Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 106 of 147
Found at i:19487471 original size:15 final size:16
Alignment explanation
Indices: 19487447--19487478 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
19487437 ATTTATAACC
19487447 AAAAAGTATAAATAGT
1 AAAAAGTATAAATAGT
19487463 AAAAA-TATAAATAGT
1 AAAAAGTATAAATAGT
19487478 A
1 A
19487479 TACTGATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (16 bp):
AAAAAGTATAAATAGT
Found at i:19508734 original size:28 final size:28
Alignment explanation
Indices: 19508680--19508756 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
19508670 ACTGTGATCT
* *
19508680 GAACTTGCTTTGATACCAACTCCGGTTA
1 GAACTAGCTCTGATACCAACTCCGGTTA
* * * *
19508708 GAATTGGCTCTGATACCAACTCTGGTTG
1 GAACTAGCTCTGATACCAACTCCGGTTA
*
19508736 GAACTAGCTCTGATACTAACT
1 GAACTAGCTCTGATACCAACT
19508757 ATCAAGGGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (28 bp):
GAACTAGCTCTGATACCAACTCCGGTTA
Found at i:19509809 original size:45 final size:45
Alignment explanation
Indices: 19509760--19509868 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 45
19509750 CTTGACCATT
*
19509760 ATCGACACAAGTTGGCCTTTGATAT-GGTCACTTGCCTCGACCACC
1 ATCGACACAAGTTGGCCCTTGATATAGG-CACTTGCCTCGACCACC
* * * * * *
19509805 ATCGATACAAGCTAGCCCTTGGTGTAGGCACTTGCTTCGACCACC
1 ATCGACACAAGTTGGCCCTTGATATAGGCACTTGCCTCGACCACC
* * *
19509850 ATTGGCACATGTTGGCCCT
1 ATCGACACAAGTTGGCCCT
19509869 AGGTATGAAC
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
45 48 0.96
46 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (45 bp):
ATCGACACAAGTTGGCCCTTGATATAGGCACTTGCCTCGACCACC
Found at i:19528434 original size:181 final size:179
Alignment explanation
Indices: 19528133--19529253 Score: 773
Period size: 181 Copynumber: 6.2 Consensus size: 179
19528123 TAAGTAAGTG
* * * * * * * * * **
19528133 ATTTAAAAAGTGAATATGTTTA-CCAAATTAGTTGAAATAATTATGGCCATTTCAATAATTATCT
1 ATTTAAAAAATAAATTTGTTTATCAAAACTAGTTCAAATAGTTATGACTATTAGAATAATTATCT
* * * * ** * *
19528197 ATTTCAAATTGTTCTTACCTTTTGTTTGGTCATATGACAATTGTTTTTTATCATACAAGCTTATT
66 ATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAATTATTTTGT-TCATACAAGCTTATT
* *
19528262 CGGAATAAAATAATACTAATTTATTAATCTTTCAAAAATTAATAAGTAAAA
130 CGAAATAAAATAA-ACTAATTTATTAATATTTCAAAAATTAATAAGTAAAA
* * * ** * *
19528313 GATTTAAAAAATAAATTTGTTTA-CAAAACCAATTGAAATAGTTATGACTATTAGAGCAGTTATA
1 -ATTTAAAAAATAAATTTGTTTATCAAAACTAGTTCAAATAGTTATGACTATTAGAATAATTATC
* ** *
19528377 TACTTCAAATTATTATAATATTTTATTTTGTCATAAAACAATTATTTATGTTCATACAAGCTTAC
65 TATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAATTATTT-TGTTCATACAAGCTTA-
* * * *
19528442 TT-GAAATAAAATAAATCTAATCTAATAATATTAT-GAAAATTAATAACTAAGAA
128 TTCGAAATAAAATAAA-CTAATTTATTAATATT-TCAAAAATTAATAAGTAA-AA
* * **
19528495 ATTTAAAAAATAAAATTGTTTA-CCAAACTAGTTCAAATAGTTAAAACTA-TATGAATAATTATC
1 ATTTAAAAAATAAATTTGTTTATCAAAACTAGTTCAAATAGTTATGACTATTA-GAATAATTATC
* * *
19528558 TATTTCAAATCATTATAACCTTTTGTTTTGTCATAAAACAA-TATTTTCAATTCATACTAGCTTA
65 TATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAATTATTTT--GTTCATACAAGCTTA
* * * *
19528622 TT-TAGAATAAAATAAAATAAATTTATTAAAATTTTAAAAATTAATAAGTAAGAGA
128 TTCGA-AATAAAATAAACT-AATTTATTAATATTTCAAAAATTAATAAGTAA-A-A
* * * *
19528677 A-TTAAAAAATAATTTTGTTTATC-TAACTAGTTCAAATAATTATGACTATTTGAATAATTATCT
1 ATTTAAAAAATAAATTTGTTTATCAAAACTAGTTCAAATAGTTATGACTATTAGAATAATTATCT
* ** ** *
19528740 ATTTCAAATTATTATGACCTTTTGTTTTGTCATAAAACTAATGT-TTTTGTTCATTTAAATTTGT
66 ATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAAC-AAT-TATTTTGTTCATACAAGCTTAT
*
19528804 TCGAAATAAAATAATACTAATATATTAATATTTCAAAAATTAAT-A--AAAA
129 TCGAAATAAAATAA-ACTAATTTATTAATATTTCAAAAATTAATAAGTAAAA
* * * * * *
19528853 TTTTAAAAAATAAATATGTTTATC-AAACTGGTTC-AA-A-TTAAGACTATTTA-AGTAATTATT
1 ATTTAAAAAATAAATTTGTTTATCAAAACTAGTTCAAATAGTTATGACTA-TTAGAATAATTATC
* * * * * * * * * * * *
19528913 TATTTAAAATCATTATGACTTTTTATTCTGTTATAAGATAA-TAGTTTCTATTTATTCAAGCTTA
65 TATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAATTA-TTT-TGTTCATACAAGCTTA
* * * ** * *
19528977 TTCGGACTAAAATAATACAAATTTATTAATATTTTGACAATTAGTAAGTAAAAA
128 TTCGAAATAAAATAA-ACTAATTTATTAATATTTCAAAAATTAATAAGT-AAAA
* * * * * * * * *
19529031 ATGTAAAAAAATTAAATATGTCTA-CTAAACTAGATCAAACAGTAATGACTTTTAGAATAATTGT
1 AT-TTAAAAAA-TAAATTTGTTTATCAAAACTAGTTCAAATAGTTATGACTATTAGAATAATTAT
* ** * * * * * ** * *
19529095 CTATTTTAAATCGTTATGACATTTTCTTCTGTCATAAAAAAATTATTTCAATTTATATAAGCTT-
64 CTATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAATTATTT-TGTTCATACAAGCTTA
* * * *
19529159 TTATGAAATAAAATAATA-TCAAGTTT-TTAATATTTTAAAAATTAATAATTAAGAG
128 TT-CGAAATAAAATAA-ACT-AA-TTTATTAATATTTCAAAAATTAATAAGTAA-AA
* * * *
19529214 ATTT-AAAAATAAATATATTTATC-GAACAAGTTCAAATAGT
1 ATTTAAAAAATAAATTTGTTTATCAAAACTAGTTCAAATAGT
19529254 CATGTTAAAT
Statistics
Matches: 751, Mismatches: 148, Indels: 83
0.76 0.15 0.08
Matches are distributed among these distances:
171 1 0.00
173 5 0.01
174 94 0.13
175 4 0.01
176 3 0.00
177 29 0.04
178 7 0.01
179 9 0.01
180 56 0.07
181 408 0.54
182 25 0.03
183 104 0.14
184 6 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.41
Consensus pattern (179 bp):
ATTTAAAAAATAAATTTGTTTATCAAAACTAGTTCAAATAGTTATGACTATTAGAATAATTATCT
ATTTCAAATTATTATAACCTTTTGTTTTGTCATAAAACAATTATTTTGTTCATACAAGCTTATTC
GAAATAAAATAAACTAATTTATTAATATTTCAAAAATTAATAAGTAAAA
Found at i:19528743 original size:16 final size:17
Alignment explanation
Indices: 19528711--19528743 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19528701 AACTAGTTCA
19528711 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
19528729 AATAATTAT-CTATTT
1 AATAATTATACTATTT
19528744 CAAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:19528812 original size:362 final size:352
Alignment explanation
Indices: 19528186--19529250 Score: 927
Period size: 362 Copynumber: 3.0 Consensus size: 352
19528176 TGGCCATTTC
** * * * * * *
19528186 AATAATTATCTATTTCAAATTGTTCTTACCTTTTGTTTGGTCATATGACAATTGTTTTTTA-TCA
1 AATAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAAGACAA-TATTTTCTATTCA
* * *
