Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000914.1 Hibiscus syriacus cultivar Beakdansim tig00001825_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: 1342319
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 4 of 6
Found at i:683828 original size:30 final size:31
Alignment explanation
Indices: 683792--683872 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
683782 CATTTTTATT
683792 TAAATATTTAAAGTATTTTTTTATCAAA-CA
1 TAAATATTTAAAGTATTTTTTTATCAAAGCA
* *
683822 TAAATATTTAAAGTTATATTTTTGTCAAAGCA
1 TAAATATTTAAAG-TATTTTTTTATCAAAGCA
*
683854 T--GTATTTAAAGTATTTTTT
1 TAAATATTTAAAGTATTTTTT
683873 GGTCAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 7 0.16
30 22 0.49
31 13 0.29
32 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (31 bp):
TAAATATTTAAAGTATTTTTTTATCAAAGCA
Found at i:684702 original size:2 final size:2
Alignment explanation
Indices: 684695--684722 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
684685 TATCTCCCTC
684695 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
684723 AACGGATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:687477 original size:24 final size:24
Alignment explanation
Indices: 687450--687509 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
687440 TCAATATCGC
687450 CATCATCGACATTAGCATTATTAG
1 CATCATCGACATTAGCATTATTAG
687474 CATCATCGACATTAGCATTATTAG
1 CATCATCGACATTAGCATTATTAG
*
687498 CATCATCAACAT
1 CATCATCGACAT
687510 CTTCGCCATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (24 bp):
CATCATCGACATTAGCATTATTAG
Found at i:689952 original size:110 final size:110
Alignment explanation
Indices: 689722--689995 Score: 326
Period size: 111 Copynumber: 2.5 Consensus size: 110
689712 AAGTGATAAT
* * * * *
689722 AAAATAAGTTAATGACTTA--TTTTATTATTAATATTATCAGCATATTAGGTTGGGCCTAATATA
1 AAAATAAGTTAATTACTTATTTTTTATTATTAATATTATCAACATATTAGGTTGCGCTTAAAATA
* * *
689785 TTATGAGAGTTTAAGCTGATGGAGCCTTAGAAATCTCACAATAAC
66 TTATCAAAGTTTAAGCTGATGGAGCCTTAGAAATCTCACAACAAC
* *
689830 AAAATAATTTAATTACTTATTTTTTATTTATTAATATTATCAACATATTAGATTGCGCTTAAAAT
1 AAAATAAGTTAATTACTTATTTTTTA-TTATTAATATTATCAACATATTAGGTTGCGCTTAAAAT
* * * *
689895 ATTATCAAATTTTAAGTTGATTG-GCCTTAGAAATCTCACGACAAC
65 ATTATCAAAGTTTAAGCTGATGGAGCCTTAGAAATCTCACAACAAC
* * * *
689940 AAAATAAGTTAA-TATTTATTTTGTTATAAATAA-A-TATTAACATATTAGGTTGCGCT
1 AAAATAAGTTAATTACTTATTTT-TTATTATTAATATTATCAACATATTAGGTTGCGCT
689996 CAATAATGTT
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
107 20 0.14
108 18 0.13
109 14 0.10
110 39 0.27
111 51 0.36
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (110 bp):
AAAATAAGTTAATTACTTATTTTTTATTATTAATATTATCAACATATTAGGTTGCGCTTAAAATA
TTATCAAAGTTTAAGCTGATGGAGCCTTAGAAATCTCACAACAAC
Found at i:690430 original size:100 final size:98
Alignment explanation
Indices: 690239--691329 Score: 578
Period size: 100 Copynumber: 10.7 Consensus size: 98
690229 CAAACAGTTT
* * *
690239 AGTTGTAAATATTTTACTGTTTACATTATTATTATACCTATAAA-AAACCGGTAGTAAGTTTAAC
1 AGTTGTAAATATTTTAC-GTTTACATTATTATTATACCTTTAAACAAA-CAGTAGTTAGTTTAAC
* * **
690303 ATAATAGGTTGCGGGTATTTTATTTTAACCGATAA
64 GTAATAAGTTGCGCCTATTTTATTTTAACCGATAA
690338 AGTTGTAAATATTTTATCGTTTACATTATTATTATACCTTTAAACAAACTAGTAGTTAGTTTAAC
1 AGTTGTAAATATTTTA-CGTTTACATTATTATTATACCTTTAAACAAAC-AGTAGTTAGTTTAAC
* * *
690403 GTAATAAGTTGCGCCTATTTTATTTTAACTGGTTA
64 GTAATAAGTTGCGCCTATTTTATTTTAACCGATAA
* ** *
690438 AGTTGTAAATATTTTACCATTTACATTATTATTATACCTTTAAACAAACAGGTAACTAGTTTAAT
1 AGTTGTAAATATTTTA-CGTTTACATTATTATTATACCTTTAAACAAACA-GTAGTTAGTTTAAC
* *** * *
690503 GTAATAGGCTCTTGCAAAGTATTGATACTTTT--CC-A-CA
64 GTAATAAG---TTGC-GCCTATT-TTA-TTTTAACCGATAA
* * * * ** * * * ** ** * *
690540 AGTAT-T-GATACTTT-CGAATTTAAAAAAATGGAAAATGAGAAGGCTGCAAAGTATCAATA-TT
1 AGT-TGTAAATATTTTACG--TTT----ACAT-TATTATTA-TA-CCTTTAAACAAACAGTAGTT
* ** **** *** * ** * *
690601 --TTTCAAAAAGTATCGATACTTTTGAATTTAAAAAAAATATTTCAAGAGGTTA
56 AGTTT---AACGTA---ATA-AGTTGCGCCT----ATTTTATTTTAACCGATAA
* * * **
690653 AGTTATAAATATTTTACCGTTTACATTATTATTATTATACCTATAAACAAACCGGTAGCAAGTTT
1 AGTTGTAAATATTTTA-CGTTTAC---ATTATTATTATACCTTTAAACAAA-CAGTAGTTAGTTT
*
690718 AACGTAAT-AGATGACGCCTAATTTT-TTTTAACCAGAT-A
61 AACGTAATAAGTTG-CGCCT-ATTTTATTTTAACC-GATAA
* * * * *
690756 AGTTATAAATATTTTACCGTTTACATTATTATTACACCTATAAACAAACCGATAGCTAGTTTAAC
1 AGTTGTAAATATTTTA-CGTTTACATTATTATTATACCTTTAAACAAACAG-TAGTTAGTTTAAC
* * * * * *
690821 TTAAT-AGTTTGTGCTTATTTTATTTTAATCGGTTA
64 GTAATAAG-TTGCGCCTATTTTATTTTAACCGATAA
* *
690856 AGTTGTAAATATTTTTATTGTTTACATTATTATTATTATACCTTTAAACAAACCAGTAGCTAGTT
1 AGTTGTAAATA-TTTTA-CGTTTAC---ATTATTATTATACCTTTAAACAAA-CAGTAGTTAGTT
* * ** *
690921 TAACATAATAGGTTGCATCTATTTTATTTTAACCGGTTAA
60 TAACGTAATAAGTTGCGCCTATTTTATTTTAACC-GATAA
* *
690961 A-TTGTAAATATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTA-ATAGTTTAAC
1 AGTTGTAAATATTTTA-CGTTTACATTATTATTATACCTTTAAACAAA-CAGTAGTTAGTTTAAC
* *** * * *
691024 GTAATAGGTTGATTCTGTTTTATTTTAACCGGTTA
64 GTAATAAGTTGCGCCTATTTTATTTTAACCGATAA
* * * * *
691059 AGTTATAAATATTTGATCGTTTACATTATTATTATATCTTTAAACAAATCGGTAGCTAGTTTAAC
1 AGTTGTAAATATTTTA-CGTTTACATTATTATTATACCTTTAAACAAA-CAGTAGTTAGTTTAAC
* ** * * *
691124 ATTGTAGGTTGCGCCTATTTTATTTTAACCGGTTA
64 GTAATAAGTTGCGCCTATTTTATTTTAACCGATAA
* ** *
691159 AGTTGTAAATATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCAATAGCCAGTTTAAT
1 AGTTGTAAATATTTTA-CGTTTACATTATTATTATACCTTTAAACAAA-CAGTAGTTAGTTTAAC
* * * * *
691224 GTAATAGGTTTCACCTATTTTATTTTAATCGATTA
64 GTAATAAGTTGCGCCTATTTTATTTTAACCGATAA
* * *
691259 AGTTGTAAATATTTTACCATTTACATTATTATTATACCTTTAAACAAATCAGTAGCTAGTTTAAT
1 AGTTGTAAATATTTTA-CGTTTACATTATTATTATACCTTTAAACAAA-CAGTAGTTAGTTTAAC
691324 GTAATA
64 GTAATA
691330 TGTTAGGTTG
Statistics
Matches: 778, Mismatches: 153, Indels: 121
0.74 0.15 0.12
Matches are distributed among these distances:
98 4 0.01
99 135 0.17
100 389 0.50
101 22 0.03
102 5 0.01
103 46 0.06
104 78 0.10
105 12 0.02
106 11 0.01
107 11 0.01
108 13 0.02
109 3 0.00
110 13 0.02
111 10 0.01
112 5 0.01
113 7 0.01
114 12 0.02
116 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (98 bp):
AGTTGTAAATATTTTACGTTTACATTATTATTATACCTTTAAACAAACAGTAGTTAGTTTAACGT
AATAAGTTGCGCCTATTTTATTTTAACCGATAA
Found at i:692270 original size:32 final size:31
Alignment explanation
Indices: 692192--692270 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
692182 ATTAAAATTT
* *
692192 TGTTCGGCTCGTGCTCGTTAAAAAAAATTAG
1 TGTTCGACTCATGCTCGTTAAAAAAAATTAG
692223 TGTTCGACTCATGCTCGTTAAAAAAAATTAG
1 TGTTCGACTCATGCTCGTTAAAAAAAATTAG
692254 TGTTCGACTCATTGCTC
1 TGTTCGACTCA-TGCTC
692271 ACGAGTTGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 40 0.89
32 5 0.11
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
TGTTCGACTCATGCTCGTTAAAAAAAATTAG
Found at i:708345 original size:2 final size:2
Alignment explanation
Indices: 708338--708365 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
708328 ACAGTGAACC
708338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
708366 CAATATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:728091 original size:17 final size:16
Alignment explanation
Indices: 728069--728102 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
728059 TAAAGACAGT
728069 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
728086 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
728102 A
1 A
728103 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:733072 original size:2 final size:2
Alignment explanation
Indices: 733065--733093 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
733055 TCATCTCTTT
733065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
733094 GTTATCTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:734422 original size:40 final size:40
Alignment explanation
Indices: 734367--734442 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
734357 TTCTTTTTCT
734367 AACTTCACTTTTAATCCGCCACACGTACATTATTTATTTG
1 AACTTCACTTTTAATCCGCCACACGTACATTATTTATTTG
* *
734407 AACTTCACTTTTAATCCGCCACACGTATATTTTTTA
1 AACTTCACTTTTAATCCGCCACACGTACATTATTTA
734443 AGTTAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.41
Consensus pattern (40 bp):
AACTTCACTTTTAATCCGCCACACGTACATTATTTATTTG
Found at i:738137 original size:15 final size:15
Alignment explanation
Indices: 738114--738156 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
738104 TTCTATTTTT
738114 TATTT-TTTATTT-C
1 TATTTATTTATTTAC
*
738127 TATTTGATTTATTTAG
1 TATTT-ATTTATTTAC
738143 TATTTATTTATTTA
1 TATTTATTTATTTA
738157 TTTAGTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 5 0.19
15 16 0.62
16 5 0.19
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (15 bp):
TATTTATTTATTTAC
Found at i:738150 original size:4 final size:4
Alignment explanation
Indices: 738095--738160 Score: 57
Period size: 4 Copynumber: 16.2 Consensus size: 4
738085 GGAACGCTTC
*
738095 ATTT ATTT TTTCT ATTT -TTT ATTT -TTT ATTTCT ATTT GATTT ATTT
1 ATTT ATTT ATT-T ATTT ATTT ATTT ATTT A-TT-T ATTT -ATTT ATTT
*
738141 A-GT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT A
738161 GTCTAATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 8 0.16
4 30 0.59
5 11 0.22
6 2 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:738155 original size:19 final size:18
Alignment explanation
Indices: 738095--738162 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
738085 GGAACGCTTC
*
738095 ATTTATTTTTT-CTATTT
1 ATTTATTTTTTAGTATTT
738112 -TTTATTTTTTA-T-TTCT
1 ATTTATTTTTTAGTATT-T
738128 ATTTGATTTATTTAGTATTT
1 ATTT-ATTT-TTTAGTATTT
738148 ATTTATTTATTTAGT
1 ATTTATTT-TTTAGT
738163 CTAATATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.05
16 12 0.27
17 3 0.07
18 4 0.09
19 15 0.34
20 6 0.14
21 2 0.05
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (18 bp):
ATTTATTTTTTAGTATTT
Found at i:742387 original size:106 final size:106
Alignment explanation
Indices: 742202--743152 Score: 1598
Period size: 106 Copynumber: 9.0 Consensus size: 106
742192 AAACAATTTC
* *
742202 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTAAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
742267 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
*
742308 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCTCGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
742373 GGGACCGCTGGTTGTCAATAAACAACATCCCAATTTCAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
* * **
742414 CCAATTCCAACTTCATAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
742479 GGGACCGCTGGTTGTCAAAAAAACAACTTCTCAATTTTAGAG
66 GGGACCGCTGGTTGTC-AATAAACAACTTCTCAATTTCAGAG
742521 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
742586 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTTAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
* *
742627 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
742692 GGGACCGCTGGTTGTCAACAAAAAACTTCTCAATTTCAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
* * *
742733 CCAATTTCAACTTCACAGCGAAGGATATTGGACTTCAGACAACGCATGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
742798 GGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGGG
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
*
742839 CCAATTTCAACTTCACAACGAAGGATATTGGAATCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
742904 GGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
742945 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
