Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_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: 2284295
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:507690 original size:27 final size:27
Alignment explanation
Indices: 507652--507706 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
507642 AAAATAAATC
507652 CTAACCGCATGATATCTAATTCGCATG
1 CTAACCGCATGATATCTAATTCGCATG
*
507679 CTAACCGCATGATATCTAGTTCGCATG
1 CTAACCGCATGATATCTAATTCGCATG
507706 C
1 C
507707 ATTTATTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (27 bp):
CTAACCGCATGATATCTAATTCGCATG
Found at i:512970 original size:11 final size:11
Alignment explanation
Indices: 512931--512962 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
512921 TAAACAGTAT
512931 TAATAATAT--
1 TAATAATATAA
512940 TAATAATATAA
1 TAATAATATAA
512951 TAATAATATAA
1 TAATAATATAA
512962 T
1 T
512963 TATTATATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATAATATAA
Found at i:513200 original size:53 final size:53
Alignment explanation
Indices: 513136--513342 Score: 317
Period size: 53 Copynumber: 3.9 Consensus size: 53
513126 TTCGACCAGT
* *
513136 GGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTAAAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCTAC
* *
513189 GGGTTTC-CTCCCTCTTGTTTCAGGGAGTAGAACTCAAACAATCTTCTGCTTAC
1 GGG-TTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCTAC
* * **
513242 GGGTTCGCTCCCTCTTACTTCAGGGAGTAAAACTTGAACAATCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCTAC
*
513295 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACATTCTTCTG
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTG
513343 GTGTGATTCT
Statistics
Matches: 137, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
52 3 0.02
53 131 0.96
54 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (53 bp):
GGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCTAC
Found at i:513775 original size:41 final size:42
Alignment explanation
Indices: 513718--513836 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 42
513708 GGTCTTATGG
* *
513718 ATGACCCGAAGGATTT-ATCATCTTGTTCGAGAA-ACTCACAA
1 ATGACCCGAAGGATTTAATCATCATGCTCGA-AAGACTCACAA
* * **
513759 ATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTG
1 ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTCACAA
*
513801 ATGACCCGAAGGATTTCA-CATCATGCTCGAAAGACT
1 ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACT
513837 TACTGACGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 35 0.51
42 33 0.49
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTCACAA
Found at i:513793 original size:22 final size:20
Alignment explanation
Indices: 513765--513839 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 20
513755 ACAAATGACC
513765 CGAAAGATTTAATCATCATGCT
1 CGAAAGATTT-A-CATCATGCT
* * *
513787 CGAAAGACTTAC-TGATGACC
1 CGAAAGATTTACATCATG-CT
*
513807 CGAAGGATTTCACATCATGCT
1 CGAAAGATTT-ACATCATGCT
*
513828 CGAAAGACTTAC
1 CGAAAGATTTAC
513840 TGACGGATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
19 4 0.10
20 12 0.29
21 12 0.29
22 13 0.32
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (20 bp):
CGAAAGATTTACATCATGCT
Found at i:513805 original size:42 final size:42
Alignment explanation
Indices: 513717--513976 Score: 189
Period size: 42 Copynumber: 6.3 Consensus size: 42
513707 AGGTCTTATG
* * * *
513717 GATGACCCGAAGGATTT-ATCATCTTGTTCGAGAA-ACTCACA
1 GATGACCCGAAGGATTTAATCATCATGCTCGA-AAGACTTACT
* *
513758 AATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
*
513800 GATGACCCGAAGGATTTCA-CATCATGCTCGAAAGACTTAC-
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* ** * * * * * * **
513840 --TGA-CGGATTTGCTTCACT-ACTC-TTC-CGTGAAGGCTTAAA
1 GATGACCCGA-AGGATTTAATCA-TCATGCTCG-AAAGACTTACT
* * * *
513879 AATTACCCGAAGGATTTAATTATCATGCTCGAAAGACTTATT
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* * *
513921 GATGGCCTGAAGGATTTCATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
513963 GATGACCCGAAGGA
1 GATGACCCGAAGGA
513977 CTTATAAATT
Statistics
Matches: 165, Mismatches: 41, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
37 5 0.03
38 16 0.10
39 2 0.01
41 47 0.28
42 93 0.56
43 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
Found at i:514301 original size:214 final size:214
Alignment explanation
Indices: 513884--514325 Score: 695
Period size: 214 Copynumber: 2.1 Consensus size: 214
513874 TTAAAAATTA
* * * * * ** * * * *
513884 CCCGAAGGATTTAATTATCATGCTCGAAAGACTTATTGATGGCCTGAAGGATTTCATCATCATGC
1 CCCGAAGGACTT-ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGC
513949 TCGAAAGACTTACTGATGACCCGAAGGACTTATAAATTGTGAAATTATGAAAATCGCATTCTTTG
65 TCGAAAGACTTACTGATGACCCGAAGGACTTATAAATTGTGAAATTATGAAAATCGCATTCTTTG
*
514014 TTTTCAAAATTTTAATCTTCTCAAAACATCGTTTTTCATTTTCAAATTCATGTGAAAACATCCTA
130 TTTTCAAAAATTTAATCTTCTCAAAACATCGTTTTTCATTTTCAAATTCATGTGAAAACATCCTA
*
514079 CTCGAAGGTTTTACGGATGG
195 CCCGAAGGTTTTACGGATGG
* *
514099 CCTGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCGTCATGCT
1 CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* * *
514164 CGAAAGACTTATTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTTGT
66 CGAAAGACTTACTGATGACCCGAAGGACTTATAAATTGTGAAATTATGAAAATCGCATTCTTTGT
*
514229 TTTCAAAAATTTCATCTTCTCAAAACATCGTTTTTCATTTTCAAATTCATGTGAAAACATCCTAC
131 TTTCAAAAATTTAATCTTCTCAAAACATCGTTTTTCATTTTCAAATTCATGTGAAAACATCCTAC
514294 CCGAAGGTTTTACGGATGG
196 CCGAAGGTTTTACGGATGG
*
514313 CCCGAATGACTTA
1 CCCGAAGGACTTA
514326 AATCGTTTAC
Statistics
Matches: 206, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
214 196 0.95
215 10 0.05
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (214 bp):
CCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
CGAAAGACTTACTGATGACCCGAAGGACTTATAAATTGTGAAATTATGAAAATCGCATTCTTTGT
TTTCAAAAATTTAATCTTCTCAAAACATCGTTTTTCATTTTCAAATTCATGTGAAAACATCCTAC
CCGAAGGTTTTACGGATGG
Found at i:522076 original size:29 final size:30
Alignment explanation
Indices: 522034--522115 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
522024 CCCGAATGAC
* *
522034 CTATCCAGAGGTCACACAG-ACCCCGGTAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* *
522063 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCCCGGCAA
* * *
522093 CTATCCATAGGTCCCGAAGAACC
1 CTATCCAGAGGTCACAAAGAACC
522116 TAGGTAAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 17 0.39
30 27 0.61
ACGTcount: A:0.33, C:0.32, G:0.20, T:0.16
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGGCAA
Found at i:522179 original size:31 final size:31
Alignment explanation
Indices: 522091--522185 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 31
522081 GAACCTCGGC
* * * * *
522091 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
**
522122 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
* *
522153 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCAAAGAACATAGGTA
522184 AA
1 AA
522186 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 48 0.92
32 4 0.08
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTTCCAAAGAACATAGGTA
Found at i:522953 original size:64 final size:64
Alignment explanation
Indices: 522845--523005 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
522835 CAATGAATGT
* * ** *
522845 ATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTT-TATTTAATGGGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTAA-AAGC
* * *
522909 ATGCATCGATGCACTCCTTATGCATCGATGCAT-AAATCCTATTCGATGTTTTCTATTTAAAATC
1 ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCC-ATTCGATGTTTTCTATTTAAAAGC
* *
522973 ATGCATCGATGCACTGCATGTGCATCGATGCAT
1 ATGCATCGATGCACTACTTGTGCATCGATGCAT
523006 CTTAAACAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 5 0.06
64 72 0.86
65 7 0.08
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATCCATTCGATGTTTTCTATTTAAAAGC
Found at i:528376 original size:22 final size:22
Alignment explanation
Indices: 528359--528425 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
528349 CTCGTATAAA
528359 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
528381 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
528403 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
528425 T
1 T
528426 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:528761 original size:29 final size:29
Alignment explanation
Indices: 528719--528790 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
528709 TTTTCTGCAT
**
528719 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
