT
740609 AACATTTGTTAATGTTAAGT
1 AACATTTGTTAATGTTAAGT
740629 AATCAATTTGTTA
1 AA-C-ATTTGTTA
740642 CAAATCAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 13 0.46
20 3 0.11
21 1 0.04
22 8 0.29
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.48
Consensus pattern (20 bp):
AACATTTGTTAATGTTAAGT
Found at i:763066 original size:58 final size:59
Alignment explanation
Indices: 762932--763066 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 59
762922 TTTTAAATCA
* * *
762932 AATTTC-TCCCTAAATTATGACTTTCATTTTAAATTAGTCCTCAAACTTTTAAACATTTC
1 AATTTCATCCC-AAACTATGACTTGCATTCTAAATTAGTCCTCAAACTTTTAAACATTTC
* *
762991 AATTTCATCCCCAAACTATGA-TTGCATTCTAAATTGGTCC-CAAACTTTTTGAACA-TTC
1 AATTTCAT-CCCAAACTATGACTTGCATTCTAAATTAGTCCTCAAAC-TTTTAAACATTTC
763049 ATATTTCATCCCAAACTA
1 A-ATTTCATCCCAAACTA
763067 AACATATATA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
58 18 0.27
59 37 0.55
60 9 0.13
61 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (59 bp):
AATTTCATCCCAAACTATGACTTGCATTCTAAATTAGTCCTCAAACTTTTAAACATTTC
Found at i:763349 original size:60 final size:60
Alignment explanation
Indices: 763233--763349 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 60
763223 AGAAAGAGGG
* *
763233 TCATAATTTAGGGATGAAATTAGAATATTCAAAATTTAAGAGACTAATTTAGAATAAAAT
1 TCATAATTTAGGGATGAAATTAGAATATTCAAAATTTAAGAGACTAATATAAAATAAAAT
* * *
763293 TCATAATTTGGGGATGAAATT-GAAATATTCAAAAGTTTAA-TGATTAATATAAAATAA
1 TCATAATTTAGGGATGAAATTAG-AATATTCAAAA-TTTAAGAGACTAATATAAAATAA
763350 GGGTTATAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 1 0.02
60 44 0.88
61 5 0.10
ACGTcount: A:0.48, C:0.04, G:0.14, T:0.34
Consensus pattern (60 bp):
TCATAATTTAGGGATGAAATTAGAATATTCAAAATTTAAGAGACTAATATAAAATAAAAT
Found at i:763363 original size:60 final size:60
Alignment explanation
Indices: 763229--763367 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 60
763219 ACTTAGAAAG
* * * *
763229 AGGGTCATAATTTAGGGATGAAATTAGAATATTCAAAATTTAAGAGACTAATTTAGAATA
1 AGGGTTATAATTTGGGGATGAAATTAGAATATTCAAAATTTAAGAGACTAATATAAAATA
** * *
763289 A-AATTCATAATTTGGGGATGAAATT-GAAATATTCAAAAGTTTAA-TGATTAATATAAAATA
1 AGGGTT-ATAATTTGGGGATGAAATTAG-AATATTCAAAA-TTTAAGAGACTAATATAAAATA
*
763349 AGGGTTATAGTTTGGGGAT
1 AGGGTTATAATTTGGGGAT
763368 ATATAATACA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
59 2 0.03
60 55 0.86
61 7 0.11
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (60 bp):
AGGGTTATAATTTGGGGATGAAATTAGAATATTCAAAATTTAAGAGACTAATATAAAATA
Found at i:765931 original size:29 final size:31
Alignment explanation
Indices: 765898--765955 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
765888 TTTAATTATT
*
765898 TTATTTAAAAGTAAA-ATAATT-TATTTTAA
1 TTATTTAAAAGTAAATAAAATTATATTTTAA
765927 TTATTTAAAAGTAAATAAAATTATATTTT
1 TTATTTAAAAGTAAATAAAATTATATTTT
765956 TAATAATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 15 0.58
30 5 0.19
31 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATTTAAAAGTAAATAAAATTATATTTTAA
Found at i:766076 original size:17 final size:17
Alignment explanation
Indices: 766042--766080 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
766032 TAATAGTGAG
*
766042 TTATTATAAATATTTTT
1 TTATTATAAATATATTT
* *
766059 TTATTATAATTCTATTT
1 TTATTATAAATATATTT
766076 TTATT
1 TTATT
766081 TGTATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATAAATATATTT
Found at i:766515 original size:13 final size:13
Alignment explanation
Indices: 766497--766529 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
766487 AATAATTAAA
*
766497 TTTTAAACTACAC
1 TTTTAAACAACAC
766510 TTTTAAACAACAC
1 TTTTAAACAACAC
766523 TTTTAAA
1 TTTTAAA
766530 AATTCTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (13 bp):
TTTTAAACAACAC
Found at i:766816 original size:21 final size:20
Alignment explanation
Indices: 766790--766908 Score: 98
Period size: 21 Copynumber: 5.8 Consensus size: 20
766780 ATCAGTTTCC
766790 AAAATCGCAACGCGATTAATG
1 AAAATCGCAACGCGATT-ATG
* *
766811 AAAATCGCAATGCGATTCTTG
1 AAAATCGCAACGCGATT-ATG
*
766832 AAAATCGCAATGCGA-TA-G
1 AAAATCGCAACGCGATTATG
** * *
766850 TACAAATTCGCATTGCGATTTTC
1 -A-AAA-TCGCAACGCGATTATG
*
766873 AAGAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGATTATG
766894 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
766909 ACACATAAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 17 0.21
21 57 0.71
22 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTATG
Found at i:766847 original size:42 final size:40
Alignment explanation
Indices: 766789--766908 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 40
766779 AATCAGTTTC
766789 CAAAATCGCAACGCGATTAATGAAAATCGCAATGCGATTCTT
1 CAAAATCGCAACGCGA-TAATGAAAATCGCAATGCGATT-TT
* * * *
766831 GAAAATCGCAATGCGATAGT-ACAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATAATGA-AAA-TCGCAATGCGATTTT
*
766872 CAAGAATCGCAACGCGA-ATATGAAAATCGCAACGCGA
1 CAA-AATCGCAACGCGATA-ATGAAAATCGCAATGCGA
766909 ACACATAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
40 1 0.02
41 20 0.31
42 42 0.66
43 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (40 bp):
CAAAATCGCAACGCGATAATGAAAATCGCAATGCGATTTT
Found at i:766901 original size:20 final size:20
Alignment explanation
Indices: 766790--766927 Score: 84
Period size: 21 Copynumber: 6.7 Consensus size: 20
766780 ATCAGTTTCC
*
766790 AAAATCGCAACGCGATTAATG
1 AAAATCGCAACGCGAAT-ATG
* * *
766811 AAAATCGCAATGCGATTCTTG
1 AAAATCGCAACGCGAAT-ATG
*
766832 AAAATCGCAATGCG-ATA-G
1 AAAATCGCAACGCGAATATG
** * * *
766850 TACAAATTCGCATTGCGATTTTC
1 -A-AAA-TCGCAACGCGAATATG
766873 AAGAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGAATATG
* *
766894 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATG
766913 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
766928 TATCCGTAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 32 0.34
21 55 0.59
22 4 0.04
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATG
Found at i:766937 original size:20 final size:20
Alignment explanation
Indices: 766876--767085 Score: 219
Period size: 20 Copynumber: 10.5 Consensus size: 20
766866 GATTTTCAAG
* ** *
766876 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
766896 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
766916 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
766936 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
766956 AATAGCAACGCATATCCGTA
1 AATCGCAACGCGTATCCGTA
*
766976 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
766996 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
767016 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
767036 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
767056 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
767076 AATCGCAACG
1 AATCGCAACG
767086 AGAATCTATA
Statistics
Matches: 159, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.01
20 155 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:768015 original size:12 final size:12
Alignment explanation
Indices: 767998--768022 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
767988 TTATAATCCT
767998 GAAGAAGAAAAA
1 GAAGAAGAAAAA
768010 GAAGAAGAAAAA
1 GAAGAAGAAAAA
768022 G
1 G
768023 TCCCGAAGAA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:770509 original size:33 final size:33
Alignment explanation
Indices: 770283--770531 Score: 242
Period size: 33 Copynumber: 7.2 Consensus size: 33
