Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003132.1 Hibiscus syriacus cultivar Beakdansim tig00006570_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: 1555756
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:755081 original size:39 final size:39
Alignment explanation
Indices: 755038--755116 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
755028 GACGATTAAG
755038 CTTTAAGAATAAAGACTTCATAGGATTGCCTTGTGCTGC
1 CTTTAAGAATAAAGACTTCATAGGATTGCCTTGTGCTGC
755077 CTTTAAGAATAAAGACTTCATAGGATTGCCTTGTGCTGC
1 CTTTAAGAATAAAGACTTCATAGGATTGCCTTGTGCTGC
755116 C
1 C
755117 ATACTCCATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (39 bp):
CTTTAAGAATAAAGACTTCATAGGATTGCCTTGTGCTGC
Found at i:756515 original size:97 final size:97
Alignment explanation
Indices: 756345--756538 Score: 325
Period size: 97 Copynumber: 2.0 Consensus size: 97
756335 TCTTCTTCAA
* *
756345 CCTGTTCAAATTTCTCACGGTTTATTAATGGACTGGCGCAAGTTGTTCTCGTGCCCTACTAGAAA
1 CCTGTTCAAATTTCTCACAGTTTATTAATGGACTGGCGCAAGTTGTTCTCATGCCCTACTAGAAA
* *
756410 CCAGTTACAATATTTTCCCCCAAATTCTCGAG
66 CCAATTACAACATTTTCCCCCAAATTCTCGAG
* *
756442 CCTGTTCAAATTTCTCACAGTTTATTAATGGACTGGCGCAAGTTGTTCTCATGCTCTACTGGAAA
1 CCTGTTCAAATTTCTCACAGTTTATTAATGGACTGGCGCAAGTTGTTCTCATGCCCTACTAGAAA
*
756507 CCAATTACAACATTTTCCCCCAATTTCTCGAG
66 CCAATTACAACATTTTCCCCCAAATTCTCGAG
756539 ATGGAATTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (97 bp):
CCTGTTCAAATTTCTCACAGTTTATTAATGGACTGGCGCAAGTTGTTCTCATGCCCTACTAGAAA
CCAATTACAACATTTTCCCCCAAATTCTCGAG
Found at i:757163 original size:2 final size:2
Alignment explanation
Indices: 757156--757186 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
757146 TTATTTAGGT
757156 TA 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 TA T
757187 TGTTCTTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:765356 original size:51 final size:51
Alignment explanation
Indices: 765256--765362 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
765246 GTAGTAGTAA
* * ** *
765256 AGCGCGACCCTTGCCCCGCGCTATATGCTGATTTGGCGCCACGTGGGGTAT
1 AGCGCGACCCCTGCCCCGCGCTATACGCTGACATGGCGACACGTGGGGTAT
*
765307 AGCGCGCCCCCTGCCCCGCGCTATACGCTGACATGG-GTTACACGT-GGGTAT
1 AGCGCGACCCCTGCCCCGCGCTATACGCTGACATGGCG--ACACGTGGGGTAT
765358 AGCGC
1 AGCGC
765363 AGCCTTTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.02
51 42 0.88
52 5 0.10
ACGTcount: A:0.15, C:0.34, G:0.31, T:0.21
Consensus pattern (51 bp):
AGCGCGACCCCTGCCCCGCGCTATACGCTGACATGGCGACACGTGGGGTAT
Found at i:765655 original size:17 final size:18
Alignment explanation
Indices: 765618--765658 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
765608 ATATTATGTA
*
765618 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
765636 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
765653 TTTACT
1 TTTACT
765659 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:767982 original size:35 final size:33
Alignment explanation
Indices: 767943--768027 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
767933 ATATTTCAGT
767943 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
767978 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
768013 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
768028 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:771761 original size:51 final size:51
Alignment explanation
Indices: 771656--771781 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 51
771646 TACGTGGCGA
* ** ** * *
771656 ATAGCGCGGATCAAGGGGCGCGCTATACACACGTGTAACCCATGTCAGCGT
1 ATAGCGCGGATCAGGGGGCGCGCTATACACACAAGTAACCCAAATCAACAT
* *
771707 ATAGCGCGGATCAGGGGGCGCGCTATAC-CCCAAGTAGCGCCAAATCAACAT
1 ATAGCGCGGATCAGGGGGCGCGCTATACACACAAGTAAC-CCAAATCAACAT
* * *
771758 ATAGTGCGGTTCAGGGGGTGCGCT
1 ATAGCGCGGATCAGGGGGCGCGCT
771782 TTACTGCTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
50 6 0.10
51 56 0.90
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.17
Consensus pattern (51 bp):
ATAGCGCGGATCAGGGGGCGCGCTATACACACAAGTAACCCAAATCAACAT
Found at i:781617 original size:108 final size:110
Alignment explanation
Indices: 781483--782097 Score: 1001
Period size: 108 Copynumber: 5.6 Consensus size: 110
781473 GGAGTATGGA
* * * * * *
781483 ACTCGAATAATCTTTAACAATCGCGTCTTCCCCCT-TATTCTTCAGAGAGTATAAGA-TC-CACA
1 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTAT-TTCTTCAGAGAGTATAAGACTCGAACA
*
781545 ATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
65 ATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
781591 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGAC-C-CACAA
1 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
781654 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
781699 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAGAC-C-CACAA
1 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
781762 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
781807 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
1 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
* * *
781872 TCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
781917 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
1 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
* * *
781982 TCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
782027 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
1 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
782092 TCTTCA
66 TCTTCA
782098 ACAAATGGGT
Statistics
Matches: 489, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
108 260 0.53
109 2 0.00
110 227 0.46
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (110 bp):
ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA
TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:781623 original size:55 final size:55
Alignment explanation
Indices: 781483--782145 Score: 975
Period size: 55 Copynumber: 12.2 Consensus size: 55
781473 GGAGTATGGA
* * * *
781483 ACTCGAATAATCTTTAACAATCGCGTCTTCCCCCT-TATTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTAT-TTCTTCAGAGAGTATAAG
* * * *
781538 A-TC-CACAATCTTCATCAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
781591 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
781646 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
781699 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
781754 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
781807 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
781862 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
781917 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
781972 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
782027 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * * *
782082 ACTCGAACAATCTTCAACAAATGGGT-TCGCTCCCTCTTTCTTTAGGGAGTAT-AG
1 ACTCGAACAATCTTCAACAATTGCGTCT-GCCCCCTATTTCTTCAGAGAGTATAAG
782136 AACTCGAACA
1 -ACTCGAACA
782146 TCTCTTCACG
Statistics
Matches: 565, Mismatches: 34, Indels: 18
0.92 0.06 0.03
Matches are distributed among these distances:
53 139 0.25
54 12 0.02
55 414 0.73
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:782179 original size:51 final size:50
Alignment explanation
Indices: 782073--782502 Score: 431
Period size: 51 Copynumber: 8.3 Consensus size: 50
782063 TTTCTTCAGA
*
782073 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTCTTTCTTTAGG
1 GAGTATAGA-ACTCGAAC-ATCTTCAAC----GGGTTCGCTCCCTCTTTCTCTAGG
782128 GAGTATAGAACTCGAACATCTCTTC-ACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACA--TCTTCAACGGGTTCGCTCCCTCTTTCTCTAGG
*
782179 GAGTATGGAACTCGAACATCTTCAACTGGGTTCGCTCCCTCTTTCT-TCAGG
1 GAGTATAGAACTCGAACATCTTCAAC-GGGTTCGCTCCCTCTTTCTCT-AGG
* * * * * * **
782230 GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCTTCTCTCTTTAAA
1 GAGTATAGAACTC--GAA-CATCTTC-AACGGGTTCGCTCCCTCTTTCTCTAGG
* *
782284 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCAT-TAAG
1 GAGTATAGAACTCGAACATCTTC-AACGGGTTCGCTCCCTCTTTC-TCTAGG
* * * *
782335 GAGTATGGAACTCGGATATC-TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTC-GA-A-CATCTTC-AACGGGTTCGCTCCCTCTTTCTCTAGG
*
782388 GAGTATGGAACTCGAACATCTTCAAACGGGTTCGC-CCCTTCTTTCTCTAGG
1 GAGTATAGAACTCGAACATCTTC-AACGGGTTCGCTCCC-TCTTTCTCTAGG
* * *
782439 GAGTATGGAACTCGGACATCTTCAAATGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACATCTTC-AACGGGTTCGCTCCCTCTTTCTCTAGG
782490 GAGTATAGAACTC
1 GAGTATAGAACTC
782503 AAATAATCTT
Statistics
Matches: 333, Mismatches: 23, Indels: 42
0.84 0.06 0.11
Matches are distributed among these distances:
49 5 0.02
50 6 0.02
51 199 0.60
52 11 0.03
53 47 0.14
54 39 0.12
55 20 0.06
56 6 0.02
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (50 bp):
GAGTATAGAACTCGAACATCTTCAACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:782407 original size:104 final size:103
Alignment explanation
Indices: 782073--782502 Score: 496
Period size: 104 Copynumber: 4.1 Consensus size: 103
782063 TTTCTTCAGA
*
782073 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCCTCTTTC-TTAGGGAGTATAGA
*
782137 ACTCGAACATCTCTTC--ACGGGTTCGCTCCCTCTTTCTCTAGG
60 ACTCGAACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
*
782179 GAGTATGGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCTCCCTCTTTCTT-AGGGAGTATAGAACTC