743010 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
* * *
743051 TCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
743116 GGGACCACTGGTTGTCAATAAACAACTT-TCAACTTCA
66 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCA
743153 CGACCGAGGA
Statistics
Matches: 798, Mismatches: 46, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
105 7 0.01
106 693 0.87
107 98 0.12
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
Found at i:743730 original size:17 final size:17
Alignment explanation
Indices: 743687--743730 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
743677 TGACCGGGTT
743687 TTATATCATTATAATTTA
1 TTATAT-ATTATAATTTA
*
743705 TT-TATTATTATTATTTA
1 TTATA-TATTATAATTTA
743722 TTATATATT
1 TTATATATT
743731 TTTCATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATATTATAATTTA
Found at i:744778 original size:15 final size:15
Alignment explanation
Indices: 744760--744797 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
744750 ATTTTTTATT
744760 TTTATTT-CTATTTGA
1 TTTATTTACTATTT-A
*
744775 TTTATTTAGTATTTA
1 TTTATTTACTATTTA
744790 TTTATTTA
1 TTTATTTA
744798 TTTATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTATTTACTATTTA
Found at i:744782 original size:19 final size:18
Alignment explanation
Indices: 744736--744803 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 18
744726 GGAACGCTTC
*
744736 ATTTATTTTTTTCTATTT
1 ATTTATTTATTTCTATTT
744754 -TTTATTTTTATTTCTATTT
1 ATTTA--TTTATTTCTATTT
744773 GATTTATTTAGTATT-TATTT
1 -ATTTATTTA-T-TTCTATTT
744793 ATTTATTTATT
1 ATTTATTTATT
744804 AATTTTGTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
17 5 0.12
18 1 0.02
19 25 0.58
20 6 0.14
21 6 0.14
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTATTTATTTCTATTT
Found at i:744791 original size:4 final size:4
Alignment explanation
Indices: 744736--744808 Score: 50
Period size: 4 Copynumber: 19.0 Consensus size: 4
744726 GGAACGCTTC
*
744736 ATTT ATTT -TTT -TCT ATTT -TTT A-TT -TTT ATTTCT ATTT GATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TT-T ATTT -ATTT ATTT
* *
744782 A-GT ATTT ATTT ATTT ATTT ATTA ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
744809 TGTCTAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
3 14 0.25
4 31 0.56
5 8 0.15
6 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:759025 original size:16 final size:16
Alignment explanation
Indices: 758995--759025 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
758985 AGAATTGAAA
*
758995 CTCAAACTCGAAAAAG
1 CTCAAACTCAAAAAAG
759011 CTCAAACTCAAAAAA
1 CTCAAACTCAAAAAA
759026 AATTAGAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.26, G:0.06, T:0.13
Consensus pattern (16 bp):
CTCAAACTCAAAAAAG
Found at i:759319 original size:122 final size:122
Alignment explanation
Indices: 759102--759347 Score: 465
Period size: 122 Copynumber: 2.0 Consensus size: 122
759092 CTCACCAAAA
*
759102 GGCTCTATGATTTTGAATGTCAAATTACCTCTATTATTTATAGAAGTCAGTTGTGATGTTCTTCT
1 GGCTCTATGATTTTGAATGTCAAATTACCTCTATTATTTATAGAAGTCAGTTGGGATGTTCTTCT
*
759167 ATGTTTCTTAGCCATGTGAGATTGTTTTGTTCTCCTATTTTTATTCTTTAGACTTTT
66 ATGTTTCTTAGCCATGTGAGATTGTTTTGTTATCCTATTTTTATTCTTTAGACTTTT
*
759224 GGCTCTATGATTTTGAATGTCAAATTACCTCTATTATTTATAGGAGTCAGTTGGGATGTTCTTCT
1 GGCTCTATGATTTTGAATGTCAAATTACCTCTATTATTTATAGAAGTCAGTTGGGATGTTCTTCT
759289 ATGTTTCTTAGCCATGTGAGATTGTTTTGTTATCCTATTTTTATTCTTTAGACTTTT
66 ATGTTTCTTAGCCATGTGAGATTGTTTTGTTATCCTATTTTTATTCTTTAGACTTTT
759346 GG
1 GG
759348 GATGCTCTTC
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 121 1.00
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.49
Consensus pattern (122 bp):
GGCTCTATGATTTTGAATGTCAAATTACCTCTATTATTTATAGAAGTCAGTTGGGATGTTCTTCT
ATGTTTCTTAGCCATGTGAGATTGTTTTGTTATCCTATTTTTATTCTTTAGACTTTT
Found at i:762463 original size:20 final size:20
Alignment explanation
Indices: 762434--762480 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
762424 TGATTATTTT
*
762434 ATAATATTTTGATAAACTTA
1 ATAATTTTTTGATAAACTTA
*
762454 ATAATTTTTTGATAAATTTA
1 ATAATTTTTTGATAAACTTA
*
762474 AAAATTT
1 ATAATTT
762481 CAGTGACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
ATAATTTTTTGATAAACTTA
Found at i:771460 original size:23 final size:23
Alignment explanation
Indices: 771434--771500 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
771424 ATTTAAATGG
*
771434 ATATGTTCGCGAACGTTAAATAA
1 ATATGTTCGTGAACGTTAAATAA
* * * *
771457 ATATATTCATAAAGGTTAAATAA
1 ATATGTTCGTGAACGTTAAATAA
*
771480 ATATGTTCGTGAATGTTAAAT
1 ATATGTTCGTGAACGTTAAAT
771501 GCATTTGTTC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (23 bp):
ATATGTTCGTGAACGTTAAATAA
Found at i:781013 original size:2 final size:2
Alignment explanation
Indices: 781006--781034 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
780996 GTTCAGCTAC
781006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
781035 CTTCATCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:781070 original size:28 final size:28
Alignment explanation
Indices: 781039--781095 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
781029 TATATACTTC
781039 ATCATATCCGATCTGCAAACCAAGTTGA
1 ATCATATCCGATCTGCAAACCAAGTTGA
781067 ATCATATCCGATCTGCAAACCAAGTTGA
1 ATCATATCCGATCTGCAAACCAAGTTGA
781095 A
1 A
781096 CAAAAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (28 bp):
ATCATATCCGATCTGCAAACCAAGTTGA
Found at i:781427 original size:24 final size:24
Alignment explanation
Indices: 781399--781446 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
781389 AAAGAGAGAG
781399 GAGCAATGGAAGATAGTGGAGGAA
1 GAGCAATGGAAGATAGTGGAGGAA
781423 GAGCAATGGAAGATAGTGGAGGAA
1 GAGCAATGGAAGATAGTGGAGGAA
781447 AGGAAAAGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.42, T:0.12
Consensus pattern (24 bp):
GAGCAATGGAAGATAGTGGAGGAA
Found at i:782039 original size:2 final size:2
Alignment explanation
Indices: 782032--782075 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
782022 TTTGGACACA
782032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
782074 AT
1 AT
782076 TAACTTGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:794278 original size:26 final size:28
Alignment explanation
Indices: 794216--794279 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 28
794206 TCGAATATTA
*
794216 ATGAGCTCGACTCGACTCGAAAACTCTG
1 ATGAGCTCGACTCGACTCAAAAACTCTG
*
794244 AAATGGAGCTCGACTCGATTCAAAAACTC-G
1 --AT-GAGCTCGACTCGACTCAAAAACTCTG
794274 -TGAGCT
1 ATGAGCT
794280 TAAAATTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 5 0.16
27 1 0.03
30 3 0.10
31 22 0.71
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (28 bp):
ATGAGCTCGACTCGACTCAAAAACTCTG
Found at i:797768 original size:11 final size:10
Alignment explanation
Indices: 797721--797770 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
797711 ATTTAATGAC
797721 TATTTTATAA
1 TATTTTATAA
797731 TATTTTATTAA
1 TATTTTA-TAA
797742 -ATTTTAATAA
1 TATTTT-ATAA
797752 TCATTTTATAA
1 T-ATTTTATAA
797763 TTATTTTA
1 -TATTTTA
797771 AAAAACAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 15 0.43
11 14 0.40
12 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTTATAA
Found at i:812864 original size:30 final size:32
Alignment explanation
Indices: 812829--812896 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 32
812819 ATAGTTTTTA
812829 TATTTTATAGT-AAT-ATAATTATATAAATAT
1 TATTTTATAGTAAATAATAATTATATAAATAT
* * * *
812859 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATAGT-AAATAATAATTATATAAATAT
812892 TATTT
1 TATTT
812897 ATTTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 9 0.29
32 3 0.10
33 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TATTTTATAGTAAATAATAATTATATAAATAT
Found at i:813057 original size:25 final size:23
Alignment explanation
Indices: 813024--813074 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
813014 TATGATAATA
*
813024 TATTTTTATAATTAATGTTAATATT
1 TATTATTATAATTAAT-TTAA-ATT
**
813049 TATTATTATTTTTAATTTAAATT
1 TATTATTATAATTAATTTAAATT
813072 TAT
1 TAT
813075 AATGAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 4 0.17
25 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTATTATAATTAATTTAAATT
Found at i:814721 original size:21 final size:21
Alignment explanation
Indices: 814695--814734 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
814685 CCACCTCCGC
814695 AGGGTTACATTCCTAGCCCTT
1 AGGGTTACATTCCTAGCCCTT
814716 AGGGTTACATTCCTAGCCC
1 AGGGTTACATTCCTAGCCC
814735 GCTATGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
AGGGTTACATTCCTAGCCCTT
Found at i:814743 original size:21 final size:21
Alignment explanation
Indices: 814695--814747 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
814685 CCACCTCCGC
*
814695 AGGGTTACATTCCTAGCCCTT
1 AGGGTTACATTCCTAGCCCCT
814716 AGGGTTACATTCCTAGCCCGCT
1 AGGGTTACATTCCTAGCCC-CT
*
814738 A-TGTTACATT
1 AGGGTTACATT
814748 GTTGAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
AGGGTTACATTCCTAGCCCCT
Found at i:815227 original size:21 final size:21
Alignment explanation
Indices: 815201--815242 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
815191 ATTTGAATAT
*
815201 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
815222 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
815243 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:815304 original size:21 final size:21
Alignment explanation
Indices: 815271--815310 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
815261 TTTTTATAGA
*
815271 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
815293 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
815311 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:816601 original size:9 final size:9
Alignment explanation
Indices: 816587--816620 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
816577 GAAAGGTAAG
816587 AGAAGAAAA
1 AGAAGAAAA
* *
816596 ACAAGAAGA
1 AGAAGAAAA
816605 AGAAGAAAA
1 AGAAGAAAA
816614 AGAAGAA
1 AGAAGAA
816621 GAATGAGGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:816605 original size:15 final size:15
Alignment explanation
Indices: 816587--816623 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
816577 GAAAGGTAAG
816587 AGAAGAA-AAACAAGA
1 AGAAGAAGAAA-AAGA
816602 AGAAGAAGAAAAAGA
1 AGAAGAAGAAAAAGA
816617 AGAAGAA
1 AGAAGAA
816624 TGAGGACGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAAAAAGA
Found at i:818582 original size:252 final size:252
Alignment explanation
Indices: 818115--818638 Score: 985
Period size: 252 Copynumber: 2.1 Consensus size: 252
818105 TGATTTTTTC
* * *
818115 AAATGATTTTTAAAATTTCAAATTTACTACTTACTCTCCAAAGTTATTTTGAACTTTAAAAGATT
1 AAATGAATTTTAAGATTTTAAATTTACTACTTACTCTCCAAAGTTATTTTGAACTTTAAAAGATT
*
818180 AGAGTCTTTTTGATTTAACAAAAAGGGGGAGAAGTGTTAAGGTGTTTTAAAGGGGAGAAGTGTTA
66 AGAGTCTTTTTGATTTAACAAAAAGGGGGAGAAGTGTTAAGGTGTTTTAAAGGGGAGAAGTATTA
818245 AAGTAAGGGGGAGTAATTTCAAACTTTATTTCAAGATCTTAAAATTACTCAAATGTTTTGTTATA
131 AAGTAAGGGGGAGTAATTTCAAACTTTATTTCAAGATCTTAAAATTACTCAAATGTTTTGTTATA
*
818310 TCAAAAAGGGGGAAATTGTTGAAAACATTTTGATGTTTCGATATAACAGATTAAGTT
196 TCAAAAAGGGGGAAATTGTTGAAAACATTTTGATGTTTCGATATAACAAATTAAGTT
*
818367 AAATGAATTTTAAGATTTTAAATTTACTACTTACTCTCCAATGTTATTTTGAACTTTAAAAGATT
1 AAATGAATTTTAAGATTTTAAATTTACTACTTACTCTCCAAAGTTATTTTGAACTTTAAAAGATT
818432 AGAGTCTTTTTGATTTAACAAAAAGGGGGAGAAGTGTTAAGGTGTTTTAAAGGGGAGAAGTATTA