770273 CGGAAATTAC
*
770283 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
770316 AATC-CAACAAGAAAATCGCAATGCGGAAATG-A
1 AATCGCAACGAGAAAATCGCAATGC-GAAATGAA
*
770348 AATCGCAATGCGAAATGAAAATCACAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
770386 AATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGC-GAAATGAA
*
770420 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
770453 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
770491 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
770524 AATCGCAA
1 AATCGCAA
770532 TGCGAAATGA
Statistics
Matches: 187, Mismatches: 10, Indels: 38
0.80 0.04 0.16
Matches are distributed among these distances:
32 23 0.12
33 83 0.44
34 19 0.10
35 3 0.02
36 7 0.04
37 9 0.05
38 33 0.18
39 10 0.05
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:770555 original size:19 final size:19
Alignment explanation
Indices: 770297--770546 Score: 292
Period size: 19 Copynumber: 14.2 Consensus size: 19
770287 GCAACGAGAG
770297 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
770316 AATC-CAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
770329 AATCGCAATGCGGAAATG-A
1 AATCGCAATGC-GAAATGAA
770348 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
770367 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
770386 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
770400 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
770420 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
770439 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
770453 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
770472 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
770491 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
770505 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
770524 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
770543 AATC
1 AATC
770547 ACATTGCGAT
Statistics
Matches: 199, Mismatches: 8, Indels: 48
0.78 0.03 0.19
Matches are distributed among these distances:
13 7 0.04
14 35 0.18
15 3 0.02
16 7 0.04
17 7 0.04
18 11 0.06
19 115 0.58
20 14 0.07
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:770569 original size:52 final size:52
Alignment explanation
Indices: 770283--770546 Score: 414
Period size: 52 Copynumber: 5.1 Consensus size: 52
770273 CGGAAATTAC
770283 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATC-CAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
770329 AATCGCAATGCGGAAATGAAATCGCAATGCGAAATGAAAATCACAATGCGAAATGAA
1 AATCGCAA--C-GAGA-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
770386 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
770439 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
770491 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
770543 AATC
1 AATC
770547 ACATTGCGAT
Statistics
Matches: 203, Mismatches: 3, Indels: 18
0.91 0.01 0.08
Matches are distributed among these distances:
46 8 0.04
48 1 0.00
49 3 0.01
50 1 0.00
51 23 0.11
52 97 0.48
53 52 0.26
54 4 0.02
55 1 0.00
56 2 0.01
57 11 0.05
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:770585 original size:33 final size:33
Alignment explanation
Indices: 770548--770654 Score: 200
Period size: 33 Copynumber: 3.3 Consensus size: 33
770538 ATGAAAATCA
770548 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
770581 CATTGCGATTCTCTCGTTGC--TTTTCATTTCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
770612 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
770645 CATTGCGATT
1 CATTGCGATT
770655 TTCATTTCAA
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
31 31 0.43
33 41 0.57
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
Found at i:770588 original size:19 final size:19
Alignment explanation
Indices: 770564--770662 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 19
770554 GATTCTCTCG
770564 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
770583 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
770597 TTGC--TTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
770614 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
770628 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
770647 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
770663 AACATAATGC
Statistics
Matches: 64, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
14 13 0.20
15 4 0.06
16 11 0.17
17 14 0.22
19 22 0.34
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:770800 original size:32 final size:32
Alignment explanation
Indices: 770750--770828 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
770740 TTCAACATAA
**
770750 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCG
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCG
770782 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 -TGCGATTTTCATTTCGCGTTGCGATTCTCTCG
770814 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
770829 TCTCGTTGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
31 5 0.12
32 33 0.77
33 5 0.12
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (32 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:770803 original size:18 final size:17
Alignment explanation
Indices: 770761--770807 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
770751 GCGATTTTGG
770761 TTTCGCGTTGCGA-TTC
1 TTTCGCGTTGCGATTTC
*
770777 --TCTCGTTGCGATTTC
1 TTTCGCGTTGCGATTTC
770792 ATTTCGCGTTGCGATT
1 -TTTCGCGTTGCGATT
770808 CTCTCGTGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
18 12 0.48
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (17 bp):
TTTCGCGTTGCGATTTC
Found at i:770819 original size:13 final size:14
Alignment explanation
Indices: 770766--770820 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
770756 TTTGGTTTCG
770766 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
770780 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
770798 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
770812 CG-TGCGATT
1 CGTTGCGATT
770821 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 3 0.09
17 3 0.09
18 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:770831 original size:20 final size:21
Alignment explanation
Indices: 770806--770881 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
770796 CGCGTTGCGA
770806 TTCTCTCG-TGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
770826 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
770848 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
770868 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
770882 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
20 17 0.36
21 21 0.45
22 9 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:771019 original size:31 final size:32
Alignment explanation
Indices: 770960--771028 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
770950 AATACTAACT
770960 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAAC-AGAGAATAGCAACGCGAAA
* *
770993 TGAAAATCGCAAC-GAGAATCGTAACGCGAAA
1 TGAAAATCGCAACAGAGAATAGCAACGCGAAA
771024 TGAAA
1 TGAAA
771029 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 21 0.62
33 13 0.38
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.12
Consensus pattern (32 bp):
TGAAAATCGCAACAGAGAATAGCAACGCGAAA
Found at i:771433 original size:20 final size:20
Alignment explanation
Indices: 771408--771580 Score: 197