* * ** * * * *
782243 AAAAATCTTCTTCTTACGGGTTCGCTCCTTCTCTCTTTAAA
64 GAACATC-TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
* * *
782284 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTC-TTAGGGAGTATAGAACTCG
* * * *
782349 GATATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
65 AACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
* *
782388 GAGTATGGAACTCGAACATCTTCAAACGGGTTCGC-CCCTTCTTTCTCTAGGGAGTATGGAACTC
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCC-TCTTTCT-TAGGGAGTATAGAACTC
* * *
782452 GGACA--TCTTCAAATGGGTTCGCTCCCTCTTTCTCTAGG
64 GAACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
782490 GAGTATAGAACTC
1 GAGTATAGAACTC
782503 AAATAATCTT
Statistics
Matches: 285, Mismatches: 29, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
101 4 0.01
102 81 0.28
103 8 0.03
104 89 0.31
105 83 0.29
106 19 0.07
107 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (103 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTAGGGAGTATAGAACTCGA
ACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
Found at i:782757 original size:36 final size:36
Alignment explanation
Indices: 782699--782897 Score: 240
Period size: 36 Copynumber: 5.5 Consensus size: 36
782689 ACTCTTCTGA
* * **
782699 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* *
782736 GAAGACTTAAGATGGTTTGCTTCACTACTT-TCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTA-TTCTCCGGT
* *
782772 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
782808 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
782844 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
782880 GAAGGCTTAGGATGGTTT
1 GAAGGCTTAAGATGGTTT
782898 TTCTCCAATC
Statistics
Matches: 146, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
35 2 0.01
36 131 0.90
37 13 0.09
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:784298 original size:125 final size:125
Alignment explanation
Indices: 784075--784453 Score: 492
Period size: 125 Copynumber: 3.0 Consensus size: 125
784065 ACTAATGTCG
* * * * * *
784075 CAACATTATTTTATTCTGGTACGGGCCTTCAAAATGCCTCAAT-ATCTCAAATTATAAGGCTCAT
1 CAACATTATCTTATACTGGTACGGGCCTTCCAAATGCC-CCATCACCTCAAATTGTAAGGCTCAT
* ** *
784139 TCTCAATGCCTTCTTGGTCTGAATCTTGTAATTTCATCATGA-GGTGGGTTCAGTCGCGCCC
65 TCTCAATGCCTTCTTCGTCTGAATCTTGTAATTTCAAAATGATGG-GGGTTCAGTCGTGCCC
*
784200 CAACATTATCTCATACTGGTACGGGCCTTCCAAATGCCCCATCACCTCAAATTGTAAGGCTCATT
1 CAACATTATCTTATACTGGTACGGGCCTTCCAAATGCCCCATCACCTCAAATTGTAAGGCTCATT
** * * * *
784265 CTTGATGCCTTCTTTGTCTGAATCTTGTCATTTCAAAATGATGGGGGTTCAATTGTGCCC
66 CTCAATGCCTTCTTCGTCTGAATCTTGTAATTTCAAAATGATGGGGGTTCAGTCGTGCCC
** * * *
784325 CAACATTATCTTATAAAGGTACGGGTCTTCCAAAATACCCCAACACCTCAAATTGTAAGGCTCAT
1 CAACATTATCTTATACTGGTACGGGCCTTCC-AAATGCCCCATCACCTCAAATTGTAAGGCTCAT
* * *
784390 TCTCAATGCCTTCTTCGTCTGGATCTTGTTATTTCAAAATGATGGGGGTTCAGTCATGCCC
65 TCTCAATGCCTTCTTCGTCTGAATCTTGTAATTTCAAAATGATGGGGGTTCAGTCGTGCCC
784451 CAA
1 CAA
784454 TGTGGGTATT
Statistics
Matches: 221, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
124 3 0.01
125 129 0.58
126 89 0.40
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (125 bp):
CAACATTATCTTATACTGGTACGGGCCTTCCAAATGCCCCATCACCTCAAATTGTAAGGCTCATT
CTCAATGCCTTCTTCGTCTGAATCTTGTAATTTCAAAATGATGGGGGTTCAGTCGTGCCC
Found at i:784486 original size:126 final size:124
Alignment explanation
Indices: 784120--784453 Score: 359
Period size: 126 Copynumber: 2.7 Consensus size: 124
784110 GCCTCAATAT
* * * **
784120 CTCAAATTATAAGGCTCATTCTCAATGCCTTCTTGGTCTGAATCTTGTAATTTCATCATGA-GGT
1 CTCAAATTGTAAGGCTCATTCTCAATGCCTTCTTCGTCTGAATCTTGTCATTTCAAAATGATGG-
* ** * * * * *
784184 GGGTTCAGTCGCGCCCCAACATTATCTCATACTGGTA-CGGGCCTTCC-AAATGCCCCATCAC
65 GGGTTCAATCATGCCCCAACATTATCTCATA--GGTACCCGTCC-ACCAAAATACCCCAACAC
** *
784245 CTCAAATTGTAAGGCTCATTCTTGATGCCTTCTTTGTCTGAATCTTGTCATTTCAAAATGATGGG
1 CTCAAATTGTAAGGCTCATTCTCAATGCCTTCTTCGTCTGAATCTTGTCATTTCAAAATGATGGG
** * ** **
784310 GGTTCAATTGTGCCCCAACATTATCTTATAAAGGTACGGGTCTTCCAAAATACCCCAACAC
66 GGTTCAATCATGCCCCAACATTATCTCAT--AGGTACCCGTCCACCAAAATACCCCAACAC
* *
784371 CTCAAATTGTAAGGCTCATTCTCAATGCCTTCTTCGTCTGGATCTTGTTATTTCAAAATGATGGG
1 CTCAAATTGTAAGGCTCATTCTCAATGCCTTCTTCGTCTGAATCTTGTCATTTCAAAATGATGGG
*
784436 GGTTCAGTCATGCCCCAA
66 GGTTCAATCATGCCCCAA
784454 TGTGGGTATT
Statistics
Matches: 180, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
125 87 0.48
126 92 0.51
127 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (124 bp):
CTCAAATTGTAAGGCTCATTCTCAATGCCTTCTTCGTCTGAATCTTGTCATTTCAAAATGATGGG
GGTTCAATCATGCCCCAACATTATCTCATAGGTACCCGTCCACCAAAATACCCCAACAC
Found at i:785447 original size:40 final size:39
Alignment explanation
Indices: 785393--785468 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
785383 TATTTAGATA
*
785393 AACTTGATTTAATTTGCCATTATCGGGCTAGCTGAAATC
1 AACTTGATTTAATTTGCCATTATCAGGCTAGCTGAAATC
* *
785432 AACTTTATTGTAATTTGCCTTTATCAGGCTAGCTGAA
1 AACTTGATT-TAATTTGCCATTATCAGGCTAGCTGAA
785469 GGGTTCATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (39 bp):
AACTTGATTTAATTTGCCATTATCAGGCTAGCTGAAATC
Found at i:798684 original size:13 final size:12
Alignment explanation
Indices: 798652--798689 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
798642 GAAATGGACG
798652 TAATAAAAAATA
1 TAATAAAAAATA
798664 TAAT-AAAAATA
1 TAATAAAAAATA
798675 TAATAAAAAAATA
1 TAAT-AAAAAATA
798688 TA
1 TA
798690 TCATTTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAATAAAAAATA
Found at i:802726 original size:4 final size:4
Alignment explanation
Indices: 802717--802863 Score: 60
Period size: 4 Copynumber: 35.2 Consensus size: 4
802707 CAATGCATAT
* * * ** **
802717 ATAA ATAA ATAA ATAA ATAC ATAG ATAAA ATGCA ATGC ATGT ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA
* * * ** **
802767 ATAA ATAA ATAC ATAG ATAAA ATGCA ATGC ATGT ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA
* * * * **
802817 ATAA ATAC ATAG ATAAA ATGCA ATAC ATGT ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA A
802864 GATAAACTTA
Statistics
Matches: 109, Mismatches: 31, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
4 91 0.83
5 18 0.17
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:802748 original size:42 final size:42
Alignment explanation
Indices: 802697--802863 Score: 271
Period size: 42 Copynumber: 3.9 Consensus size: 42
802687 TTAAAAATAA
802697 AGATAAAATGCAATGCATATATAAATAAATAAATAAATACAT
1 AGATAAAATGCAATGCATATATAAATAAATAAATAAATACAT
*
802739 AGATAAAATGCAATGCATGTATAAATAAATAAATAAATACAT
1 AGATAAAATGCAATGCATATATAAATAAATAAATAAATACAT
802781 AGATAAAATGCAATGCATGTATAAATAAATAAATAAATAAATACAT
1 AGATAAAATGCAATGCA--TAT--ATAAATAAATAAATAAATACAT
* *
802827 AGATAAAATGCAATACATGTATAAATAAATAAATAAA
1 AGATAAAATGCAATGCATATATAAATAAATAAATAAA
802864 GATAAACTTA
Statistics
Matches: 117, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
42 75 0.64
44 4 0.03
46 38 0.32
ACGTcount: A:0.59, C:0.07, G:0.08, T:0.26
Consensus pattern (42 bp):
AGATAAAATGCAATGCATATATAAATAAATAAATAAATACAT
Found at i:804827 original size:106 final size:107
Alignment explanation
Indices: 804706--804903 Score: 335
Period size: 106 Copynumber: 1.9 Consensus size: 107
804696 TTTCAACTTT
*
804706 AATTATGATGATTGATTAATGTTTATTTAATTATATTTTATAAACTTCACACTAATGAGTTCTTA
1 AATTATGATGATTGATTAATGTTTATTTAATTATATTTTATAAACTTCACACTAATGAATTCTTA
*
804771 CAAATACAC-TTTTGTAATTAACATGGGGGTAAATAAGATTG
66 CAAATAAACTTTTTGTAATTAACATGGGGGTAAATAAGATTG
* * *
804812 AATTATGATGATTGATTAATTTTTATTTAATTATATTTTATAAACTTCACGCTAATGAATTCTTT
1 AATTATGATGATTGATTAATGTTTATTTAATTATATTTTATAAACTTCACACTAATGAATTCTTA
*
804877 CAAATAAACTTTTTTTAATTAACATGG
66 CAAATAAACTTTTTGTAATTAACATGG
804904 ATAAATAAGA
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
106 69 0.81
107 16 0.19
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (107 bp):
AATTATGATGATTGATTAATGTTTATTTAATTATATTTTATAAACTTCACACTAATGAATTCTTA
CAAATAAACTTTTTGTAATTAACATGGGGGTAAATAAGATTG
Found at i:807776 original size:18 final size:19
Alignment explanation
Indices: 807738--807779 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
807728 CAATAAATAT
*
807738 TAAAAAATTAGAATCATAA
1 TAAAAAATTAGAATCAAAA
*
807757 TAAAAAATTATAAT-AAAA
1 TAAAAAATTAGAATCAAAA
807775 TAAAA
1 TAAAA
807780 TAAATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAAATTAGAATCAAAA
Found at i:807777 original size:21 final size:21
Alignment explanation
Indices: 807732--807801 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
807722 ATTTTACAAT
* *
807732 AAATATTAAAAAATTAGAAT-
1 AAATAATAAAAAATTATAATA
*
807752 -CATAATAAAAAATTATAATA
1 AAATAATAAAAAATTATAATA
* **
807772 AAATAA-AATAAATTTATACCA
1 AAATAATAA-AAAATTATAATA
807793 AAATAATAA
1 AAATAATAA
807802 TATTTTTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 16 0.41
20 2 0.05
21 19 0.49
22 2 0.05
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (21 bp):
AAATAATAAAAAATTATAATA
Found at i:809522 original size:18 final size:18
Alignment explanation
Indices: 809499--809533 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
809489 GGAAGTAAAA
*
809499 AATAATTACAATAATATG
1 AATAATAACAATAATATG
*
809517 AATAATAATAATAATAT
1 AATAATAACAATAATAT