528748 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
528777 ATTCATGTCATGTA
1 ATTCATGTCATGTA
528791 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:529244 original size:67 final size:69
Alignment explanation
Indices: 529093--529246 Score: 206
Period size: 68 Copynumber: 2.2 Consensus size: 69
529083 TTTTTCTCAT
* * *
529093 GGGGGAATCGGTTCCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATAC
1 GGGGGTATCGGTT-CCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATAC
529158 GATGA
65 GATGA
* * * *
529163 GGGGGTATCGGTTCCCCCCC-TGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC-
1 GGGGGTATCGGTTCCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
529225 ATTGA
66 A-TGA
529230 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
529247 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
66 1 0.01
67 22 0.29
68 34 0.45
69 7 0.09
70 12 0.16
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (69 bp):
GGGGGTATCGGTTCCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
ATGA
Found at i:529258 original size:67 final size:67
Alignment explanation
Indices: 529093--529268 Score: 187
Period size: 67 Copynumber: 2.6 Consensus size: 67
529083 TTTTTCTCAT
* * * *
529093 GGGGGAATCGGTTCCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATAC
1 GGGGGTATCGGTT--CCCCCC-TGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATAC
529158 GATGA
63 GATGA
* * *
529163 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC-A
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
529226 TTGA
65 -TGA
* *
529230 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
529269 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
65 6 0.06
66 1 0.01
67 34 0.36
68 34 0.36
69 7 0.07
70 12 0.13
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:535324 original size:22 final size:22
Alignment explanation
Indices: 535307--535395 Score: 178
Period size: 22 Copynumber: 4.0 Consensus size: 22
535297 CTCGTATAAA
535307 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
535329 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
535351 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
535373 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
535395 T
1 T
535396 ATGTCCATAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:535656 original size:30 final size:31
Alignment explanation
Indices: 535615--535674 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
535605 TAGACATAGT
*
535615 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
535645 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
535675 AACTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:535731 original size:29 final size:29
Alignment explanation
Indices: 535689--535760 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
535679 TTTTCTGCAT
**
535689 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
535718 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
535747 ATTCATGTCATGTA
1 ATTCATGTCATGTA
535761 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:536214 original size:67 final size:69
Alignment explanation
Indices: 536063--536216 Score: 197
Period size: 68 Copynumber: 2.2 Consensus size: 69
536053 TTTTTCTCAT
* * *
536063 GGGGGAATCGGTTCCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATAC
1 GGGGGTATCGGTT-CCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATAC
536128 GATGA
65 GATGA
* * * * *
536133 GGGGGTATCGGTTCCCCCCC-TGGGGGTACCGATTCCTCTCTAGCATTCTGGAAATTCAT-TTC-
1 GGGGGTATCGGTTCCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
536195 ATTGA
66 A-TGA
536200 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
536217 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
66 1 0.01
67 22 0.29
68 33 0.44
69 7 0.09
70 12 0.16
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (69 bp):
GGGGGTATCGGTTCCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
ATGA
Found at i:536227 original size:67 final size:67
Alignment explanation
Indices: 536063--536238 Score: 178
Period size: 67 Copynumber: 2.6 Consensus size: 67
536053 TTTTTCTCAT
* * * *
536063 GGGGGAATCGGTTCCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATAC
1 GGGGGTATCGGTT--CCCCCC-TGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATAC
536128 GATGA
63 GATGA
* * * *
536133 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCTCTCTAGCATTCTGGAAATTCAT-TTC-A
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
536196 TTGA
65 -TGA
* *
536200 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
536239 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
65 6 0.07
66 1 0.01
67 33 0.36
68 33 0.36
69 7 0.08
70 12 0.13
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:542295 original size:22 final size:22
Alignment explanation
Indices: 542278--542344 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
542268 CTCGTATAAA
*
542278 TGCACCGAAGTTCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
542300 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
542322 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
542344 T
1 T
542345 ATGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:542605 original size:30 final size:31
Alignment explanation
Indices: 542564--542623 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
542554 TAGACATAGT
*
542564 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
542594 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
542624 AACTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:542680 original size:29 final size:29
Alignment explanation
Indices: 542638--542709 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
542628 TTTTCTGCAT
**
542638 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
542667 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
542696 ATTCATGTCATGTA
1 ATTCATGTCATGTA
542710 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:543130 original size:66 final size:68
Alignment explanation
Indices: 543012--543163 Score: 195
Period size: 66 Copynumber: 2.2 Consensus size: 68
543002 TTTTTCTCAT
* * *
543012 GGGGGAATCGGTTCCCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATAC
1 GGGGGTATCGGTT-CCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCAT-TAC
543077 GA-TGA
64 -ATTGA
* * *
543082 -GGGGTATCGGTTCCCCCCC-T-GGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCAT
1 GGGGGTATCGGTTCCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACAT
543144 TGA
66 TGA
543147 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
543164 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
64 1 0.01
65 5 0.07
66 49 0.66
67 1 0.01
68 7 0.09
69 11 0.15
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (68 bp):
GGGGGTATCGGTTCCCCCCCTTAGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACAT
TGA
Found at i:545094 original size:45 final size:47
Alignment explanation
Indices: 545025--545127 Score: 147
Period size: 45 Copynumber: 2.2 Consensus size: 47
545015 TTTGTTATTA
*
545025 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTGTTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* *
545071 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
545118 AAAAACGAAA
1 AAAAA-GAAA
545128 ATAAATGACT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 28 0.56
46 8 0.16
47 11 0.22
48 3 0.06
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:547535 original size:19 final size:19
Alignment explanation
Indices: 547511--547576 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 19
547501 TAGCCTGATA
547511 CATCGATGCATGTCTTGTG
1 CATCGATGCATGTCTTGTG
***
547530 CATCGATGCA--TCAAATG
1 CATCGATGCATGTCTTGTG
547547 CATCGATGCATGTCTTGTG
1 CATCGATGCATGTCTTGTG
547566 CATCGATGCAT
1 CATCGATGCAT
547577 CAAATGCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.36
19 25 0.64
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (19 bp):
CATCGATGCATGTCTTGTG
Found at i:547550 original size:17 final size:17
Alignment explanation
Indices: 547528--547591 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
547518 GCATGTCTTG
547528 TGCATCGATGCATCAAA
1 TGCATCGATGCATCAAA
***
547545 TGCATCGATGCATGTCTTG
1 TGCATCGATGCA--TCAAA
547564 TGCATCGATGCATCAAA
1 TGCATCGATGCATCAAA
547581 TGCATTCGATG
1 TGCA-TCGATG
547592 TTTTGAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 18 0.47
18 6 0.16
19 14 0.37
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (17 bp):