19528250 TACAAGCTTATTCGGAATAAAATAATACT-AATTTATTAATCTTTCAAAAATTAATAAGTAAAAG
65 TACAAGCTTATTCGGAATAAAATAA-AATAAATTTATTAATATTTTAAAAATTAATAAGT-AAAG
* * * * * * ** * *
19528314 ATTTAAAAAATAAATTTGTTTACAAAACCAATTGAAATAGTTATGACTATTAGAGCAGTTATATA
128 AATTAAAAAATAAATTTGTTTAC-TAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTA
* * * *
19528379 CTTCAAATTATTATAATATTTTATTTTGTCATAAAACAATTATTTATGTTCATACAAGCTTACTT
192 TTTCAAATTATTATGACATTTTATTTTGTCATAAAACAATTATTTATGTTCATACAAGATTACTT
* *
19528444 GAAATAAAATAA-ATCTAATCTAATAATATTAT-GAAAATTAATAACTAAGAAATTTAAAAAATA
257 GAAATAAAATAATA-CTAATATAATAATATT-TCAAAAATTAAT-A--AA-AAATTTAAAAAATA
19528507 AA-ATTGTTTACCAAACTAGTTCAAATAGTTAAAACTATATG
316 AATA-TGTTTACCAAACTAGTTC-AA-A-TTAAAACTAT-TG
* *
19528548 AATAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAAAACAATATTTTCAATTCAT
1 AATAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAAGACAATATTTTCTATTCAT
* ** *
19528613 ACTAGCTTATTTAGAATAAAATAAAATAAATTTATTAAAATTTTAAAAATTAATAAGTAAGAGAA
66 ACAAGCTTATTCGGAATAAAATAAAATAAATTTATTAATATTTTAAAAATTAATAAGTAA-AGAA
* *
19528678 TTAAAAAATAATTTTGTTTATCTAACTAGTTCAAATAATTATGACTATTTGAATAATTATCTATT
130 TTAAAAAATAAATTTGTTTA-CTAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATT
* * ** **
19528743 TCAAATTATTATGACCTTTTGTTTTGTCATAAAACTAATGT-TTT-TGTTCATTTAA-ATTTGTT
194 TCAAATTATTATGACATTTTATTTTGTCATAAAAC-AAT-TATTTATGTTCATACAAGATTACTT
* *
19528805 CGAAATAAAATAATACTAATATATTAATATTTCAAAAATTAATAAAAATTTTAAAAAATAAATAT
257 -GAAATAAAATAATACTAATATAATAATATTTCAAAAATTAATAAAAAATTTAAAAAATAAATAT
* * * *
19528870 GTTTATCAAACTGGTTCAAATTAAGACTATTT
321 GTTTACCAAACTAGTTCAAATTAAAACTATTG
* * * * * * * * * *
19528902 AAGTAATTATTTATTTAAAATCATTATGACTTTTTATTCTGTTATAAGATAATAGTTTCTATTTA
1 AA-TAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAAGACAATATTTTCTATTCA
* * * * * * * *
19528967 TTCAAGCTTATTCGGACTAAAATAATACAAATTTATTAATATTTTGACAATTAGTAAGTAAAAAA
65 TACAAGCTTATTCGGAATAAAATAAAATAAATTTATTAATATTTTAAAAATTAATAAGTAAAGAA
* * * * * *
19529032 TGTAAAAAAATTAAATATGTCTACTAAACTAGATCAAACAGTAATGACT-TTTAGAATAATTGTC
130 T-T-AAAAAA-TAAATTTGTTTACT-AACTAGTTCAAATAGTTATGACTATTT-GAATAATTATC
* ** * * * * *
19529096 TATTTTAAATCGTTATGACATTTTCTTCTGTCATAAAAAAATTATTTCAAT-TT-ATATAAGCTT
190 TATTTCAAATTATTATGACATTTTATTTTGTCATAAAACAATTATTT--ATGTTCATACAAGATT
* ** *
19529159 -TTATGAAATAAAATAATA-TCAAGT-TTTTAATATTTTAAAAATTAATAATTAAGAGATTT-AA
253 ACT-TGAAATAAAATAATACT-AA-TATAATAATATTTCAAAAATTAATAA--AA-A-ATTTAAA
* * * *
19529220 AAATAAATATATTTATCGAACAAGTTCAAAT
311 AAATAAATATGTTTACCAAACTAGTTCAAAT
19529251 AGTCATGTTA
Statistics
Matches: 579, Mismatches: 96, Indels: 58
0.79 0.13 0.08
Matches are distributed among these distances:
354 7 0.01
355 111 0.19
356 19 0.03
357 116 0.20
358 37 0.06
359 6 0.01
360 30 0.05
361 19 0.03
362 225 0.39
363 8 0.01
364 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (352 bp):
AATAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAAGACAATATTTTCTATTCAT
ACAAGCTTATTCGGAATAAAATAAAATAAATTTATTAATATTTTAAAAATTAATAAGTAAAGAAT
TAAAAAATAAATTTGTTTACTAACTAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTC
AAATTATTATGACATTTTATTTTGTCATAAAACAATTATTTATGTTCATACAAGATTACTTGAAA
TAAAATAATACTAATATAATAATATTTCAAAAATTAATAAAAAATTTAAAAAATAAATATGTTTA
CCAAACTAGTTCAAATTAAAACTATTG
Found at i:19529293 original size:12 final size:12
Alignment explanation
Indices: 19529276--19529300 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19529266 ATATTATAAT
19529276 ATAATTTAAATA
1 ATAATTTAAATA
19529288 ATAATTTAAATA
1 ATAATTTAAATA
19529300 A
1 A
19529301 GCTATAATAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATTTAAATA
Found at i:19529575 original size:19 final size:19
Alignment explanation
Indices: 19529509--19529575 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
19529499 TATAGCATTA
* *
19529509 ATAA-TAATTATTGATAAT
1 ATAATTAATAATTAATAAT
* *
19529527 ATAATTAATAGTTTATAAAT
1 ATAATTAATAATTAAT-AAT
19529547 ATAATT-ATAATTAATAAT
1 ATAATTAATAATTAATAAT
*
19529565 ACAATTAATAA
1 ATAATTAATAA
19529576 CATTTTATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 12 0.30
19 19 0.47
20 9 0.22
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (19 bp):
ATAATTAATAATTAATAAT
Found at i:19529857 original size:30 final size:28
Alignment explanation
Indices: 19529823--19529903 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 28
19529813 TTATATAACA
*
19529823 ATTATATTAATAATTATTATTATTATTTAC
1 ATTATATTAATAA-TATTA-TAATATTTAC
19529853 ATTATAATTATATAATATTATAATATTTAC
1 ATTAT-ATTA-ATAATATTATAATATTTAC
*
19529883 --TATATTAATTAT-TTAT-ATATT
1 ATTATATTAATAATATTATAATATT
19529904 GTTAATAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 5 0.11
25 4 0.09
26 4 0.09
27 4 0.09
28 3 0.06
30 14 0.30
31 9 0.19
32 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTATATTAATAATATTATAATATTTAC
Found at i:19529901 original size:15 final size:15
Alignment explanation
Indices: 19529825--19529903 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
19529815 ATATAACAAT
*
19529825 TATATTAA-TAATTA
1 TATATTAATTATTTA
19529839 T-TATT-ATTATTTA
1 TATATTAATTATTTA
* *
19529852 CAT-TATAATTATATA
1 TATAT-TAATTATTTA
*
19529867 -ATATTATAATATTTA
1 TATATTA-ATTATTTA
19529882 CTATATTAATTATTTA
1 -TATATTAATTATTTA
19529898 TATATT
1 TATATT
19529904 GTTAATAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
12 1 0.02
13 10 0.20
14 7 0.14
15 20 0.39
16 7 0.14
17 6 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTAATTATTTA
Found at i:19529980 original size:23 final size:20
Alignment explanation
Indices: 19529928--19529982 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 20
19529918 ATTATGTTAA
19529928 ATTTATACTAATAATATTTAT
1 ATTTATA-TAATAATATTTAT
*
19529949 TTTTATATAATAATATTATCAT
1 ATTTATATAATAATATT-T-AT
19529971 ATTTATTATAAT
1 ATTTA-TATAAT
19529983 TTAATATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.34
21 7 0.24
22 6 0.21
23 6 0.21
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATATAATAATATTTAT
Found at i:19530054 original size:19 final size:19
Alignment explanation