809534 ATAATCATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AATAATAACAATAATATG
Found at i:817025 original size:23 final size:23
Alignment explanation
Indices: 816996--817149 Score: 83
Period size: 22 Copynumber: 6.8 Consensus size: 23
816986 AAATTGAAAC
816996 AACTATAATA-TATATATATAATA
1 AACTAT-ATAGTATATATATAATA
817019 AACTATATAGT-T-TATAT-ATA
1 AACTATATAGTATATATATAATA
* *
817039 AAGTATAT-GTAT-TATATAAATG
1 AACTATATAGTATATATAT-AATA
* *
817061 AACTATATAGTTTATAT-TTATA
1 AACTATATAGTATATATATAATA
* * * *
817083 TTATTATATACTA-CTATAT-ATA
1 -AACTATATAGTATATATATAATA
* * *
817105 AACTATATATTATGTATAAACTATA
1 AACTATATAGTATATATATA--ATA
*
817130 ATACTATATAGTTTATATAT
1 A-ACTATATAGTATATATAT
817150 GAACCATTGA
Statistics
Matches: 98, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.02
20 16 0.16
21 14 0.14
22 25 0.26
23 20 0.20
24 3 0.03
25 4 0.04
26 14 0.14
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (23 bp):
AACTATATAGTATATATATAATA
Found at i:817149 original size:37 final size:33
Alignment explanation
Indices: 817062--817149 Score: 79
Period size: 37 Copynumber: 2.5 Consensus size: 33
817052 ATATAAATGA
* * *
817062 ACTATATAGTTTATATTTATATTATTATATACT
1 ACTATATAGTTTATATATATATTATAATATAAT
**
817095 ACTATATA-TAAACTATATATTATGTATAAACTATAAT
1 ACTATATAGTTTA-TATATA-TAT-TAT-AA-TATAAT
817132 ACTATATAGTTTATATAT
1 ACTATATAGTTTATATAT
817150 GAACCATTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
32 2 0.05
33 13 0.31
34 3 0.07
35 3 0.07
36 1 0.02
37 18 0.43
38 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (33 bp):
ACTATATAGTTTATATATATATTATAATATAAT
Found at i:817231 original size:13 final size:11
Alignment explanation
Indices: 817183--817240 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
817173 TACATAGTTT
817183 ATTA-ATATAA
1 ATTATATATAA
817193 A-T-TATATAA
1 ATTATATATAA
*
817202 TTTATATATAA
1 ATTATATATAA
817213 ATTATATATGAA
1 ATTATATAT-AA
817225 A-TATATATAA
1 ATTATATATAA
*
817235 ACTATA
1 ATTATA
817241 CAATTTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 7 0.17
10 5 0.12
11 26 0.63
12 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (11 bp):
ATTATATATAA
Found at i:817465 original size:18 final size:18
Alignment explanation
Indices: 817444--817573 Score: 77
Period size: 18 Copynumber: 6.8 Consensus size: 18
817434 TATACTATAT
817444 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
* *
817462 ATATGAACTATA-TATAT
1 ATATGAACTATAGTTTAC
* *
817479 ATATTATA-TATAGTTGACATTTAT
1 ATATGA-ACTATA---G---TTTAC
817503 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
* * *
817521 ATATAAAGTATATAGTTTAT
1 ATATGAA--CTATAGTTTAC
817541 ATACT-AACTATAGTTTAC
1 ATA-TGAACTATAGTTTAC
*
817559 ATATAAACTATAGTT
1 ATATGAACTATAGTT
817574 GATATTTACA
Statistics
Matches: 88, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
17 13 0.15
18 45 0.51
20 14 0.16
21 2 0.02
23 1 0.01
24 13 0.15
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (18 bp):
ATATGAACTATAGTTTAC
Found at i:817534 original size:20 final size:19
Alignment explanation
Indices: 817511--817570 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
817501 ATATATGAAC
817511 TATAGTTTACATATAAAGTA
1 TATAGTTTACATATAAA-TA
* *
817531 TATAGTTTATATACT-AA-C
1 TATAGTTTACATA-TAAATA
817549 TATAGTTTACATATAAACTA
1 TATAGTTTACATATAAA-TA
817569 TA
1 TA
817571 GTTGATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 14 0.44
20 16 0.50
21 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (19 bp):
TATAGTTTACATATAAATA
Found at i:817550 original size:38 final size:38
Alignment explanation
Indices: 817498--817570 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
817488 ATAGTTGACA
*
817498 TTTATATATGAACTATAGTTTACATATAAAGTATATAG
1 TTTATATATGAACTATAGTTTACATATAAACTATATAG
817536 TTTATATACT-AACTATAGTTTACATATAAACTATA
1 TTTATATA-TGAACTATAGTTTACATATAAACTATA
817571 GTTGATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (38 bp):
TTTATATATGAACTATAGTTTACATATAAACTATATAG
Found at i:817605 original size:24 final size:24
Alignment explanation
Indices: 817549--817620 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
817539 ATATACTAAC
*
817549 TATAGTTTACATATAAACTATAGT-
1 TATAGTTTACATATGAACTATA-TA
817573 TGATA-TTTACATATGAACTATATA
1 T-ATAGTTTACATATGAACTATATA
*
817597 TATAGTTTA-TTAGTGAACTATATA
1 TATAGTTTACATA-TGAACTATATA
817621 CACTATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.14
24 33 0.79
25 3 0.07
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (24 bp):
TATAGTTTACATATGAACTATATA
Found at i:817679 original size:2 final size:2
Alignment explanation
Indices: 817668--817946 Score: 56
Period size: 2 Copynumber: 142.5 Consensus size: 2
817658 AAAACAAAAT
* *
817668 TA TA -A TA TA TA TA TA -A TA TA -A GTT TA TA TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* * *
817709 TA TA AA CTA TA TT TA TA T- TA TA -A AA TA TA TA -A T- TA T- TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** * * * *
817747 TA -A GC TA TA AA TA TA AA T- TA TG TT TA TA TGA -A CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA
* * * * * * *
817788 TA AA CTA TG TA TA TA AA CTA TA TA TG TA TA AA CTA TA -A AA AA
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
817830 TA TA TA GTT TA TA -A AA TA TA -A TT TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
817871 TA TA AA CTA TA TA TG TA TA AA CTA TA TA -A AA TA TA TA GTT TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* *
817913 TA AA T- TA TA -A TT TA TA T- TA -A TA TA GTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
817947 GTATGTATAA
Statistics
Matches: 197, Mismatches: 48, Indels: 64
0.64 0.16 0.21
Matches are distributed among these distances:
1 19 0.10
2 165 0.84
3 13 0.07
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:817710 original size:15 final size:15
Alignment explanation
Indices: 817692--817898 Score: 111
Period size: 13 Copynumber: 14.1 Consensus size: 15
817682 AATATAAGTT
817692 TATATATAAAC--TA
1 TATATATAAACTATA
817705 TATATATAAACTATA
1 TATATATAAACTATA
*
817720 TTTATATTATAAAATATA
1 --TATA-TATAAACTATA
*
817738 TAATTATTATAAGCTATA
1 T-A-TA-TATAAACTATA
* *
817756 -A-ATATAAATTATG
1 TATATATAAACTATA
* *
817769 TTTATATGAAC--TA
1 TATATATAAACTATA
817782 TATATATAAAC--TA
1 TATATATAAACTATA
*
817795 TGTATATAAACTATA
1 TATATATAAACTATA
*
817810 TATGTATAAAC--TA
1 TATATATAAACTATA
817823 TA-A-A-AAA-TATA
1 TATATATAAACTATA
* *
817834 TAGTTTATAAAATATAA
1 TA-TATATAAACTAT-A
*
817851 TTTATATATATA-TATA
1 --TATATATAAACTATA
817867 TATATATAAACTATA
1 TATATATAAACTATA
*
817882 TATGTATAAACTATA
1 TATATATAAACTATA
817897 TA
1 TA
817899 AAATATATAG
Statistics
Matches: 151, Mismatches: 21, Indels: 42
0.71 0.10 0.20
Matches are distributed among these distances:
10 3 0.02
11 5 0.03
13 45 0.30
14 11 0.07
15 42 0.28
16 6 0.04
17 9 0.06
18 28 0.19
19 2 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:817857 original size:25 final size:25
Alignment explanation
Indices: 817829--817929 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
817819 ACTATAAAAA
817829 ATATATAGTTTATAAAATATAATTT
1 ATATATAGTTTATAAAATATAATTT
* * **
817854 ATATATA-TATATATATATATAAACT
1 ATATATAGTTTATA-AAATATAATTT
*
817879 ATATAT-G--TATAAACTATATAA--A
1 ATATATAGTTTATAAA--ATATAATTT
*
817901 ATATATAGTTTATAAATTATAATTT
1 ATATATAGTTTATAAAATATAATTT
817926 ATAT
1 ATAT
817930 TAATATAGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
22 7 0.12
23 10 0.17
24 11 0.19
25 31 0.53
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (25 bp):
ATATATAGTTTATAAAATATAATTT
Found at i:817935 original size:87 final size:85
Alignment explanation
Indices: 817663--817946 Score: 123
Period size: 85 Copynumber: 3.4 Consensus size: 85
817653 AATTGAAAAC
*
817663 AAAATTATAATATATATATAATATAAGTTTATATATAAACTATATATATAAACTATAT---T-TA
1 AAAA-TATAATATATATAT-ATAT-A-TATATATATAAACTATATATATAAACTATATAAATATA
* *
817724 TA-T-TATAAAATATATAATTATTAT
62 AACTATAAAAAATATATAA-T-TTAT
** * * * *
817748 AAGCTATAA-ATATA-A-AT-TATGTTTATATGAACTATATATATAAACTATGT--ATATAAACT
1 AAAATATAATATATATATATATATATATATATAAACTATATATATAAACTATATAAATATAAACT
* ** * *
817807 AT-ATATGTATA-AACTATAA
66 ATAAAAAATATATAA-TTTAT
* * * * **
817826 AAAATATATAGTTTATAAAATATAATTTATATATATATA-TATATATATAAACTATATATGTATA
1 AAAATATA-A-TATAT-ATATAT-ATATATATATATAAACTATATATATAAACTATATAAATATA
* *
817890 AACTATATAAAATATATAGTTTAT
62 AACTATAAAAAATATATAATTTAT
* *
817914 AAATTATAATTTATAT-TAATATAGTATATATAT
1 AAAATATAATATATATAT-ATATA-TATATATAT
817947 GTATGTATAA
Statistics
Matches: 147, Mismatches: 34, Indels: 36
0.68 0.16 0.17
Matches are distributed among these distances:
77 27 0.18
78 10 0.07
79 8 0.05
80 8 0.05
81 4 0.03
82 2 0.01
83 6 0.04
84 10 0.07
85 31 0.21
86 14 0.10
87 11 0.07
88 15 0.10
89 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (85 bp):
AAAATATAATATATATATATATATATATATATAAACTATATATATAAACTATATAAATATAAACT
ATAAAAAATATATAATTTAT
Found at i:818080 original size:7 final size:7
Alignment explanation
Indices: 818070--818130 Score: 77
Period size: 7 Copynumber: 8.7 Consensus size: 7
818060 CCTAAACGTC
818070 AAACCTT
1 AAACCTT
*
818077 AAACTTT
1 AAACCTT
818084 AAACCTT
1 AAACCTT
818091 AAACCTT
1 AAACCTT
*
818098 AAACCCT
1 AAACCTT
*