66 AGAGTCTTTTTGATTTAACAAAAAGGGGGAGAAGTGTTAAGGTGTTTTAAAGGGGAGAAGTATTA
818497 AAGTAAGGGGGAGTAATTTCAAACTTTATTTCAAGATCTTAAAATTACTCAAATGTTTTGTTATA
131 AAGTAAGGGGGAGTAATTTCAAACTTTATTTCAAGATCTTAAAATTACTCAAATGTTTTGTTATA
*
818562 TCAAAAAGGGGGAGATTGTTGAAAACATTTTGATGTTTCGATATAACAAATTAAGTT
196 TCAAAAAGGGGGAAATTGTTGAAAACATTTTGATGTTTCGATATAACAAATTAAGTT
818619 AAATGAATTTTAAGATTTTA
1 AAATGAATTTTAAGATTTTA
818639 CAAAAGATTT
Statistics
Matches: 265, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
252 265 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.37
Consensus pattern (252 bp):
AAATGAATTTTAAGATTTTAAATTTACTACTTACTCTCCAAAGTTATTTTGAACTTTAAAAGATT
AGAGTCTTTTTGATTTAACAAAAAGGGGGAGAAGTGTTAAGGTGTTTTAAAGGGGAGAAGTATTA
AAGTAAGGGGGAGTAATTTCAAACTTTATTTCAAGATCTTAAAATTACTCAAATGTTTTGTTATA
TCAAAAAGGGGGAAATTGTTGAAAACATTTTGATGTTTCGATATAACAAATTAAGTT
Found at i:818884 original size:19 final size:20
Alignment explanation
Indices: 818845--818917 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
818835 ATCAGATTGT
818845 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
818865 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
* * *
818883 CC---GAGAACAGTTTCCCC
1 CCAGGGGGTACAGATTCCCC
818900 CCAGGGGGTACAGATTCC
1 CCAGGGGGTACAGATTCC
818918 TCCTGCATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
14 1 0.03
15 6 0.15
17 4 0.10
18 4 0.10
20 24 0.60
21 1 0.03
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.18
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:819135 original size:21 final size:21
Alignment explanation
Indices: 819102--819141 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
819092 TTTTTGCAGA
*
819102 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
819124 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
819142 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:819397 original size:35 final size:33
Alignment explanation
Indices: 819352--819424 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 33
819342 CATTTTGTAA
* * *
819352 AGGGGAAAGGTTCTAGCTTATCCCGTGTAAAATCT
1 AGGGAAAAGGTTCTAGCTTAGCCCG-G-AAAAACT
*
819387 AGGGAAAAGGTTCTAGTTTAGCCCGGAAAAACT
1 AGGGAAAAGGTTCTAGCTTAGCCCGGAAAAACT
819420 AGGGA
1 AGGGA
819425 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 11 0.32
34 1 0.03
35 22 0.65
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (33 bp):
AGGGAAAAGGTTCTAGCTTAGCCCGGAAAAACT
Found at i:820231 original size:34 final size:34
Alignment explanation
Indices: 820188--820260 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
820178 TTAAATGTTT
*
820188 TTAATATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
* *
820222 TTAAAATACAAATTATGGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAAAA
820256 TTAAA
1 TTAAA
820261 TTCAACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAAAA
Found at i:820536 original size:63 final size:63
Alignment explanation
Indices: 820453--820577 Score: 193
Period size: 63 Copynumber: 2.0 Consensus size: 63
820443 CAATGTCACG
*
820453 ACCAACTTATCACTTCACATTTATTCAATTTA-TCTATAACATTTTATCC-ATTATATTCAAACA
1 ACCAACTTATCACTTAACATTTATTCAATTTATTC-ATAACATTTTATCCAATT-TATTCAAACA
820516 ACCAA-TTGATCACTTAACATTTATTCAATTTATTCATAACATTTTATCCAATTTATTCAAAC
1 ACCAACTT-ATCACTTAACATTTATTCAATTTATTCATAACATTTTATCCAATTTATTCAAAC
820578 TTCACATAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
62 2 0.03
63 51 0.88
64 5 0.09
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.42
Consensus pattern (63 bp):
ACCAACTTATCACTTAACATTTATTCAATTTATTCATAACATTTTATCCAATTTATTCAAACA
Found at i:820561 original size:23 final size:22
Alignment explanation
Indices: 820469--820574 Score: 75
Period size: 23 Copynumber: 4.9 Consensus size: 22
820459 TTATCACTTC
*
820469 ACATTTATTCAATTTA-TCTATA
1 ACATTTATCCAATTTATTC-ATA
820491 ACATTTTATCC-ATTATATTCA-A
1 ACA-TTTATCCAATT-TATTCATA
*
820513 ACA---A-CCAATTGA-TCACTTA
1 ACATTTATCCAATTTATTCA--TA
*
820532 ACATTTATTCAATTTATTCATA
1 ACATTTATCCAATTTATTCATA
820554 ACATTTTATCCAATTTATTCA
1 ACA-TTTATCCAATTTATTCA
820575 AACTTCACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 25
0.69 0.05 0.26
Matches are distributed among these distances:
16 3 0.05
17 3 0.05
18 4 0.06
19 4 0.06
22 16 0.24
23 31 0.47
24 5 0.08
ACGTcount: A:0.37, C:0.18, G:0.01, T:0.44
Consensus pattern (22 bp):
ACATTTATCCAATTTATTCATA
Found at i:821264 original size:138 final size:137
Alignment explanation
Indices: 820709--821603 Score: 1430
Period size: 138 Copynumber: 6.5 Consensus size: 137
820699 CCATCCATCT
820709 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* ** * *
820774 CGAAGGCGCCCCCCGAGAACGTACTTTCACCACTTTACCAAGTCCCCTTAGAAATAATAGGTACT
66 CGAAGGCGCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACT
*
820839 GATATGA
131 GACATGA
* *
820846 ATAGTTCCCCGGGGGACATGAGTGACATAGTAGGGCAATGATAACATATTCTATGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
820911 CGAAGGTGCCCCCCCGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTAAGAAATAATAGGTACT
66 CGAAGGCGCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACT
820976 GACATGA
131 GACATGA
* *
820983 ATAGTTCCCCGGGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTCTGACAAAATAGT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
821048 CAAAGGCGCCCCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACT
66 CGAAGGCGCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACT
821113 GACATGA
131 GACATGA
** * *
821120 ATAGTTCCTTGGGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGACAAATTAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * ** *
821185 AGAATGCGCGCCCTTGGGAACGCGCTTTCACCACTTTGCCAAGTCCCATCAGAAATAATAGGTAC
66 CGAAGGCGC-CCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
821250 TGACATGA
130 TGACATGA
821258 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
821323 CGAAGGCGCCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGCAC
66 CGAAGGCG-CCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
821388 TGGCATGA
130 TGACATGA
*
821396 ATAGTTCCCCGGGGGACATGAGTAACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * ** **
821461 CGAAGGCGCACCTCTGGGAATGAACTTTCACCACTTTGCCAAGTCTTCTCAGAAATAATAGGTAC
66 CGAAGGCGC-CCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
821526 TGATATGA
130 TGACATGA
* *
821534 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATTATAACATATTCTTTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
821599 CGAAG
66 CGAAG
821604 ACGTGCCCCT
Statistics
Matches: 698, Mismatches: 57, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
137 321 0.46
138 376 0.54
139 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (137 bp):
ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
CGAAGGCGCCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACT
GACATGA
Found at i:824797 original size:21 final size:21
Alignment explanation
Indices: 824771--824812 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
824761 AATAATTAAT
*
824771 ATTATTTATTATAAAAAATTA
1 ATTATTAATTATAAAAAATTA
* *
824792 ATTATTAATTTTAAAATATTA
1 ATTATTAATTATAAAAAATTA
824813 TAATAATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTAATTATAAAAAATTA
Found at i:825037 original size:22 final size:22
Alignment explanation
Indices: 825007--825050 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
824997 ATTAAGTGAT
* *
825007 AAAATTAATAGATCGATAATAA
1 AAAAATAATAGATAGATAATAA
*
825029 AAAAATAATAGATATATAATAA
1 AAAAATAATAGATAGATAATAA
825051 TACGTGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (22 bp):
AAAAATAATAGATAGATAATAA
Found at i:827119 original size:21 final size:21
Alignment explanation
Indices: 827093--827191 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
827083 AGGGTGTCAA
*
827093 AGTGCATCTATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
* *
827114 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTAC
*
827135 AGTGCATCCATGCACCTGC-AC
1 AGTGCATCCATGCACC-CCTAC
* * *
827156 TAGTGCATCAATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTAC
*
827177 AGTGCATTCATGCAC
1 AGTGCATCCATGCAC
827192 TCAAACACCG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
20 12 0.19
21 36 0.58
22 14 0.23
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:827178 original size:42 final size:42
Alignment explanation
Indices: 827093--827191 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
827083 AGGGTGTCAA
* * *
827093 AGTGCATCTATGCACCCCTACAGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTACAGTGCATCAATGCATCCATGC
*
827135 AGTGCATCCATGCACCTGC-ACTAGTGCATCAATGCA-CCATGC
1 AGTGCATCCATGCACC-CCTAC-AGTGCATCAATGCATCCATGC
*
827177 AGTGCATTCATGCAC
1 AGTGCATCCATGCAC
827192 TCAAACACCG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 36 0.72
43 14 0.28
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.23
Consensus pattern (42 bp):
AGTGCATCCATGCACCCCTACAGTGCATCAATGCATCCATGC
Found at i:827237 original size:20 final size:19
Alignment explanation
Indices: 827212--827285 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
827202 AATGCAATTA
827212 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTT-T
**
827232 GTGCATCGATGCATCAAGGTT
1 GTGCATCGATGCATC--CTTT
827253 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCT-TT
*
827273 GTGCATCCATGCA
1 GTGCATCGATGCA
827286 CGAAGGCTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
20 29 0.63
21 16 0.35
22 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATCCTTT
Found at i:828590 original size:19 final size:20
Alignment explanation
Indices: 828566--828613 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
828556 AATGATTTTC
*
828566 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
828585 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
828605 TTTTGAAAA
1 TTTTGAAAA
828614 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:829927 original size:30 final size:30
Alignment explanation
Indices: 829883--829941 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
829873 AATTTAACGC
829883 AAAATGATTTTTGGACTTGAATTGAATTTAA
1 AAAATGATTTTTGGACTT-AATTGAATTTAA
829914 AAAATGA-TTTTGGACTTAATTGAATTTA
1 AAAATGATTTTTGGACTTAATTGAATTTA
829942 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (30 bp):
AAAATGATTTTTGGACTTAATTGAATTTAA
Found at i:830047 original size:21 final size:20
Alignment explanation
Indices: 830021--830119 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 20
830011 AGGGTGTCAA
830021 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
* * *
830042 AGTGCATCTAGGTATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
830063 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* * *
830084 TAGTGCATCGATGCATCATGC
1 -AGTGCATCCATGCACCCTGC
830105 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
830120 TCAAACAACG
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 4 0.06
20 13 0.21
21 30 0.48
22 13 0.21
23 3 0.05
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.23
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:830091 original size:22 final size:19
Alignment explanation
Indices: 830060--830119 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
830050 TAGGTATCCC
*
830060 TGCAGTGCATCCATGCACC
1 TGCAGTGCATCCATGCACA
*
830079 TGCACTAGTGCATCGATGCATCA
1 TG--C-AGTGCATCCATGCA-CA
830102 TGCAGTGCATCCATGCAC
1 TGCAGTGCATCCATGCAC
830120 TCAAACAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
19 3 0.09
20 13 0.38