Indices: 19530012--19530079 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
19530002 TAGACAAAAT
*
19530012 ATAATAATTA-TATA-ATA
1 ATAATAATTATTATATTTA
*
19530029 AT-TTAATTATTATATTTA
1 ATAATAATTATTATATTTA
* *
19530047 ATAATAATTGCTAATATTTA
1 ATAATAATT-ATTATATTTA
*
19530067 A-AATAATTGTTAT
1 ATAATAATTATTAT
19530080 TAATTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 6 0.15
17 6 0.15
18 7 0.17
19 12 0.30
20 9 0.22
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (19 bp):
ATAATAATTATTATATTTA
Found at i:19530083 original size:22 final size:23
Alignment explanation
Indices: 19530058--19530132 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 23
19530048 TAATAATTGC
19530058 TAATATTTAAAAT-AATTGTTAT
1 TAATATTTAAAATGAATTGTTAT
*
19530080 T-A-ATTTAAAATGCTATT-TCTAT
1 TAATATTTAAAATG-AATTGT-TAT
19530102 TAA-ATTTAAAATGAATTAG--AT
1 TAATATTTAAAATGAATT-GTTAT
19530123 TAATATTTAA
1 TAATATTTAA
19530133 GGATTAATCG
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
20 9 0.20
21 7 0.16
22 17 0.39
23 11 0.25
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (23 bp):
TAATATTTAAAATGAATTGTTAT
Found at i:19530085 original size:20 final size:20
Alignment explanation
Indices: 19530035--19530090 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
19530025 AATAATTTAA
19530035 TTATTATATTTAATAATAATTG
1 TTATTA-ATTTAA-AATAATTG
* *
19530057 CTAAT-ATTTAAAATAATTG
1 TTATTAATTTAAAATAATTG
19530076 TTATTAATTTAAAAT
1 TTATTAATTTAAAAT
19530091 GCTATTTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.38
20 15 0.52
22 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
TTATTAATTTAAAATAATTG
Found at i:19530197 original size:15 final size:16
Alignment explanation
Indices: 19530179--19530211 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19530169 AGTTAATAAG
19530179 TTATAATAAT-ACTAA
1 TTATAATAATAACTAA
*
19530194 TTATTATAATAACTAA
1 TTATAATAATAACTAA
19530210 TT
1 TT
19530212 GAAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATAATAATAACTAA
Found at i:19530367 original size:23 final size:24
Alignment explanation
Indices: 19530319--19530374 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
19530309 AGTTCACGTT
19530319 ATTA-TATTATAAATTATAATTCA
1 ATTATTATTATAAATTATAATTCA
19530342 ATTATTATTATAAATTAGT-ATT-A
1 ATTATTATTATAAATTA-TAATTCA
19530365 ATTATTATTA
1 ATTATTATTA
19530375 ATACTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 15 0.48
24 15 0.48
25 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTATTATTATAAATTATAATTCA
Found at i:19530619 original size:21 final size:20
Alignment explanation
Indices: 19530551--19530620 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 20
19530541 AATTATTTTG
19530551 TTATTATAACATTTA-AATA
1 TTATTATAACATTTATAATA
* **
19530570 TTATTATTAAAATAAATAATA
1 TTATTA-TAACATTTATAATA
19530591 TGAATATTATAATCATTTATAATA
1 T---TATTATAA-CATTTATAATA
19530615 TTATTA
1 TTATTA
19530621 AAAATTAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 10 0.26
23 3 0.08
24 14 0.36
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (20 bp):
TTATTATAACATTTATAATA
Found at i:19531016 original size:179 final size:178
Alignment explanation
Indices: 19530727--19531418 Score: 571
Period size: 179 Copynumber: 3.8 Consensus size: 178
19530717 AACAATTTAC
* * * * * * * *
19530727 TAATTTATTAAAATTTTTAAAAATTAAAAAGTAACAGAATTTAAAAAATGAA-TTTTCTTATCAA
1 TAATTTATTAATA-TTTCAAAAATTAATAAGTAAAAG-ATTT-AAAAATAAAGCTAT-TTACCAA
* *
19530791 TCA-AGTTGAAATAGTTATGACTGACTATCTAAATAATTATCTATTTCAAAATATTATAATATTT
62 -CACAGTTCAAATAGTTATGACT-AC--T-TGAATAATTATCTATTTCAAAATATTATAATATTT
* * *
19530855 TGTTTTGTCATAAAATAATTGGTTT-TGTTCATGCAAGTGTATTTTGAATAAAATAATA
122 TGTTTTGTCATAAAACAATT-GTTTCTGTTCATACAAGT-TATTTGGAATAAAATAATA
* * ***
19530913 TAAATTTATTAATATTTCAAAAATTAATAAGTATAA-TTTTAGAAAATAAAGCTATTTTTGAACA
1 T-AATTTATTAATATTTCAAAAATTAATAAGTAAAAGATTTA-AAAATAAAGCTATTTACCAACA
* *
19530977 CA-TTCAAATAGTTATGACTACTTGAATAATTATCTATTTC-AAATCATTATGATAATTTGTTTT
64 CAGTTCAAATAGTTATGACTACTTGAATAATTATCTATTTCAAAAT-ATTATAATATTTTGTTTT
* * *
19531040 GTCATAAACCAATTGTTTCTGTTCAAACAAGCTTATTTGGAATAAAATAATTC
128 GTCATAAAACAATTGTTTCTGTTCATACAAG-TTATTTGGAATAAAATAA-TA
* ** ***
19531093 TAATTAATTAATATTTC-AAAATTAATAAGTAAAAGATTTAAAAATAAATTTATTTACCAAGTGA
1 TAATTTATTAATATTTCAAAAATTAATAAGTAAAAGATTTAAAAATAAAGCTATTTACCAACACA
* ** * * * * * * *
19531157 GTTCAAATAGTTATGATTGTTTGAACAATTATTTATTTCAAATTACTATTATCTTTTGTTTTGTT
66 GTTCAAATAGTTATGACTACTTGAATAATTATCTATTTCAAAATATTATAATATTTTGTTTTGTC
*
19531222 ATAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATA
131 ATAAAACAATTGTTTCTGTTCATACAAG-TTATTTGGAATAAAATAATA
* * ** * * *
19531271 CTAATATATTAACA-TTCTAAAAATTAATAAGTTGAAGATTTAAAAATTAA-TTAGTTTATCGAA
1 -TAATTTATTAATATTTC-AAAAATTAATAAGTAAAAGATTTAAAAATAAAGCTA-TTTA-CCAA
* * * * * * * *
19531334 C-CAGTTCAAATAGTCATG-TTCATTTTAACT-ATTATCTATTTCAAATTATTATGACATTTTAT
62 CACAGTTCAAATAGTTATGACT-ACTTGAA-TAATTATCTATTTCAAAATATTATAATATTTTGT
** *
19531396 TTTGTTGTTAAACAATTGTTTCT
125 TTTGTCATAAAACAATTGTTTCT
19531419 TATCTATCAA
Statistics
Matches: 419, Mismatches: 69, Indels: 42
0.79 0.13 0.08
Matches are distributed among these distances:
178 44 0.11
179 197 0.47
180 106 0.25
181 3 0.01
182 2 0.00
183 19 0.05
184 16 0.04
185 2 0.00
186 19 0.05
187 11 0.03
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (178 bp):
TAATTTATTAATATTTCAAAAATTAATAAGTAAAAGATTTAAAAATAAAGCTATTTACCAACACA
GTTCAAATAGTTATGACTACTTGAATAATTATCTATTTCAAAATATTATAATATTTTGTTTTGTC
ATAAAACAATTGTTTCTGTTCATACAAGTTATTTGGAATAAAATAATA
Found at i:19531298 original size:23 final size:23
Alignment explanation
Indices: 19531281--19531326 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19531271 CTAATATATT
19531281 AACATTCTAAAAATTAATAAGTTG
1 AACATT-TAAAAATTAATAAGTTG
* *
19531305 AAGATTTAAAAATTAATTAGTT
1 AACATTTAAAAATTAATAAGTT
19531327 TATCGAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (23 bp):
AACATTTAAAAATTAATAAGTTG
Found at i:19531378 original size:180 final size:177
Alignment explanation
Indices: 19530826--19531418 Score: 603
Period size: 179 Copynumber: 3.3 Consensus size: 177