818105 AAACCCT
1 AAACCTT
*
818112 AAATCTT
1 AAACCTT
*
818119 AAACTTT
1 AAACCTT
818126 AAACC
1 AAACC
818131 CCAAACAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
AAACCTT
Found at i:818094 original size:21 final size:21
Alignment explanation
Indices: 818070--818136 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
818060 CCTAAACGTC
*
818070 AAACCTTAAACTTTAAACCTT
1 AAACCTTAAACTTTAAACCCT
**
818091 AAACCTTAAACCCTAAACCCT
1 AAACCTTAAACTTTAAACCCT
* *
818112 AAATCTTAAACTTTAAACCCC
1 AAACCTTAAACTTTAAACCCT
818133 AAAC
1 AAAC
818137 AATAAACCCT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (21 bp):
AAACCTTAAACTTTAAACCCT
Found at i:818136 original size:14 final size:14
Alignment explanation
Indices: 818060--818150 Score: 74
Period size: 14 Copynumber: 6.5 Consensus size: 14
818050 TTAAATCCTA
* *
818060 CCTAAACGTCAAAC
1 CCTAAACCTTAAAC
* *
818074 CTTAAACTTTAAAC
1 CCTAAACCTTAAAC
*
818088 CTTAAACCTTAAAC
1 CCTAAACCTTAAAC
* *
818102 CCTAAACCCTAAAT
1 CCTAAACCTTAAAC
* *
818116 CTTAAACTTTAAAC
1 CCTAAACCTTAAAC
* **
818130 CCCAAACAATAAAC
1 CCTAAACCTTAAAC
818144 CCTAAAC
1 CCTAAAC
818151 ACTATGCATA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 61 1.00
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:818149 original size:7 final size:7
Alignment explanation
Indices: 818083--818150 Score: 55
Period size: 7 Copynumber: 9.7 Consensus size: 7
818073 CCTTAAACTT
*
818083 TAAACCT
1 TAAACCC
*
818090 TAAACCT
1 TAAACCC
818097 TAAACCC
1 TAAACCC
818104 TAAACCC
1 TAAACCC
* *
818111 TAAATCT
1 TAAACCC
**
818118 TAAACTT
1 TAAACCC
818125 TAAACCC
1 TAAACCC
* **
818132 CAAACAA
1 TAAACCC
818139 TAAACCC
1 TAAACCC
818146 TAAAC
1 TAAAC
818151 ACTATGCATA
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:818231 original size:16 final size:16
Alignment explanation
Indices: 818173--818233 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
818163 CAATAGTTAA
*
818173 TATATGTAACCTATAG
1 TATATGTAACTTATAG
818189 TATATGTATACATGTAAACTA-
1 TATATGTA-AC-T-T--A-TAG
818210 TATATGTAACTTATAG
1 TATATGTAACTTATAG
818226 TATATGTA
1 TATATGTA
818234 TGTATAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
15 2 0.05
16 17 0.46
17 2 0.05
18 1 0.03
19 2 0.05
20 2 0.05
21 9 0.24
22 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (16 bp):
TATATGTAACTTATAG
Found at i:818242 original size:35 final size:36
Alignment explanation
Indices: 818172--818245 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
818162 ACAATAGTTA
*
818172 ATATATGTAACCTATAGTATATGTATACATGTAAACT
1 ATATATGTAACCTATAGTATATGTATA-ATATAAACT
* *
818209 ATATATGTAACTTATAGTATATGTAT-GTATAAACT
1 ATATATGTAACCTATAGTATATGTATAATATAAACT
818244 AT
1 AT
818246 GTATAGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 9 0.26
37 25 0.74
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (36 bp):
ATATATGTAACCTATAGTATATGTATAATATAAACT
Found at i:818254 original size:20 final size:19
Alignment explanation
Indices: 818236--818298 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
818226 TATATGTATG
818236 TATAAACTATGTATAGTATA
1 TATAAACTATGTATA-TATA
*
818256 TATAAACTATATATATATA
1 TATAAACTATGTATATATA
* * *
818275 TATAACCTATAATATATGTA
1 TATAAACTAT-GTATATATA
818295 TATA
1 TATA
818299 CACAATCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (19 bp):
TATAAACTATGTATATATA
Found at i:818308 original size:24 final size:23
Alignment explanation
Indices: 818263--818322 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
818253 ATATATAAAC
* * *
818263 TATATATATATATATAACCTATAA
1 TATATGTATATACACAACCTAT-A
* *
818287 TATATGTATATACACAATCTATT
1 TATATGTATATACACAACCTATA
818310 TATATGTTATATA
1 TATATG-TATATA
818323 AACTATAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (23 bp):
TATATGTATATACACAACCTATA
Found at i:818325 original size:63 final size:61
Alignment explanation
Indices: 818208--818329 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
818198 ACATGTAAAC
* * * * *
818208 TATATATGTAACTTATAGTATATGTATGTATAAACTATGTATAGTATATATAAACTATATA
1 TATATATATAACCTATAATATATGTATATACAAACTATGTATAGTATATATAAACTATATA
*
818269 TATATATATAACCTATAATATATGTATATACACAATCTATTTATATGT-TATATAAACTATA
1 TATATATATAACCTATAATATATGTATATACA-AA-CTATGTATA-GTATATATAAACTATA
818330 AATGTAACCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 27 0.52
62 2 0.04
63 21 0.40
64 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (61 bp):
TATATATATAACCTATAATATATGTATATACAAACTATGTATAGTATATATAAACTATATA
Found at i:818427 original size:21 final size:21
Alignment explanation
Indices: 818375--818427 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
818365 TAGTGTACTA
* *
818375 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
* *
818396 TATTGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
818417 TATAGTTTATA
1 TATAGTTTATA
818428 TTAATGTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:818493 original size:88 final size:88
Alignment explanation
Indices: 818374--818615 Score: 246
Period size: 88 Copynumber: 2.8 Consensus size: 88
818364 TTAGTGTACT
* ** *
818374 ATATAGTTTATACTTTATAACCTATTGTATATAATTTATAA-ACTATAGTTTATATTAATGTTAA
1 ATATAGTTTATACTTTATAAACTATACTATATAATTTATAACA-TATAGTTTATATTAATATTAA
818438 TTATCT-TA-ACTATAATTTATATTA
65 TT-T-TATAGACTATAATTTATATTA
*
818462 ATATA-TTATATAGTTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAA
1 ATATAGTT-TATACTTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAA
*
818526 TTTTATAGACTATATTTTATATTA
65 TTTTATAGACTATAATTTATATTA
* * ** * * * *
818550 ATATTA-ATTACAAATTATAAACTATAAACTATATTATAT-TAATATA-AGTTAATATTAATATT
1 ATA-TAGTTTATACTTTATAAACTAT--ACTATATAATTTATAACATATAGTTTATATTAATATT
818612 AATT
63 AATT
818616 ATAATATATA
Statistics
Matches: 133, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
86 1 0.01
87 5 0.04
88 107 0.80
89 10 0.08
90 10 0.08
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (88 bp):
ATATAGTTTATACTTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAAT
TTTATAGACTATAATTTATATTA
Found at i:818508 original size:21 final size:20
Alignment explanation
Indices: 818448--818508 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
818438 TTATCTTAAC
*
818448 TATAATTTATATTAATATATTA
1 TATAATTTATA--AATATACTA
*
818470 TATAGTTTATAAACTATACTA
1 TATAATTTATAAA-TATACTA
818491 TATAATTTATAACATATA
1 TATAATTTATAA-ATATA
818509 GTTTATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 2 0.06
21 21 0.62
22 11 0.32
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (20 bp):
TATAATTTATAAATATACTA
Found at i:818515 original size:21 final size:20
Alignment explanation
Indices: 818448--818515 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
818438 TTATCTTAAC
818448 TATAATTTATATTA-ATATATT
1 TATAATTTATA--ACATATATT
* *
818469 ATATAGTTTATAA-ACTATACTA
1 -TATAATTTATAACA-TATA-TT
818491 TATAATTTATAACATATAGTT
1 TATAATTTATAACATATA-TT
818512 TATA
1 TATA
818516 TTAATATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 2 0.05
21 24 0.63
22 12 0.32
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAATTTATAACATATATT
Found at i:818606 original size:16 final size:16
Alignment explanation
Indices: 818585--818647 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
818575 AAACTATATT
*
818585 ATATTAATATAAGTTA
1 ATATTAATATAATTTA
818601 ATATTAATATTAATTATA
1 ATATTAATA-TAATT-TA
*
818619 ATATATAAT-TATTTTA
1 ATAT-TAATATAATTTA
818635 ATATTAATTATAA
1 ATATTAA-TATAA
818648 ATACCATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.08
16 16 0.41
17 10 0.26
18 6 0.15
19 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTAATATAATTTA
Found at i:818623 original size:28 final size:28
Alignment explanation
Indices: 818423--818647 Score: 101
Period size: 31 Copynumber: 7.8 Consensus size: 28
818413 AAACTATAGT
* **
818423 TTATATTAATGTTAATTATCTTAACTATAA
1 TTATATTAATATTAATTATAAT-A-TATAA
*
818453 TTTATATTAATA-T-ATTATATAGTTTATAAA
1 -TTATATTAATATTAATTATA-A-TATAT-AA
* * * *
818483 CTATACT-ATA-TAATTTATAACATATAGT
1 TTATATTAATATTAA-TTATAATATATA-A
*
818511 TTATATTAATATTAATTTTATAGACTATAT-T
1 TTATATTAATATTAA--TTATA-A-TATATAA
*
818542 TTATATTAATATTAATTACAA-ATTATAA
1 TTATATTAATATTAATTATAATA-TATAA
* *
818570 --ACTA-TAA-ACTATATTATATTAATATAA
1 TTA-TATTAATATTA-ATTATAAT-ATATAA
818597 GTTAATATTAATATTAATTATAATATATAA
1 -TT-ATATTAATATTAATTATAATATATAA
*
818627 TTATTTTAATATTAATTATAA
1 TTATATTAATATTAATTATAA
818648 ATACCATTTT
Statistics
Matches: 151, Mismatches: 20, Indels: 49
0.69 0.09 0.22
Matches are distributed among these distances:
25 3 0.02
26 10 0.07
27 11 0.07
28 32 0.21
29 24 0.16
30 19 0.13
31 44 0.29
32 4 0.03
33 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
TTATATTAATATTAATTATAATATATAA
Found at i:818629 original size:13 final size:12
Alignment explanation
Indices: 818585--818647 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
818575 AAACTATATT
818585 ATATTAA-TATA
1 ATATTAATTATA
*
818596 A-GTTAA-TATTA
1 ATATTAATTA-TA
818607 ATATTAATTATA
1 ATATTAATTATA
818619 ATATATAATTATTTTA
1 ATAT-TAATTA---TA
818635 ATATTAATTATA
1 ATATTAATTATA
818647 A
1 A
818648 ATACCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
10 6 0.14
11 4 0.09
12 13 0.30
13 8 0.19
15 6 0.14