21 2 0.06
22 13 0.38
23 3 0.09
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (19 bp):
TGCAGTGCATCCATGCACA
Found at i:831301 original size:16 final size:18
Alignment explanation
Indices: 831266--831305 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
831256 AAAATGAAAA
*
831266 CATCGAATGCAATTAGTG
1 CATCGAATGCAATGAGTG
831284 CATC-AATGC-ATGAGTG
1 CATCGAATGCAATGAGTG
831300 CATCGA
1 CATCGA
831306 TACACCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 6 0.30
18 4 0.20
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (18 bp):
CATCGAATGCAATGAGTG
Found at i:831354 original size:61 final size:62
Alignment explanation
Indices: 831216--831356 Score: 142
Period size: 61 Copynumber: 2.3 Consensus size: 62
831206 AATTTTTCAG
* ** *
831216 TGTGTATCGATGCACAGGAAGTGCATCGATGTACCCCTTAAAAATGAAAACATCGAATGCAATT
1 TGTGTATCGATG--CATGAAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAAGGCAATT
* * * * * **
831280 AGTGCATCAATGCATG-AGTGCATCGATACACCCCCTT-AAGATTAAAACATCGAAGGTGATT
1 TGTGTATCGATGCATGAAGTGCATCGATACA-CCCCTTAAAAATGAAAACATCGAAGGCAATT
831341 TGTGTATCGATGCATG
1 TGTGTATCGATGCATG
831357 GGTAAAGCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
61 44 0.71
62 9 0.15
64 9 0.15
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (62 bp):
TGTGTATCGATGCATGAAGTGCATCGATACACCCCTTAAAAATGAAAACATCGAAGGCAATT
Found at i:832909 original size:19 final size:19
Alignment explanation
Indices: 832885--832924 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
832875 ACACTTCTCC
832885 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
*
832904 CATTTATCATTTTAGAACA
1 CATTTATCATTTTAAAACA
832923 CA
1 CA
832925 CTTAAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (19 bp):
CATTTATCATTTTAAAACA
Found at i:832943 original size:12 final size:12
Alignment explanation
Indices: 832919--832949 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
832909 ATCATTTTAG
832919 AACACAC-TTAA
1 AACACACATTAA
832930 AACACACATTAA
1 AACACACATTAA
832942 AACACACA
1 AACACACA
832950 CTTACACTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (12 bp):
AACACACATTAA
Found at i:842858 original size:20 final size:20
Alignment explanation
Indices: 842833--842884 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
842823 TGTATGATGA
842833 TTAGAACATGTTTAATCTTT
1 TTAGAACATGTTTAATCTTT
842853 TTAGAACATGTTTAATCTTT
1 TTAGAACATGTTTAATCTTT
*
842873 TTAGAACTTGTT
1 TTAGAACATGTT
842885 CTTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTAGAACATGTTTAATCTTT
Found at i:843950 original size:56 final size:55
Alignment explanation
Indices: 843864--843994 Score: 145
Period size: 56 Copynumber: 2.3 Consensus size: 55
843854 AGCGGCAGGC
** * **
843864 TGCATACGAGATACACTAAAGGACACCTAGTGTATATGGTGGGTACGACCTTATG
1 TGCATACGAGATACACTAAAGGACACCTAGTACAGATGGTGGACACGACCTTATG
** * *
843919 TGCATACGAGATTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATG
1 TGCATACGAGA-TACACTAAAGGACACCTAGTACAGATGGTGGACACGACCTTATG
*
843975 TGTCATACGGGATAGCACTA
1 TG-CATACGAGATA-CACTA
843995 TGGTGCTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
55 11 0.18
56 38 0.63
57 11 0.18
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (55 bp):
TGCATACGAGATACACTAAAGGACACCTAGTACAGATGGTGGACACGACCTTATG
Found at i:844186 original size:47 final size:47
Alignment explanation
Indices: 844094--844452 Score: 561
Period size: 47 Copynumber: 7.8 Consensus size: 47
844084 GGTAAGTATG
* * *
844094 AAAATAAGTTTACGATCTTAT-GAA--T-AATGGCAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
844137 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
*
844184 AAAATAAGCTTACGTGCTTATGGAATTTAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
*
844231 AAAATAAGCTTACGCGCTTATGGAATTTAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
*
844278 AAAGTAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
* *
844325 AAAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATGTT-AT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
* * *
844371 AAAATAAGCTTACGAGCTTATGGAATTTAATTGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
*
844418 AAAATAAGCTTACGAGCTTATGGGA--TAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAA
844453 AAGATTTTAT
Statistics
Matches: 295, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
43 19 0.06
44 3 0.01
45 9 0.03
46 44 0.15
47 220 0.75
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.35
Consensus pattern (47 bp):
AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATATTGAT
Found at i:847996 original size:64 final size:64
Alignment explanation
Indices: 847859--848016 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
847849 AAATTGTTCA
* * *
847859 TGTGTATCGATGCACAGGAAGTGCATCGATGCACCCCTTAAAAATGGAAACATCGAATGCAATT
1 TGTGTATCGATGCATAGGAAGTGCATCGATACACCCCTTAAAAATGGAAACATCGAAGGCAATT
* * * * * **
847923 AGTGCATCGATACATAAGG-AGTGCATCGATACACCCCCTT-AAGAT-TAAAGCATCGAAGGTGA
1 TGTGTATCGATGCAT-AGGAAGTGCATCGATACA-CCCCTTAAAAATGGAAA-CATCGAAGGCAA
847985 TT
63 TT
* *
847987 TGTGTATCGATGCATGGGTAGTGCATCGAT
1 TGTGTATCGATGCATAGGAAGTGCATCGAT
848017 GCACATGTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
63 5 0.07
64 62 0.82
65 9 0.12
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (64 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATACACCCCTTAAAAATGGAAACATCGAAGGCAATT
Found at i:848762 original size:22 final size:23
Alignment explanation
Indices: 848737--848782 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
848727 GAGTCGAGGG
*
848737 ATTT-ACAGTGGTCCTTCGGGAC
1 ATTTCACAGTGGCCCTTCGGGAC
*
848759 ATTTCATAGTGGCCCTTCGGGAC
1 ATTTCACAGTGGCCCTTCGGGAC
848782 A
1 A
848783 AATTCATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (23 bp):
ATTTCACAGTGGCCCTTCGGGAC
Found at i:848797 original size:23 final size:23
Alignment explanation
Indices: 848749--848797 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
848739 TTACAGTGGT
* *
848749 CCTTCGGGACATTTCATAGTGGC
1 CCTTCGGGACAATTCATAGTGCC
848772 CCTTCGGGACAAATTCATA-TGCC
1 CCTTCGGGAC-AATTCATAGTGCC
848795 CCT
1 CCT
848798 AGTGGGACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (23 bp):
CCTTCGGGACAATTCATAGTGCC
Found at i:849908 original size:30 final size:30
Alignment explanation
Indices: 849872--849946 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
849862 TAAAGGTCGT
*
849872 CGGGTGGTCAGGGTGACCAATGAAGATCGC
1 CGGGTGGTCAGGGCGACCAATGAAGATCGC
* *
849902 CGGGTGGTCTGGGCGACCAATGAAGGTCGC
1 CGGGTGGTCAGGGCGACCAATGAAGATCGC
* *
849932 CAGGTGGTCTGGGCG
1 CGGGTGGTCAGGGCG
849947 CCATGCAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.17, C:0.21, G:0.44, T:0.17
Consensus pattern (30 bp):
CGGGTGGTCAGGGCGACCAATGAAGATCGC
Found at i:850189 original size:49 final size:50
Alignment explanation
Indices: 850099--850199 Score: 195
Period size: 49 Copynumber: 2.0 Consensus size: 50
850089 TTTATCCTAT
850099 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
850149 TTTAGTATGTATTTATTTT-AAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
850198 TT
1 TT
850200 CAATAATTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 32 0.63
50 19 0.37
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (50 bp):
TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
Found at i:850194 original size:27 final size:27
Alignment explanation
Indices: 850114--850194 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 27
850104 TATGTATTTA
850114 TTTTAAAATTGATTATTGGGATATCTTG
1 TTTT-AAATTGATTATTGGGATATCTTG
** * * *
850142 TTTTGTATTTAGTA-T--G-TAT-TTA
1 TTTTAAATTGATTATTGGGATATCTTG
850164 TTTTAAATTGATTATTGGGATATCTTG
1 TTTTAAATTGATTATTGGGATATCTTG
850191 TTTT
1 TTTT
850195 GTATTCAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 11
0.64 0.17 0.19
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 1 0.03
25 1 0.03
26 4 0.11
27 12 0.32
28 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (27 bp):
TTTTAAATTGATTATTGGGATATCTTG
Found at i:850805 original size:31 final size:31
Alignment explanation
Indices: 850767--850877 Score: 195
Period size: 31 Copynumber: 3.6 Consensus size: 31
850757 ACGCCCAGCA
*
850767 TTGGTCGCCCAGACCACCCGACGACCTTCAT
1 TTGGTCGCCCAGACCACCCGGCGACCTTCAT
850798 TTGGTCGCCCAGACCACCCGGCGACCTTCAT
1 TTGGTCGCCCAGACCACCCGGCGACCTTCAT
*
850829 TTGGTCACCCAGACCACCCGGCGACCTTCAT
1 TTGGTCGCCCAGACCACCCGGCGACCTTCAT
*
850860 TTGGTCGCCCAGATCACC
1 TTGGTCGCCCAGACCACC
850878 TGGCAATCTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.18, C:0.41, G:0.21, T:0.20
Consensus pattern (31 bp):
TTGGTCGCCCAGACCACCCGGCGACCTTCAT
Found at i:856104 original size:23 final size:23
Alignment explanation
Indices: 856078--856127 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
856068 AACATCTCTA
* *
856078 TTCATGAAAAATAGTTAAGTCTT
1 TTCATGAAAAATAATTAAGTCAT
*
856101 TTCATGAAAAATAATTAATTCAT
1 TTCATGAAAAATAATTAAGTCAT
856124 TTCA
1 TTCA
856128 CCCAAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (23 bp):
TTCATGAAAAATAATTAAGTCAT
Found at i:857923 original size:35 final size:35
Alignment explanation
Indices: 857881--857990 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 35
857871 TTCATCTTGG
857881 TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
1 TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
* * *
857916 TTGGTGG-CTAAC-TTGTACACATTGGAAAATTC-T-T
1 TTGGTGGCCAAACTTTG-A-ACA-TGGGAATTTCATAT
*
857950 TGGTAGGTGGCCAAACTTTGAACATGGGAATTCCATAT
1 T--T-GGTGGCCAAACTTTGAACATGGGAATTTCATAT
857988 TTG
1 TTG
857991 ATCACTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
33 3 0.05
34 7 0.12
35 12 0.21
36 17 0.29
37 9 0.16
38 7 0.12
39 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (35 bp):
TTGGTGGCCAAACTTTGAACATGGGAATTTCATAT
Found at i:861716 original size:20 final size:20
Alignment explanation
Indices: 861691--861730 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
861681 AATACCAAAC
861691 ATGTAAGTATCCCACTGGCT
1 ATGTAAGTATCCCACTGGCT
861711 ATGTAAGTATCCCACTGGCT
1 ATGTAAGTATCCCACTGGCT
861731 TCTCATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (20 bp):
ATGTAAGTATCCCACTGGCT
Found at i:869791 original size:14 final size:14
Alignment explanation
Indices: 869774--869801 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
869764 ATCATAACAA
869774 AATTATATAACTAT
1 AATTATATAACTAT
869788 AATTATATAACTAT
1 AATTATATAACTAT
869802 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:880616 original size:9 final size:9
Alignment explanation
Indices: 880581--880637 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
880571 TTTATATCTG
*
880581 TAAAAAAAT
1 TAAATAAAT
*
880590 TAAAT-AAG
1 TAAATAAAT
*
880598 TAAA-ATAT
1 TAAATAAAT
880606 TAAATAAAT
1 TAAATAAAT
*
880615 TAAAT-ACT
1 TAAATAAAT
880623 TAAATAAAT
1 TAAATAAAT
880632 TAAATA
1 TAAATA
880638 CAAAATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
8 18 0.47
9 20 0.53
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAATAAAT
Found at i:880618 original size:17 final size:17
Alignment explanation
Indices: 880583--880635 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
880573 TATATCTGTA
* *
880583 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
880599 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
880616 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
880633 AAA
1 AAA
880636 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:880626 original size:25 final size:26