19530816 TATCTAAATA
* * * *
19530826 ATTATCTATTTCAAAATATTATAATATTTTGTTTTGTCATAAAATAATTGGTTT-TGTTCATGCA
1 ATTATCTATTTCAAATTATTATGATATTTTGTTTTGTCATAAAACAATT-GTTTCTGTTCATACA
* * *
19530890 AGTGTATTTTGAATAAAATAATA-TAAATTTATTAATATTTCAAAAATTAATAAGTATAA-TTTT
65 AGTTTATTTGGAATAAAATAATACT-AA-TTATTAATATTT-AAAAATTAATAAGT-TAAGATTT
* * * *
19530953 AGAAAATAAAGCTATTT-TTGAACACA-TTCAAATAGTTATG-ACTACTTGAA-T
126 A-AAAATAAAGTTATTTATCGAAC-CAGTTCAAATAGTTATGTTC-ATTTGAACT
* * * *
19531004 AATTATCTATTTCAAATCATTATGATAATTTGTTTTGTCATAAACCAATTGTTTCTGTTCAAACA
1 -ATTATCTATTTCAAATTATTATGATATTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACA
* * * *
19531069 AGCTTATTTGGAATAAAATAATTCTAATTAATTAATATTTCAAAATTAATAAGTAAAAGATTTAA
65 AGTTTATTTGGAATAAAATAATACTAATT-ATTAATATTTAAAAATTAATAAGT-TAAGATTTAA
* * ** * *
19531134 AAATAAATTTATTTA-CCAAGTGAGTTCAAATAGTTATGATT-GTTTGAACA
128 AAATAAAGTTATTTATCGAA-CCAGTTCAAATAGTTATG-TTCATTTGAACT
* * * * * *
19531184 ATTATTTATTTCAAATTACTATTATCTTTTGTTTTGTTATAAAACAATTGTTTCTATTCATACAA
1 ATTATCTATTTCAAATTATTATGATATTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAA
*
19531249 GTTTATTTGGAATAAAATAATACTAATATATTAACATTCTAAAAATTAATAAGTTGAAGATTTAA
66 GTTTATTTGGAATAAAATAATACTAAT-TATTAATATT-TAAAAATTAATAAGTT-AAGATTTAA
* * *
19531314 AAATTAA-TTAGTTTATCGAACCAGTTCAAATAGTCATGTTCATTTTAACT
128 AAATAAAGTTA-TTTATCGAACCAGTTCAAATAGTTATGTTCATTTGAACT
* * ** *
19531364 ATTATCTATTTCAAATTATTATGACATTTTATTTTGTTGTTAAACAATTGTTTCT
1 ATTATCTATTTCAAATTATTATGATATTTTGTTTTGTCATAAAACAATTGTTTCT
19531419 TATCTATCAA
Statistics
Matches: 342, Mismatches: 56, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
178 38 0.11
179 198 0.58
180 103 0.30
181 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (177 bp):
ATTATCTATTTCAAATTATTATGATATTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAA
GTTTATTTGGAATAAAATAATACTAATTATTAATATTTAAAAATTAATAAGTTAAGATTTAAAAA
TAAAGTTATTTATCGAACCAGTTCAAATAGTTATGTTCATTTGAACT
Found at i:19532048 original size:25 final size:24
Alignment explanation
Indices: 19532007--19532056 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
19531997 AATTTTCAAA
19532007 ATATTTTTAATAATTATTATTAAAT
1 ATATTTTTAATAATTA-TATTAAAT
* * *
19532032 ATATTTTTACTAGTTATATTTAAT
1 ATATTTTTAATAATTATATTAAAT
19532056 A
1 A
19532057 CTATAATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATTTTTAATAATTATATTAAAT
Found at i:19532196 original size:17 final size:17
Alignment explanation
Indices: 19532154--19532206 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
19532144 AAATAATTGT
19532154 TATAATTAA--ATAATAA
1 TATAATTAATTATAAT-A
*
19532170 TCTAATTTAATTATAATA
1 TATAA-TTAATTATAATA
*
19532188 TATAATTAATTAAAATA
1 TATAATTAATTATAATA
19532205 TA
1 TA
19532207 ATATAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 17 0.55
18 5 0.16
19 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAATTAATTATAATA
Found at i:19532197 original size:22 final size:23
Alignment explanation
Indices: 19532156--19532211 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
19532146 ATAATTGTTA
19532156 TAATTA-AATA-ATAATCTAATT
1 TAATTATAATATATAATCTAATT
19532177 TAATTATAATATATAAT-TAATT
1 TAATTATAATATATAATCTAATT
* *
19532199 AAAATATAATATA
1 TAATTATAATATA
19532212 AATATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 20 0.65
23 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTATAATATATAATCTAATT
Found at i:19532572 original size:18 final size:18
Alignment explanation
Indices: 19532549--19532583 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19532539 GTCCAATTAA
19532549 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
*
19532567 ATTATATAATATATAAT
1 ATTATATAATAAATAAT
19532584 ATACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:19532596 original size:13 final size:14
Alignment explanation
Indices: 19532564--19532610 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
19532554 ATAATAAATA
*
19532564 ATTATTATATA-AT
1 ATTATAATATACAT
19532577 A-TATAATATACA-
1 ATTATAATATACAT
19532589 ATTATAAT-TACAT
1 ATTATAATATACAT
19532602 ATTATAATA
1 ATTATAATA
19532611 ATTAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATATACAT
Found at i:19532632 original size:47 final size:44
Alignment explanation
Indices: 19532542--19532632 Score: 103
Period size: 47 Copynumber: 2.0 Consensus size: 44
19532532 TATATATGTC
* *
19532542 CAATTAAATTATATAATAAATAATTATTATATAATATATAATATA
1 CAATTAAATTACATAATAAATAATTA-TATATAATATAAAATATA
*
19532587 CAATTATAATTACATATTATAATAATTA-ATATAATTGATAAAATAT
1 CAATTA-AATTACATAATA-AATAATTATATATAA-T-ATAAAATAT
19532633 TATTAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 12 0.31
46 11 0.28
47 16 0.41
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (44 bp):
CAATTAAATTACATAATAAATAATTATATATAATATAAAATATA
Found at i:19532641 original size:14 final size:15
Alignment explanation
Indices: 19532549--19532665 Score: 66
Period size: 14 Copynumber: 7.5 Consensus size: 15
19532539 GTCCAATTAA
19532549 ATTATATAATAAATAATT
1 ATTAT-TAAT-AATAA-T
19532567 ATTATATAATATATAAT
1 ATTAT-TAATA-ATAAT
*
19532584 ATACAATT-ATAATTACAT
1 AT--TATTAATAA-TA-AT
19532602 ATTA-TAATAATTAAT
1 ATTATTAATAA-TAAT
* *
19532617 ATAATTGATAA-AAT
1 ATTATTAATAATAAT
19532631 ATTATTAATAAT-AT
1 ATTATTAATAATAAT
*
19532645 TTTATT-ATAATAAT
1 ATTATTAATAATAAT
19532659 -TTATTAA
1 ATTATTAA
19532666 ATTATTACAT
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
13 10 0.12
14 22 0.27
15 6 0.07
16 14 0.17
17 9 0.11
18 19 0.23
19 2 0.02
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTATTAATAATAAT
Found at i:19532724 original size:18 final size:19
Alignment explanation
Indices: 19532701--19532736 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19532691 AATTATTATA
19532701 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
19532719 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
19532737 ACGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:19533484 original size:22 final size:21
Alignment explanation
Indices: 19533442--19533484 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