16 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
ATATTAATTATA
Found at i:819932 original size:128 final size:128
Alignment explanation
Indices: 819752--820007 Score: 413
Period size: 128 Copynumber: 2.0 Consensus size: 128
819742 ATAGTTTTAG
** *
819752 GATTATTTGTTCTTGTTTCTCTTAATGCATTTGGCATTTTTGCTAAGATTTTAAGCAATGGGATC
1 GATTATTTGTTCTTGTTTCTCTTAATGCATTTGGCATAGTTGCAAAGATTTTAAGCAATGGGATC
* * *
819817 GTTAGTTTTTTGAAATTTTCTTCATCTCACTTGCATATGATAGTATTTATTGAAGGAGACCTT
66 GTTAATTTTCTGAAATTTTCTTCATCTCACTTGCATATGATAGTATTAATTGAAGGAGACCTT
* * *
819880 GATTATTTGTTCTTGTTTCTTTTAATGCATTTGGCATAGTTGCAAAGCTTTTAAGCCATGGGATC
1 GATTATTTGTTCTTGTTTCTCTTAATGCATTTGGCATAGTTGCAAAGATTTTAAGCAATGGGATC
* *
819945 GTTAATTTTCTGAAATTTTCTTCATCTCACTTTCATATGATAGTATTAATTGAAGGTGACCTT
66 GTTAATTTTCTGAAATTTTCTTCATCTCACTTGCATATGATAGTATTAATTGAAGGAGACCTT
820008 AGTTTTCCAT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 117 1.00
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (128 bp):
GATTATTTGTTCTTGTTTCTCTTAATGCATTTGGCATAGTTGCAAAGATTTTAAGCAATGGGATC
GTTAATTTTCTGAAATTTTCTTCATCTCACTTGCATATGATAGTATTAATTGAAGGAGACCTT
Found at i:821398 original size:23 final size:23
Alignment explanation
Indices: 821326--821387 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
821316 CTTAATGCAG
821326 GATGCTTGCTGAATTGATGCAAT
1 GATGCTTGCTGAATTGATGCAAT
*
821349 GATGCTTGCTGAACTGATGCAAT
1 GATGCTTGCTGAATTGATGCAAT
821372 GATGCTTGCTGAATTG
1 GATGCTTGCTGAATTG
821388 GTATATTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (23 bp):
GATGCTTGCTGAATTGATGCAAT
Found at i:822476 original size:16 final size:16
Alignment explanation
Indices: 822457--822490 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
822447 CAATATAAGA
822457 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
822473 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
822489 AT
1 AT
822491 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:823216 original size:130 final size:130
Alignment explanation
Indices: 823012--823259 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
823002 AATTTTCTTC
* * *
823012 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTTAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
823077 CATGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CATAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* *
823142 TAATTAGGTGGTGACATGTGTCACCAATGACACATGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
823207 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CATAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
823260 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CATAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:823706 original size:35 final size:35
Alignment explanation
Indices: 823659--823727 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
823649 TGAATTTAAT
* *
823659 TGAATTATTTTGGAATTTAGGGTTTAGAATGAAAA
1 TGAATTACTTTGGAAATTAGGGTTTAGAATGAAAA
*
823694 TGAATTACTTTGGAAATTGGGGTTTAGAATGAAA
1 TGAATTACTTTGGAAATTAGGGTTTAGAATGAAA
823728 TTGAGGACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (35 bp):
TGAATTACTTTGGAAATTAGGGTTTAGAATGAAAA
Found at i:825338 original size:2 final size:2
Alignment explanation
Indices: 825331--825355 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
825321 AATGGTCTCA
825331 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 A
825356 ATCGATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:827523 original size:12 final size:12
Alignment explanation
Indices: 827506--827535 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
827496 CTAGGGCATC
827506 AGTTTTTCATGA
1 AGTTTTTCATGA
*
827518 AGTTTTTCATTA
1 AGTTTTTCATGA
827530 AGTTTT
1 AGTTTT
827536 CTTTTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (12 bp):
AGTTTTTCATGA
Found at i:831246 original size:11 final size:11
Alignment explanation
Indices: 831230--831254 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
831220 TTTTCGTTCC
831230 TTTTATTTTTA
1 TTTTATTTTTA
831241 TTTTATTTTTA
1 TTTTATTTTTA
831252 TTT
1 TTT
831255 GTCTCCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:835148 original size:23 final size:23
Alignment explanation
Indices: 835087--835155 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
835077 CACCATAGCT
* * *
835087 CGTATAAATGCACCGAAATACCA
1 CGTAGAAATGCACCGTAGTACCA
* * *
835110 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGTAGTACCA
835133 CGTAGAAATGCACCGTAGTACCA
1 CGTAGAAATGCACCGTAGTACCA
835156 TATAAGGTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGTAGTACCA
Found at i:835631 original size:21 final size:22
Alignment explanation
Indices: 835606--835647 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
835596 ATGTGTATTC
835606 ATATA-AT-TCATC-TTCCTAT
1 ATATATATATCATCTTTCCTAT
835625 ATATATATATCATCTTTCCTAT
1 ATATATATATCATCTTTCCTAT
835647 A
1 A
835648 CTCGTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 5 0.25
22 8 0.40
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATATATATCATCTTTCCTAT
Found at i:836807 original size:64 final size:63
Alignment explanation
Indices: 836731--836892 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
836721 TTCCCTTGAA
* *
836731 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAA-GGG
* * * ** *
836795 GTGCATCTATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
*
836859 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
836893 CTGAACAATT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.02
64 72 0.87
65 9 0.11
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:840386 original size:23 final size:23
Alignment explanation
Indices: 840349--840412 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
840339 CAGCTTGTAT
*
840349 AAATGCACCAAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * *
840372 AATTGCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
840395 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
840413 TATAAGGTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:842063 original size:64 final size:63
Alignment explanation
Indices: 841986--842145 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 63
841976 TTCCCTTGAA
* * * *
841986 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATTTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAA-GGG
* * * ** * *
842050 GTGCATCGGTGCACTCCTTATGCATCGATGCACTAATTGCATTCGCTGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
*
842114 GTGCATCGATGCACTTCCTGTGCATCGATACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACA
842146 TACTGAACAA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.03
64 68 0.86
65 9 0.11
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:842206 original size:14 final size:14
Alignment explanation
Indices: 842187--842214 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
842177 TGCATCGGTA
842187 CACATTGAATGTGC
1 CACATTGAATGTGC
842201 CACATTGAATGTGC
1 CACATTGAATGTGC
842215 ATCGATGCAC
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:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (14 bp):
CACATTGAATGTGC
Found at i:843158 original size:19 final size:19
Alignment explanation
Indices: 843131--843167 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
843121 AGTTAACCCA
*
843131 ACCTGACCCGTTAACTTTT
1 ACCTAACCCGTTAACTTTT
*
843150 ACCTAACCCGTTGACTTT
1 ACCTAACCCGTTAACTTT
843168 GAACCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.35
Consensus pattern (19 bp):
ACCTAACCCGTTAACTTTT
Found at i:847018 original size:2 final size:2
Alignment explanation
Indices: 847011--847064 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
847001 TTAAGAAAAC
* *
847011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
847053 AT AC AT AT AT AT
1 AT AT AT AT AT AT
847065 TCCCTTCCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:848574 original size:2 final size:2
Alignment explanation
Indices: 848562--848634 Score: 128
Period size: 2 Copynumber: 36.0 Consensus size: 2
848552 CAATTACATC
848562 TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
848605 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
848635 ATTCTAAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 66 0.97
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:852566 original size:25 final size:25
Alignment explanation
Indices: 852538--852587 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
852528 CAATATCTAA
* *
852538 TTTAA-AATTTGATTACTATATTTTG
1 TTTAATAATTT-ATGACTATAATTTG
852563 TTTAATAATTTATGACTATAATTTG
1 TTTAATAATTTATGACTATAATTTG
852588 GGTAAGTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (25 bp):
TTTAATAATTTATGACTATAATTTG
Found at i:853440 original size:22 final size:22
Alignment explanation
Indices: 853415--853514 Score: 92
Period size: 23 Copynumber: 4.5 Consensus size: 22
853405 AGCAAGCTTG
*
853415 TAACAAACTCTTAACAGCTGAT
1 TAACAAACTCTTAACAACTGAT
** * *
853437 TAACAAACTCATGCACAACAGCT
1 TAACAAACTC-TTAACAACTGAT
853460 TAACAAACTCTTAACAACTGAT
1 TAACAAACTCTTAACAACTGAT
* ** * *
853482 TAATAAACTCATGCACAACAGCT
1 TAACAAACTC-TTAACAACTGAT
853505 TAACAAACTC
1 TAACAAACTC
853515 ATGCACAACA
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 27 0.44