Alignment explanation
Indices: 880581--880637 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
880571 TTTATATCTG
* *
880581 TAAAAAAATTAAATAAGTAAA-ATAT
1 TAAATAAATTAAATAAGTAAATAAAT
**
880606 TAAATAAATTAAATACTTAAATAAAT
1 TAAATAAATTAAATAAGTAAATAAAT
880632 TAAATA
1 TAAATA
880638 CAAAATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAATAAATTAAATAAGTAAATAAAT
Found at i:880636 original size:17 final size:17
Alignment explanation
Indices: 880589--880638 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
880579 TGTAAAAAAA
* *
880589 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
880605 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
880622 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
880639 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:889629 original size:139 final size:143
Alignment explanation
Indices: 889254--889693 Score: 484
Period size: 142 Copynumber: 3.1 Consensus size: 143
889244 CCAGCCCGTC
* * * ** *
889254 AAGTTTCCAATAGAAGCGGGAATTTCACCGGTAAGATTATTGTTGTTCAAACAAAGCTCTGTAAG
1 AAGTTTCCAATAGAAGCAGGAATTTCACCGGTAAGACTATTATTGAACAAATAAAGCTCTGTAAG
* * * * * * **
889319 AGAACCTAGCATCCCAATTTCTTTAGGCATGGACCCCGATTTTTATTGTCGAAAAGTTCAAGAAA
66 GGAACCTAGCATTCCAATTTCTTTAGGTATGGACCCCGAATTTTATTGTCAAAAAGGTCAAGATG
*
889384 AGACAAGTTGGTT
131 AGATAAGTTGGTT
* * * * *
889397 GAGTTTCCAATAGAA-CAGGGATTTTACCGGTAATACTATTATTGGACAAATAAAGCTCTGTAAG
1 AAGTTTCCAATAGAAGCAGGAATTTCACCGGTAAGACTATTATTGAACAAATAAAGCTCTGTAAG
* * *
889461 GGAA-CTCATCATTCCAATTTCTTTCGGTATGGA-CCCGAGATTTTATTGT-AAAAAGGTGAAGA
66 GGAACCT-AGCATTCCAATTTCTTTAGGTATGGACCCCGA-ATTTTATTGTCAAAAAGGTCAAGA
889523 TGAGATAAGTTGGTT
129 TGAGATAAGTTGGTT
* *
889538 AAGTTTCCAATAGAAGCAGGAATTTCACCGG-AA-A-TACTATTGAACAAATAAAGC-CATGAAA
1 AAGTTTCCAATAGAAGCAGGAATTTCACCGGTAAGACTATTATTGAACAAATAAAGCTC-TGTAA
* * * * *
889599 GGGAACCTAGCATTCCGATTTCTTTTGGTATGGACCCCGAAATTTTATTTTCAAAAA-GACAAGT
65 GGGAACCTAGCATTCCAATTTCTTTAGGTATGGACCCCG-AATTTTATTGTCAAAAAGGTCAAGA
* *
889663 TGAAATAAGTCGGTT
129 TGAGATAAGTTGGTT
*
889678 AAATTTCCAATAGAAG
1 AAGTTTCCAATAGAAG
889694 GGGGGATCGA
Statistics
Matches: 251, Mismatches: 38, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
138 1 0.00
139 50 0.20
140 48 0.19
141 51 0.20
142 87 0.35
143 14 0.06
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (143 bp):
AAGTTTCCAATAGAAGCAGGAATTTCACCGGTAAGACTATTATTGAACAAATAAAGCTCTGTAAG
GGAACCTAGCATTCCAATTTCTTTAGGTATGGACCCCGAATTTTATTGTCAAAAAGGTCAAGATG
AGATAAGTTGGTT
Found at i:891480 original size:678 final size:672
Alignment explanation
Indices: 890166--891510 Score: 2520
Period size: 678 Copynumber: 2.0 Consensus size: 672
890156 AAGAAGGAGA
890166 AGAAGACCTTGAAGGATGAAGATGTTAACTTGCTAATAAAATACCATAGCTTAAAATTGGTAAGG
1 AGAAGACCTTGAAGGATGAAGATGTTAACTTGCTAATAAAATACCATAGCTTAAAATTGGTAAGG
890231 CATGTATTGGTTACACTCAACTCTAAAGGAAAGTAGTTGCTGAGAATGTGATAATAAACGAAGAA
66 CATGTATTGGTTACACTCAACTCTAAAGGAAAGTAGTTGCT-AGAATGTGATAAT--ACGAAGAA
890296 TAAGTAATACATTCATAGGCAACGTACTTTTCTCTCCTCTTTGACATTTCAATCATGCAACTTAC
128 TAAGTAATACATTCATAGGCAACGTACTTTTCTCTCCTCTTTGACATTTCAATCATGCAACTTAC
890361 CAGGACCAGGACGCACCGTGTTTATTGGGGCTGACTTTTATGCCGGTGGGACAGCCCCCATTTTT
193 CAGGACCAGGACGCACCGTGTTTATTGGGGCTGACTTTTATGCCGGTGGGACAGCCCCCATTTTT
890426 TGGGATCTTAACGTTTGATTCTGTCATGTGAAGCTTTTCCGTCAACTGGACGGTGTGCCTGACTT
258 TGGGATCTTAACGTTTGATTCTGTCATGTGAAGCTTTTCCGTCAACTGGACGGTGTGCCTGACTT
890491 TTGATATTTGTTTCCACACGACATCCAACTGCCTATAGGCTTATAGCCACAAGTGAACATGAATC
323 TTGATATTTGTTTCCACACGACATCCAACTGCCTATAGGCTTATAGCCACAAGTGAACATGAATC
890556 CCTATGGATAAACAATACTCCATAAAGACGGAGAAAGAAAAGGAAAACAAAGTTGAAAGATTATA
388 CCTATGGATAAACAATACTCCATAAAGACGGAGAAAGAAAAGGAAAACAAAGTTGAAAGATTATA
890621 AAAAAGAAGGATATATTTATATTTGGATAATTAAAATTAATAAAAGAAAGGAAAAGATGAGAATT
453 AAAAAGAAGGATATATTTATATTTGGATAATTAAAATTAATAAAAGAAAGGAAAAGATGAGAATT
890686 CTAATGTATCTCTCCTTGGGAAGGAAGTCAATTCATTTACAATTAAATATTTATATAAATAAATT
518 CTAATGTATCTCTCCTTGGGAAGGAAGTCAATTCATTTACAATT-AATATTTATATAAATAAATT
890751 AATAAATGACTATTATTTCGTAAGCATGAAACAAAATTCACTATGTAAAATCATACTAATTGTCC
582 AATAAATGACTATTATTTCGTAAGCATGAAACAAAATTCACTATGTAAAATCATACTAATTGTCC
890816 TTTATATATTTAAAAAAGGTGAAGAG
647 TTTATATATTTAAAAAAGGTGAAGAG
890842 AGAAGACCTTGAAGGATGAAGATGTTAACTTGCTAATAAAAGATACCATAGCTTAAAATTGGTAA
1 AGAAGACCTTGAAGGATGAAGATGTTAACTTGCTAAT-AAA-ATACCATAGCTTAAAATTGGTAA
890907 GGCATGTATTGGTTACACTCAACTCTAAAGGGAAAGTAGTTGCT-G-ATGTGATAAT-CGAAGAA
64 GGCATGTATTGGTTACACTCAACTCTAAA-GGAAAGTAGTTGCTAGAATGTGATAATACGAAGAA
890969 TAAGTAATACATTCATAGGCAACGTACTTTTCTCTCCTCTTTGACATTTCAATCATGCAACTTAC
128 TAAGTAATACATTCATAGGCAACGTACTTTTCTCTCCTCTTTGACATTTCAATCATGCAACTTAC
891034 CAGGACCAGGACGCACCGTGTTTATTGGGGCTGACTTTTATGCCGGTGGGACAGCCACCCATTTT
193 CAGGACCAGGACGCACCGTGTTTATTGGGGCTGACTTTTATGCCGGTGGGACAGCC-CCCATTTT
891099 TTGGGATCTTAACGTTTGATTCTGTCATGTGAAGCTTTTCCGTCAACTGGACGGTGTTGCCTGAC
257 TTGGGATCTTAACGTTTGATTCTGTCATGTGAAGCTTTTCCGTCAACTGGACGGTG-TGCCTGAC
891164 TTTTGATATTTGTTTCCACACCGACATCCAACTGCCTATAGGCTTATAGCCACAAGTGAACATGA
321 TTTTGATATTTGTTTCCACA-CGACATCCAACTGCCTATAGGCTTATAGCCACAAGTGAACATG-
891229 AATCCCTATGGATAAACAATACTCCATAAAGACGGAGAAA-AGAAAGGAAAACAAAGTTGAAAGA
384 AATCCCTATGGATAAACAATACTCCATAAAGACGGAGAAAGA-AAAGGAAAACAAAGTTGAAAGA
891293 TTATAAAAAAGAAGGATATATTTATATTTTGGATAATTAAAATTAATAAAAGAAAGGAAAAGATG
448 TTATAAAAAAGAAGGATATATTTATA-TTTGGATAATTAAAATTAATAAAAGAAAGGAAAAGATG
891358 AGAATTCTAATGTATCTCTCCTTGGGAAGGAAGTCAATTCATTTACAATT-ATATTTATATAAAT
512 AGAATTCTAATGTATCTCTCCTTGGGAAGGAAGTCAATTCATTTACAATTAATATTTATATAAAT
891422 AAATTAATAAATGACTATTATTTCGTAAGCATGAAAACAAAATTCACTATGTTAAAATCATACTA
577 AAATTAATAAATGACTATTATTTCGTAAGCATG-AAACAAAATTCACTATG-TAAAATCATACTA
891487 ATTGTCCTTTATATATTTAAAAAA
640 ATTGTCCTTTATATATTTAAAAAA
891511 TAATAAAATA
Statistics
Matches: 658, Mismatches: 0, Indels: 20
0.97 0.00 0.03
Matches are distributed among these distances:
673 128 0.19
674 64 0.10
675 28 0.04
676 138 0.21
677 109 0.17
678 177 0.27
679 14 0.02
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (672 bp):
AGAAGACCTTGAAGGATGAAGATGTTAACTTGCTAATAAAATACCATAGCTTAAAATTGGTAAGG
CATGTATTGGTTACACTCAACTCTAAAGGAAAGTAGTTGCTAGAATGTGATAATACGAAGAATAA
GTAATACATTCATAGGCAACGTACTTTTCTCTCCTCTTTGACATTTCAATCATGCAACTTACCAG
GACCAGGACGCACCGTGTTTATTGGGGCTGACTTTTATGCCGGTGGGACAGCCCCCATTTTTTGG
GATCTTAACGTTTGATTCTGTCATGTGAAGCTTTTCCGTCAACTGGACGGTGTGCCTGACTTTTG
ATATTTGTTTCCACACGACATCCAACTGCCTATAGGCTTATAGCCACAAGTGAACATGAATCCCT
ATGGATAAACAATACTCCATAAAGACGGAGAAAGAAAAGGAAAACAAAGTTGAAAGATTATAAAA
AAGAAGGATATATTTATATTTGGATAATTAAAATTAATAAAAGAAAGGAAAAGATGAGAATTCTA
ATGTATCTCTCCTTGGGAAGGAAGTCAATTCATTTACAATTAATATTTATATAAATAAATTAATA
AATGACTATTATTTCGTAAGCATGAAACAAAATTCACTATGTAAAATCATACTAATTGTCCTTTA
TATATTTAAAAAAGGTGAAGAG
Found at i:891797 original size:78 final size:77
Alignment explanation
Indices: 891662--891806 Score: 220
Period size: 78 Copynumber: 1.9 Consensus size: 77
891652 ATTCCTGTTT
*
891662 TGGTCACTAAACTTTAAAAAATTTCAATTTGATCTCAACTTTAGAAGTTCCTATCCACATAAGTC
1 TGGTCACTAAACTTTAAAAAATTTCAATTTGATCTCAACTTTAGAAGTTCCGATCCACATAAGTC
891727 TCCCGATAAAAC
66 TCCCGATAAAAC
* ** *
891739 TGGTCACTAAATTTTAAAAAA-TTCAATTTGATCACTTGACTTTAGAAGTTCCGCTCCACATAAG
1 TGGTCACTAAACTTTAAAAAATTTCAATTTGAT--CTCAACTTTAGAAGTTCCGATCCACATAAG
891803 TCTC
64 TCTC
891807 GTCCTTTCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
76 11 0.18
77 20 0.33
78 30 0.49
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (77 bp):
TGGTCACTAAACTTTAAAAAATTTCAATTTGATCTCAACTTTAGAAGTTCCGATCCACATAAGTC
TCCCGATAAAAC
Found at i:893294 original size:29 final size:29
Alignment explanation
Indices: 893252--893309 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
893242 CCATCTGTTG
893252 TGCGACAACGTTTCAACAAGGGGAGGCTA
1 TGCGACAACGTTTCAACAAGGGGAGGCTA
*
893281 TGCGACACCGTTTCAACAAGGGGAGGCTA
1 TGCGACAACGTTTCAACAAGGGGAGGCTA
893310 GGCATTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.17
Consensus pattern (29 bp):
TGCGACAACGTTTCAACAAGGGGAGGCTA
Found at i:893980 original size:15 final size:15
Alignment explanation
Indices: 893940--893989 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
893930 TATTATATGT
893940 TTTTAT-TATATATA
1 TTTTATGTATATATA
* *
893954 -TATATATA-ATATA
1 TTTTATGTATATATA
893967 TTTTATGTATATATA
1 TTTTATGTATATATA
893982 TTTTATGT
1 TTTTATGT
893990 GTGTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 9 0.30
14 8 0.27
15 13 0.43
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
TTTTATGTATATATA
Found at i:899567 original size:9 final size:9
Alignment explanation
Indices: 899546--899580 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
899536 TTACTTGAGG
899546 AAAATTAAA-
1 AAAA-TAAAC
899555 AAAATAAAC
1 AAAATAAAC
899564 AAAATAAAC
1 AAAATAAAC
899573 AAAATAAA
1 AAAATAAA
899581 TTTCATCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAATAAAC
Found at i:899837 original size:35 final size:35
Alignment explanation
Indices: 899786--899888 Score: 125
Period size: 36 Copynumber: 2.9 Consensus size: 35
899776 GTTTTTCTTG
*
899786 AAACAAAATTTTGTCTCGCTTGAGACAGTTTTCTAA
1 AAAC-AAATTTTGTCTCGCTTGAGACAATTTTCTAA
* *
899822 AAACAAATTTTGTCTCGCTTGAGACAATTTCTTTCA
1 AAACAAATTTTGTCTCGCTTGAGACAATTT-TCTAA
** * *
899858 AAACAAATTTCATCTCACTTGAGACATTTTT
1 AAACAAATTTTGTCTCGCTTGAGACAATTTT
899889 TCCTTTAAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
35 26 0.44
36 33 0.56
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (35 bp):
AAACAAATTTTGTCTCGCTTGAGACAATTTTCTAA
Found at i:899982 original size:103 final size:102
Alignment explanation
Indices: 899834--900172 Score: 349
Period size: 103 Copynumber: 3.3 Consensus size: 102
899824 ACAAATTTTG
* * *
899834 TCTCGCTTGAGA-CAATTTCT-TTCAAAACAAATTTCATCTCACTTGAGACATTTTTTCCTTTAA
1 TCTCACTTGAGATCAATTTCTCTTCAAAACAAA-TTC-TCT-GCTTGAGACATTTTTTCCTTTGA
899897 GATACAAATTT-GAATTTGTTTCACATTAAACAAAGTTGA
63 GATACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGA
* * *
899936 TCTCAGTTAAGATCACTTTCTCTT-AAAACAAACTTCGTCTTGCTTGAGACATTTTTTCCTTTGA
1 TCTCACTTGAGATCAATTTCTCTTCAAAACAAA-TTC-TC-TGCTTGAGACATTTTTTCCTTTGA
* * * * *
900000 TATACAAATTTCAAATTTGATTCAC-TTGAAACAAAAATTAA
63 GATACAAATTTCGAATTTGTTTCACATT-AAAC-AAAGTTGA
** * *
900041 TCTCACTTGAGATTGTTATTT-TTTTCAAAACAAATTC-C-GTTTGAGACA-TTTTTCC-TTGAG
1 TCTCACTTGAGA-T-CAATTTCTCTTCAAAACAAATTCTCTGCTTGAGACATTTTTTCCTTTGAG
900101 AATACAAATTTCGAATTTGTTTTCACATTAAACAAAGTTGA
64 -ATACAAATTTCGAATTTG-TTTCACATTAAACAAAGTTGA
*
900142 TCTCACTTGAGATCAATTTCTC-TAAAAACAA
1 TCTCACTTGAGATCAATTTCTCTTCAAAACAA
900173 TTTTGTCTCG
Statistics
Matches: 195, Mismatches: 29, Indels: 29
0.77 0.11 0.11
Matches are distributed among these distances:
99 12 0.06
100 6 0.03
101 42 0.22
102 27 0.14
103 55 0.28
104 19 0.10
105 16 0.08
106 7 0.04
107 11 0.06
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (102 bp):
TCTCACTTGAGATCAATTTCTCTTCAAAACAAATTCTCTGCTTGAGACATTTTTTCCTTTGAGAT
ACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGA
Found at i:900195 original size:35 final size:35
Alignment explanation
Indices: 900130--900230 Score: 134
Period size: 35 Copynumber: 2.9 Consensus size: 35
900120 TTTTCACATT
900130 AAACAAA-GTTGATCTCACTTGAGATCAATTTCTCTA
1 AAACAAATGTTG-TCTCACTTGAGA-CAATTTCTCTA
* **
900166 AAA-ACAATTTTGTCTCGTTTGAGACAATTTCTCTA
1 AAACA-AATGTTGTCTCACTTGAGACAATTTCTCTA