19533432 AATTTATTAG
***
19533442 TAATTTATTAATAAGTGAAAT
1 TAATTTATTAATAACAAAAAT
19533463 TAATATTATTAATAACAAAAAT
1 TAAT-TTATTAATAACAAAAAT
19533485 ATTTGTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
TAATTTATTAATAACAAAAAT
Found at i:19533517 original size:24 final size:24
Alignment explanation
Indices: 19533461--19533517 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
19533451 AATAAGTGAA
* *
19533461 ATTAATATTATTAATAACAAAAAT
1 ATTAATAATAATAATAACAAAAAT
** * *
19533485 ATTTGTAATAATAATAATAAAATT
1 ATTAATAATAATAATAACAAAAAT
19533509 ATTAATAAT
1 ATTAATAAT
19533518 TATTAATAGT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAATAATAATAATAACAAAAAT
Found at i:19533833 original size:16 final size:16
Alignment explanation
Indices: 19533792--19533838 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19533782 TATATAATTT
19533792 TAAATAATTTAATT-AC
1 TAAATAATTT-ATTAAC
* *
19533808 TATATTATTTATTAAC
1 TAAATAATTTATTAAC
*
19533824 TAAATAATTTTTTAA
1 TAAATAATTTATTAA
19533839 ATTATTAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATAATTTATTAAC
Found at i:19533944 original size:22 final size:22
Alignment explanation
Indices: 19533911--19533953 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19533901 CTTTTAGTTA
*
19533911 TATTCAAATAATACTATAATAT
1 TATTCAAATAATACAATAATAT
19533933 TATT-AAATTAATACAATAATA
1 TATTCAAA-TAATACAATAATA
19533954 ATTGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTCAAATAATACAATAATAT
Found at i:19534544 original size:15 final size:16
Alignment explanation
Indices: 19534526--19534556 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19534516 TAAATATTTT
19534526 AATTATTGATT-AATA
1 AATTATTGATTCAATA
19534541 AATTATTGATTCAATA
1 AATTATTGATTCAATA
19534557 GACTATTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AATTATTGATTCAATA
Found at i:19534884 original size:30 final size:28
Alignment explanation
Indices: 19534850--19534917 Score: 66
Period size: 30 Copynumber: 2.3 Consensus size: 28
19534840 TATTATATAA
19534850 TATTAATTAAAGATAATCATTATTAGTAAT
1 TATTAATTAAAGATAAT-ATTATTAGT-AT
**
19534880 TATTAGGA-TAATTATAATATTATTAGTAT
1 TATTA--ATTAAAGATAATATTATTAGTAT
*
19534909 TATAAATTA
1 TATTAATTA
19534918 TTCAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 1 0.03
28 2 0.06
29 6 0.19
30 14 0.44
31 8 0.25
32 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (28 bp):
TATTAATTAAAGATAATATTATTAGTAT
Found at i:19535325 original size:25 final size:25
Alignment explanation
Indices: 19535295--19535343 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
19535285 ATATTACTAC
* *
19535295 TATTATAATAATTATTATTTAATAT
1 TATTATAATAATAATTATTAAATAT
19535320 TATTATAATAATAATTATTAAATA
1 TATTATAATAATAATTATTAAATA
19535344 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTATAATAATAATTATTAAATAT
Found at i:19535553 original size:21 final size:22
Alignment explanation
Indices: 19535510--19535554 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
19535500 AATTGATTAG
*
19535510 TAAAATTAAATAAAATAATATT
1 TAAAATTAAATAAAATAAGATT
* *
19535532 TAAAA-TAAATACAATTAGATT
1 TAAAATTAAATAAAATAAGATT
19535553 TA
1 TA
19535555 TAACTAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAATTAAATAAAATAAGATT
Found at i:19535937 original size:46 final size:46
Alignment explanation
Indices: 19535887--19535988 Score: 179
Period size: 46 Copynumber: 2.2 Consensus size: 46
19535877 ATTATATTAA
19535887 TAATTGAAATTTTTAATTTAGTTAATTAATAAGTACTAATCGATAG
1 TAATTGAAATTTTTAATTTAGTTAATTAATAAGTACTAATCGATAG
*
19535933 TAATTGAAAATTTTAATTTAGTTAATTAATAAGTACTAATCGATAG
1 TAATTGAAATTTTTAATTTAGTTAATTAATAAGTACTAATCGATAG
*
19535979 TAGTT-AAATT
1 TAATTGAAATT
19535989 AATTTATGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 4 0.08
46 49 0.92
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (46 bp):
TAATTGAAATTTTTAATTTAGTTAATTAATAAGTACTAATCGATAG
Found at i:19536396 original size:14 final size:15
Alignment explanation
Indices: 19536365--19536409 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
19536355 TAACTATATA
19536365 ATATTATAATTAAAT
1 ATATTATAATTAAAT
*
19536380 ATATTAT-ATTTAAT
1 ATATTATAATTAAAT
*
19536394 ATATTATTATTAAAT
1 ATATTATAATTAAAT
19536409 A
1 A
19536410 AAAATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTATAATTAAAT
Found at i:19536422 original size:29 final size:28
Alignment explanation
Indices: 19536365--19536437 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
19536355 TAACTATATA
*
19536365 ATATTATAATTAAATATATTATATTTAAT
1 ATATTATAATTAAATAAATTATA-TTAAT
*
19536394 ATATTATTATTAAATAAAAATTATA-TAAT
1 ATATTATAATTAAAT--AAATTATATTAAT
* * *
19536423 TTGTTATAATAAAAT
1 ATATTATAATTAAAT
19536438 GGTATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 29 0.81
31 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTATAATTAAATAAATTATATTAAT
Found at i:19537410 original size:27 final size:26
Alignment explanation
Indices: 19537365--19537415 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
19537355 AATCAAATTA
*
19537365 TTTAATAATATATAGTTATTATATGT
1 TTTAATAATATATAGTTATGATATGT
19537391 TTTAATTAATATATTA-TTATGATAT
1 TTTAA-TAATATA-TAGTTATGATAT
19537416 AATGATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 15 0.68
28 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (26 bp):
TTTAATAATATATAGTTATGATATGT
Found at i:19538549 original size:21 final size:21
Alignment explanation
Indices: 19538525--19538633 Score: 62
Period size: 22 Copynumber: 4.9 Consensus size: 21
19538515 ATAAGATAAG
19538525 TTATAAATAATAATAATATTA
1 TTATAAATAATAATAATATTA
* * *
19538546 TTATTTATTATTAATTAATTATT-
1 TTA-TAAATAATAA-TAA-TATTA
*
19538569 TTAAAGAATAAT-ATAATTATTTA
1 TTATA-AATAATAATAA-TA-TTA
*
19538592 TTATTATAATAGTAATAATATTAA
1 TTA-TA-AATAATAATAATATT-A
19538616 TTAT-AATAATAAATAATA
1 TTATAAATAAT-AATAATA
19538634 GTCCAAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
21 14 0.21
22 17 0.25
23 16 0.24
24 16 0.24
25 4 0.06
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTATAAATAATAATAATATTA
Found at i:19538813 original size:18 final size:18