23 34 0.56
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (22 bp):
TAACAAACTCTTAACAACTGAT
Found at i:853466 original size:23 final size:23
Alignment explanation
Indices: 853436--853524 Score: 126
Period size: 23 Copynumber: 3.9 Consensus size: 23
853426 TAACAGCTGA
853436 TTAACAAACTCATGCACAACAGC
1 TTAACAAACTCATGCACAACAGC
** * *
853459 TTAACAAACTC-TTAACAACTGA
1 TTAACAAACTCATGCACAACAGC
*
853481 TTAATAAACTCATGCACAACAGC
1 TTAACAAACTCATGCACAACAGC
853504 TTAACAAACTCATGCACAACA
1 TTAACAAACTCATGCACAACA
853525 AACAACATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.31
23 38 0.69
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.21
Consensus pattern (23 bp):
TTAACAAACTCATGCACAACAGC
Found at i:853475 original size:45 final size:45
Alignment explanation
Indices: 853415--853514 Score: 182
Period size: 45 Copynumber: 2.2 Consensus size: 45
853405 AGCAAGCTTG
*
853415 TAACAAACTCTTAACAGCTGATTAACAAACTCATGCACAACAGCT
1 TAACAAACTCTTAACAACTGATTAACAAACTCATGCACAACAGCT
*
853460 TAACAAACTCTTAACAACTGATTAATAAACTCATGCACAACAGCT
1 TAACAAACTCTTAACAACTGATTAACAAACTCATGCACAACAGCT
853505 TAACAAACTC
1 TAACAAACTC
853515 ATGCACAACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (45 bp):
TAACAAACTCTTAACAACTGATTAACAAACTCATGCACAACAGCT
Found at i:855939 original size:37 final size:37
Alignment explanation
Indices: 855884--855975 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 37
855874 AAGAGTCGAG
* *
855884 GGTTACCTATGTTTTTCGGGACATATGGACTGTTACA
1 GGTTACCTATGTTCTTCGGGACATATGGACAGTTACA
*
855921 GGTTACCTATGTTCTTCGGGACATATGGACAGTTATA
1 GGTTACCTATGTTCTTCGGGACATATGGACAGTTACA
*
855958 GATTACCTATGTTCTTCG
1 GGTTACCTATGTTCTTCG
855976 AAACAGATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (37 bp):
GGTTACCTATGTTCTTCGGGACATATGGACAGTTACA
Found at i:856840 original size:21 final size:21
Alignment explanation
Indices: 856814--856854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
856804 GATGTTTTTG
* *
856814 TGCATCGGTACGCTGTAGCAA
1 TGCATCGGTACACTGCAGCAA
856835 TGCATCGGTACACTGCAGCA
1 TGCATCGGTACACTGCAGCA
856855 CTGTTCACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (21 bp):
TGCATCGGTACACTGCAGCAA
Found at i:860213 original size:22 final size:22
Alignment explanation
Indices: 860187--860250 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
860177 AAGTTTTTTT
* *
860187 GTCAAAGTCAATGGTTAGACCG
1 GTCAAAGTCAATGGTCAGACCA
*
860209 GTCAAAGTCAACGGTCAGACCA
1 GTCAAAGTCAATGGTCAGACCA
*
860231 GTCAACTGTCAATGGGTCAG
1 GTCAA-AGTCAAT-GGTCAG
860251 GTCAAAGTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 24 0.69
23 5 0.14
24 6 0.17
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (22 bp):
GTCAAAGTCAATGGTCAGACCA
Found at i:861530 original size:20 final size:20
Alignment explanation
Indices: 861489--861530 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
861479 AATTTTGCAT
*
861489 AGGGGTATCGGTACTCTATG
1 AGGGGTATCGGTACCCTATG
*
861509 AGGGGTATCGGTACCCTCTG
1 AGGGGTATCGGTACCCTATG
861529 AG
1 AG
861531 CAATCTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (20 bp):
AGGGGTATCGGTACCCTATG
Found at i:864503 original size:21 final size:21
Alignment explanation
Indices: 864479--864528 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
864469 AGGTTTTGTA
864479 AAAATATCCACTAATTGGTGC
1 AAAATATCCACTAATTGGTGC
864500 AAAATATCCACTAATTGGTGC
1 AAAATATCCACTAATTGGTGC
*
864521 AAAGTATC
1 AAAATATC
864529 AACAAATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (21 bp):
AAAATATCCACTAATTGGTGC
Found at i:864536 original size:21 final size:21
Alignment explanation
Indices: 864479--864536 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
864469 AGGTTTTGTA
* *
864479 AAAATATCCACTAATTGGTGC
1 AAAATATCAACAAATTGGTGC
* *
864500 AAAATATCCACTAATTGGTGC
1 AAAATATCAACAAATTGGTGC
*
864521 AAAGTATCAACAAATT
1 AAAATATCAACAAATT
864537 CTAGAACTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (21 bp):
AAAATATCAACAAATTGGTGC
Found at i:876715 original size:40 final size:40
Alignment explanation
Indices: 876634--876724 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 40
876624 AATTTACAGT
* *
876634 TATATAAACTTGACCAAAATTTTCATTCAAGATTAACAAAA
1 TATATAAA-GTGACCAAAATTTCCATTCAAGATTAACAAAA
*
876675 TATATAAAGTGACC-ATATTTCCATTCAAGATTTGAA-AAAA
1 TATATAAAGTGACCAAAATTTCCATTCAAGA-TT-AACAAAA
*
876715 TACATAAAGT
1 TATATAAAGT
876725 TTAACTAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
39 14 0.32
40 20 0.45
41 10 0.23
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (40 bp):
TATATAAAGTGACCAAAATTTCCATTCAAGATTAACAAAA
Found at i:879705 original size:63 final size:64
Alignment explanation
Indices: 879592--879734 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 64
879582 ATTGTTCAAG
* *
879592 GTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCAGTGTATCGATGCACAAG-TA
1 GTGTATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCAGTGTATCGATGCA-AAGATA
* * * *
879656 GTGTATCGATGCACCCCCTT-AAATACAAACATCGAATAG-GATTTA-TGTATCGATGCATAGAT
1 GTGTATCGATGCACCCCCTTAAAATAAAAACATCGAAT-GCCA-TCAGTGTATCGATGCAAAGAT
879718 A
64 A
* *
879719 GTGCATCAATGCACCC
1 GTGTATCGATGCACCC
879735 GTCAAGGGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
62 2 0.03
63 45 0.66
64 21 0.31
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (64 bp):
GTGTATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCAGTGTATCGATGCAAAGATA
Found at i:880403 original size:23 final size:23
Alignment explanation
Indices: 880377--880436 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
880367 AATCTTATAT
*
880377 GGCACCACGGTGTAATTCTACGC
1 GGCACCACGGTGCAATTCTACGC
** *
880400 GGCACTTCGGTGCAATTCTACGT
1 GGCACCACGGTGCAATTCTACGC
**
880423 GGCACTTCGGTGCA
1 GGCACCACGGTGCA
880437 TTTATACGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACCACGGTGCAATTCTACGC
Found at i:880444 original size:23 final size:23
Alignment explanation
Indices: 880384--880444 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
880374 TATGGCACCA
* *
880384 CGGTGTAATTCTACGCGGCACTT
1 CGGTGCAATTATACGCGGCACTT
* *
880407 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTATACGCGGCACTT
*
880430 CGGTGCATTTATACG
1 CGGTGCAATTATACG
880445 AGCTATGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCAATTATACGCGGCACTT
Found at i:883041 original size:21 final size:21
Alignment explanation
Indices: 883012--883066 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
883002 GCTCCGAAAG
883012 AATTGCAAGAGTTAAAGAATC
1 AATTGCAAGAGTTAAAGAATC
*
883033 AATTACAAGAGTTAAAGAATC
1 AATTGCAAGAGTTAAAGAATC
883054 AATTGCAAGAGTT
1 AATTGCAAGAGTT
883067 GTTAGAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.25
Consensus pattern (21 bp):
AATTGCAAGAGTTAAAGAATC
Found at i:886654 original size:64 final size:63
Alignment explanation
Indices: 886563--886682 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 63
886553 ATTGTTTAAG
* * *
886563 GTGTATCGATGCACATGAAGTGCATCGATGCACACCTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCAATGCACAAGAAGTGCATCGATGCACACCCTT-AAATAAAAACATCGAATGCCATCA
* * * * *
886627 GTGTATCAATGTACAAGTAGTGTATCGATGCACTCCCTTAAATACAAACATCGAAT
1 GTGTATCAATGCACAAGAAGTGCATCGATGCACACCCTTAAATAAAAACATCGAAT
886683 AGGATTTATG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 16 0.33
64 32 0.67
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (63 bp):
GTGTATCAATGCACAAGAAGTGCATCGATGCACACCCTTAAATAAAAACATCGAATGCCATCA
Found at i:886717 original size:63 final size:62
Alignment explanation
Indices: 886563--886722 Score: 155
Period size: 63 Copynumber: 2.5 Consensus size: 62
886553 ATTGTTTAAG
*
886563 GTGTATCGATGCACATGAAGTGCATCGATGCACACCTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCA-A-GAAGTGCATCGATGCACACCCTTAAAATAAAAACATCGAATGCCATCA
* * * * * * *
886627 GTGTATCAATGTACAAGTAGTGTATCGATGCACTCCCTT-AAATACAAACATCGAATAG-GATTT
1 GTGTATCGATG--CAAGAAGTGCATCGATGCACACCCTTAAAATAAAAACATCGAAT-GCCA-TC
886690 A
62 A
886691 -TGTATCGATGCATAGACAGTGCATCGATGCAC
1 GTGTATCGATGCA-AGA-AGTGCATCGATGCAC
886723 CCGTCAAGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 13
0.77 0.11 0.13
Matches are distributed among these distances:
61 2 0.03
62 2 0.03
63 40 0.51
64 32 0.41
65 1 0.01
66 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (62 bp):
GTGTATCGATGCAAGAAGTGCATCGATGCACACCCTTAAAATAAAAACATCGAATGCCATCA
Found at i:887401 original size:23 final size:23
Alignment explanation
Indices: 887375--887447 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
887365 TATGGCACCA
* * *
887375 CGGTGCAATTCTATGCGGCACTT
1 CGGTACAATTCTACGTGGCACTT
* *
887398 CGGTACTATTCTACGTGACACTT
1 CGGTACAATTCTACGTGGCACTT
*
887421 CGTTACAATTCTACGTGGCACTT
1 CGGTACAATTCTACGTGGCACTT
887444 CGGT
1 CGGT
887448 GCATTTATTC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (23 bp):
CGGTACAATTCTACGTGGCACTT
Found at i:888223 original size:42 final size:42
Alignment explanation
Indices: 888127--888252 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
888117 TGTCATCCTA
* *
888127 ACCCTTAGCACCCTCACCCTCA-TTGTTAGACTTCTCAGTCTC
1 ACCCTCAGCACCCTCACCCTCAGTT-TTAGACTTCTCAGCCTC
* * *
888169 ACCATCAACACCCTTACCCTCAGTTTTAGACTTCTCAGCCTC
1 ACCCTCAGCACCCTCACCCTCAGTTTTAGACTTCTCAGCCTC