Period size: 20 Copynumber: 8.6 Consensus size: 20
771398 CTTTAAAAAC
771408 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
771428 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
771448 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
771469 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
771489 CACATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
771509 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
771529 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
771549 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
771569 CGCGTTGCGATT
1 CGCGTTGCGATT
771581 CTTGAAAATC
Statistics
Matches: 132, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 114 0.86
21 18 0.14
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:774374 original size:19 final size:20
Alignment explanation
Indices: 774350--774405 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 20
774340 CTTCTATTTG
*
774350 TAATATTATTTAATAATA-A
1 TAATATTATATAATAATATA
774369 TAATATTATGATATATAATATA
1 TAATATTAT-ATA-ATAATATA
774391 TAATATTATATAATA
1 TAATATTATATAATA
774406 TAAACATCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 9 0.27
20 5 0.15
21 9 0.27
22 10 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TAATATTATATAATAATATA
Found at i:774762 original size:41 final size:41
Alignment explanation
Indices: 774716--774855 Score: 104
Period size: 41 Copynumber: 3.3 Consensus size: 41
774706 AAATCTGTTC
774716 CACTACTCTTCTGTGGAGAGCGAATTTTGGTTGGATTACTT
1 CACTACTCTTCTGTGGAGAGCGAATTTTGGTTGGATTACTT
* * * * * * * *
774757 CACTACTCTT-TCGTGAAGGTTGCAAACTTT-GCTGAAAAAATCCGTT
1 CACTACTCTTCT-GTGGA-G-AGCGAATTTTGGTTG---GATTAC-TT
* *
774803 CCACTACTCTTCTGTGGAGAACGAATTTTGGTTGGATTATTT
1 -CACTACTCTTCTGTGGAGAGCGAATTTTGGTTGGATTACTT
774845 CACTACTCTTC
1 CACTACTCTTC
774856 CGTGAAGGCT
Statistics
Matches: 71, Mismatches: 18, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
40 1 0.01
41 25 0.35
42 6 0.08
43 9 0.13
45 9 0.13
46 6 0.08
47 14 0.20
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (41 bp):
CACTACTCTTCTGTGGAGAGCGAATTTTGGTTGGATTACTT
Found at i:774775 original size:87 final size:88
Alignment explanation
Indices: 774663--774863 Score: 305
Period size: 88 Copynumber: 2.3 Consensus size: 88
774653 CTGAATTTGC
* * * * * * *
774663 ATTACTCCATTACTCTTTCATGAAGGTTTCATATTTTGCTG-AAAAATCTGTTCCACTACTCTTC
1 ATTACTTCACTACTCTTTCGTGAAGGTTGCAAACTTTGCTGAAAAAATCCGTTCCACTACTCTTC
*
774727 TGTGGAGAGCGAATTTTGGTTGG
66 TGTGGAGAACGAATTTTGGTTGG
774750 ATTACTTCACTACTCTTTCGTGAAGGTTGCAAACTTTGCTGAAAAAATCCGTTCCACTACTCTTC
1 ATTACTTCACTACTCTTTCGTGAAGGTTGCAAACTTTGCTGAAAAAATCCGTTCCACTACTCTTC
774815 TGTGGAGAACGAATTTTGGTTGG
66 TGTGGAGAACGAATTTTGGTTGG
* *
774838 ATTATTTCACTACTCTTCCGTGAAGG
1 ATTACTTCACTACTCTTTCGTGAAGG
774864 CTGAGAATGA
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 35 0.34
88 68 0.66
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (88 bp):
ATTACTTCACTACTCTTTCGTGAAGGTTGCAAACTTTGCTGAAAAAATCCGTTCCACTACTCTTC
TGTGGAGAACGAATTTTGGTTGG
Found at i:775049 original size:40 final size:40
Alignment explanation
Indices: 775004--775201 Score: 139
Period size: 40 Copynumber: 5.0 Consensus size: 40
774994 ATACTGACAG
**
775004 ATGACCCAAAAGATTTGTAAATTACCTGAAGGCTTTACAA
1 ATGACCCAAAAGATTTACAAATTACCTGAAGGCTTTACAA
** * * *
775044 ATGACCCGGAGGCTTTACAAATTACCTGGAGGCTTTACAA
1 ATGACCCAAAAGATTTACAAATTACCTGAAGGCTTTACAA
* * * * *
775084 ATGACCCAAAGGCTTTACAAATGACCCAGATA--CTTTATAA
1 ATGACCCAAAAGATTTACAAATTA-CCTGA-AGGCTTTACAA
** * * * * *
775124 ATGACCCGGAGGCTTTACAAATGACCCGAAGACTTTACAA
1 ATGACCCAAAAGATTTACAAATTACCTGAAGGCTTTACAA
** * * * *
775164 ATGACCCGGAGGCTTTACAAATGACCCGAAGGCTTTAC
1 ATGACCCAAAAGATTTACAAATTACCTGAAGGCTTTAC
775202 TTTTCTTGAA
Statistics
Matches: 136, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 127 0.93
41 3 0.02
42 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (40 bp):
ATGACCCAAAAGATTTACAAATTACCTGAAGGCTTTACAA
Found at i:775056 original size:20 final size:20
Alignment explanation
Indices: 775033--775201 Score: 239
Period size: 20 Copynumber: 8.4 Consensus size: 20
775023 AATTACCTGA
775033 AGGCTTTACAAATGACCCGG
1 AGGCTTTACAAATGACCCGG
* *
775053 AGGCTTTACAAATTACCTGG
1 AGGCTTTACAAATGACCCGG
**
775073 AGGCTTTACAAATGACCCAA
1 AGGCTTTACAAATGACCCGG
*
775093 AGGCTTTACAAATGACCCAG
1 AGGCTTTACAAATGACCCGG
** *
775113 ATACTTTATAAATGACCCGG
1 AGGCTTTACAAATGACCCGG
*
775133 AGGCTTTACAAATGACCCGA
1 AGGCTTTACAAATGACCCGG
*
775153 AGACTTTACAAATGACCCGG
1 AGGCTTTACAAATGACCCGG
*
775173 AGGCTTTACAAATGACCCGA
1 AGGCTTTACAAATGACCCGG
775193 AGGCTTTAC
1 AGGCTTTAC
775202 TTTTCTTGAA
Statistics
Matches: 130, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 130 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (20 bp):
AGGCTTTACAAATGACCCGG
Found at i:781539 original size:8 final size:8
Alignment explanation
Indices: 781522--781551 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
781512 CAAAAATTAG
*
781522 TTAAATAA
1 TTAAAAAA
781530 TTAAAAAA
1 TTAAAAAA
781538 TTAAAAAA
1 TTAAAAAA
781546 TTAAAA
1 TTAAAA
781552 CAAATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TTAAAAAA
Found at i:783376 original size:23 final size:23
Alignment explanation
Indices: 783334--783377 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
783324 TCGGGTTTGG
*
783334 TTGTAATCGGGCCTGGATTTGCT
1 TTGTAATCGGGCCTCGATTTGCT
*
783357 TTGTAATCGGGCCTCTATTTG
1 TTGTAATCGGGCCTCGATTTG
783378 TAAATGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (23 bp):
TTGTAATCGGGCCTCGATTTGCT
Found at i:784618 original size:31 final size:31
Alignment explanation
Indices: 784583--784675 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
784573 ACCCATGTAA
* *
784583 ACTGTCTATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTTCCATAGAACATAGGTAT
* *
784614 ACTGTCCATATGTCTCGAAAG-ACATAGGTAAT
1 ACTGTCCATATGT-TCCATAGAACATAGGT-AT
*
784646 TCTGTCCATATGTTCCATAGAACATAGGTA
1 ACTGTCCATATGTTCCATAGAACATAGGTA
784676 AACCTCGACT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
31 26 0.50
32 26 0.50
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (31 bp):
ACTGTCCATATGTTCCATAGAACATAGGTAT
Found at i:784656 original size:32 final size:32
Alignment explanation
Indices: 784579--784676 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
784569 AAGAACCCAT
* **
784579 GTAA-ACTGTCTATATGTTCCTTAGAACATAG
1 GTAATACTGTCCATATGTTCCAAAGAACATAG
*
784610 GT-ATACTGTCCATATGTCTCGAAAG-ACATAG
1 GTAATACTGTCCATATGT-TCCAAAGAACATAG
* *
784641 GTAATTCTGTCCATATGTTCCATAGAACATAG
1 GTAATACTGTCCATATGTTCCAAAGAACATAG
784673 GTAA
1 GTAA
784677 ACCTCGACTC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 27 0.48
32 28 0.50
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (32 bp):
GTAATACTGTCCATATGTTCCAAAGAACATAG
Found at i:785780 original size:29 final size:29
Alignment explanation
Indices: 785738--785796 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
785728 GCATCGGTAC
785738 ACTCATGGCATTCGATGTTTTCATTTTTA
1 ACTCATGGCATTCGATGTTTTCATTTTTA
785767 ACTCATGGCATTCGATGTTTTCATTTTTA
1 ACTCATGGCATTCGATGTTTTCATTTTTA
785796 A
1 A
785797 GGGGTGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (29 bp):
ACTCATGGCATTCGATGTTTTCATTTTTA
Found at i:790632 original size:26 final size:28
Alignment explanation
Indices: 790592--790646 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