Alignment explanation
Indices: 19538776--19538814 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19538766 AATTACCATA
* *
19538776 TTATTCATAAAAATATAT
1 TTATTAATAAAAATAAAT
*
19538794 TTATTAATAAAATTAAAT
1 TTATTAATAAAAATAAAT
19538812 TTA
1 TTA
19538815 AAATTAGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATTAATAAAAATAAAT
Found at i:19539091 original size:35 final size:33
Alignment explanation
Indices: 19539009--19539080 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 33
19538999 TAGGGTTATG
*
19539009 ATTT-TATAAAATATTTAAATTAGATTATATTA
1 ATTTATATAAAATATTTAAATTAAATTATATTA
19539041 ATTTATATAAAATATTTAGCAATTAAATTTATATATA
1 ATTTATATAAAATATTTA--AATTAAA-TTATAT-TA
19539078 ATT
1 ATT
19539081 ATCTAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 4 0.12
33 13 0.38
35 6 0.18
36 6 0.18
37 5 0.15
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTTATATAAAATATTTAAATTAAATTATATTA
Found at i:19541787 original size:15 final size:14
Alignment explanation
Indices: 19541758--19541793 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19541748 TATATAATTA
*
19541758 TAATTACTTTAAAT
1 TAATTATTTTAAAT
19541772 TAATTATTTATAAAT
1 TAATTATTT-TAAAT
19541787 TAATTAT
1 TAATTAT
19541794 AATAATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTATTTTAAAT
Found at i:19542278 original size:18 final size:18
Alignment explanation
Indices: 19542244--19542280 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19542234 TAAAATAATT
* *
19542244 ATATATATTATTTTTATA
1 ATATATATTACTATTATA
19542262 ATATATATTACTATTATA
1 ATATATATTACTATTATA
19542280 A
1 A
19542281 ATTCATAATA
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:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATATTACTATTATA
Found at i:19542633 original size:6 final size:6
Alignment explanation
Indices: 19542622--19542660 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
19542612 AATAAAAAGC
* *
19542622 TTAATA TTAATA TCAATA TTAA-A TTAGTA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
19542661 ACAATATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:19542656 original size:17 final size:17
Alignment explanation
Indices: 19542622--19542661 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19542612 AATAAAAAGC
19542622 TTAATATTAATATCAATA
1 TTAA-ATTAATATCAATA
* *
19542640 TTAAATTAGTATTAATA
1 TTAAATTAATATCAATA
19542657 TTAAA
1 TTAAA
19542662 CAATATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAATTAATATCAATA
Found at i:19543327 original size:13 final size:14
Alignment explanation
Indices: 19543291--19543367 Score: 54
Period size: 13 Copynumber: 5.6 Consensus size: 14
19543281 TAATTGATTA
* *
19543291 AATTGATAATAA-A
1 AATTAATAATAAGT
19543304 AATT-ATAATAAGT
1 AATTAATAATAAGT
*
19543317 AATTAAT-ATAAAT
1 AATTAATAATAAGT
* *
19543330 -ATATAATAAGAATTT
1 AAT-TAATAATAA-GT
19543345 AAATTAATAATAAGT
1 -AATTAATAATAAGT
19543360 AATTAATA
1 AATTAATA
19543368 TAAATATTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
12 9 0.18
13 17 0.33
14 13 0.25
15 2 0.04
16 8 0.16
17 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (14 bp):
AATTAATAATAAGT
Found at i:19543339 original size:24 final size:24
Alignment explanation
Indices: 19543297--19543374 Score: 96
Period size: 23 Copynumber: 3.5 Consensus size: 24
19543287 ATTAAATTGA
*
19543297 TAATAAAAAT-TATAATAAGTAAT
1 TAATATAAATATATAATAAGTAAT
19543320 TAATATAAATATATAATAAG-AAT
1 TAATATAAATATATAATAAGTAAT
*
19543343 T--TA-AATTA-ATAATAAGTAAT
1 TAATATAAATATATAATAAGTAAT
19543363 TAATATAAATAT
1 TAATATAAATAT
19543375 TAGTTTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 8 0.17
20 8 0.17
21 2 0.04
22 2 0.04
23 17 0.37
24 9 0.20
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
TAATATAAATATATAATAAGTAAT
Found at i:19543365 original size:19 final size:19
Alignment explanation
Indices: 19543303--19543365 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 19
19543293 TTGATAATAA
19543303 AAATT-ATAATAAGTAATT
1 AAATTAATAATAAGTAATT
19543321 AATATAAATATATAATAAG-AATTT
1 AA-AT---TA-ATAATAAGTAA-TT
19543345 AAATTAATAATAAGTAATT
1 AAATTAATAATAAGTAATT
19543364 AA
1 AA
19543366 TATAAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
18 2 0.05
19 14 0.38
20 4 0.11
22 1 0.03
23 4 0.11
24 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAATTAATAATAAGTAATT
Found at i:19543698 original size:21 final size:21
Alignment explanation
Indices: 19543674--19543714 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19543664 ATATAATTCT
*
19543674 ATTTAAT-TAATTTAAATTATA
1 ATTTAATAT-ATTAAAATTATA
19543695 ATTTAATATATTAAAATTAT
1 ATTTAATATATTAAAATTAT
19543715 TATATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAATATATTAAAATTATA
Found at i:19543729 original size:21 final size:20
Alignment explanation
Indices: 19543682--19543729 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
19543672 CTATTTAATT
19543682 AATTT-AAATTATAATTTAA
1 AATTTAAAATTATAATTTAA
* *
19543701 TATATTAAAATTATTATATTAA
1 AAT-TTAAAATTATAAT-TTAA
19543723 AATTTAA
1 AATTTAA
19543730 TATATAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 2 0.09
21 13 0.57
22 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTTAAAATTATAATTTAA
Found at i:19543737 original size:14 final size:15
Alignment explanation
Indices: 19543689--19543734 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
19543679 ATTAATTTAA
*
19543689 ATTATAATTTAATAT
1 ATTAAAATTTAATAT
*
19543704 ATTAAAA-TTATTAT
1 ATTAAAATTTAATAT
19543718 ATTAAAATTTAATAT
1 ATTAAAATTTAATAT
19543733 AT
1 AT
19543735 AAAGAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAAAATTTAATAT
Found at i:19543800 original size:17 final size:19
Alignment explanation
Indices: 19543773--19543807 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19543763 ATAATTATAC
19543773 TAAATATTA-TTAACAAGT
1 TAAATATTATTTAACAAGT
19543791 TAAA-ATTATTTAACAAG
1 TAAATATTATTTAACAAG
19543808 ATTATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (19 bp):
TAAATATTATTTAACAAGT
Found at i:19544677 original size:10 final size:10
Alignment explanation
Indices: 19544662--19544744 Score: 62