900201 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAATGTTGTCTCACTTGAGACAATTT
900231 TCCAAATTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
35 37 0.66
36 16 0.29
37 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (35 bp):
AAACAAATGTTGTCTCACTTGAGACAATTTCTCTA
Found at i:900304 original size:30 final size:31
Alignment explanation
Indices: 900268--900326 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
900258 AACAAACATC
*
900268 ATCTTTGAGTC-ATTTCTTTTGAAACAAAGG
1 ATCTTTGAGTCTATTTCTTTTAAAACAAAGG
900298 ATCTTTGAGTCTATTTCTTTTAAAACAAA
1 ATCTTTGAGTCTATTTCTTTTAAAACAAA
900327 CTTTGTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTAAAACAAAGG
Found at i:900467 original size:64 final size:65
Alignment explanation
Indices: 900391--900575 Score: 195
Period size: 64 Copynumber: 2.9 Consensus size: 65
900381 AAACAAAATG
*
900391 AAAATCTTTGAGTATGTTTCTTTGATAACAAAATTTTGTCTCTTTTGAGAAAGTTTCTTTTG-A-
1 AAAATCTTTGAGTATGTTTCTTTGAAAACAAAA-TTTGTCTCTTTTGAGAAAGTTTCTTTTGAAG
900454 A
65 A
* * * *
900455 ATAATCTTTGAGTATGTTTCTTTGGGGAAA-AAAA-TTGTCTCTTTTGAGATAG-TTCCTTTGAA
1 AAAATCTTTGAGTATGTTTCTTT--GAAAACAAAATTTGTCTCTTTTGAGAAAGTTTCTTTTGAA
900517 GA
64 GA
* * * *
900519 AAAATCTTTAAGTTTGTTT-TATGAAAACAAAGGTTTGTCTCTTTTGAGACAA-TTTCT
1 AAAATCTTTGAGTATGTTTCTTTGAAAACAAA-ATTTGTCTCTTTTGAGA-AAGTTTCT
900576 CTTAAAACAA
Statistics
Matches: 99, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
61 4 0.04
62 10 0.10
63 20 0.20
64 54 0.55
65 8 0.08
66 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (65 bp):
AAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTGTCTCTTTTGAGAAAGTTTCTTTTGAAGA
Found at i:900676 original size:27 final size:25
Alignment explanation
Indices: 900630--900721 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 25
900620 ATCTTTGTGT
900630 TTGTTTCTCTTGAAACAAAAGTCTGTGAG
1 TTGTTTCT-TTGAAA-AAAA-TCT-TGAG
*
900659 TTGTTTCTTTGAATAAAAATCTTTGAT
1 TTGTTTCTTTGAA-AAAAATC-TTGAG
* *
900686 TTGTTTTTTTTG-AAAAATTCTTGAG
1 TTG-TTTCTTTGAAAAAAATCTTGAG
900711 TCTGTTTCTTT
1 T-TGTTTCTTT
900722 TGAACCAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
25 11 0.20
26 8 0.15
27 9 0.17
28 17 0.31
29 9 0.17
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (25 bp):
TTGTTTCTTTGAAAAAAATCTTGAG
Found at i:900709 original size:25 final size:26
Alignment explanation
Indices: 900673--900725 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
900663 TTCTTTGAAT
* *
900673 AAAAATCTTTGA-TTTGTTTTTTTTG
1 AAAAATCTTTGAGTCTGTTTCTTTTG
900698 AAAAAT-TCTTGAGTCTGTTTCTTTTG
1 AAAAATCT-TTGAGTCTGTTTCTTTTG
900724 AA
1 AA
900726 CCAAAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 10 0.42
26 13 0.54
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (26 bp):
AAAAATCTTTGAGTCTGTTTCTTTTG
Found at i:900796 original size:29 final size:30
Alignment explanation
Indices: 900761--900817 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
900751 ATTTCATGAA
900761 AAAATCTTTGAG-TCATTTCTTTTGAAACC
1 AAAATCTTTGAGTTCATTTCTTTTGAAACC
*
900790 AAAATCTTTGAGTTTATTTCTTTTGAAA
1 AAAATCTTTGAGTTCATTTCTTTTGAAA
900818 TAAAGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (30 bp):
AAAATCTTTGAGTTCATTTCTTTTGAAACC
Found at i:900824 original size:91 final size:94
Alignment explanation
Indices: 900706--900883 Score: 238
Period size: 91 Copynumber: 1.9 Consensus size: 94
900696 TGAAAAATTC
* *
900706 TTGAGTCTGTTTCTTTTGAACCAAAGTTTTGTCTCTCTTAAGACA-ATTTCAT-GAAAAAATCTT
1 TTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGACAGATTTCATAGAAAAAATCTT
900769 TGAGTCAT-TT-CTTTTGAAACCAAAATCT
66 TGAGTC-TGTTCCTTTTGAAACCAAAATCT
* * * * *
900797 TTGAGTTTATTTCTTTTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTGAGAAAAAATC
1 TTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGACAG-ATTTCAT-AGAAAAAATC
900862 TTTGAGTCTGTTCCTTTTGAAA
64 TTTGAGTCTGTTCCTTTTGAAA
900884 AATCTTTGAG
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
91 40 0.54
93 5 0.07
94 1 0.01
95 19 0.26
96 9 0.12
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (94 bp):
TTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGACAGATTTCATAGAAAAAATCTT
TGAGTCTGTTCCTTTTGAAACCAAAATCT
Found at i:901361 original size:132 final size:133
Alignment explanation
Indices: 901102--901456 Score: 563
Period size: 132 Copynumber: 2.7 Consensus size: 133
901092 AATCATTATC
* * *
901102 CCTAAAGATGGCCA-AACTCTTCATCACATATGATTCGTGTCATCCCCGACCAGATCACTTCATC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCTTCATC
901166 ACGTATGAGCCGTGTCACCCCTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCACC
66 ACGTATGAGCCGTGTCACCCCTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCACC
901231 CTT
131 CTT
* *
901234 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACTAGATCTCTTCATC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCTTCATC
*
901299 GCGTATGAGCCGTGTC-CCCCTAGATAACCAGTC-GTCCTCATCACGTAGGAACCGAGTTATCAC
66 ACGTATGAGCCGTGTCACCCCTAGATAACCAG-CAGTCCTCATCACGTAGGAACCGAGTTATCAC
901362 CCTT
130 CCTT
* *
901366 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCTCGACCAGATTTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCC-CGACCAGATCTCTTCAT
* * * *
901431 CACGTAGGAACCATGTCACCCTTAGA
65 CACGTATGAGCCGTGTCACCCCTAGA
901457 CGACCCGAAC
Statistics
Matches: 204, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
132 108 0.53
133 89 0.44
134 7 0.03
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (133 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCTTCATC
ACGTATGAGCCGTGTCACCCCTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCACC
CTT
Found at i:903052 original size:11 final size:10
Alignment explanation
Indices: 903036--903126 Score: 60
Period size: 11 Copynumber: 8.5 Consensus size: 10
903026 AGTTCAAACC
903036 GTTATTCATAT
1 GTTATT-ATAT
903047 GTTATTTATAT
1 GTTA-TTATAT
903058 GTTATTATAT
1 GTTATTATAT
903068 GTTTATTAT-T
1 G-TTATTATAT
*
903078 ATTATTATTATT
1 GTTATTA-TA-T
*
903090 ATTATTATAT
1 GTTATTATAT
*
903100 ATATATATATAT
1 GT-TAT-TATAT
*
903112 ATATATTATAT
1 GT-TATTATAT
903123 -TTAT
1 GTTAT
903127 GTGTTTAATT
Statistics
Matches: 72, Mismatches: 1, Indels: 16
0.81 0.01 0.18
Matches are distributed among these distances:
9 9 0.12
10 13 0.18
11 29 0.40
12 21 0.29
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (10 bp):
GTTATTATAT
Found at i:903076 original size:3 final size:3
Alignment explanation
Indices: 903070--903120 Score: 57
Period size: 3 Copynumber: 15.3 Consensus size: 3
903060 TATTATATGT
903070 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TATA TATA TATA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA T-TA T-TA T-TA
903117 TTA T
1 TTA T
903121 ATTTATGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 28 0.60
4 19 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:903076 original size:21 final size:21
Alignment explanation
Indices: 903037--903126 Score: 71
Period size: 21 Copynumber: 4.2 Consensus size: 21
903027 GTTCAAACCG
*
903037 TTATTCATATG-TTATTTATATG
1 TTATT-ATATGTTTA-TTATATA
903059 TTATTATATGTTTATTAT-TA
1 TTATTATATGTTTATTATATA
903079 TTATTATTAT-TATTATTATATA
1 TTATTA-TATGT-TTATTATATA
* *
903101 TATATATATATATATATTATAT-
1 T-TAT-TATATGTTTATTATATA
903123 TTAT
1 TTAT
903127 GTGTTTAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
20 8 0.14
21 22 0.37
22 12 0.20
23 14 0.24
24 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATTATATGTTTATTATATA
Found at i:903967 original size:111 final size:113
Alignment explanation
Indices: 903769--903993 Score: 395
Period size: 111 Copynumber: 2.0 Consensus size: 113
903759 ATCGAATCTT
903769 TGGTAAACGCATACCAAATTTGTCTTATAAAATTTTTTTTTCTTAAAATTGTTTTAAAAAACGTT
1 TGGTAAACGCATACCAAATTTGTCTTATAAAATTTTTTTTTCTTAAAATTGTTTT-AAAAACGTT
903834 TTAGGTATTCGACCTACCTAACCCAAAGGTCGATGGCGACT-CTATTCG
65 TTAGGTATTCGACCTACCTAACCCAAAGGTCGATGGCGACTCCTATTCG
903882 TGGTAAACGCATACCAAATTTTGTCTTAT-AAA-TTTTTTTTCTTAAAATTGTTTT-AAAACGTT
1 TGGTAAACGCATACCAAA-TTTGTCTTATAAAATTTTTTTTTCTTAAAATTGTTTTAAAAACG-T
903944 TTTAGGTATTCGACCTACCTAACCCAAAGGTCGATGGCGACTCCTATTCG
64 TTTAGGTATTCGACCTACCTAACCCAAAGGTCGATGGCGACTCCTATTCG
903994 ATTTAATTCC
Statistics
Matches: 109, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
110 6 0.06
111 43 0.39
112 29 0.27
113 21 0.19
114 10 0.09
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (113 bp):
TGGTAAACGCATACCAAATTTGTCTTATAAAATTTTTTTTTCTTAAAATTGTTTTAAAAACGTTT
TAGGTATTCGACCTACCTAACCCAAAGGTCGATGGCGACTCCTATTCG
Found at i:909709 original size:13 final size:13
Alignment explanation
Indices: 909691--909716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
909681 CTTCTGCACC
909691 CAGTTCCATTGCT
1 CAGTTCCATTGCT
909704 CAGTTCCATTGCT
1 CAGTTCCATTGCT
909717 GCCTCGGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CAGTTCCATTGCT
Found at i:913604 original size:36 final size:36
Alignment explanation
Indices: 913502--913604 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
913492 TCTACAGGAG
* * **
913502 ATAGTT-TTCTTCTAAATATCTAATGCATCTATGGT
1 ATAGTTATTCTTCAAAATATCTCATGCATCTGGGGT
* *
913537 ATAGTTATTCTTCGAAATATCTCATGAATCTGGGGT
1 ATAGTTATTCTTCAAAATATCTCATGCATCTGGGGT
913573 ATAGTTATTCTTCAAAATATCTCATGCATCTG
1 ATAGTTATTCTTCAAAATATCTCATGCATCTG
913605 AGCGTTTCCC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
35 6 0.10
36 54 0.90
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (36 bp):
ATAGTTATTCTTCAAAATATCTCATGCATCTGGGGT
Found at i:915806 original size:13 final size:13
Alignment explanation
Indices: 915788--915818 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
915778 TAATTTAAAG
915788 TATGGCTATGGGC
1 TATGGCTATGGGC
915801 TATGGCTATGGGC
1 TATGGCTATGGGC
915814 TATGG
1 TATGG
915819 TTGAGACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.39, T:0.32
Consensus pattern (13 bp):
TATGGCTATGGGC
Found at i:916349 original size:21 final size:23
Alignment explanation
Indices: 916303--916350 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
916293 ATCAAGTACA
*
916303 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
916326 ATAATATAATATGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
916349 AT
1 AT
916351 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:917262 original size:173 final size:179
Alignment explanation
Indices: 916973--917412 Score: 669
Period size: 173 Copynumber: 2.5 Consensus size: 179
916963 TTTACTATCG
* * * *
916973 GTTTTGTCATTTCGATATCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
1 GTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
* *
917038 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCG
66 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
* *
917103 ATAC-T-T-AT-A-AT-ACACTATCAACATATCCGGTATCTCTTAACCA
131 ATACTTATAATAAGATCACACTATCAACATATCCGGTAGCGCTTAACCA
*
917146 GTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACAT
1 GTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
917211 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
66 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
* *
917276 ATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCT
131 ATACTTATAAT-AAG-ATC-ACACTATCAACATATCCGGTAGCGCTTAACCA
* * *
917328 GTTTTGTCATTTAT-AGACCGGTTTTGTCATTTTTTTACATGTTTTATTGTTATGGATCGATACA
1 GTTTTGTCATTT-TGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
917392 TTTTTATAAAGTATCGACACT
65 TTTTTATAAAGTATCGACACT