TGCATCGATGCATCAAA
Found at i:547551 original size:36 final size:36
Alignment explanation
Indices: 547511--547591 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
547501 TAGCCTGATA
547511 CATCGATGCATGTCTTGTGCATCGATGCATCAAATG
1 CATCGATGCATGTCTTGTGCATCGATGCATCAAATG
547547 CATCGATGCATGTCTTGTGCATCGATGCATCAAATG
1 CATCGATGCATGTCTTGTGCATCGATGCATCAAATG
547583 CATTCGATG
1 CA-TCGATG
547592 TTTTGAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 38 0.86
37 6 0.14
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (36 bp):
CATCGATGCATGTCTTGTGCATCGATGCATCAAATG
Found at i:547630 original size:19 final size:19
Alignment explanation
Indices: 547606--547656 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
547596 GAAAATATTC
547606 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
547625 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
547644 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
547657 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:547650 original size:101 final size:101
Alignment explanation
Indices: 547462--547656 Score: 250
Period size: 100 Copynumber: 1.9 Consensus size: 101
547452 GTGCACCAAG
* * ****
547462 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATACATCGATGCATGTCTT
1 TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATACATCGATGCATGGAGA
547527 GTGCATCGATGCATCAAATGCA-TCGATGCATGTCT
66 GTGCATCGATGCATCAAATGCATTCGATGCATGTCT
** *
547562 TGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGA
1 TGTGCATCGATGCATCAAATGCATTCGATG-TTTGAAAAATAGCCAGA-TACATCGATGCATGGA
* **
547626 GAGTGCATCGGTGCATGGAATGCATTCGATG
64 GAGTGCATCGATGCATCAAATGCATTCGATG
547657 TTTAATTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
100 38 0.47
101 36 0.45
102 6 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (101 bp):
TGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCAGATACATCGATGCATGGAGA
GTGCATCGATGCATCAAATGCATTCGATGCATGTCT
Found at i:547698 original size:65 final size:65
Alignment explanation
Indices: 547544--547707 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 65
547534 GATGCATCAA
* *
547544 ATGCATCGATGCATGT-CTTG-TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA
1 ATGCATCGATGCATGTAC-TGATGCATCGGTGCATGAAATGCATTCGATGTTTTGAAAATATTCA
547607 G
65 G
* * *
547608 AGTGCATCGATGCATGGA--GAGTGCATCGGTGCATGGAATGCATTCGATG-TTT--AATTAATT
1 A-TGCATCGATGCATGTACTGA-TGCATCGGTGCATGAAATGCATTCGATGTTTTGAAAAT-ATT
547668 CATCG
63 CA--G
547673 ATGCATCGATGCATGTACTGATGCATCGGTGCATG
1 ATGCATCGATGCATGTACTGATGCATCGGTGCATG
547708 CCTTTGAATA
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
62 3 0.04
63 6 0.07
64 19 0.22
65 55 0.65
66 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (65 bp):
ATGCATCGATGCATGTACTGATGCATCGGTGCATGAAATGCATTCGATGTTTTGAAAATATTCAG
Found at i:556099 original size:64 final size:64
Alignment explanation
Indices: 556030--556208 Score: 179
Period size: 64 Copynumber: 2.8 Consensus size: 64
556020 TTGGAACACT
*
556030 TGATGCATC-AGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGA-TGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCC
***** *
556094 TGATGCATCGATGCATGTCTTGTGCATCGATGCATCAAATGCATTCGATGTTTG-AAAAT--TC
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCC
* *** * *
556155 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCAT-AGAATGCATTCGATGTTT
1 TGA-TGCATCGATGCACCAAGTGTGCATCGATGCATCA-AATGCATTCGATGTTT
556209 AATTAATTCA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
61 4 0.04
62 43 0.43
63 5 0.05
64 46 0.46
65 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCC
Found at i:571969 original size:41 final size:40
Alignment explanation
Indices: 571876--571971 Score: 102
Period size: 41 Copynumber: 2.4 Consensus size: 40
571866 AAAACCATTA
* * * *
571876 TTTTAATTAAAATTTTAAATTTTGTAAGTGTAAAACTATC
1 TTTTCATTAAAATTCTAAATTTTGTAAGGGCAAAACTATC
* * * *
571916 ATTTCAACTAAAATTCTAAATTTTGTAGGGGCAAAACTGTGC
1 TTTTC-ATTAAAATTCTAAATTTTGTAAGGGCAAAACTAT-C
571958 TTTTCATTAAAATT
1 TTTTCATTAAAATT
571972 TCCAATGTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
40 3 0.07
41 36 0.82
42 5 0.11
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (40 bp):
TTTTCATTAAAATTCTAAATTTTGTAAGGGCAAAACTATC
Found at i:575798 original size:84 final size:84
Alignment explanation
Indices: 575657--575820 Score: 319
Period size: 84 Copynumber: 2.0 Consensus size: 84
575647 CAGAGAACTT
*
575657 TAGAATGTGTGATCCATTATTTCATTCTTTCTAGCTCTTCTATTGCTCATGTAACTTGACAAATG
1 TAGAATGTGTGATCCATTATTTCATTCTTTCTAGCTCTTCTATTACTCATGTAACTTGACAAATG
575722 AGTTAGTGTTCACAAACCA
66 AGTTAGTGTTCACAAACCA
575741 TAGAATGTGTGATCCATTATTTCATTCTTTCTAGCTCTTCTATTACTCATGTAACTTGACAAATG
1 TAGAATGTGTGATCCATTATTTCATTCTTTCTAGCTCTTCTATTACTCATGTAACTTGACAAATG
575806 AGTTAGTGTTCACAA
66 AGTTAGTGTTCACAA
575821 GACACATGGA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (84 bp):
TAGAATGTGTGATCCATTATTTCATTCTTTCTAGCTCTTCTATTACTCATGTAACTTGACAAATG
AGTTAGTGTTCACAAACCA
Found at i:576712 original size:50 final size:50
Alignment explanation
Indices: 576632--576735 Score: 181
Period size: 50 Copynumber: 2.1 Consensus size: 50
576622 CAAATTAATC
* * *
576632 TTTTCCTGTCTTCCTAATTAAAATGACATAACCGATAAGAAAAACTGATT
1 TTTTACTGTCTTCCTAACTAAAATGACATAACCAATAAGAAAAACTGATT
576682 TTTTACTGTCTTCCTAACTAAAATGACATAACCAATAAGAAAAACTGATT
1 TTTTACTGTCTTCCTAACTAAAATGACATAACCAATAAGAAAAACTGATT
576732 TTTT
1 TTTT
576736 TAATATTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (50 bp):
TTTTACTGTCTTCCTAACTAAAATGACATAACCAATAAGAAAAACTGATT
Found at i:581224 original size:6 final size:6
Alignment explanation
Indices: 581213--581269 Score: 80
Period size: 6 Copynumber: 9.7 Consensus size: 6
581203 GACACGTATT
* * *
581213 ACCACG ACCACG ACCACG ACCTCG A-CTCG ACCTCG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
581260 ACCACG ACCA
1 ACCACG ACCA
581270 TGAGCCGATC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.30, C:0.49, G:0.16, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:581243 original size:23 final size:23
Alignment explanation
Indices: 581217--581261 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
581207 CGTATTACCA
*
581217 CGACCACGACCACGACCTCGACT
1 CGACCACGACCACGACCACGACT
*
581240 CGACCTCGACCACGACCACGAC
1 CGACCACGACCACGACCACGAC
581262 CACGACCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.49, G:0.18, T:0.07
Consensus pattern (23 bp):
CGACCACGACCACGACCACGACT
Found at i:587158 original size:6 final size:6
Alignment explanation
Indices: 587147--587207 Score: 104
Period size: 6 Copynumber: 10.2 Consensus size: 6
587137 GACACGTATT
* *
587147 ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
587195 ACCACG ACCACG A
1 ACCACG ACCACG A
587208 ACCGAGCCGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.31, C:0.49, G:0.16, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:597385 original size:30 final size:30
Alignment explanation
Indices: 597351--597415 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
597341 CCCGAAGGAC
*
597351 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAA
597381 CTATCCAGAGGTCATAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAA
*
597411 TTATC
1 CTATC
597416 AATATGTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCAGTAA
Found at i:598462 original size:19 final size:19
Alignment explanation
Indices: 598438--598481 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
598428 TTGAAGGTGT
*
598438 ATCGATGCACAGGTAGTGC
1 ATCGATGCACAAGTAGTGC
598457 ATCGATGCACAAGTAGTGC
1 ATCGATGCACAAGTAGTGC
598476 ATCGAT
1 ATCGAT
598482 ACACTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (19 bp):
ATCGATGCACAAGTAGTGC
Found at i:598604 original size:63 final size:64
Alignment explanation
Indices: 598454--598612 Score: 169
Period size: 63 Copynumber: 2.5 Consensus size: 64
598444 GCACAGGTAG
* *** ** *
598454 TGCATCGATGCACAAGTAGTGCATCGATACACTCTTTTAATCTAAAAACATCGAATGCAATTGG
1 TGCATCGATGCACAGGTAGTGCATCGATACACTCCAGTAATAAAAAAACATCGAATGCAATTGA
* * * * * *
598518 TGCATCGATGCATAAGGCA-TGCATCGATGCA-TCCAGTAATAAAAAAACATCGAATGTATTTTA
1 TGCATCGATGCA-CAGGTAGTGCATCGATACACTCCAGTAATAAAAAAACATCGAATGCAATTGA
*
598581 TGCACCGATGCACAGGTAGTGCATCGATACAC
1 TGCATCGATGCACAGGTAGTGCATCGATACAC
598613 CGATAGGGAA
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
62 4 0.05
63 45 0.60
64 23 0.31
65 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCACAGGTAGTGCATCGATACACTCCAGTAATAAAAAAACATCGAATGCAATTGA