* ** *
888211 ACCCTGAGCACCCTCAGTCTCAGTTTT-GAACTTCTCAACCTC
1 ACCCTCAGCACCCTCACCCTCAGTTTTAG-ACTTCTCAGCCTC
888253 TGCTTCAATC
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 67 0.96
43 2 0.03
ACGTcount: A:0.21, C:0.40, G:0.10, T:0.29
Consensus pattern (42 bp):
ACCCTCAGCACCCTCACCCTCAGTTTTAGACTTCTCAGCCTC
Found at i:891050 original size:35 final size:37
Alignment explanation
Indices: 890989--891069 Score: 123
Period size: 35 Copynumber: 2.3 Consensus size: 37
890979 GGGGTTGGTC
890989 ATGTAATT-AAAGTATTTTTGGAATTTGAGGTTTAGA
1 ATGTAATTGAAAGTATTTTTGGAATTTGAGGTTTAGA
*
891025 ATGTAATTGAAA-TA-TTTTGGAATTTGGGGTTTAGA
1 ATGTAATTGAAAGTATTTTTGGAATTTGAGGTTTAGA
*
891060 TTGTAATTGA
1 ATGTAATTGA
891070 TTACTGTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
35 29 0.69
36 10 0.24
37 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.44
Consensus pattern (37 bp):
ATGTAATTGAAAGTATTTTTGGAATTTGAGGTTTAGA
Found at i:900066 original size:3 final size:3
Alignment explanation
Indices: 900051--900107 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
900041 GTTAAAAAGG
* * * * *
900051 AGA AGA A-A GAGA AGA AGA GGA AGA AGG AGG AGG AGG AGA AGA AGA
1 AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
900096 AGA AGA AGA AGA
1 AGA AGA AGA AGA
900108 GGCATTTAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:902451 original size:17 final size:17
Alignment explanation
Indices: 902420--902452 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
902410 TTTATTATTA
902420 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
902437 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
902453 AATATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:902932 original size:58 final size:58
Alignment explanation
Indices: 902864--902979 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
902854 TGAGACCGAA
902864 TGGCCACCATCTACGATAGTCGAAGGTGGCATCTAATGACGATGAACAGTAGACGACC
1 TGGCCACCATCTACGATAGTCGAAGGTGGCATCTAATGACGATGAACAGTAGACGACC
902922 TGGCCACCATCTACGATAGTCGAAGGTGGCATCTAATGACGATGAACAGTAGACGACC
1 TGGCCACCATCTACGATAGTCGAAGGTGGCATCTAATGACGATGAACAGTAGACGACC
902980 GTCACCTGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (58 bp):
TGGCCACCATCTACGATAGTCGAAGGTGGCATCTAATGACGATGAACAGTAGACGACC
Found at i:907537 original size:20 final size:20
Alignment explanation
Indices: 907512--907549 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
907502 TTTGGTTCAT
907512 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
907532 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
907550 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:908329 original size:25 final size:25
Alignment explanation
Indices: 908300--908371 Score: 135
Period size: 25 Copynumber: 2.9 Consensus size: 25
908290 CTTTTCCTTA
908300 TTTAAGTTGTTTACATATCATATTT
1 TTTAAGTTGTTTACATATCATATTT
908325 TTTAAGTTGTTTACATATCATATTT
1 TTTAAGTTGTTTACATATCATATTT
*
908350 TTTAAGTTGTTTACGTATCATA
1 TTTAAGTTGTTTACATATCATA
908372 AATGGTACGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (25 bp):
TTTAAGTTGTTTACATATCATATTT
Found at i:908451 original size:20 final size:21
Alignment explanation
Indices: 908426--908471 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
908416 TTAAAGTGAA
908426 TATTAAATATCA-ATATATAC
1 TATTAAATATCATATATATAC
* *
908446 TATT-AATGTCATATATATAT
1 TATTAAATATCATATATATAC
908466 TATTAA
1 TATTAA
908472 TATAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 6 0.27
20 15 0.68
21 1 0.05
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTAAATATCATATATATAC
Found at i:917745 original size:55 final size:55
Alignment explanation
Indices: 917656--917761 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
917646 AACTATCTGT
*
917656 AGGTCAACAGACTAAATAGATTTAATTGTTAAATTTAGATTTCGTTCTTATTTGC
1 AGGTCAACAGACTAAATAGATTTAATTGTCAAATTTAGATTTCGTTCTTATTTGC
* * *
917711 AGGTCACCAGACTAAATAGATTTGATTGTCAAATTTAGATTTTGTTCTTAT
1 AGGTCAACAGACTAAATAGATTTAATTGTCAAATTTAGATTTCGTTCTTAT
917762 ATGTCATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (55 bp):
AGGTCAACAGACTAAATAGATTTAATTGTCAAATTTAGATTTCGTTCTTATTTGC
Found at i:926397 original size:12 final size:12
Alignment explanation
Indices: 926380--926404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
926370 CGATTGAAAC
926380 CTCAAACTTAAA
1 CTCAAACTTAAA
926392 CTCAAACTTAAA
1 CTCAAACTTAAA
926404 C
1 C
926405 CTTAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (12 bp):
CTCAAACTTAAA
Found at i:928470 original size:18 final size:16
Alignment explanation
Indices: 928447--928481 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
928437 TTTTATAATC
928447 ATGTATGATATATATATA
1 ATGTATG-TAT-TATATA
928465 ATGTATGTATTATATA
1 ATGTATGTATTATATA
928481 A
1 A
928482 AGTTAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (16 bp):
ATGTATGTATTATATA
Found at i:932894 original size:128 final size:128
Alignment explanation
Indices: 932666--933264 Score: 1074
Period size: 128 Copynumber: 4.7 Consensus size: 128
932656 ACTATTCACA
*
932666 TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
932731 TTATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
932794 TGAAGGCGCTTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
932859 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGATT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* * *
932922 TGAAGGCGAGTTCCTGGGGG-GCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
932986 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCACGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
933049 TGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCGGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
933114 TTATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
933177 TGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
933242 TTATGTCACTCATGTCCCTCGGG
66 TTATGTCACTCATGTCCCTCGGG
933265 AACTATGGAT
Statistics
Matches: 447, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
127 121 0.27
128 326 0.73
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:933138 original size:255 final size:256
Alignment explanation
Indices: 932666--933264 Score: 1101
Period size: 255 Copynumber: 2.3 Consensus size: 256
932656 ACTATTCACA
932666 TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
932731 TTATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCACGGGACTTG
*
932796 AAGGCGCTTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
131 AAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
* *
932861 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGATT
196 ATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
932922 TGAAGGCGAGTTCCTGGGGG-GCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
932986 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCACGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCACGGGACTTG
*
933051 AAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCGGAGAATATGTTATCATTGCCCTATT
131 AAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
933116 ATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
196 ATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
933177 TGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
933242 TTATGTCACTCATGTCCCTCGGG
66 TTATGTCACTCATGTCCCTCGGG
933265 AACTATGGAT
Statistics
Matches: 330, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
255 246 0.75
256 84 0.25
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (256 bp):
TGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCACGGGACTTG
AAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
ATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:933713 original size:34 final size:34
Alignment explanation
Indices: 933675--933775 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
933665 AAATTTAATG
*
933675 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
933709 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
933743 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
933776 AACATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:934366 original size:21 final size:21
Alignment explanation
Indices: 934342--934389 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
934332 CCTACGGAGA
*
934342 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
934363 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
934384 GGGCAT
1 TGGCAT
934390 GTACCCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:935958 original size:17 final size:17
Alignment explanation
Indices: 935921--935974 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
935911 GCATTATAAA
* *
935921 AAATT-AAAATTAATAT
1 AAATTAAAAATAAATTT
* * *
935937 AAATTCATAATAACTTT
1 AAATTAAAAATAAATTT
935954 AAATTAAAAATAAATTT
1 AAATTAAAAATAAATTT
935971 AAAT
1 AAAT
935975 ATTAACATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:936162 original size:34 final size:32
Alignment explanation
Indices: 936118--936197 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 32
936108 TTAATAATTC
* *
936118 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATT-TATAAA-ATTATATTAA
*
936152 TAAAAAAATAAT-ATTTATATAATTATATTAA
1 TAAAAAAATAATAATTTATAAAATTATATTAA
*