917413 ATCAACATAT
Statistics
Matches: 242, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
173 127 0.52
174 1 0.00
175 1 0.00
176 2 0.01
178 1 0.00
180 2 0.01
182 107 0.44
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (179 bp):
GTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCG
ATACTTATAATAAGATCACACTATCAACATATCCGGTAGCGCTTAACCA
Found at i:920606 original size:199 final size:199
Alignment explanation
Indices: 920208--921453 Score: 1759
Period size: 199 Copynumber: 6.3 Consensus size: 199
920198 AGACATTTGG
* * * * *
920208 TTATAATTATGTGTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCAAAACTTTGT-T
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TAT
* * * *
920272 TTGCACTTGGTTCTGAAATACATTCTGGA-C-AAAG--T-GACACTTATTCT-ATTTGTGTCGAT
65 GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTT-TGATTTGTGTCGAT
* * * * * ***
920331 ACTGTTTGTACACATGTTTTCTCAAAAACCTGTATATTTAGACCGGTTATATTTCTAATTTACCT
129 ACTTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCT
920396 ATTACA
194 ATTACA
** * *
920402 TTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAATTTTTTG
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTATG
920467 TGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * * *
920532 TTTTTTTACACCTGTTTTCTCAAAAATCGGTATATTTAGATCGTTTACATGAATAATTTATCTAT
131 TTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTAT
920597 TACA
196 TACA
* *
920601 TTATAATTATATTTTTCGATGTTTTCGGGATCG--ACTTGTT-TTAATGTATCGACACTTTTATG
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTATG
*
920663 TGCACTTGGTTTTGAAATACATTTTGAACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* * *
920728 TTTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACGGTTTATATGAATAATTTACATA
131 -TTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTA
920793 TTACA
195 TTACA
* * *
920798 TTATAATTATATTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTTATG
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTATG
* *
920863 TGCACTT-GTTTCTGAAATACATTCTGGA-CATAAAGTATCGATACTTGTTCT-ATTTGTGTCGA
66 TGCACTTGGTTT-TGAAATACATTTTGGACCA-AAAGTATCGACACTTGTT-TGATTTGTGTCGA
* * * * * * * ***
920925 TACTGTTTGTACACTTGTTTTCTCAAAAATCAGTATATTTAGACCGGTTATATTTTTAATTTACC
128 TACTTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACC
920990 TATTACA
193 TATTACA
*
920997 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG-ATTCGACACTTTT-T
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA-TCGACACTTTTAT
921060 AGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGAT
65 -GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGAT
* *
921125 AC-TTTTTTACACATGTTTTCTCGAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCA
129 ACTTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCT
921189 ATTACA
194 ATTACA
* * * * * *
921195 TTATAATTATGTTTTTCAATGTTTTCGTGATCGACACTTGTTTTAAATGTATCGACACTTTTATA
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTATG
*
921260 TGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTTGATAC
66 TGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
* *
921325 TTTTTTTACACCTGTTTTCTCAAAAACTGGTATATTTAGACCGTTTACATGAATAATTTACCTAT
131 TTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTAT
921390 TACA
196 TACA
* * *
921394 TTATAATTATGTTTTTCGATGTTTTTAGGATCGACACTTGTTTTAAATGTATCGACACTT
1 TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT
921454 ATTTATTTGT
Statistics
Matches: 944, Mismatches: 86, Indels: 39
0.88 0.08 0.04
Matches are distributed among these distances:
193 1 0.00
194 82 0.09
195 1 0.00
196 87 0.09
197 101 0.11
198 179 0.19
199 413 0.44
200 79 0.08
201 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (199 bp):
TTATAATTATATTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTATG
TGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATAC
TTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTAT
TACA
Found at i:921266 original size:397 final size:396
Alignment explanation
Indices: 920208--921458 Score: 1816
Period size: 397 Copynumber: 3.2 Consensus size: 396
920198 AGACATTTGG
* * *
920208 TTATAATTATGTGTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCAAAACTTTGTT-
1 TTATAATTATGT-TTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTA
* * * *
920272 TTGCACTTGGTTCTGAAATACATTCTGGA-C-AAAG--T-GACACTTATTCT-ATTTGTGTCGAT
64 GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTT-TGATTTGTGTCGAT
* * * *** *
920331 ACTGTTTGTACACATGTTTTCTCAAAAACCTGTATATTTAGACCGGTTATATTTCTAATTTACCT
128 ACT-TTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTATATGAATAATTTACCA
* * * * *
920396 ATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAAT
192 ATTACATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACT
*
920461 TTTTTGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGT
257 TTTATGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGT
*
920526 CGATACTTTTTTTACACCTGTTTTCTCAAAAATCGGTATATTTAGATCGTTTACATGAATAATTT
322 CGATACTTTTTTTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGTTTACATGAATAATTT
*
920591 ATCTATTACA
387 ACCTATTACA
* * *
920601 TTATAATTATATTTTTCGATGTTTTCGGGATCG--ACTTGTT-TTAATGTATCGACAC-TTTTAT
1 TTATAATTAT-GTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
*
920662 GTGCACTTGGTTTTGAAATACATTTTGAACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATA
64 GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATA
*
920727 CTTTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACGGTTTATATGAATAATTTA-CA
129 C--TTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTATATGAATAATTTACCA
*
920791 TATTACATTATAATTATATTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACAC
192 -ATTACATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACAC
* *
920856 TTTTATGTGCACTT-GTTTCTGAAATACATTCTGGA-CATAAAGTATCGATACTTGTTCT-ATTT
256 TTTTATGTGCACTTGGTTT-TGAAATACATTTTGGACCA-AAAGTATCGACACTTGTT-TGATTT
* * * * * * ***
920918 GTGTCGATACTGTTTGTACACTTGTTTTCTCAAAAATCAGTATATTTAGACCGGTTATATTTTTA
318 GTGTCGATACTTTTTTTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGTTTACATGAATA
920983 ATTTACCTATTACA
383 ATTTACCTATTACA
920997 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG-ATTCGACACTTTTTA
1 TTATAATTAT-GTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTA-TCGACACTTTTTA
921061 GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATA
64 GTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATA
* *
921126 CTTTTTTACACATGTTTTCTCGAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCAAT
129 CTTTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTATATGAATAATTTACCAAT
*
921191 TACATTATAATTATGTTTTTCAATGTTTTCGTGATCGACACTTGTTTTAAATGTATCGACACTTT
194 TACATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTT
* *
921256 TATATGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTTG
259 TATGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCG
921321 ATACTTTTTTTACACCTGTTTTCTCAAAAA-CTGGTATATTTAGACCGTTTACATGAATAATTTA
324 ATACTTTTTTTACACCTGTTTTCTCAAAAATC-GGTATATTTAGACCGTTTACATGAATAATTTA
921385 CCTATTACA
388 CCTATTACA
* *
921394 TTATAATTATGTTTTTCGATGTTTTTAGGATCGACACTTGTTTTAAATGTATCGACACTTATTTA
1 TTATAATTATG-TTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT-TTTA
921459 TTTGTGTTAC
Statistics
Matches: 767, Mismatches: 63, Indels: 51
0.87 0.07 0.06
Matches are distributed among these distances:
388 2 0.00
389 2 0.00
390 37 0.05
391 7 0.01
392 4 0.01
393 29 0.04
394 3 0.00
395 30 0.04
396 260 0.34
397 290 0.38
398 21 0.03
399 77 0.10
400 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (396 bp):
TTATAATTATGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGT
GCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACT
TTTTTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTATATGAATAATTTACCAATTA
CATTATAATTATGTTTTTCAATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTTTA
TGTGCACTTGGTTTTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGAT
ACTTTTTTTACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGTTTACATGAATAATTTACCT
ATTACA
Found at i:924839 original size:199 final size:198
Alignment explanation
Indices: 924333--925217 Score: 1420
Period size: 197 Copynumber: 4.5 Consensus size: 198
924323 TTTTCAATTT
* *
924333 AAACCGGTATATTTAGACTGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATGGTTTTCGA
* *
924398 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGTACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
924463 CATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTCGATACTTTTTTTACACTTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATAC-TTTTTTACACATGTTTTC
924528 TC--
195 TCAA
* *
924530 AAACCGATATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATGGTTTTCGA
924595 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
924660 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTTTACATATGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATAC-TTTTTTACACATGTTTTC
*
924725 TAAA
195 TCAA
*
924729 AAACCGGTATATTTAGACTGGTTATATTGCTAATCTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATGGTTTTCGA
* *
924794 TGTTTTTAGGATCGACACTTGTTACAAATGTATCGATACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
924859 CATTCTAGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATAC-TTTTTACACCTGTTTTCT
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTTACACATGTTTTCT
924923 CAA
196 CAA
*
924926 AAATCGGTATATTTAGACCGG-T-TA-TGCTAATCTACCTATTACATTATAATTATGGGTTTT-G
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTAT-GGTTTTCG
*
924987 ATGTTTTTGGGATCGACACTTGTTACAAATGTATCGATACTTTTTAGTGCACTTGG-TTTGAAAT
65 ATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
*
925051 ACATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTGTTTTACACATG-TTTC
130 ACATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTTACACATGTTTTC
925115 TCAA
195 TCAA
* * *
925119 AAACTGGTATATTTAGACCGGTT-TATTG-TAATTTACCTATTACATTATAATTATGGTTTTCAA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATGGTTTTCGA
** *
925182 TGTTTTTTTGATCGACACTTCTT---AATGTATCGACAC
66 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACAC
925218 ATAAGTTTAC
Statistics
Matches: 649, Mismatches: 32, Indels: 20
0.93 0.05 0.03
Matches are distributed among these distances:
191 12 0.02
193 87 0.13
194 144 0.22
195 10 0.02
196 1 0.00
197 225 0.35
199 170 0.26
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (198 bp):
AAACCGGTATATTTAGACCGGTTATATTGCTAATCTACCTATTACATTATAATTATGGTTTTCGA
TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTTACACATGTTTTCT
CAA
Found at i:925601 original size:18 final size:19
Alignment explanation
Indices: 925554--925602 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
925544 TTACATTCAC
*
925554 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
925573 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
925592 ATAC-AAATTAA
1 ATACAAAATTAA
925603 CCATGCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:926880 original size:13 final size:13
Alignment explanation
Indices: 926862--926893 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
926852 CGGTTCAATT
926862 CCGCTTGGAATAA
1 CCGCTTGGAATAA
926875 CCGCTTGGAATAA
1 CCGCTTGGAATAA
926888 CCGCTT
1 CCGCTT
926894 TTTCAACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (13 bp):
CCGCTTGGAATAA
Found at i:927097 original size:17 final size:17
Alignment explanation