790582 TTTTTGGTTT
790592 TTTTACTTTCTTTTGTTAT-TT-TTTTC
1 TTTTACTTTCTTTTGTTATATTATTTTC
790618 TTTTACTTTAC-TTTGTTATATTATTTTC
1 TTTTACTTT-CTTTTGTTATATTATTTTC
790646 T
1 T
790647 CTTATTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 17 0.65
27 3 0.12
28 6 0.23
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.73
Consensus pattern (28 bp):
TTTTACTTTCTTTTGTTATATTATTTTC
Found at i:791919 original size:21 final size:21
Alignment explanation
Indices: 791894--791938 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
791884 GGAAATGTTA
*
791894 AAAAACATTAATGTTTTAGGT
1 AAAAACAATAATGTTTTAGGT
*
791915 AAAAATAATAATGTTTTAGGT
1 AAAAACAATAATGTTTTAGGT
791936 AAA
1 AAA
791939 TTTTTTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (21 bp):
AAAAACAATAATGTTTTAGGT
Found at i:800229 original size:22 final size:22
Alignment explanation
Indices: 800178--800233 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
800168 TTTTGGTTTT
*
800178 TTTTTTTATATAAAATGATGGTA
1 TTTTATTATATAAAATGAT-GTA
*
800201 TAGTTATTATATAAAATGAT-TAA
1 T-TTTATTATATAAAATGATGT-A
800224 TTTTATTATA
1 TTTTATTATA
800234 AATGCAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 3 0.11
24 16 0.57
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
TTTTATTATATAAAATGATGTA
Found at i:800544 original size:15 final size:15
Alignment explanation
Indices: 800521--800550 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
800511 TTGGAGGGGT
800521 GGATGACGGTCAGGG
1 GGATGACGGTCAGGG
*
800536 GGATTACGGTCAGGG
1 GGATGACGGTCAGGG
800551 AAAACAGATT
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:0.20, C:0.13, G:0.50, T:0.17
Consensus pattern (15 bp):
GGATGACGGTCAGGG
Found at i:800932 original size:18 final size:18
Alignment explanation
Indices: 800909--800947 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
800899 AAAATTTGAA
800909 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
800927 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAAGATGGAG
800945 GAA
1 GAA
800948 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:801271 original size:17 final size:17
Alignment explanation
Indices: 801249--801284 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
801239 TTTAAATATT
801249 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
801266 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
801283 TC
1 TC
801285 CTAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:803438 original size:198 final size:197
Alignment explanation
Indices: 802796--803407 Score: 877
Period size: 198 Copynumber: 3.1 Consensus size: 197
802786 TTAATTTGTG
802796 TCGATCCCAAAAACATCGAGAA-CCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGT
1 TCGATCCCAAAAACATCGA-AACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGT
* *
802860 CTAAATACAACGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTGTTTAATTTGTGTC
65 CTAAATACAACGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTC
**
802925 GATCCCATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCGATACATTTA
130 G-----ATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCA-CCAAATGTGTCGATACATTTA
*
802990 TAAAACGTA
189 TAAAAAGTA
* * *
802999 TCGATCCCAAAAACATCGAGACCCATAACTATAATGTAATAGGTAAATTATCAATTTAACCGGTC
1 TCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTC
* *
803064 TAAATACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTAAATTTGTGTCG
66 TAAATACAACGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCG
*
803129 ATACTTTGTGTCCAGAATGATTTCCTTACCAAG-GTCACCATAATGTGTCGATACATGTATAAAA
131 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGTG-CACCA-AATGTGTCGATACATTTATAAAA
803193 AGTA
194 AGTA
* * *
803197 TCGATCCCAAAAACATCGATACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCAGTT
1 TCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTC
* *
803262 TAAATACATCGGTTTATGAGAAAACATGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCG
66 TAAATACAACGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCG
* ** ** * ** *
803327 ATACTTTGTGTCCAGAATTTAAATGGTCAAAAAGTGCACACAAAAGTGTCGATACATTTATAAAA
131 ATACTTTGTGTCCAGAA-TGATTTCCTTACCAAGTGCAC-CAAATGTGTCGATACATTTATAAAA
803392 AGTA
194 AGTA
*
803396 TCGATCCTAAAA
1 TCGATCCCAAAA
803408 CAATGAAATT
Statistics
Matches: 373, Mismatches: 30, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
197 2 0.01
198 199 0.53
199 47 0.13
200 3 0.01
202 1 0.00
203 121 0.32
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (197 bp):
TCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTC
TAAATACAACGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTTAATTTGTGTCG
ATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCACCAAATGTGTCGATACATTTATAAAAAG
TA
Found at i:803851 original size:15 final size:15
Alignment explanation
Indices: 803831--803866 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
803821 AAATCGAGGT
*
803831 TCTTCTCAACCCAGC
1 TCTTCTCAACCCACC
803846 TCTTCTCAACCCACC
1 TCTTCTCAACCCACC
803861 TCTTCT
1 TCTTCT
803867 GAGGATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.47, G:0.03, T:0.33
Consensus pattern (15 bp):
TCTTCTCAACCCACC
Found at i:806834 original size:201 final size:198
Alignment explanation
Indices: 806408--807388 Score: 1019
Period size: 201 Copynumber: 4.9 Consensus size: 198
806398 ATTATATCAA
* * **
806408 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATCAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTGCACGAAA-AAGTGTCGATACATTTATAAAAA
*
806472 GTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCG
60 GTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * * *
806537 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGT
125 GTTTAAATTTACCGG-TTTATGAGAAAAAAGGTATACAATATGTATCGAAACTTTATACATTTGT
806602 GTCGATACAT
189 GTCGATACAT
* * *
806612 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
1 G-TGTCCATAATGTTTTTCCAAACCAAGTGCACGAA-AAAGTGTCGATACATTTATAAAAAGTGT
* * ** * *
806677 CGATCCCAAAAACATCGAAATCCGTAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCT
64 CGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTT
* * * * * * **
806742 AAATATACCGGTTTATGAGAAAAAATGTATTC-ATAAAGTATCGAAATTTTATAAATTTGTACCG
129 AAATTTACCGGTTTATGAGAAAAAAGGTATACAAT-ATGTATCGAAACTTTATACATTTGTGTCG
*
806806 ATACTTT
193 ATAC-AT
* * **
806813 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATCAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTGCACGAAA-AAGTGTCGATACATTTATAAAAA
* *
806877 GTGTCGATCCCAAAAACATCAAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCG
60 GTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * * * *
806942 GTTTAAATTTACCAGTTTTATGAGAAAATAGGTTTACAATATGTGTC-AACACTTTATTCATTTG
125 GTTTAAATTTACC-GGTTTATGAGAAAAAAGGTATACAATATGTATCGAA-ACTTTATACATTTG
807006 TGTCGATACAT
188 TGTCGATACAT
* * *
807017 GTTGTCTAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGT
1 G-TGTCCATAATGTTTTTCCAAACCAAGTGCACGAA-AAAGTGTCGATACATTTATAAAAAGTGT
* * * * * * * * *
807082 CGATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCT
64 CGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTT
** * * *
807147 AAATAGACTGG-TTATTTA-AAAAAAGGTATAC-ATATTGTATCGATACTTTATACATTTGTGTC
129 AAATTTACCGGTTTA-TGAGAAAAAAGGTATACAATA-TGTATCGAAACTTTATACATTTGTGTC
* *
807209 GACACTTT
192 GATAC-AT
* ** * *
807217 ATGTCCATAATAAATTTTCCAAA-CAAGT-TACGAAAAAGTGTCGATACATTTAGAAAAAGTGTC