936183 TATAAAATATAATAA
1 TA-AAAAAATAATAA
936198 CTATTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.28
32 14 0.35
33 4 0.10
34 11 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TAAAAAAATAATAATTTATAAAATTATATTAA
Found at i:936163 original size:31 final size:33
Alignment explanation
Indices: 936121--936195 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
936111 ATAATTCTAA
* *
936121 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAATTATATTAAT
* *
936153 A-AAAAAATAA-TATTTATATAATTATATTAAT
1 ATAAAAAATAATTATATAAATAATTATATTAAT
*
936184 ATAAAATATAAT
1 ATAAAAAATAAT
936196 AACTATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 19 0.54
32 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAATTATATTAAT
Found at i:938074 original size:15 final size:15
Alignment explanation
Indices: 938051--938097 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
938041 CGTAGGACTC
*
938051 CTACATCCCGAAGGA
1 CTACGTCCCGAAGGA
938066 CTACGTCCCGAAGGA
1 CTACGTCCCGAAGGA
938081 CTACGTCCCGAAGGA
1 CTACGTCCCGAAGGA
938096 CT
1 CT
938098 TCTCCTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (15 bp):
CTACGTCCCGAAGGA
Found at i:938321 original size:29 final size:29
Alignment explanation
Indices: 938279--938352 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
938269 TATTTTTCGT
938279 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
938307 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
938336 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
938353 CTTCATATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:938385 original size:12 final size:12
Alignment explanation
Indices: 938368--938403 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
938358 TATCATGTTC
938368 TCATATCACATG
1 TCATATCACATG
*
938380 TCATATCACATA
1 TCATATCACATG
938392 TCATATCACATG
1 TCATATCACATG
938404 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:938819 original size:64 final size:64
Alignment explanation
Indices: 938711--938887 Score: 219
Period size: 64 Copynumber: 2.8 Consensus size: 64
938701 TAATGAAGGT
* * * ** * * **
938711 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTAGTACTATTAATGGG
* * **
938775 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTAGTACTATTAATGGG
* *
938839 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGT
938888 CTTTATTTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 97 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTAGTACTATTAATGGG
Found at i:938908 original size:64 final size:64
Alignment explanation
Indices: 938774--938934 Score: 218
Period size: 64 Copynumber: 2.5 Consensus size: 64
938764 TTATTGCTGG
* * * *
938774 GATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCACCAATTACATTCGATGTTTTACTATTAAAGA
* *
938838 GATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTCTTTA-TTTTAAA-A
1 GATGCATCGATGCACTACTTATGCATCGATGCACCAATTACATTCGATGT-TTTACTATTAAAGA
**
938901 GAGTGCATCGATGCACTACCAATGCATCGATGCA
1 GA-TGCATCGATGCACTACTTATGCATCGATGCA
938935 TATTCATACA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
63 2 0.02
64 81 0.93
65 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (64 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACCAATTACATTCGATGTTTTACTATTAAAGA
Found at i:941845 original size:45 final size:45
Alignment explanation
Indices: 941794--941892 Score: 189
Period size: 45 Copynumber: 2.2 Consensus size: 45
941784 CTTGAGCACT
*
941794 CAAAACCCACTTTTTCTAACCAAGAAGAAATAAAAGTCTTTAATC
1 CAAAACCCACTTTTTCTAACCAAGAAAAAATAAAAGTCTTTAATC
941839 CAAAACCCACTTTTTCTAACCAAGAAAAAATAAAAGTCTTTAATC
1 CAAAACCCACTTTTTCTAACCAAGAAAAAATAAAAGTCTTTAATC
941884 CAAAACCCA
1 CAAAACCCA
941893 GTTGCTGGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.24
Consensus pattern (45 bp):
CAAAACCCACTTTTTCTAACCAAGAAAAAATAAAAGTCTTTAATC
Found at i:942023 original size:11 final size:11
Alignment explanation
Indices: 941979--942017 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
941969 ATAGAGCTTG
*
941979 AGGAGGATGAA
1 AGGAGAATGAA
*
941990 AGGAGAATGAG
1 AGGAGAATGAA
942001 AGGAGAATGAA
1 AGGAGAATGAA
942012 AGGAGA
1 AGGAGA
942018 TGGAAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.44, T:0.08
Consensus pattern (11 bp):
AGGAGAATGAA
Found at i:948387 original size:3 final size:3
Alignment explanation
Indices: 948379--948409 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
948369 AGCATGATGC
948379 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
948410 GCTGGTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:949738 original size:15 final size:15
Alignment explanation
Indices: 949718--949748 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
949708 CTCCCCCTTA
949718 CTATAACACTTCTCC
1 CTATAACACTTCTCC
*
949733 CTATAATACTTCTCC
1 CTATAACACTTCTCC
949748 C
1 C
949749 CCTTTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (15 bp):
CTATAACACTTCTCC
Found at i:959468 original size:17 final size:17
Alignment explanation
Indices: 959446--959480 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
959436 TTAAGTAATT
959446 ATGTTATCATTTATTTA
1 ATGTTATCATTTATTTA
959463 ATGTTATCATTTATTTA
1 ATGTTATCATTTATTTA
959480 A
1 A
959481 AGTCTCGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
ATGTTATCATTTATTTA
Found at i:964896 original size:15 final size:15
Alignment explanation
Indices: 964856--964899 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
964846 ATATTATGAT
* *
964856 ATATGATATGAATTC
1 ATATCATATGCATTC
964871 ATATCATATGCATTC
1 ATATCATATGCATTC
964886 ATATCATATGCATT
1 ATATCATATGCATT
964900 ATGTGACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (15 bp):
ATATCATATGCATTC
Found at i:965296 original size:24 final size:23
Alignment explanation
Indices: 965208--965293 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
965198 ATATATTATA
* *
965208 TGGCACTACGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
*
965231 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
965254 CGGTC-CTTCGAG-ACAAATTCTACG
1 TGG-CACTTCG-GTGC-AATTCTACG
965278 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
965294 ATTTATACGA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
23 32 0.64
24 18 0.36
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:966859 original size:23 final size:23
Alignment explanation
Indices: 966833--966876 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
966823 ACATATTATA
966833 TGGCACTACAGTGCAATTCTATG
1 TGGCACTACAGTGCAATTCTATG
* * *
966856 TGGCACTTCGGTGCATTTCTA
1 TGGCACTACAGTGCAATTCTA
966877 CGCGGTCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (23 bp):
TGGCACTACAGTGCAATTCTATG
Found at i:969478 original size:28 final size:29
Alignment explanation
Indices: 969430--969484 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
969420 TATGAAAATG
969430 TGATATAATAAAAAAAGAAAAA-AATATA
1 TGATATAATAAAAAAAGAAAAATAATATA
*
969458 TGATATAATAAAATTAA-AAAAATAATA
1 TGATATAATAAAA-AAAGAAAAATAATA
969485 AATATCAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (29 bp):
TGATATAATAAAAAAAGAAAAATAATATA
Found at i:973467 original size:19 final size:20
Alignment explanation
Indices: 973431--973469 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
973421 AAGGAATTGT
* *
973431 TTTTTAATTATTACTATATA
1 TTTTTAAATATTAATATATA
973451 TTTTTAAATA-TAATATATA
1 TTTTTAAATATTAATATATA
973470 CAATGAGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTAAATATTAATATATA
Found at i:984306 original size:23 final size:23
Alignment explanation
Indices: 984254--984382 Score: 181
Period size: 23 Copynumber: 5.7 Consensus size: 23
984244 TGTCACATAT
* *
984254 AATGTCCCGAAGGACCACATAG-
1 AATGTCCCGAAGGACCTCGTAGA
* *
984276 -ATGTCCCGAATGACCGCGTAGA
1 AATGTCCCGAAGGACCTCGTAGA
984298 AATGTCCCGAAGGACCTCGTAGA
1 AATGTCCCGAAGGACCTCGTAGA
*
984321 ATTGTCCCGAAGGACCTCGTAGA
1 AATGTCCCGAAGGACCTCGTAGA
*
984344 ATTGTCCCGAAGGACCTCGTAGA
1 AATGTCCCGAAGGACCTCGTAGA
*
984367 ATTGTCCCGAAGGACC
1 AATGTCCCGAAGGACC
984383 GCGTTGAACC
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
21 18 0.18
23 81 0.82
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.19
Consensus pattern (23 bp):
AATGTCCCGAAGGACCTCGTAGA
Found at i:984344 original size:46 final size:46
Alignment explanation
Indices: 984254--984386 Score: 207
Period size: 46 Copynumber: 2.9 Consensus size: 46
984244 TGTCACATAT
* * *
984254 AATGTCCCGAAGGACCACATAG-A-TGTCCCGAATGACCGCGTAGA
1 AATGTCCCGAAGGACCTCGTAGAATTGTCCCGAAGGACCGCGTAGA
*
984298 AATGTCCCGAAGGACCTCGTAGAATTGTCCCGAAGGACCTCGTAGA
1 AATGTCCCGAAGGACCTCGTAGAATTGTCCCGAAGGACCGCGTAGA
*
984344 ATTGTCCCGAAGGACCTCGTAGAATTGTCCCGAAGGACCGCGT
1 AATGTCCCGAAGGACCTCGTAGAATTGTCCCGAAGGACCGCGT
984387 TGAACCCTTG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 20 0.25
45 1 0.01
46 60 0.74
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (46 bp):
AATGTCCCGAAGGACCTCGTAGAATTGTCCCGAAGGACCGCGTAGA
Found at i:986027 original size:2 final size:2
Alignment explanation
Indices: 986020--986061 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
986010 TTGGAATGTA
986020 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
986062 CATTTTCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.