Found at i:599623 original size:103 final size:103
Alignment explanation
Indices: 599398--599615 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
599388 GTCGAGGGTC
599398 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
599463 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTATTAAAGAATGA
599501 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
599566 TTGATCCCTAGTATATGTATATGATTCTTAAAGAATGA
66 TTGATCCCTAGCATATGTATATGATTATTAAAGAATGA
599604 TATGTGGTCCTT
1 TATGTGGTCCTT
599616 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTATTAAAGAATGA
Found at i:599671 original size:23 final size:23
Alignment explanation
Indices: 599645--599697 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
599635 ATTACGGTGT
*
599645 AATTCTACGTGGCACTCCGATGC
1 AATTATACGTGGCACTCCGATGC
* * * *
599668 AATTATATGTGGTACTTCGGTGC
1 AATTATACGTGGCACTCCGATGC
599691 AATTATA
1 AATTATA
599698 TGAGCTGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (23 bp):
AATTATACGTGGCACTCCGATGC
Found at i:601036 original size:20 final size:20
Alignment explanation
Indices: 601008--601061 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
600998 TTAATTAAGG
*
601008 CATGCATCGATGCACTACAC
1 CATGTATCGATGCACTACAC
601028 CATGTATCGATGCACTACAC
1 CATGTATCGATGCACTACAC
601048 CATGTATCGATGCA
1 CATGTATCGATGCA
601062 TCCTTGGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (20 bp):
CATGTATCGATGCACTACAC
Found at i:603014 original size:12 final size:12
Alignment explanation
Indices: 602977--603016 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
602967 AATTGTGTAT
602977 ATTTTTATAAT-
1 ATTTTTATAATA
*
602988 ATTTTTATTACTA
1 ATTTTTA-TAATA
603001 ATTTTTATAATA
1 ATTTTTATAATA
603013 ATTT
1 ATTT
603017 AAATGCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.28
12 11 0.44
13 7 0.28
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTTTATAATA
Found at i:603521 original size:10 final size:10
Alignment explanation
Indices: 603508--603532 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
603498 TAAAAAACTC
603508 AAAAATTTAA
1 AAAAATTTAA
603518 AAAAATTTAA
1 AAAAATTTAA
603528 AAAAA
1 AAAAA
603533 GTCCCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:603942 original size:2 final size:2
Alignment explanation
Indices: 603937--603966 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
603927 CTTTTTTGTA
603937 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
603967 TAATCTGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:604215 original size:18 final size:18
Alignment explanation
Indices: 604189--604225 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
604179 AAAAAAAACA
*
604189 ATAATAATAACGACACTT
1 ATAAGAATAACGACACTT
*
604207 ATAAGAATAACGGCACTT
1 ATAAGAATAACGACACTT
604225 A
1 A
604226 GCCGTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (18 bp):
ATAAGAATAACGACACTT
Found at i:611545 original size:30 final size:30
Alignment explanation
Indices: 611505--611573 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
611495 TGTTTTCTTT
611505 GTGTTCGTTTATTTCTTTTTG-AAGATGTTC
1 GTGTTCGTTTATTTCTTTTTGAAAG-TGTTC
*
611535 GTGTTTGTTTATTTCTTTTTGAAAGTGTTC
1 GTGTTCGTTTATTTCTTTTTGAAAGTGTTC
*
611565 GTGTCCGTT
1 GTGTTCGTT
611574 CGTTTAGCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 32 0.91
31 3 0.09
ACGTcount: A:0.12, C:0.10, G:0.22, T:0.57
Consensus pattern (30 bp):
GTGTTCGTTTATTTCTTTTTGAAAGTGTTC
Found at i:612741 original size:2 final size:2
Alignment explanation
Indices: 612734--612808 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
612724 TGCTATTAAC
612734 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
612776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
612809 CTTATCTTGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:613452 original size:40 final size:40
Alignment explanation
Indices: 613405--613481 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
613395 GAACAGAGGT
*
613405 CACTGGTTGGTAGCAGCTTGGAATAAACAAAGTGGAAGGC
1 CACTGGTTGGTAGCAGCTTGGAACAAACAAAGTGGAAGGC
*
613445 CACTGGTTGGTAGCAGTTTGGAACAAACAAAGTGGAA
1 CACTGGTTGGTAGCAGCTTGGAACAAACAAAGTGGAA
613482 TAATAGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (40 bp):
CACTGGTTGGTAGCAGCTTGGAACAAACAAAGTGGAAGGC
Found at i:618691 original size:18 final size:19
Alignment explanation
Indices: 618655--618695 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
618645 ATTTGATTTT
*
618655 TAAACTAAATATTATAAAA
1 TAAACTAAATATAATAAAA
618674 TAAACTAAA-ATAATAAAA
1 TAAACTAAATATAATAAAA
618692 TAAA
1 TAAA
618696 ATATTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAACTAAATATAATAAAA
Found at i:620867 original size:42 final size:41
Alignment explanation
Indices: 620807--620896 Score: 144
Period size: 42 Copynumber: 2.2 Consensus size: 41
620797 TTCTCTCTCT
*
620807 CTCTCTATCTCTCTCATCCATCATCACGTATGAACCCGCAA
1 CTCTCTATCTCTCGCATCCATCATCACGTATGAACCCGCAA
* *
620848 CTCTCTACTCTCTCGCATCCATCATCACGTGTGAACCCTCAA
1 CTCTCTA-TCTCTCGCATCCATCATCACGTATGAACCCGCAA
620890 CTCTCTA
1 CTCTCTA
620897 ATATTAGACC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 7 0.16
42 38 0.84
ACGTcount: A:0.22, C:0.40, G:0.08, T:0.30
Consensus pattern (41 bp):
CTCTCTATCTCTCGCATCCATCATCACGTATGAACCCGCAA
Found at i:622869 original size:20 final size:20
Alignment explanation
Indices: 622841--622886 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
622831 AAGAGAATTA
*
622841 AAAAAACTTAATTTATTTAC
1 AAAAGACTTAATTTATTTAC
*
622861 AAAAGACTTAATTTATTTAT
1 AAAAGACTTAATTTATTTAC
622881 AAAAGA
1 AAAAGA
622887 GCCCTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (20 bp):
AAAAGACTTAATTTATTTAC
Found at i:627240 original size:44 final size:45
Alignment explanation
Indices: 627187--627289 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
627177 CACATTCAAT
* *
627187 GTGCATCGATGCA-CTCTTT-AAA-GAAGAAACATCGAATGCAATTA
1 GTGCATCGATGCATCCCTTTGAAATG-A-AAACATCGAAGGCAATTA
* *
627231 GTGCATCGATGCATCCCTTTGAAATGAAAACATCGAAGGTAATTT
1 GTGCATCGATGCATCCCTTTGAAATGAAAACATCGAAGGCAATTA
*
627276 GTGTATCGATGCAT
1 GTGCATCGATGCAT
627290 AGGTAGTGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 13 0.25
45 33 0.65
46 4 0.08
47 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (45 bp):
GTGCATCGATGCATCCCTTTGAAATGAAAACATCGAAGGCAATTA
Found at i:627341 original size:20 final size:20
Alignment explanation
Indices: 627316--627353 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
627306 CACATGTTAA
627316 AGAATTCATCGATGCACTGT
1 AGAATTCATCGATGCACTGT
627336 AGAATTCATCGATGCACT
1 AGAATTCATCGATGCACT
627354 TCAAGGGGAA
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:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (20 bp):
AGAATTCATCGATGCACTGT
Found at i:628072 original size:21 final size:18
Alignment explanation
Indices: 628032--628080 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 18
628022 GTCTACGCGT
628032 TCATTCGGGACATAGTGG
1 TCATTCGGGACATAGTGG
*
628050 TCCTTCGGGACATCTACGTGG
1 TCATTCGGGACA--TA-GTGG
628071 TCATTCGGGA
1 TCATTCGGGA
628081 TCAGAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
20 2 0.08
21 13 0.50
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (18 bp):
TCATTCGGGACATAGTGG
Found at i:633389 original size:23 final size:23
Alignment explanation
Indices: 633363--633431 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
633353 CACCACAGCT
*
633363 CGTACAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
633386 CGTAGAATTGCACC-AGAGTGCCG
1 CGTAGAATTGCACCGA-AGTGCCA
*
633409 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
633432 TATAATAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:634476 original size:64 final size:65
Alignment explanation
Indices: 634403--634564 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 65
634393 ATTGTTTGAA
* *** *
634403 GGTGTATCGATGCACAGGTAGTGCATCGATGCACT-CTTTTAATATAA-AAACATCGAATGCAAT
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCACTCCCAGTAATA-AACAAACATCAAATGCAAT
634466 T
65 T
* * * *
634467 GGTGCATCGATGCATAAGGCA-TGCATCGATGCA-TCCCAGTAATAAACAAACATCAAATGTATT
1 GGTGCATCGATGCA-CAGGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCAAATGCAAT
634530 T
65 T
** * *
634531 TATGCACCGATGCACATGTAGTGCATCGATGCAC
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCAC
634565 CGATAGGGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
63 6 0.08
64 68 0.87
65 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (65 bp):
GGTGCATCGATGCACAGGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCAAATGCAATT
Found at i:635548 original size:103 final size:103
Alignment explanation
Indices: 635364--635581 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
635354 GTCGAGGGTC
635364 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
635429 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
635467 TATGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTTGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
635532 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
635570 TATGTGGTCCTT
1 TATGTGGTCCTT
635582 ATGGATATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:635664 original size:23 final size:23
Alignment explanation
Indices: 635588--635665 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
635578 CCTTATGGAT
*
635588 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
635612 ATTCTACGTGACACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
635635 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
635658 ATTATATG
1 ATTATATG
635666 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:637209 original size:16 final size:17
Alignment explanation
Indices: 637178--637215 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
637168 GATCTTTAGC
637178 ATATA-ATTTATCATAT
1 ATATATATTTATCATAT
637194 ATATATATTTAT-ATAT
1 ATATATATTTATCATAT
*
637210 ACATAT
1 ATATAT
637216 CAGCGCTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATTTATCATAT
Found at i:640748 original size:21 final size:21
Alignment explanation
Indices: 640722--640766 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
640712 GATTTCTGGG
* *
640722 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
640743 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
640764 CAA
1 CAA
640767 CGAACAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:641691 original size:2 final size:2
Alignment explanation
Indices: 641684--641713 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
641674 AATCTTGAGG
*
641684 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
641714 GAAATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:642522 original size:23 final size:22
Alignment explanation
Indices: 642463--642529 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
642453 TATGGACATC
*
642463 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
642485 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
642507 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
642530 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:645034 original size:2 final size:2
Alignment explanation
Indices: 645027--645103 Score: 113
Period size: 2 Copynumber: 39.0 Consensus size: 2
645017 CTATTATACA
645027 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
* *
645069 AT AT AGT TT TT A- AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
645104 GGTTTCTTAA
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
1 2 0.03
2 67 0.96
3 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:645120 original size:32 final size:32
Alignment explanation
Indices: 645027--645126 Score: 122
Period size: 30 Copynumber: 3.3 Consensus size: 32
645017 CTATTATACA
* *
645027 ATATATATATATATATA-TATAT-ATATATAT
1 ATATATATATATATATAGTTTTTAATATATAT
645057 ATATATATATATATATAGTTTTTAATATATAT
1 ATATATATATATATATAGTTTTTAATATATAT
*
645089 ATATATATATA-ATATGGTTTCTTAA-AT-TAT
1 ATATATATATATATATAGTTT-TTAATATATAT
645119 ATA-ATATA
1 ATATATATA
645127 CATTTTGAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
29 5 0.08
30 23 0.36
31 13 0.20
32 23 0.36
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (32 bp):
ATATATATATATATATAGTTTTTAATATATAT
Found at i:645720 original size:21 final size:21
Alignment explanation
Indices: 645678--645720 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
645668 CCTTACCCCT
**
645678 AACTTAAAACCCTAAATTATA
1 AACTTAAAACCCTAAAGCATA
*
645699 AACTTTAAACCCTAAAGCATA
1 AACTTAAAACCCTAAAGCATA
645720 A
1 A
645721 CCATATTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (21 bp):
AACTTAAAACCCTAAAGCATA
Found at i:646110 original size:31 final size:31
Alignment explanation
Indices: 646048--646119 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
646038 CTTGTTAAAT
* * * *
646048 TATTACAAAATGATCATAAAATTTATCAAAA
1 TATTACAAAATAACCATAAAACTTATAAAAA
646079 TATTACAAAATAACCACT-AAACTTATAAAAA
1 TATTACAAAATAACCA-TAAAACTTATAAAAA
*
646110 TATTATAAAA
1 TATTACAAAA
646120 AGCTCATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.31
Consensus pattern (31 bp):
TATTACAAAATAACCATAAAACTTATAAAAA
Found at i:646756 original size:31 final size:31
Alignment explanation
Indices: 646718--646777 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
646708 GGATCATACA
*
646718 TTTTTTTTTG-AAGGACGGATCATACACTTT
1 TTTTTTTTTGAAAGAACGGATCATACACTTT
*
646748 TTTTTTTTTGAAATAACGGATCATACACTT
1 TTTTTTTTTGAAAGAACGGATCATACACTT
646778 GATTGTAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (31 bp):
TTTTTTTTTGAAAGAACGGATCATACACTTT
Found at i:678838 original size:18 final size:18
Alignment explanation
Indices: 678811--678848 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
678801 ACATTTTGTT
*
678811 TCGTATTCTTCTTTGAAA
1 TCGTACTCTTCTTTGAAA
678829 TCGTACTCTTCTTTGAAA
1 TCGTACTCTTCTTTGAAA
678847 TC
1 TC
678849 AAGTTACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (18 bp):
TCGTACTCTTCTTTGAAA
Found at i:680934 original size:31 final size:31
Alignment explanation
Indices: 680899--680957 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
680889 GCGAGCCTAA
* *
680899 AATTTTCAAGCTCGACTCGAACTCGAAAGAT
1 AATTTTCAAACTCGACTCAAACTCGAAAGAT
* *
680930 AATTTTGAAATTCGACTCAAACTCGAAA
1 AATTTTCAAACTCGACTCAAACTCGAAA
680958 AGGCTCGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (31 bp):
AATTTTCAAACTCGACTCAAACTCGAAAGAT
Found at i:681010 original size:24 final size:23
Alignment explanation
Indices: 680983--681028 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
680973 AAAAAATAGT
*
680983 AGCTCGATTGAAGCTCGAGACTCG
1 AGCTCGATTCAAGCTCGA-ACTCG
681007 AGCTCGATTCAAGCTCGAACTC
1 AGCTCGATTCAAGCTCGAACTC
681029 AATTCAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (23 bp):
AGCTCGATTCAAGCTCGAACTCG
Found at i:681033 original size:17 final size:17
Alignment explanation
Indices: 681003--681079 Score: 109
Period size: 17 Copynumber: 4.5 Consensus size: 17
680993 AAGCTCGAGA
*
681003 CTCGAGCTCGATTCAAG
1 CTCGAACTCGATTCAAG
*
681020 CTCGAACTCAATTCAAG
1 CTCGAACTCGATTCAAG
* *
681037 CTCGTACTCGATTTAAG
1 CTCGAACTCGATTCAAG
*
681054 CTCGTACTCGATTCAAG
1 CTCGAACTCGATTCAAG
681071 CTCGAACTC
1 CTCGAACTC
681080 AAACTCGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (17 bp):
CTCGAACTCGATTCAAG
Found at i:684494 original size:64 final size:63
Alignment explanation
Indices: 684397--684537 Score: 162
Period size: 64 Copynumber: 2.2 Consensus size: 63
684387 CATATTCAAT
* * *
684397 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAA-TTGATGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTTG-TGCATCGATGCAT-AGGTA
* * * *
684460 GTGCATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCCTTAAAGAAG-AAACATCGAAGGCAATTTGTGCATCGATGCATAGGTA
684524 GTGCATCGATGCAC
1 GTGCATCGATGCAC
684538 ATGTTAAAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
63 18 0.27
64 46 0.69
65 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTTGTGCATCGATGCATAGGTA
Found at i:685491 original size:31 final size:31
Alignment explanation
Indices: 685453--685517 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
685443 AGAGTCGAGG
* *
685453 GTTTACCTATG-TCTTTCGAGACATATGGATA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
*
685484 GTTTACCTAGGTTCTTCGAGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
685515 GTT
1 GTT
685518 GTCGAGGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:686841 original size:14 final size:14
Alignment explanation
Indices: 686818--686912 Score: 66
Period size: 14 Copynumber: 6.3 Consensus size: 14
686808 TCTTAACACA
686818 TAAACCCTAAATTC
1 TAAACCCTAAATTC
* *
686832 TAAACTCTAAATTT
1 TAAACCCTAAATTC
*
686846 TAAATCCTACTGCATAAACTC
1 TAAA--C--C--C-TAAATTC
*
686867 TAAATCCTAAA-TC
1 TAAACCCTAAATTC
*
686880 TTAAACCCTAAAGTC
1 -TAAACCCTAAATTC
686895 TAAACCCTAAATTC
1 TAAACCCTAAATTC
686909 TAAA
1 TAAA
686913 TCTTATCACA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
13 2 0.03