1 GTGTCCATAAT-GTTTTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATTTATAAAAAGTGTC
* * * *
807280 GATCCTAAAAACATCGAAACCCATAATTATAATATAATAGGCCACTTTACAATGTAACCGGTTTA
65 GATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTA
* * *
807345 AATTTACCGATTTTATGAGAAAATAGGTCTACAGA-ATGTATCGA
130 AATTTACCG-GTTTATGAGAAAAAAGGTATACA-ATATGTATCGA
807389 CACGTTTTAA
Statistics
Matches: 639, Mismatches: 111, Indels: 59
0.79 0.14 0.07
Matches are distributed among these distances:
197 90 0.14
198 10 0.02
199 77 0.12
200 83 0.13
201 191 0.30
202 2 0.00
203 1 0.00
204 113 0.18
205 70 0.11
206 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (198 bp):
GTGTCCATAATGTTTTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATTTATAAAAAGTGTCG
ATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAA
ATTTACCGGTTTATGAGAAAAAAGGTATACAATATGTATCGAAACTTTATACATTTGTGTCGATA
CAT
Found at i:807210 original size:21 final size:22
Alignment explanation
Indices: 807173--807218 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
807163 TAAAAAAAGG
*
807173 TATACATATTGTATCGATACTT
1 TATACATATTGTATCGACACTT
*
807195 TATACAT-TTGTGTCGACACTT
1 TATACATATTGTATCGACACTT
807216 TAT
1 TAT
807219 GTCCATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (22 bp):
TATACATATTGTATCGACACTT
Found at i:810312 original size:198 final size:197
Alignment explanation
Indices: 809969--810426 Score: 505
Period size: 197 Copynumber: 2.3 Consensus size: 197
809959 TGACAATAGC
* * * *
809969 TAAATTTCCAATGTAACCGGTAGAAATATATCGGGTTCATGAGAGAATAGGTCAACATAAAGTAT
1 TAAATTTACAATGTAACCGTTA-AAATATA-CCGGTTAATGAGAGAATAGGTCAACATAAAGTAT
* * * * * *
810034 CGACACTTTGTTTAATTTGTGTCGATACATTTTTTCAAAATGAATGGCAAACGAGGTGTACGCAT
64 CGACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCACGCAT
* * *
810099 AAAGTGTCGATACATTTTTAAAA-AGTATCGATCCTCG-AAACATCGAAATCGATAATTATTATG
129 AAAGTGTCAATACA--TTTAAAATAGTATCGATCCT-GAAAACATCGAAACCGATAATTATAATG
810162 TAACAGG
191 TAACAGG
* * * *
810169 TAAATTTACAATGTAACCTGTTAAAATATACCGGTTAATTAGCA-AATAGGTCTACATTATGTAT
1 TAAATTTACAATGTAACC-GTTAAAATATACCGGTTAATGAG-AGAATAGGTCAACATAAAGTAT
*
810233 CGACACTCT-TTAAATATGTGTCGATAC-TTTTTTCCAAAAT-AAAGCACAAACGAGTTGCACGC
64 CGACACTCTGTTAAATATGTGTCGATACATTTTTT-CAAAATGAAAG-ACAAACGAGGTGCACGC
* *
810295 ATAAAGTGTCAATACATTTAAAATTGTATCGATCCTGAAAACATCGAAACCGATATTTATAATGT
127 ATAAAGTGTCAATACATTTAAAATAGTATCGATCCTGAAAACATCGAAACCGATAATTATAATGT
* *
810360 AATATG
192 AACAGG
* * * * * * * *
810366 TCAATTTATAATGTAACCGGTTTAAATTTACCGTTTTTATGAGAAAATAGGTCAATATAAA
1 TAAATTTACAATGTAACC-GTTAAAATATACCG-GTTAATGAGAGAATAGGTCAACATAAA
810427 CGCTACCTAT
Statistics
Matches: 216, Mismatches: 34, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
196 8 0.04
197 77 0.36
198 69 0.32
199 34 0.16
200 25 0.12
201 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (197 bp):
TAAATTTACAATGTAACCGTTAAAATATACCGGTTAATGAGAGAATAGGTCAACATAAAGTATCG
ACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCACGCATAA
AGTGTCAATACATTTAAAATAGTATCGATCCTGAAAACATCGAAACCGATAATTATAATGTAACA
GG
Found at i:810519 original size:87 final size:87
Alignment explanation
Indices: 810420--810582 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
810410 AAATAGGTCA
* * *
810420 ATATAAACGCTACCTATTACATTATATAAGCGATACCTAATTTTTTATTGTACTTGATAATATTT
1 ATATAAACGCTACATATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
*
810485 CCTGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* * * *
810507 ATATAAGCGCTACATATTACATTATCTAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAACGCTACATATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
810572 CCGGTTAAATG
66 CCGGTTAAATG
810583 ATATAACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAACGCTACATATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:810554 original size:23 final size:23
Alignment explanation
Indices: 810504--810548 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
810494 TGCCTATTTT
*
810504 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACATAATAC
* *
810527 ATTATCTAAGCGCTACCTAATA
1 ATTATATAAGCGCTACATAATA
810549 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACATAATAC
Found at i:812729 original size:14 final size:16
Alignment explanation
Indices: 812700--812731 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
812690 CGTTCGTGAA
812700 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
812716 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
812730 CG
1 CG
812732 AACAGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:812895 original size:30 final size:30
Alignment explanation
Indices: 812861--812917 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
812851 TTTATGTATA
812861 TTTTTGTCGTATTCGAACAAATTAACTATG
1 TTTTTGTCGTATTCGAACAAATTAACTATG
*
812891 TTTTTTTCGTATTCGAACAAATTAACT
1 TTTTTGTCGTATTCGAACAAATTAACT
812918 CTAAAGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (30 bp):
TTTTTGTCGTATTCGAACAAATTAACTATG
Found at i:813053 original size:29 final size:28
Alignment explanation
Indices: 813021--813075 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
813011 TTGTTTGTGC
813021 TGTTCGTTTATGTTCATTTATTATATTCG
1 TGTTCGTTTATGTTCATTTATT-TATTCG
*
813050 TGTTCGTTTATGTTCGTTTATTTATT
1 TGTTCGTTTATGTTCATTTATTTATT
813076 AAATAAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.62
Consensus pattern (28 bp):
TGTTCGTTTATGTTCATTTATTTATTCG
Found at i:813349 original size:124 final size:124
Alignment explanation
Indices: 813196--813437 Score: 475
Period size: 124 Copynumber: 2.0 Consensus size: 124
813186 TTAGTCCTTT
813196 AACCAACACTAACACTCAGAATTTCTAACCAACATTGACACTATGGTGGTATTTGTTTTTACTGT
1 AACCAACACTAACACTCAGAATTTCTAACCAACATTGACACTATGGTGGTATTTGTTTTTACTGT
*
813261 GCAAGGTCTGCAAAGCTCTTATGTCTGTGCCGCGTAGACCACGCGCAGACATTTTGCGA
66 GCAAGGTCTGCAAAACTCTTATGTCTGTGCCGCGTAGACCACGCGCAGACATTTTGCGA
813320 AACCAACACTAACACTCAGAATTTCTAACCAACATTGACACTATGGTGGTATTTGTTTTTACTGT
1 AACCAACACTAACACTCAGAATTTCTAACCAACATTGACACTATGGTGGTATTTGTTTTTACTGT
813385 GCAAGGTCTGCAAAACTCTTATGTCTGTGCCGCGTAGACCACGCGCAGACATT
66 GCAAGGTCTGCAAAACTCTTATGTCTGTGCCGCGTAGACCACGCGCAGACATT
813438 GGGCTTCGCA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 117 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (124 bp):
AACCAACACTAACACTCAGAATTTCTAACCAACATTGACACTATGGTGGTATTTGTTTTTACTGT
GCAAGGTCTGCAAAACTCTTATGTCTGTGCCGCGTAGACCACGCGCAGACATTTTGCGA
Found at i:813612 original size:22 final size:22
Alignment explanation
Indices: 813584--813925 Score: 551
Period size: 22 Copynumber: 15.5 Consensus size: 22
813574 ATTTTAAAAT
* *
813584 TTTATTTTAAAATATAGATGGA
1 TTTATTTTAAAATATGGATTGA
*
813606 TTTATTTTAAAATACGGATTGA
1 TTTATTTTAAAATATGGATTGA
***
813628 TTTATTTTAAAATAT-GAAAAA
1 TTTATTTTAAAATATGGATTGA
*
813649 TTTTATTTTAAAATATAGATTGA
1 -TTTATTTTAAAATATGGATTGA
813672 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
813694 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
813716 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
**
813738 TTTATTTTAAAATATGGGCTGA
1 TTTATTTTAAAATATGGATTGA
*
813760 TTTATTTTAAAATATGGATCGA
1 TTTATTTTAAAATATGGATTGA
813782 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
*
813804 TTTATTTTAAAATATAGATTGA
1 TTTATTTTAAAATATGGATTGA
813826 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
*
813848 TTTATTTTAAAATATAGATTGA
1 TTTATTTTAAAATATGGATTGA
813870 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