Indices: 927075--927111 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
927065 TTCTCCTCAT
* *
927075 TTCCTCCATCTTTTTTC
1 TTCCTCCATATTTCTTC
927092 TTCCTCCATATTTCTTC
1 TTCCTCCATATTTCTTC
927109 TTC
1 TTC
927112 AAATTTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.08, C:0.35, G:0.00, T:0.57
Consensus pattern (17 bp):
TTCCTCCATATTTCTTC
Found at i:927787 original size:22 final size:21
Alignment explanation
Indices: 927759--927815 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
927749 AACCTGGATT
*
927759 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
927781 TATAATAATTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
*
927805 TATAAAAAAAC
1 TATAATAAAAC
927816 AAAAACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 9 0.30
24 18 0.60
25 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:928692 original size:20 final size:20
Alignment explanation
Indices: 928667--928707 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
928657 AATGTTTCTT
928667 AATCAATACATTAACGCTAA
1 AATCAATACATTAACGCTAA
928687 AATCAATACATTAACGCTAA
1 AATCAATACATTAACGCTAA
928707 A
1 A
928708 TAATACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (20 bp):
AATCAATACATTAACGCTAA
Found at i:928819 original size:18 final size:18
Alignment explanation
Indices: 928796--928834 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
928786 TACTGTCAAC
928796 ATTTAAAATTTGTAAT-CA
1 ATTTAAAATTT-TAATCCA
*
928814 ATTTAAAGTTTTAATCCA
1 ATTTAAAATTTTAATCCA
928832 ATT
1 ATT
928835 ACCATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTTAAAATTTTAATCCA
Found at i:929126 original size:19 final size:20
Alignment explanation
Indices: 929079--929127 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
929069 ACATTATACA
929079 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
929098 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
929116 ACCTATAAATAT
1 ACCTATAAATAT
929128 TAACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:929759 original size:182 final size:182
Alignment explanation
Indices: 929542--930968 Score: 2093
Period size: 182 Copynumber: 7.9 Consensus size: 182
929532 TATCTATTTA
* * * *
929542 CCGGTTTTGTCA-TTTTGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTCTGGATGGAT
1 CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
* * * *
929606 ATATTTTCATAAAGTGTCAACACTTTTTAAGCGCTATAACTTCTTATCTTTTAAATTCAGAAAGT
66 ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
929671 GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
131 GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
* * *
929723 CCGGTTTTGTCATTTTTGAGACCTATTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGAT
1 CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
929788 ACATTTTCATAAAGTGTCGACAC-TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
66 ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
* * *
929852 GTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTAT
131 GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTT-T
* * * *
929906 -TGGTTTTGTCAATTTTGAGACCTTTTTTATCATATTTTTACATGTTATATTGTTATGGATCGAT
1 CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
929970 ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
66 ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
*
930035 GTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTT
131 GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
* * *
930087 CCGGTTTTGTCATTTTTGAGACATGTTTTATCATATTTTTACCTATTATATTGTTGTGGATCGAT
1 CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
* ** * * *
930152 A-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTATTCTCTTTTAAATTCAGAAAGT
66 ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
* * * *
930216 TTCGATACTTATATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTA
131 GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAAC-TTTTT
** * * *
930269 CTTGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTATTATGGATCGAT
1 CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
* * *
930334 ACATTTTCATAAAGTGTCGACACTTTTTAGACGTTATAACTTCTTCTCTTTTAAATTCTGAAAGT
66 ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
*
930399 GTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTT
131 GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
* * * ***
930451 TCGGTTTTGTCATTTTTTAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTGTGGAAAAAT
1 CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
* * * *
930516 ATATTTT-TTAAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAG
66 ACATTTTCAT-AAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAG
* * * * *
930580 TTTCGATACTTATATTAAATTATCGGCACTTTC-A-ATATCCGGTAGCGTTTA
130 TGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
* * * *
930631 CTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTGACCTGTTATATTGTTATGGATCAAT
1 CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
* * *
930696 ACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAGAAAGT
66 ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
* * *
930761 GTCGATAGTTATATTAAATTATCGACACTTTTAACATATCCGATAACTTTTT
131 GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
* * * *
930813 CCGGTTTTGTCATTTTTGAGACATGTTTTTATCATATTTTTACATGTTATATTGGTAAGGATCGA
1 CCGGTTTTGTCATTTTTGAGACCTG-TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
930878 TAC-TTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTT-T-TTTT-AATTCAGAAAG
65 TACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAG
*
930939 TTTCGATACTTATATTAAATTATCGACACT
130 TGTCGATACTTATATTAAATTATCGACACT
930969 CGACATATAT
Statistics
Matches: 1112, Mismatches: 122, Indels: 26
0.88 0.10 0.02
Matches are distributed among these distances:
179 39 0.04
180 159 0.14
181 201 0.18
182 494 0.44
183 219 0.20
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (182 bp):
CCGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGAT
ACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT
GTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
Found at i:932577 original size:23 final size:22
Alignment explanation
Indices: 932545--932595 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
932535 ATTTATCTTT
*
932545 TAAA-TTTTATAAAAAATTATA
1 TAAATTTTTATAAAAAAGTATA
*
932566 TATAATTTTTATTAAAAAGTATA
1 TA-AATTTTTATAAAAAAGTATA
932589 TAAATTT
1 TAAATTT
932596 AAAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 7 0.27
23 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TAAATTTTTATAAAAAAGTATA
Found at i:933566 original size:18 final size:18
Alignment explanation
Indices: 933543--933582 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
933533 TTTTTTTTGG
* *
933543 ATTTTTTGTATTTTATATA
1 ATTTTTTATA-TTTATAAA
933562 ATTTTTTATATTTATAAA
1 ATTTTTTATATTTATAAA
933580 ATT
1 ATT
933583 AATATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTTATATTTATAAA
Found at i:933604 original size:16 final size:14
Alignment explanation
Indices: 933573--933609 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
933563 TTTTTTATAT
933573 TTATAAAATTAATA
1 TTATAAAATTAATA
933587 TTATAACAATTAAATA
1 TTATAA-AATT-AATA
933603 TTATAAA
1 TTATAAA
933610 TAAAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 5 0.24
16 10 0.48
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TTATAAAATTAATA
Found at i:936605 original size:56 final size:56
Alignment explanation
Indices: 936519--936627 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
936509 ATTTGGAGTA
*
936519 TGCTTGAAGTCGTCACTTTAGAAGAGAAGTGAATGTGAAAGTTAAACAATTCATGG
1 TGCTTGAAGTCGTCACTTTAGAACAGAAGTGAATGTGAAAGTTAAACAATTCATGG
* * *
936575 TGCTTGAAGTTGTCACTTTAGATCAGAAGTGAATGTGAAAGTTAAGCAATTCA
1 TGCTTGAAGTCGTCACTTTAGAACAGAAGTGAATGTGAAAGTTAAACAATTCA
936628 GAGTGGATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (56 bp):
TGCTTGAAGTCGTCACTTTAGAACAGAAGTGAATGTGAAAGTTAAACAATTCATGG
Found at i:936629 original size:28 final size:26
Alignment explanation
Indices: 936597--936650 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
936587 TCACTTTAGA
*
936597 TCAGAAGTGAATGTGAAAGTTAAGCAAT
1 TCAG-AGTGAAT-TGAAAGTCAAGCAAT
* *
936625 TCAGAGTGGATTGAACGTCAAGCAAT
1 TCAGAGTGAATTGAAAGTCAAGCAAT
936651 CTAATAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.57
27 6 0.26
28 4 0.17
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (26 bp):
TCAGAGTGAATTGAAAGTCAAGCAAT
Found at i:936822 original size:56 final size:56
Alignment explanation
Indices: 936736--936844 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
936726 ATTTGGAGTA
*
936736 TGCTTGAAGTCGTCACTTTAGAAGAGAAGTGAATGTGAAAGTTAAACAATTCATGG
1 TGCTTGAAGTCGTCACTTTAGAACAGAAGTGAATGTGAAAGTTAAACAATTCATGG
* * *
936792 TGCTTGAAGTTGTCACTTTAGATCAGAAGTGAATGTGAAAGTTAAGCAATTCA
1 TGCTTGAAGTCGTCACTTTAGAACAGAAGTGAATGTGAAAGTTAAACAATTCA
936845 GAGTGGATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (56 bp):
TGCTTGAAGTCGTCACTTTAGAACAGAAGTGAATGTGAAAGTTAAACAATTCATGG
Found at i:936839 original size:217 final size:215
Alignment explanation
Indices: 936466--936897 Score: 846
Period size: 217 Copynumber: 2.0 Consensus size: 215
936456 TGCTAAGCAA
936466 TGTAAAGGTACCGACCATGCTCGTCTTGGCACATAGAAGGGGTATTTGGAGTATGCTTGAAGTCG
1 TGTAAAGGTACCGACCATGCTCGTCTTGGCACATAGAAGGGGTATTTGGAGTATGCTTGAAGTCG
936531 TCACTTTAGAAGAGAAGTGAATGTGAAAGTTAAACAATTCATGGTGCTTGAAGTTGTCACTTTAG
66 TCACTTTAGAAGAGAAGTGAATGTGAAAGTTAAACAATTCATGGTGCTTGAAGTTGTCACTTTAG
936596 ATCAGAAGTGAATGTGAAAGTTAAGCAATTCAGAGTGGATTGAACGTCAAGCAATCTAATAATCA
131 ATCAGAAGTGAATGTGAAAGTTAAGCAATTCAGAGTGGATTGAACGTCAAGCAATCTAATAATCA
936661 TTGATTACTGGAAGGAAAAT
196 TTGATTACTGGAAGGAAAAT
936681 TGTAAAGGTACCGACCATGCTCAGTCTTGGCACATAGAATGGGGTATTTGGAGTATGCTTGAAGT
1 TGTAAAGGTACCGACCATGCTC-GTCTTGGCACATAGAA-GGGGTATTTGGAGTATGCTTGAAGT
936746 CGTCACTTTAGAAGAGAAGTGAATGTGAAAGTTAAACAATTCATGGTGCTTGAAGTTGTCACTTT
64 CGTCACTTTAGAAGAGAAGTGAATGTGAAAGTTAAACAATTCATGGTGCTTGAAGTTGTCACTTT
936811 AGATCAGAAGTGAATGTGAAAGTTAAGCAATTCAGAGTGGATTGAACGTCAAGCAATCTAATAAT
129 AGATCAGAAGTGAATGTGAAAGTTAAGCAATTCAGAGTGGATTGAACGTCAAGCAATCTAATAAT
936876 CATTGATTACTGGAAGGAAAAT
194 CATTGATTACTGGAAGGAAAAT
936898 GATTTAGCCA
Statistics
Matches: 215, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
215 22 0.10
216 16 0.07
217 177 0.82
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (215 bp):
TGTAAAGGTACCGACCATGCTCGTCTTGGCACATAGAAGGGGTATTTGGAGTATGCTTGAAGTCG
TCACTTTAGAAGAGAAGTGAATGTGAAAGTTAAACAATTCATGGTGCTTGAAGTTGTCACTTTAG
ATCAGAAGTGAATGTGAAAGTTAAGCAATTCAGAGTGGATTGAACGTCAAGCAATCTAATAATCA
TTGATTACTGGAAGGAAAAT
Found at i:936846 original size:28 final size:26
Alignment explanation
Indices: 936814--936867 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
936804 TCACTTTAGA
*
936814 TCAGAAGTGAATGTGAAAGTTAAGCAAT
1 TCAG-AGTGAAT-TGAAAGTCAAGCAAT
* *
936842 TCAGAGTGGATTGAACGTCAAGCAAT
1 TCAGAGTGAATTGAAAGTCAAGCAAT
936868 CTAATAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.57
27 6 0.26
28 4 0.17
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (26 bp):
TCAGAGTGAATTGAAAGTCAAGCAAT
Found at i:937524 original size:13 final size:13
Alignment explanation
Indices: 937508--937534 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
937498 TTTAATATTT
937508 TCAGTTAATTCAA
1 TCAGTTAATTCAA
937521 TCAGTTAATTCAA
1 TCAGTTAATTCAA
937534 T
1 T
937535 TAGAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TCAGTTAATTCAA
Done.