14 47 0.73
15 3 0.05
16 1 0.02
17 1 0.02
20 1 0.02
21 9 0.14
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (14 bp):
TAAACCCTAAATTC
Found at i:692966 original size:53 final size:51
Alignment explanation
Indices: 692654--692980 Score: 335
Period size: 51 Copynumber: 6.4 Consensus size: 51
692644 AAAGTATAGT
* * * *
692654 ACTTAACACATACTTATA-CTGATATAA-TAAATAAAAT-AAAAAATATAGC
1 ACTTAACACATACTTACATC-GATGTAAGTGAATAAAATAAAAAAATATAAC
* * ** *
692703 ACTTAACACATACTTAAATCGATGT-AGTGAATAAATTAAAGAATGTGTAAC
1 ACTTAACACATACTTACATCGATGTAAGTGAATAAAATAAA-AAAATATAAC
* * * * *
692754 ACTTAACACATATTTATATCGGTGTAAGTGAATAAAATAAAAAAGTATAAT
1 ACTTAACACATACTTACATCGATGTAAGTGAATAAAATAAAAAAATATAAC
692805 ACTTAACACATACTTACATCGATGTAAGTGAATAAAATAAAAAAATATAAC
1 ACTTAACACATACTTACATCGATGTAAGTGAATAAAATAAAAAAATATAAC
*
692856 ACTTAACACATATTTACATCGATGTAAGT-AGATAAAATAAAAATATATATATA-
1 ACTTAACACATACTTACATCGATGTAAGTGA-ATAAAATAAAAA-A-ATATA-AC
* * * *
692909 ACTTAACACATATTTACA-CTAATGTAAGTGAATAAAATAAAATAAAATGTAGC
1 ACTTAACACATACTTACATC-GATGTAAGTGAATAAAAT-AAA-AAAATATAAC
* *
692962 ACTTAATATATACTTACAT
1 ACTTAACACATACTTACAT
692981 TAGTGTAAGT
Statistics
Matches: 236, Mismatches: 27, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
48 1 0.00
49 29 0.12
50 4 0.02
51 121 0.51
52 16 0.07
53 57 0.24
54 6 0.03
55 2 0.01
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (51 bp):
ACTTAACACATACTTACATCGATGTAAGTGAATAAAATAAAAAAATATAAC
Found at i:693198 original size:12 final size:12
Alignment explanation
Indices: 693181--693208 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
693171 AAAGATAATA
693181 AATTATAAATTT
1 AATTATAAATTT
693193 AATTATAAATTT
1 AATTATAAATTT
693205 AATT
1 AATT
693209 TATTAACGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTATAAATTT
Found at i:694790 original size:17 final size:18
Alignment explanation
Indices: 694746--694790 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
694736 ATTCATACAT
694746 CTAGTTCATTGAATAAAA
1 CTAGTTCATTGAATAAAA
* * *
694764 TTAATTCATT-AATTAAA
1 CTAGTTCATTGAATAAAA
694781 CTAGTTCATT
1 CTAGTTCATT
694791 CATCAACATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (18 bp):
CTAGTTCATTGAATAAAA
Found at i:695303 original size:76 final size:76
Alignment explanation
Indices: 695212--695358 Score: 258
Period size: 76 Copynumber: 1.9 Consensus size: 76
695202 ATTCACAACG
* * *
695212 TTAATTTTGCACTTTCAGAATCATTTCAAGCAGTGCGGAGTTTCTTACTAGAATCACGATCGGGC
1 TTAATTTTGCACTTTCAGAATCACTTCAAGCACTGCAGAGTTTCTTACTAGAATCACGATCGGGC
695277 AACAACGTACA
66 AACAACGTACA
*
695288 TTAATTTTGCACTTTCAGAATCACTTCAAGCACTGCAGAGTTTCTTATTAGAATCACGATCGGGC
1 TTAATTTTGCACTTTCAGAATCACTTCAAGCACTGCAGAGTTTCTTACTAGAATCACGATCGGGC
695353 AACAAC
66 AACAAC
695359 ATATATAACT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (76 bp):
TTAATTTTGCACTTTCAGAATCACTTCAAGCACTGCAGAGTTTCTTACTAGAATCACGATCGGGC
AACAACGTACA
Found at i:697309 original size:19 final size:18
Alignment explanation
Indices: 697282--697334 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
697272 TAAATGGGAC
*
697282 AAATTTATAAAAATTAAA
1 AAATATATAAAAATTAAA
**
697300 AATATATATATTAA-TAAA
1 AA-ATATATAAAAATTAAA
*
697318 AAATATAAAAAAATTAA
1 AAATATATAAAAATTAA
697335 TATTTGCAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 8 0.30
18 11 0.41
19 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATATAAAAATTAAA
Found at i:703418 original size:15 final size:14
Alignment explanation
Indices: 703398--703428 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
703388 GAAACAAGTA
703398 AAAAGAACATACCTG
1 AAAAGAACATA-CTG
703413 AAAAGAACATACTG
1 AAAAGAACATACTG
703427 AA
1 AA
703429 GTTAAAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAAGAACATACTG
Found at i:709610 original size:41 final size:41
Alignment explanation
Indices: 709550--709636 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
709540 TCAAGATTTA
* * *
709550 AATTATTTTTAGTTGTCAATCGTTGAAGAATCTTTATTCAT
1 AATTATTTTCAGTTCTCAATCATTGAAGAATCTTTATTCAT
709591 AATTATTTTCAGTTCTCAATCATTGAAGAATCTTTATTCAT
1 AATTATTTTCAGTTCTCAATCATTGAAGAATCTTTATTCAT
709632 AATTA
1 AATTA
709637 ATATTATTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.47
Consensus pattern (41 bp):
AATTATTTTCAGTTCTCAATCATTGAAGAATCTTTATTCAT
Found at i:713285 original size:19 final size:22
Alignment explanation
Indices: 713237--713286 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
713227 TTGCTCACCT
713237 TTGAATTCAACAAATTCAGACTAA
1 TTGAATTCAACAAATTCAGAC--A
713261 TTGAATTC-ACAAATTCAG-C-
1 TTGAATTCAACAAATTCAGACA
713280 TTGAATT
1 TTGAATT
713287 TTCAACAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.27
22 1 0.04
23 10 0.38
24 8 0.31
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (22 bp):
TTGAATTCAACAAATTCAGACA
Found at i:715940 original size:23 final size:23
Alignment explanation
Indices: 715914--715958 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
715904 CACCACAACT
*
715914 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
715937 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
715959 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:716177 original size:150 final size:150
Alignment explanation
Indices: 715934--716242 Score: 555
Period size: 150 Copynumber: 2.1 Consensus size: 150
715924 CACCGAAGTG
715934 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
*
715999 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGTTCCACAGAA
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGTTCCAAAGAA
*
716064 TATATATATATCCCGAAAGA
131 TATACATATATCCCGAAAGA
*
716084 CCGCGTAGAATTGCCCCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
*
716149 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCTAAGACTTCACACATGTTCCAAAGAA
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGTTCCAAAGAA
* *
716214 TATACATATGTCCCGAAGGA
131 TATACATATATCCCGAAAGA
*
716234 CCGTGTAGA
1 CCGCGTAGA
716243 CCCTCTACCC
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (150 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGTTCCAAAGAA
TATACATATATCCCGAAAGA
Found at i:722877 original size:23 final size:23
Alignment explanation
Indices: 722851--722895 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
722841 CACCACAGCT
*
722851 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
722874 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
722896 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:723063 original size:150 final size:150
Alignment explanation
Indices: 722863--723179 Score: 573
Period size: 150 Copynumber: 2.1 Consensus size: 150
722853 TATAAATGCA
*
722863 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATTTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
722927 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
* *
722992 TCCACAGAATATATATATATC
130 TCCAAAGAATATACATATATC
723013 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
*
723078 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCTAAGACTTCACACATGTT
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGTT
*
723143 CCAAAGAATATACATATGTC
131 CCAAAGAATATACATATATC
723163 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
723180 CCCTCTACCC
Statistics
Matches: 161, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 1 0.01
150 160 0.99
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (150 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGTT
CCAAAGAATATACATATATC
Found at i:725813 original size:22 final size:21
Alignment explanation
Indices: 725761--725820 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
725751 GATTTCTGGG
725761 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
725782 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
*
725802 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
725821 CCCTCAAACG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 20 0.56
21 3 0.08
22 13 0.36
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:727284 original size:91 final size:94
Alignment explanation
Indices: 727176--727376 Score: 273
Period size: 103 Copynumber: 2.1 Consensus size: 94
727166 GGGTCTACGC
* *
727176 GGTCCTTCGGGACATATATGTATTCTTTGGAAC-A-T-GTGAGACACATACTTGATCCTTGGCAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACGACTGGTGAGACACATACTTGATCCCTAGCAT
727238 ATGTATATGATTCTTAAGGAATGATATGT
66 ATGTATATGATTCTTAAGGAATGATATGT
727267 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAAC------G-A--CTGGTGAGACACATACTTGAT