*
813892 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGGATTGA
813914 TTTATTTTAAAA
1 TTTATTTTAAAA
813926 AATTTATTAT
Statistics
Matches: 296, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
21 3 0.01
22 290 0.98
23 3 0.01
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.49
Consensus pattern (22 bp):
TTTATTTTAAAATATGGATTGA
Found at i:816545 original size:23 final size:22
Alignment explanation
Indices: 816511--816553 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
816501 AATATTTTTA
816511 TTTTTTTAAAATAATAAATTAGG
1 TTTTTTTAAAATAA-AAATTAGG
816534 TTTTTATT-AAATAAAAATTA
1 TTTTT-TTAAAATAAAAATTA
816554 AGAGACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTTTTTAAAATAAAAATTAGG
Found at i:817692 original size:16 final size:16
Alignment explanation
Indices: 817667--817708 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
817657 AGATCTAACA
* *
817667 TTGGGTCCTTCCCATC
1 TTGGGCCCTTACCATC
817683 TTGGGCCCTTACCATC
1 TTGGGCCCTTACCATC
817699 TTGGGCCCTT
1 TTGGGCCCTT
817709 GGCCATTGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.36, G:0.21, T:0.36
Consensus pattern (16 bp):
TTGGGCCCTTACCATC
Found at i:824756 original size:17 final size:19
Alignment explanation
Indices: 824734--824772 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
824724 GAAAAAAGAT
*
824734 AAACGA-AAACAACG-ACC
1 AAACGACAAAAAACGTACC
824751 AAACGACAAAAAACGTACC
1 AAACGACAAAAAACGTACC
824770 AAA
1 AAA
824773 AGGTAAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.62, C:0.26, G:0.10, T:0.03
Consensus pattern (19 bp):
AAACGACAAAAAACGTACC
Found at i:825313 original size:48 final size:48
Alignment explanation
Indices: 825231--825341 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
825221 CATAGTATAA
* * * * * *
825231 AAGAAAAAAGAGCAACATTGATGTTGGTGTTGCCTTCTACAACCAAAG
1 AAGAAAAAGGAACAACACTGAGGTTGATGCTGCCTTCTACAACCAAAG
*
825279 AAGAAAAGGGAACAACACTGAGGTTGATGCTGCCTTCTACAACCAAAG
1 AAGAAAAAGGAACAACACTGAGGTTGATGCTGCCTTCTACAACCAAAG
825327 AAGAAAAAGGAACAA
1 AAGAAAAAGGAACAA
825342 GTAGCTAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (48 bp):
AAGAAAAAGGAACAACACTGAGGTTGATGCTGCCTTCTACAACCAAAG
Found at i:825890 original size:128 final size:128
Alignment explanation
Indices: 825689--825947 Score: 430
Period size: 128 Copynumber: 2.0 Consensus size: 128
825679 ATATTCTTCC
* *
825689 ACATGAATCCATATATTGACATAAACAACAAAATAAATACAAAATGCTTGTTATAGATACAAGAA
1 ACATGAATCCATATATTGACATAAACAACAAAATAAATAAAAAATGCTTGTTACAGATACAAGAA
*
825754 CCCACAAAATGACTTGAATTTAAAAGTTACAAAATATTTAAACATATCGTTTTGACTCGACAT
66 CCCACAAAATGACTTGAATTTAAAAATTACAAAATATTTAAACATATCGTTTTGACTCGACAT
* * **
825817 ACATGAATCTATATATTGACATAAACAACAAAATAAATAAAAAATGTTTGTTTACAGATATGAGA
1 ACATGAATCCATATATTGACATAAACAACAAAATAAATAAAAAATGCTTG-TTACAGATACAAGA
*
825882 ACCC-CAAAATGACTTGAATTTAAAAATTATAAAATATTTAAACATATCGTTTTGACTCGACAT
65 ACCCACAAAATGACTTGAATTTAAAAATTACAAAATATTTAAACATATCGTTTTGACTCGACAT
825945 ACA
1 ACA
825948 CGAGTTCATT
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 107 0.88
129 15 0.12
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (128 bp):
ACATGAATCCATATATTGACATAAACAACAAAATAAATAAAAAATGCTTGTTACAGATACAAGAA
CCCACAAAATGACTTGAATTTAAAAATTACAAAATATTTAAACATATCGTTTTGACTCGACAT
Found at i:826754 original size:21 final size:17
Alignment explanation
Indices: 826730--826778 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
826720 GAATATGAAT
826730 TATCGATACCCCTATGGGAAG
1 TATCGATACCCC-AT--G-AG
826751 TATCGATACTCCCATGAG
1 TATCGATAC-CCCATGAG
826769 TATCGATACC
1 TATCGATACC
826779 AAAATTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 1 0.04
21 11 0.41
22 3 0.11
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (17 bp):
TATCGATACCCCATGAG
Found at i:831973 original size:18 final size:18
Alignment explanation
Indices: 831950--831988 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
831940 TGCATATTGA
831950 CTCAGCCAAAGAAATTCC
1 CTCAGCCAAAGAAATTCC
831968 CTCAGCCAAAGAAATTCC
1 CTCAGCCAAAGAAATTCC
831986 CTC
1 CTC
831989 TCATATTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.36, G:0.10, T:0.18
Consensus pattern (18 bp):
CTCAGCCAAAGAAATTCC
Found at i:836663 original size:6 final size:6
Alignment explanation
Indices: 836652--836734 Score: 166
Period size: 6 Copynumber: 13.8 Consensus size: 6
836642 CATTGAATCA
836652 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
836700 GTATAT GTATAT GTATAT GTATAT GTATAT GTATA
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATA
836735 CCTTGACCAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:841986 original size:16 final size:17
Alignment explanation
Indices: 841955--841999 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
841945 ATTTTTTTAT
**
841955 TTTTTAAAAATTAAA-A
1 TTTTTAAAAAAAAAACA
841971 TATTTTAAAAAAAAAACA
1 T-TTTTAAAAAAAAAACA
841989 TTTTTAAAAAA
1 TTTTTAAAAAA
842000 TCTAGACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 22 0.88
18 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTTTAAAAAAAAAACA
Found at i:842826 original size:20 final size:21
Alignment explanation
Indices: 842801--842852 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
842791 TTTTCCCAAT
*
842801 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
842821 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
842842 TCGCAATGCGA
1 TCGCAATGCGA
842853 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:842872 original size:20 final size:20
Alignment explanation
Indices: 842842--842955 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
842832 ATTGGGAAAA
*
842842 TCGCAATGCGATACTGACTAT
1 TCGCAACGCGATACTGACT-T
* **
842863 T-GCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATACTGAC--TT
*
842883 TCACAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
842903 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
842923 TCGCAACGCGATTCTAACTT
1 TCGCAACGCGATACTGACTT
*
842943 TCGCAACGAGATA
1 TCGCAACGCGATA
842956 ATACAGAATC
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.03
20 60 0.79
21 12 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:842976 original size:41 final size:40
Alignment explanation
Indices: 842839--842975 Score: 143
Period size: 41 Copynumber: 3.4 Consensus size: 40
842829 CGAATTGGGA
*
842839 AAATCGCAATGCGATACTGACTATT-GCAACGCGATAATAC
1 AAATCGCAACGCGATACTGACT-TTCGCAACGCGATAATAC
* *
842879 AAAATCACAACGCGATACTGACTTTCGCAACGCGATACTGAC
1 -AAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** * * *
842921 -TTTCGCAACGCGATTCTAACTTTCGCAACGAGATAATAC
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
*
842960 AGAATCGCAATGCGAT
1 A-AATCGCAACGCGAT
842976 TTTCAAAGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.03
40 32 0.41
41 43 0.54
42 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (40 bp):
AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:843712 original size:24 final size:24
Alignment explanation
Indices: 843685--843738 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
843675 GTATTCGAAA
* *
843685 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTAGTCAATACCCGGAC
* *
843709 TTTGATATTAGTCAATACTCGGAT
1 TTTGATATTAGTCAATACCCGGAC
843733 TTTGAT
1 TTTGAT
843739 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTAGTCAATACCCGGAC
Found at i:843930 original size:12 final size:12
Alignment explanation