Period size: 10 Copynumber: 8.4 Consensus size: 10
19544652 ATATGTTCTG
19544662 AATATATAAT
1 AATATATAAT
19544672 AATATAT-AT
1 AATATATAAT
* *
19544681 TATAT-TATT
1 AATATATAAT
* *
19544690 AATAAATCAT
1 AATATATAAT
*
19544700 AATATATTAT
1 AATATATAAT
*
19544710 ATTATATAAT
1 AATATATAAT
* *
19544720 ATTAAATAAT
1 AATATATAAT
*
19544730 AATATCATATT
1 AATAT-ATAAT
19544741 AATA
1 AATA
19544745 ATTGTCTACA
Statistics
Matches: 56, Mismatches: 14, Indels: 5
0.75 0.19 0.07
Matches are distributed among these distances:
8 1 0.02
9 10 0.18
10 37 0.66
11 8 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (10 bp):
AATATATAAT
Found at i:19544716 original size:38 final size:38
Alignment explanation
Indices: 19544662--19544746 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
19544652 ATATGTTCTG
*
19544662 AATATATAATAATATATATTATATT-ATTAATAA-ATCAT
1 AATATATAATAATATATA--ATATTAAATAATAATATCAT
* *
19544700 AATATATTATATTATATAATATTAAATAATAATATCAT
1 AATATATAATAATATATAATATTAAATAATAATATCAT
*
19544738 ATTA-ATAAT
1 AATATATAAT
19544747 TGTCTACATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 5 0.12
37 11 0.28
38 24 0.60
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (38 bp):
AATATATAATAATATATAATATTAAATAATAATATCAT
Found at i:19545777 original size:163 final size:163
Alignment explanation
Indices: 19545518--19545821 Score: 380
Period size: 163 Copynumber: 1.9 Consensus size: 163
19545508 AAGGTAAATA
** * * * * *
19545518 GATTTATTTTTTAAATATCTTAGTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT
1 GATTTATTTTTTAAATATCCAACTTATCAATTTTTGAAATAGTAATAAAGTAATATTATTTTATT
19545583 TTGAATAAACTTGTACGATACAAAACAATTGTTTTATAATAAAACA-AAATATCATAATAATTTG
66 TTGAATAAACTTGTACGATACAAAACAATTGTTTTATAATAAAACAGAAA-ATCATAATAATTTG
19545647 AAATAAATAATTATTTGAACTGATTCGATAAACT
130 AAATAAATAATTATTTGAACTGATTCGATAAACT
* *
19545681 GATTTATTTTTTAAATCTCCAACTTCTCAATTTTTGAAATAGTAATAAAGTAATATTATTTTATT
1 GATTTATTTTTTAAATATCCAACTTATCAATTTTTGAAATAGTAATAAAGTAATATTATTTTATT
* * * * * * * * *
19545746 TTGGAT-AAGTTTTATTGA-ACTGAATCAATTGTTTTATGATAAAACAGAAAGTCATAATGATTT
66 TTGAATAAACTTGTA-CGATAC-AAAACAATTGTTTTATAATAAAACAGAAAATCATAATAATTT
* *
19545809 TAAATAGATAATT
129 GAAATAAATAATT
19545822 GTCCAAATAG
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
162 8 0.07
163 107 0.91
164 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (163 bp):
GATTTATTTTTTAAATATCCAACTTATCAATTTTTGAAATAGTAATAAAGTAATATTATTTTATT
TTGAATAAACTTGTACGATACAAAACAATTGTTTTATAATAAAACAGAAAATCATAATAATTTGA
AATAAATAATTATTTGAACTGATTCGATAAACT
Found at i:19546335 original size:21 final size:20
Alignment explanation
Indices: 19546305--19546358 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
19546295 TTATTATTTA
19546305 ATAA-AGATTAAAATATTAATT
1 ATAATAGATTAAAATA--AATT
*
19546326 ATAAT-TATT-AAATAAATT
1 ATAATAGATTAAAATAAATT
19546344 ATAATAGATTAAAAT
1 ATAATAGATTAAAAT
19546359 TAGTATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 9 0.32
21 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAATAGATTAAAATAAATT
Found at i:19546488 original size:14 final size:14
Alignment explanation
Indices: 19546469--19546498 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19546459 AATAATTAAG
*
19546469 ATAATAATATATTT
1 ATAATAATATAATT
19546483 ATAATAATATAATT
1 ATAATAATATAATT
19546497 AT
1 AT
19546499 TTAGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATAATATAATT
Found at i:19546724 original size:15 final size:15
Alignment explanation
Indices: 19546691--19546724 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19546681 TAAAATAAAT
* *
19546691 AATTTATTAATTATT
1 AATTTATTAAATATA
19546706 AATTTATTAAATATA
1 AATTTATTAAATATA
19546721 AATT
1 AATT
19546725 CTTTATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTATTAAATATA
Found at i:19546848 original size:11 final size:11
Alignment explanation
Indices: 19546832--19546900 Score: 53
Period size: 11 Copynumber: 6.9 Consensus size: 11
19546822 ATTTACTATA
19546832 ATATATAATAT
1 ATATATAATAT
19546843 ATATATAAT-T
1 ATATATAATAT
* *
19546853 ATATATTACAT
1 ATATATAATAT
*
19546864 ATAAATAA-AT
1 ATATATAATAT
19546874 -TATA-AATAT
1 ATATATAATAT
*
19546883 AT-TTTAA-AT
1 ATATATAATAT
19546892 A-ATATAATA
1 ATATATAATA
19546901 ACATTATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
8 2 0.04
9 13 0.29
10 14 0.31
11 16 0.36
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (11 bp):
ATATATAATAT
Found at i:19546912 original size:22 final size:21
Alignment explanation
Indices: 19546862--19546913 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
19546852 TATATATTAC
*
19546862 ATATAAATAAATTATAAATAT
1 ATATAAATAAATAATAAATAT
*
19546883 ATTTTAAATAATATAATAACAT-T
1 A-TATAAATAA-ATAATAA-ATAT
19546906 ATATAAAT
1 ATATAAAT
19546914 TATAATTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.04
22 14 0.56
23 8 0.32
24 2 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAAATAAATAATAAATAT
Found at i:19547595 original size:27 final size:28
Alignment explanation
Indices: 19547560--19547615 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
19547550 TAATATAATT
19547560 TAATAAATATTGATATT-ATTAATATTAA
1 TAATAAATATTGATATTAATT-ATATTAA
*
19547588 TAAT-AATATTGTTATTAATTATATTAA
1 TAATAAATATTGATATTAATTATATTAA
19547615 T
1 T
19547616 TAAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
TAATAAATATTGATATTAATTATATTAA
Found at i:19547622 original size:27 final size:26
Alignment explanation
Indices: 19547555--19547622 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
19547545 TCAAATAATA
19547555 TAAT-TTAAT-AAATATTGATATTAT
1 TAATATTAATAAAATATTGATATTAT
*
19547579 TAATATTAATAATAATATTGTTATTAAT
1 TAATATTAATAA-AATATTGATATT-AT
19547607 T-ATATTAATTAAAATA
1 TAATATTAA-TAAAATA
19547623 AATAATTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 4 0.11
25 5 0.13
26 1 0.03
27 22 0.58
28 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
TAATATTAATAAAATATTGATATTAT
Found at i:19547628 original size:22 final size:22
Alignment explanation
Indices: 19547603--19547678 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