*
727332 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
57 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
727370 GGTCCTT
1 GGTCCTT
727377 ATGGACATTA
Statistics
Matches: 95, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
91 33 0.35
99 1 0.01
102 1 0.01
103 60 0.63
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (94 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACGACTGGTGAGACACATACTTGATCCCTAGCAT
ATGTATATGATTCTTAAGGAATGATATGT
Found at i:727426 original size:23 final size:23
Alignment explanation
Indices: 727393--727460 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
727383 ATTATTATAT
*
727393 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
727416 GGCACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
*
727439 GGCACTCCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
727461 AGCTGTGGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:728934 original size:30 final size:29
Alignment explanation
Indices: 728853--728934 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
728843 TGGTGACTGG
* *
728853 AGTGTAAATTTTAAAAGTTTACGGACTAA
1 AGTGTAAATTTTAAAAGTTTAAGAACTAA
*
728882 AGTGTAAAATTGTAAAAGTTTAAGAACTAAA
1 AGTGT-AAATTTTAAAAGTTTAAGAACT-AA
728913 AGTGTAAATTTTCAAAA-TTTAA
1 AGTGTAAATTTT-AAAAGTTTAA
728935 ATTTTCGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.11
30 30 0.65
31 11 0.24
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (29 bp):
AGTGTAAATTTTAAAAGTTTAAGAACTAA
Found at i:734704 original size:24 final size:24
Alignment explanation
Indices: 734640--734714 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
734630 AAGCAAAGTC
* *
734640 AACTTAGACCGAGTTGATCGAGTT
1 AACTCAGATCGAGTTGATCGAGTT
* *
734664 AACTCAGATTGAATTGATCGAGTT
1 AACTCAGATCGAGTTGATCGAGTT
* * *
734688 AACTCAGATCGGGTTGACCAAGTT
1 AACTCAGATCGAGTTGATCGAGTT
734712 AAC
1 AAC
734715 CCGTTAACCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (24 bp):
AACTCAGATCGAGTTGATCGAGTT
Found at i:736362 original size:30 final size:30
Alignment explanation
Indices: 736326--736397 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
736316 CCCGAAGGAC
* *
736326 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
736356 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
736386 CTGTCCATAGGT
1 CTATCCAGAGGT
736398 TCCGAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:736422 original size:31 final size:31
Alignment explanation
Indices: 736384--736634 Score: 255
Period size: 31 Copynumber: 8.0 Consensus size: 31
736374 GATCCTCGGC
* *
736384 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
736415 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
736446 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
*
736477 ATTA-TGTCCATATGTTCCGTAGAACATAGGTA
1 A--ACTGTCCATATGTTCCGAAGAACATAGGTA
*
736509 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
736540 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
*
736572 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
736603 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
736635 TACCCTCAAC
Statistics
Matches: 183, Mismatches: 20, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
30 10 0.05
31 95 0.52
32 68 0.37
33 10 0.05
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:736500 original size:63 final size:63
Alignment explanation
Indices: 736409--736637 Score: 424
Period size: 63 Copynumber: 3.7 Consensus size: 63
736399 CCGAAGAACC
* *
736409 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
*
736471 TAGGTAATTATGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
736534 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
736597 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
736638 CCTCAACTCT
Statistics
Matches: 162, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
62 7 0.04
63 155 0.96
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:741474 original size:30 final size:30
Alignment explanation
Indices: 741438--741509 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
741428 CCCGAAGGAC
* *
741438 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
741468 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
741498 CTGTCCATAGGT
1 CTATCCAGAGGT
741510 TCCGAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:741534 original size:31 final size:31
Alignment explanation
Indices: 741496--741683 Score: 204
Period size: 31 Copynumber: 6.0 Consensus size: 31
741486 GATCCTCGGC
* *
741496 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
741527 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
741558 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
741589 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
*
741621 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
741652 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
741684 TACCCTCAAC
Statistics
Matches: 131, Mismatches: 16, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
30 6 0.05
31 73 0.56
32 46 0.35
33 6 0.05
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:741612 original size:63 final size:63
Alignment explanation
Indices: 741521--741686 Score: 307
Period size: 63 Copynumber: 2.7 Consensus size: 63
741511 CCGAAGAACC
* *
741521 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
741583 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
741646 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
741687 CCTCAACTCT
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
62 7 0.07
63 94 0.93
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:745909 original size:16 final size:14
Alignment explanation
Indices: 745864--745919 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
745854 TTATTTTTGA
*
745864 AAATAAAGTAATTAT
1 AAATAAAAT-ATTAT
*
745879 AACTTAAAA-ATTAT
1 AA-ATAAAATATTAT
745893 AATATAATAATATTAT
1 AA-ATAA-AATATTAT
745909 AAATAAAATAT
1 AAATAAAATAT
745920 ATTAATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 15 0.44
15 8 0.24
16 11 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
AAATAAAATATTAT
Found at i:746546 original size:19 final size:20
Alignment explanation
Indices: 746504--746548 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
746494 AAATATTCTG
*
746504 TTAATAAAAATAAAACTCAA
1 TTAATAAAAATAAAACTAAA
*
746524 -TAATTAAAATAAAA-TAAA
1 TTAATAAAAATAAAACTAAA
746542 TTAATAA
1 TTAATAA
746549 TATAAATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAATAAAAATAAAACTAAA
Found at i:751820 original size:21 final size:21
Alignment explanation
Indices: 751796--751842 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
751786 GGAGTACGGA
751796 GGACGGCGGACGGAAAGCGAC
1 GGACGGCGGACGGAAAGCGAC
* * *
751817 GGACGGTGGATGGCAAGCGAC
1 GGACGGCGGACGGAAAGCGAC
751838 GGACG
1 GGACG
751843 ACGATGGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.49, T:0.04
Consensus pattern (21 bp):
GGACGGCGGACGGAAAGCGAC
Found at i:752106 original size:2 final size:2
Alignment explanation
Indices: 752101--752125 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
752091 TCTCTCTCTC
752101 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
752126 TGATTGTATT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:768946 original size:7 final size:7
Alignment explanation
Indices: 768934--768959 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
768924 TCTGCCCCTA
768934 GAAATTT
1 GAAATTT
768941 GAAATTT
1 GAAATTT
768948 GAAATTT
1 GAAATTT
768955 GAAAT
1 GAAAT
768960 CGCCTAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (7 bp):
GAAATTT
Found at i:773117 original size:23 final size:23
Alignment explanation
Indices: 773091--773159 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
773081 CACCACAGCT
*
773091 CGTATAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
*
773114 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
*
773137 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
773160 TATAATAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:773623 original size:21 final size:21
Alignment explanation
Indices: 773597--773650 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
773587 GCGTTGCATT
773597 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
773618 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
773639 TCGCGTTGCGAT
1 TCGCGTTGCGAT
773651 TTTCCATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:773668 original size:20 final size:20