Indices: 843913--843937 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
843903 ATATAATCCT
843913 GAAGAAGAAAAA
1 GAAGAAGAAAAA
843925 GAAGAAGAAAAA
1 GAAGAAGAAAAA
843937 G
1 G
843938 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:846301 original size:19 final size:19
Alignment explanation
Indices: 846260--846324 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
846250 GAAATGAAAA
846260 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
846276 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
846293 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
846312 TCGCGTTGCGATT
1 TCGCATTGCGATT
846325 CTCTCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 11 0.26
16 3 0.07
17 3 0.07
19 26 0.60
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:846483 original size:14 final size:14
Alignment explanation
Indices: 846464--846500 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
846454 CATCAATTAA
846464 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
846478 ACAAATCATCTTTT
1 ACAAATCAACATTT
846492 ACAAATCAA
1 ACAAATCAA
846501 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:848389 original size:19 final size:19
Alignment explanation
Indices: 848365--848414 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
848355 CACGAAACTT
848365 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
848384 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
848403 AAAATCGCAATG
1 AAAATCGCAATG
848415 ACAAAATCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:848464 original size:14 final size:14
Alignment explanation
Indices: 848445--848501 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
848435 ACAAATCGCA
848445 TTGCGATTTTATCG
1 TTGCGATTTTATCG
848459 TTGCGATTTTTATTTCG
1 TTGCGA-TTTTA--TCG
*
848476 CATTGCGATTTTGTCG
1 --TTGCGATTTTATCG
848492 TTGCGATTTT
1 TTGCGATTTT
848502 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
15 5 0.14
16 3 0.08
17 3 0.08
18 4 0.11
19 6 0.16
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.53
Consensus pattern (14 bp):
TTGCGATTTTATCG
Found at i:848477 original size:33 final size:33
Alignment explanation
Indices: 848440--848517 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
848430 GAAACACAAA
*
848440 TCGCATTGCGATTTTATCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTATCGTTGCGATTTTCATT
*
848473 TCGCATTGCGATTTTGTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTATCGTTGCGATTTTCATT
848506 TCGCATTGCGAT
1 TCGCATTGCGAT
848518 AGTCATTTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (33 bp):
TCGCATTGCGATTTTATCGTTGCGATTTTCATT
Found at i:848483 original size:19 final size:19
Alignment explanation
Indices: 848440--848517 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 19
848430 GAAACACAAA
848440 TCGCATTGCGA-TTTTA--
1 TCGCATTGCGATTTTTATT
848456 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
*
848473 TCGCATTGCGA--TTT-TG
1 TCGCATTGCGATTTTTATT
*
848489 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTTATT
848506 TCGCATTGCGAT
1 TCGCATTGCGAT
848518 AGTCATTTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
14 12 0.24
15 5 0.10
16 9 0.18
17 10 0.20
19 13 0.27
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTTATT
Found at i:848536 original size:20 final size:19
Alignment explanation
Indices: 848490--848556 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
848480 GCGATTTTGT
**
848490 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
848509 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
848529 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
848549 TGTTGCGA
1 CGTTGCGA
848557 AAGTAAACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 14 0.34
20 24 0.59
21 3 0.07
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:849064 original size:18 final size:18
Alignment explanation
Indices: 849038--849082 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
849028 GTCGATCAGA
*
849038 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
849056 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
849074 TGATGGCTC
1 TGATGGCTC
849083 CTGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:850426 original size:20 final size:20
Alignment explanation
Indices: 850403--850450 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
850393 GAAAAAGAAA
850403 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
850423 ATCGCAACTCGAATTTGACT
1 ATCGCAACACGAAAATGACT
850443 ATCGCAAC
1 ATCGCAAC
850451 GAGAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.21
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:850711 original size:22 final size:22
Alignment explanation
Indices: 850684--850727 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
850674 GATGGAGATA
850684 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
850706 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
850728 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:851001 original size:20 final size:20
Alignment explanation
Indices: 850915--851009 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
850905 GATTATGTAT
*
850915 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
850935 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
850955 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
850976 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
850996 TATCGCGTTGCGAT
1 TATCGCGTTGCGAT
851010 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:851028 original size:41 final size:41
Alignment explanation
Indices: 850936--851030 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
850926 GAAAGTCAGA
* * ** *
850936 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAT
*
850977 ATCGCATTGCGATAGTCAGTATCGCGTTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTT-CCAAT
851019 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
851031 TTTCCCAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAT
Found at i:851063 original size:20 final size:21
Alignment explanation
Indices: 850998--851053 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
850988 ATAGTCAGTA
850998 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
851019 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
851040 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
851054 ACTTATTCGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.39
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:853504 original size:25 final size:25
Alignment explanation
Indices: 853441--853513 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
853431 AGTGTCACAT
*
853441 AAATTTGTCCCGAAGGACCGCGT-A
1 AAATTTGTCCCGAAAGACCGCGTAA
*
853465 AAATATT-TCCCGAAAGACCACGTAA
1 AAAT-TTGTCCCGAAAGACCGCGTAA
*
853490 AAATTTGTCCTGAAAGACCGCGTA
1 AAATTTGTCCCGAAAGACCGCGTA
853514 GAACCCTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 20 0.48
25 22 0.52
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (25 bp):
AAATTTGTCCCGAAAGACCGCGTAA
Found at i:853665 original size:15 final size:15
Alignment explanation
Indices: 853647--853695 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
853637 GCTTAACAAT
*
853647 TTCACGTAGAACACA
1 TTCACATAGAACACA
* *
853662 TTCACATAAAACACT
1 TTCACATAGAACACA
*
853677 TTCACATAGAACATA
1 TTCACATAGAACACA
853692 TTCA
1 TTCA
853696 AATGTTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (15 bp):
TTCACATAGAACACA
Found at i:855124 original size:60 final size:60
Alignment explanation
Indices: 855055--855228 Score: 178
Period size: 59 Copynumber: 2.9 Consensus size: 60
855045 CAATCTATGG
* *
855055 CATTCTAAATTGGTCCCTAAACTTTTAAACATTTTAATCTT-ATCCCTAAACTATGATTATT
1 CATTCTAAATTAGTCCCTAAACTTTTAAACATTTCAAT-TTCATCCCTAAACTATGA-TATT
* * * * *
855116 -ATTCTAAATTAG-ACATCAAACTTTT-AATATTTCACTTTCATCCCTAAATTATGATATT
1 CATTCTAAATTAGTCCCT-AAACTTTTAAACATTTCAATTTCATCCCTAAACTATGATATT
* * * *
855174 CATTTTAAATTAGTCCCCAAACTTTTTAAACATTTCAATTTAAT-CCTAAATTATG
1 CATTCTAAATTAGTCCCTAAAC-TTTTAAACATTTCAATTTCATCCCTAAACTATG
855229 TGCATATACT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
58 6 0.06
59 39 0.42
60 35 0.38
61 13 0.14
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.43
Consensus pattern (60 bp):
CATTCTAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATCCCTAAACTATGATATT
Found at i:855438 original size:59 final size:60
Alignment explanation
Indices: 855349--855518 Score: 211
Period size: 59 Copynumber: 2.9 Consensus size: 60
855339 TTTGGATGAA
* * * * * *
855349 TTTGGAGATAAAACT-GAAGATGCAAAAGTTTAGGGACTAATTTAGAATGATATTCATAG-
1 TTTGG-GATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
*
855408 TTTGGGATGAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
1 TTTGGGATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
* * *
855468 TTTGGGATAAAATTGGAATGTTTAGAAGTTTAAGGACTAATTT-GAAATGAG
1 TTTGGGATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAG-AATGAG
855519 TCATATTTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
58 7 0.07
59 45 0.46
60 45 0.46
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.33
Consensus pattern (60 bp):
TTTGGGATAAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
Found at i:858145 original size:112 final size:113
Alignment explanation
Indices: 858029--858232 Score: 270
Period size: 113 Copynumber: 1.8 Consensus size: 113
858019 TCCTCGAGAA
* * * *
858029 CTAGTTTTCTCCATTTAT-ATATCAAGATTTAAACTTTTGATCATAATTAAGGAA-CCAACG-TC
1 CTAGTCTTCTCCATTCATAATATCAAGATTCAAACTCTTGA-CATAATTAAGGAATCCAACGTTC
* *
858091 TCATCTTGAGAGATATTGCAATGACTCATCATAGGGACAACTCTCCCGGT
65 -CATCTCGAGAGATATTGCAAAGACTCATCATAGGGACAACTCTCCCGGT
* * * *
858141 CTAGTCTTCTTCATTCATAATATCAGGATTCAAACTCTTGACTTAATTAAGGAATCTAACGTTCC
1 CTAGTCTTCTCCATTCATAATATCAAGATTCAAACTCTTGACATAATTAAGGAATCCAACGTTCC
*
858206 ATCTCGATAGATATTGCAAAGACTCAT
66 ATCTCGAGAGATATTGCAAAGACTCAT
858233 TACGGGAATA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
112 27 0.35
113 49 0.63
114 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (113 bp):
CTAGTCTTCTCCATTCATAATATCAAGATTCAAACTCTTGACATAATTAAGGAATCCAACGTTCC
ATCTCGAGAGATATTGCAAAGACTCATCATAGGGACAACTCTCCCGGT
Found at i:863037 original size:38 final size:38
Alignment explanation
Indices: 862981--863092 Score: 116
Period size: 38 Copynumber: 2.9 Consensus size: 38
862971 TGCATTGGGC
* *
862981 TATGAATTTGAAAATAAGCTATGAATTTGAAAATAAGA
1 TATGAATCTGAAAATAAGCTATGAATCTGAAAATAAGA
* * * * *
863019 TATGAATCTGACAGTAAGCTATTAGTCTGAAAATAAGT
1 TATGAATCTGAAAATAAGCTATGAATCTGAAAATAAGA
* * * * *
863057 TATGAATCTGGAAATAAGTTTTGATTCAGAAAATAA
1 TATGAATCTGAAAATAAGCTATGAATCTGAAAATAA
863093 ATTCTAAAAT
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (38 bp):
TATGAATCTGAAAATAAGCTATGAATCTGAAAATAAGA
Found at i:863076 original size:19 final size:19
Alignment explanation
Indices: 862979--863074 Score: 111
Period size: 19 Copynumber: 5.1 Consensus size: 19
862969 TATGCATTGG
*
862979 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
*
862998 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* * *
863017 GATATGAATCTGACAGTAA
1 GCTATGAATCTGAAAATAA
* *
863036 GCTATTAGTCTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
863055 GTTATGAATCTGGAAATAA
1 GCTATGAATCTGAAAATAA
863074 G
1 G
863075 TTTTGATTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:863090 original size:19 final size:19
Alignment explanation
Indices: 862990--863092 Score: 71
Period size: 19 Copynumber: 5.4 Consensus size: 19
862980 CTATGAATTT
* **
862990 GAAAATAAGCTATGAATTT
1 GAAAATAAGTTATGAATCA
* *
863009 GAAAATAAGATATGAATCT
1 GAAAATAAGTTATGAATCA
* * * * * *
863028 GACAGTAAGCTATTAGTCT
1 GAAAATAAGTTATGAATCA
*
863047 GAAAATAAGTTATGAATCT
1 GAAAATAAGTTATGAATCA
* * *
863066 GGAAATAAGTTTTGATTCA
1 GAAAATAAGTTATGAATCA
863085 GAAAATAA
1 GAAAATAA
863093 ATTCTAAAAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (19 bp):
GAAAATAAGTTATGAATCA
Found at i:867923 original size:21 final size:21
Alignment explanation
Indices: 867899--867940 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
867889 TGAGAAATGG
867899 TAAAGACAAT-AAATAAAAAGA
1 TAAAGA-AATAAAATAAAAAGA
* *
867920 TAAATAAATAAAATAAGAAGA
1 TAAAGAAATAAAATAAAAAGA
867941 AAATAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (21 bp):
TAAAGAAATAAAATAAAAAGA
Found at i:868466 original size:24 final size:24
Alignment explanation
Indices: 868422--868471 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
868412 ATAAATAATC
*
868422 AAAATAAACTTAAATATACCACTA
1 AAAATAAACTTAAACATACCACTA
* *
868446 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCACTA
868470 AA
1 AA
868472 TCAACCACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCACTA
Found at i:881419 original size:60 final size:59
Alignment explanation
Indices: 881284--881430 Score: 174
Period size: 60 Copynumber: 2.4 Consensus size: 59
881274 AACATAATGA
* * * * *
881284 ATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGGAATATCTT
1 ATAGTTAGG-GACCATTTTGTAACTTTTAATAGTCGAGGGACCCAACAAAGAAACATCAT
881344 ATAGTTAGGGAACCATTTTGTAACTTTTAATAGTC-AGGGGACCCAACAAAGAAACATCAT
1 ATAGTTAGGG-ACCATTTTGTAACTTTTAATAGTCGA-GGGACCCAACAAAGAAACATCAT
881404 ATA-TTCAGAGGACCA-TTTGTATACTTT
1 ATAGTT-AG-GGACCATTTTGTA-ACTTT
881431 ACCCTTAAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
59 10 0.13
60 65 0.84
61 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (59 bp):
ATAGTTAGGGACCATTTTGTAACTTTTAATAGTCGAGGGACCCAACAAAGAAACATCAT
Found at i:885278 original size:18 final size:18
Alignment explanation
Indices: 885246--885280 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
885236 GAGTGACATG
885246 ATTGACAAAATTAAAAAT
1 ATTGACAAAATTAAAAAT
885264 ATTGATCAAAA-TAAAAA
1 ATTGA-CAAAATTAAAAA
885281 GGGACAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
ATTGACAAAATTAAAAAT
Found at i:894086 original size:13 final size:13
Alignment explanation
Indices: 894068--894097 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
894058 AGAAAATATT
894068 TTTTCTATTTTTA
1 TTTTCTATTTTTA
*
894081 TTTTCTGTTTTTA
1 TTTTCTATTTTTA
894094 TTTT
1 TTTT
894098 TAGAAAATAA
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:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTCTATTTTTA
Found at i:894684 original size:30 final size:29
Alignment explanation
Indices: 894646--894720 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
894636 ATGATAGATT
* *
894646 GACTTAATTAATTTTTTGGCTAAGTTCGAG
1 GACTTAATTAATTTTTTAG-AAAGTTCGAG
* * *
894676 GGCTTAATTATTTCTTTTAGAAAGTTTGAG
1 GACTTAATTAATT-TTTTAGAAAGTTCGAG
894706 GACTTAATTAATTTT
1 GACTTAATTAATTTT
894721 AAAAAAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 2 0.05
30 30 0.81
31 5 0.14
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (29 bp):
GACTTAATTAATTTTTTAGAAAGTTCGAG
Done.