Alignment explanation
Indices: 773643--773710 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
773633 TGAAAATCGC
773643 GTTGCGATTTTCCATTTCAG
1 GTTGCGATTTTCCATTTCAG
* *
773663 GTTGCGATTTTCCGTTTCAT
1 GTTGCGATTTTCCATTTCAG
*
773683 GTTGCGATTTTCCAGTTC-G
1 GTTGCGATTTTCCATTTCAG
773702 CGTTGCGAT
1 -GTTGCGAT
773711 AGTCTACAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTGCGATTTTCCATTTCAG
Found at i:774476 original size:19 final size:19
Alignment explanation
Indices: 774452--774521 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
774442 TTTTTTAACT
774452 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
* * **
774471 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG--AA-TTTGGAAA
774493 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
774512 ATCGCAACGA
1 ATCGCAACGA
774522 CATTGTAGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 23 0.57
20 2 0.05
21 2 0.05
22 13 0.32
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:774538 original size:21 final size:20
Alignment explanation
Indices: 774445--774562 Score: 84
Period size: 21 Copynumber: 5.8 Consensus size: 20
774435 AAAATCTTTT
774445 TTTA-ACTATCGCAACGA-A
1 TTTAGACTATCGCAACGACA
* **
774463 TTTGGAAAATCGCAACGACAA
1 TTTAGACTATCGCAACGAC-A
*
774484 CTGTAGACTATCGCAACGA-A
1 -TTTAGACTATCGCAACGACA
* **
774504 TTTGGAAAATCGCAACGACA
1 TTTAGACTATCGCAACGACA
774524 TTGTAGACTATCGCAACG-CGA
1 TT-TAGACTATCGCAACGAC-A
774545 TTTTCA-ACTATCGCAACG
1 -TTT-AGACTATCGCAACG
774563 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
18 3 0.04
19 25 0.32
20 5 0.06
21 27 0.35
22 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
TTTAGACTATCGCAACGACA
Found at i:774540 original size:40 final size:41
Alignment explanation
Indices: 774449--774541 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
774439 TCTTTTTTTA
774449 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
774490 ACTATCGCAACGAATTTGGAAAATCGCAACGAC-ATTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
774530 ACTATCGCAACG
1 ACTATCGCAACG
774542 CGATTTTCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 18 0.35
41 33 0.65
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:774573 original size:24 final size:21
Alignment explanation
Indices: 774530--774589 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 21
774520 GACATTGTAG
774530 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
774551 ACTATCGCAACGTTGCGATTTTCA
1 ACTATCGCAAC---GCGATTTTCA
**
774575 ACTATAACAACGCGA
1 ACTATCGCAACGCGA
774590 AATATCGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 15 0.44
24 19 0.56
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:774613 original size:12 final size:14
Alignment explanation
Indices: 774582--774618 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
774572 TCAACTATAA
774582 CAACGCGAAATATCG
1 CAACGCG-AATATCG
774597 CAACGCGAA-AT-G
1 CAACGCGAATATCG
774609 CAACGCGAAT
1 CAACGCGAAT
774619 TTGCGATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 2 0.10
15 7 0.33
ACGTcount: A:0.41, C:0.27, G:0.22, T:0.11
Consensus pattern (14 bp):
CAACGCGAATATCG
Found at i:780740 original size:78 final size:78
Alignment explanation
Indices: 780652--780810 Score: 282
Period size: 78 Copynumber: 2.0 Consensus size: 78
780642 ATTTTTTTGG
** *
780652 CTTAATACATTTCCATTTATGGTATTCCTTTTAGTTTTCTTGTAGCGTTTTTATTACCTTTTTTA
1 CTTAATACATTTCCATTTATGGTAAACCTTTTAGTTATCTTGTAGCGTTTTTATTACCTTTTTTA
780717 CTTTCTTGAAAAC
66 CTTTCTTGAAAAC
*
780730 CTTAATACATTTCCATTTATGGTAAACCTTTTAGTTATCTTGTAGCGTTTTTATTACCTTTTTTC
1 CTTAATACATTTCCATTTATGGTAAACCTTTTAGTTATCTTGTAGCGTTTTTATTACCTTTTTTA
780795 CTTTCTTGAAAAC
66 CTTTCTTGAAAAC
780808 CTT
1 CTT
780811 TTAGTATATC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (78 bp):
CTTAATACATTTCCATTTATGGTAAACCTTTTAGTTATCTTGTAGCGTTTTTATTACCTTTTTTA
CTTTCTTGAAAAC
Found at i:785329 original size:19 final size:19
Alignment explanation
Indices: 785305--785344 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
785295 ACTTAATTCT
785305 GTTAATCC-ACCTGATTATG
1 GTTAATCCTA-CTGATTATG
785324 GTTAATCCTACTGATTATG
1 GTTAATCCTACTGATTATG
785343 GT
1 GT
785345 CTAGTGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (19 bp):
GTTAATCCTACTGATTATG
Found at i:785944 original size:67 final size:69
Alignment explanation
Indices: 785844--785980 Score: 233
Period size: 67 Copynumber: 2.0 Consensus size: 69
785834 TCGTCATCTA
*
785844 TCTGTTTGCACCCAAGACGTCAACTGTTAGTCAAATAAATGAT-GTCATAATCTTATTAGAGTAT
1 TCTGTTTGCACCCAAGACGTCAACTATTAGTCAAATAAATGATGGTCATAATCTTATTAGAGTAT
785908 GTTG
66 GTTG
*
785912 TCTGTTTGCACCCAAG-CGTCAACTATTAGTCAAATAAATGATGGGTCATAATCTTATTGGAGTA
1 TCTGTTTGCACCCAAGACGTCAACTATTAGTCAAATAAATGAT-GGTCATAATCTTATTAGAGTA
785976 TGTTG
65 TGTTG
785981 CCCATTTGAC
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
67 25 0.38
68 16 0.25
69 24 0.37
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (69 bp):
TCTGTTTGCACCCAAGACGTCAACTATTAGTCAAATAAATGATGGTCATAATCTTATTAGAGTAT
GTTG
Found at i:786846 original size:42 final size:42
Alignment explanation
Indices: 786787--786869 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
786777 CACAGTGACA
*
786787 AGCACAGGCAATAATATCTTCGGTGGTACGTCTGCAACTACC
1 AGCACAGGCAATAATATCTTCGGTGGTACATCTGCAACTACC
* *
786829 AGCACAGGCAATGATATCTTTGGTGGTACATCTGCAACTAC
1 AGCACAGGCAATAATATCTTCGGTGGTACATCTGCAACTAC
786870 AAGCTTAGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (42 bp):
AGCACAGGCAATAATATCTTCGGTGGTACATCTGCAACTACC
Found at i:787009 original size:6 final size:6
Alignment explanation
Indices: 786998--787022 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
786988 GCCACAGCTG
786998 CATCTA CATCTA CATCTA CATCTA C
1 CATCTA CATCTA CATCTA CATCTA C
787023 TATCCAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (6 bp):
CATCTA
Found at i:788626 original size:29 final size:30
Alignment explanation
Indices: 788552--788736 Score: 242
Period size: 29 Copynumber: 6.4 Consensus size: 30
788542 TCCGAAGGAC
* *
788552 CTATCCAAAGG-C-TAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
788580 -AATCCAGAGGTC-TAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
788608 CTATTCAGAGGTCAT-AAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
788637 CTATCCAGATGTCATAAAGATCGTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
788667 CTATCCAGA-GTCATAAAG-TCCTC-GTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
788694 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
788724 CTGTCCATAGGTC
1 CTATCCAGAGGTC
788737 CCGAAGAACC
Statistics
Matches: 139, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.15
28 29 0.21
29 51 0.37
30 38 0.27
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:788714 original size:57 final size:60
Alignment explanation
Indices: 788552--788736 Score: 242
Period size: 57 Copynumber: 3.2 Consensus size: 60
788542 TCCGAAGGAC
* *
788552 CTATCCAAAGG-C-TAAAGATCCTCAGTAA-AATCCAGAGGTC-TAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * *
788608 CTATTCAGAGGTCAT-AAGATCCTCGGTAACTATCCAGATGTCATAAAGATCGTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
788667 CTATCCAGA-GTCATAAAG-TCCTC-GTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
788724 CTGTCCATAGGTC
1 CTATCCAGAGGTC
788737 CCGAAGAACC
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
56 9 0.08
57 53 0.47
58 24 0.21
59 26 0.23
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (60 bp):
CTATCCAGAGGTCATAAAGATCCTCAGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:788753 original size:87 final size:89
Alignment explanation
Indices: 788581--788761 Score: 226
Period size: 87 Copynumber: 2.1 Consensus size: 89
788571 CCTCAGTAAA
*
788581 ATCCAGAGGTCTAAAGATCCTCGGTAACTATTCAGAGGTCATAAGATCCTCGGTAACTATCCAGA
1 ATCCAGAGGTCTAAAGATCCTCGGTAACTATCCAGAGGTCATAAGATCCTCGGTAACTATCCAGA
* * * * *
788646 TGTCATAAAGATCGTCGGT-AACT
66 GGTCACAAAGAACCTAGGTAAACT
*
788669 ATCCAGA-GTCATAAAG-TCCTC-GTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCA
1 ATCCAGAGGTC-TAAAGATCCTCGGTAACTATCCAGAGGTCAT-AAGATCCTCGGTAACTATCCA
* * *
788731 TAGGTCCCGAAGAACCTAGGTAAACT
64 GAGGTCACAAAGAACCTAGGTAAACT
788757 ATCCA
1 ATCCA
788762 TATGTTCTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
86 18 0.22
87 41 0.51
88 21 0.26
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (89 bp):
ATCCAGAGGTCTAAAGATCCTCGGTAACTATCCAGAGGTCATAAGATCCTCGGTAACTATCCAGA
GGTCACAAAGAACCTAGGTAAACT
Done.