19547593 ATATTGTTAT
19547603 TAATTATATTAATTAAAATAAA
1 TAATTATATTAATTAAAATAAA
*
19547625 TAATTATAATT-ATTTAAAT-AA
1 TAATTAT-ATTAATTAAAATAAA
* *
19547646 TAATTTAAATTTATTTAATAATAGAA
1 TAA-TTATA-TTAATTAA-AATA-AA
19547672 TAATTAT
1 TAATTAT
19547679 TAATAATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
21 6 0.14
22 19 0.45
23 6 0.14
24 3 0.07
25 3 0.07
26 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATTATATTAATTAAAATAAA
Found at i:19547794 original size:14 final size:14
Alignment explanation
Indices: 19547752--19547873 Score: 50
Period size: 13 Copynumber: 9.1 Consensus size: 14
19547742 ATTATAAAAA
19547752 AATATAATAAT-AT
1 AATATAATAATAAT
*
19547765 AGTAT-A-AAT-AT
1 AATATAATAATAAT
* *
19547776 TATATACTAATAAT
1 AATATAATAATAAT
19547790 AATATAATAAT-AT
1 AATATAATAATAAT
19547803 -AT-TAATTATATAA-
1 AATATAA-TA-ATAAT
*
19547816 AATATTAATAATTA-
1 AATA-TAATAATAAT
* *
19547830 AATATATTAATTA-
1 AATATAATAATAAT
*
19547843 AATATATTAA-AAT
1 AATATAATAATAAT
*
19547856 TATATAATTGAATAAT
1 AATATAA-T-AATAAT
19547872 AA
1 AA
19547874 AAAATTATGC
Statistics
Matches: 84, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
11 11 0.13
12 6 0.07
13 34 0.40
14 22 0.26
15 4 0.05
16 7 0.08
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.41
Consensus pattern (14 bp):
AATATAATAATAAT
Found at i:19547808 original size:16 final size:16
Alignment explanation
Indices: 19547752--19547852 Score: 67
Period size: 16 Copynumber: 6.6 Consensus size: 16
19547742 ATTATAAAAA
*
19547752 AATATAATAATATAGTAT
1 AATATATTAATATA--AT
*
19547770 AA-ATATT-ATATACT
1 AATATATTAATATAAT
19547784 AATA-A-TAATATAAT
1 AATATATTAATATAAT
19547798 AATATATTAAT-TATAT
1 AATATATTAATATA-AT
* *
19547814 AAAATATTAATA-ATT
1 AATATATTAATATAAT
19547829 AAATATATTAAT-T-A-
1 -AATATATTAATATAAT
19547843 AATATATTAA
1 AATATATTAA
19547853 AATTATATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
13 11 0.16
14 14 0.21
15 5 0.07
16 32 0.47
17 4 0.06
18 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
AATATATTAATATAAT
Found at i:19547808 original size:19 final size:19
Alignment explanation
Indices: 19547752--19547840 Score: 68
Period size: 16 Copynumber: 5.0 Consensus size: 19
19547742 ATTATAAAAA
*
19547752 AATATAATAATATAGT-AT
1 AATATAATAATATATTAAT
* *
19547770 AA-ATATTATATACTAATAAT
1 AATATAATA-ATA-TATTAAT
19547790 AATATAATAATATATTAAT
1 AATATAATAATATATTAAT
*
19547809 --TAT-ATAAAATATTAAT
1 AATATAATAATATATTAAT
19547825 AAT-T-A-AATATATTAAT
1 AATATAATAATATATTAAT
19547841 TAAATATATT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
16 22 0.37
17 10 0.17
18 6 0.10
19 9 0.15
20 7 0.12
21 5 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (19 bp):
AATATAATAATATATTAAT
Found at i:19547825 original size:38 final size:38
Alignment explanation
Indices: 19547752--19547827 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
19547742 ATTATAAAAA
* *
19547752 AATATAATAATATAGTATAAATATTATATACTAATAAT
1 AATATAATAATATAGTATAAATATAAAATACTAATAAT
*
19547790 AATATAATAATATA-T-TAATTATATAAAATATTAATAAT
1 AATATAATAATATAGTATAA--ATATAAAATACTAATAAT
19547828 TAAATATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.09
37 1 0.03
38 29 0.88
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (38 bp):
AATATAATAATATAGTATAAATATAAAATACTAATAAT
Found at i:19547842 original size:13 final size:13
Alignment explanation
Indices: 19547824--19547852 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19547814 AAAATATTAA
19547824 TAATTAAATATAT
1 TAATTAAATATAT
19547837 TAATTAAATATAT
1 TAATTAAATATAT
19547850 TAA
1 TAA
19547853 AATTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTAAATATAT
Found at i:19547855 original size:23 final size:21
Alignment explanation
Indices: 19547822--19547871 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
19547812 ATAAAATATT
19547822 AATAATTAAA-TATATTAATTA
1 AATAATTAAATTATA-TAATTA
*
19547843 AATATATTAAAATTATATAATTG
1 AATA-ATT-AAATTATATAATTA
19547866 AATAAT
1 AATAAT
19547872 AAAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 5 0.20
23 12 0.48
24 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AATAATTAAATTATATAATTA
Found at i:19547951 original size:26 final size:28
Alignment explanation
Indices: 19547922--19547993 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 28
19547912 AACAATATTA
19547922 ATATTTAAATTTGTATTAATAAC-A-AT
1 ATATTTAAATTTGTATTAATAACTACAT
*
19547948 ATA-TTAATATAT-TATTTAATAACTTACAT
1 ATATTTAA-ATTTGTA-TTAATAAC-TACAT
19547977 AT-TTTAAATTTGTATTA
1 ATATTTAAATTTGTATTA
19547994 TAATTGAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
25 6 0.16
26 14 0.38
28 7 0.19
29 10 0.27
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (28 bp):
ATATTTAAATTTGTATTAATAACTACAT
Found at i:19548713 original size:146 final size:146
Alignment explanation
Indices: 19548461--19548758 Score: 334
Period size: 146 Copynumber: 2.0 Consensus size: 146
19548451 AATTCTGTAC
**
19548461 TTCAAATCATTATAACCTTTTGTTATGTCATAAAACAATTATTTTTGTTCATACAAGCTTATTCA
1 TTCAAATCATTATAACCTTTTGTTATGTCATAAAACAATTATTTTAATTCATACAAGCTTATTCA
* ** *
19548526 AAATAAAACAATACTAATCTAATAATATTCCAAAATTTAATAACTAAGGGATTTAAAAAATAAAT
66 AAATAAAACAATAATAATCTAATAATATTCCAAAAAATAATAACTAAGAGATTTAAAAAAT-AAT
*
19548591 T-TGTTTGCCAAACCAA
130 TCTGTTTACCAAACCAA
* * * * *
19548607 TTCAAATCGTTATGACCTTTT-TTCTTGTCATGAAACAATT-TTTTCAATTCATACTAGCTTATT
1 TTCAAATCATTATAACCTTTTGTT-ATGTCATAAAACAATTATTTT-AATTCATACAAGCTTATT
* * * * * * * *
19548670 CATAATAAAATAA-AATGAATTTATTACTATTTCAAAAAATAATAAGTAAGATATTTAAAAAATA
64 CAAAATAAAACAATAAT-AATCTAATAATATTCCAAAAAATAATAACTAAGAGATTTAAAAAATA
* *
19548734 ATTCTGTTTATCTAACCAA
128 ATTCTGTTTACCAAACCAA
19548753 TTCAAA
1 TTCAAA
19548759 AAATTATACT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
145 12 0.10
146 114 0.90
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (146 bp):
TTCAAATCATTATAACCTTTTGTTATGTCATAAAACAATTATTTTAATTCATACAAGCTTATTCA
AAATAAAACAATAATAATCTAATAATATTCCAAAAAATAATAACTAAGAGATTTAAAAAATAATT
CTGTTTACCAAACCAA
Found at i:19548883 original size:180 final size:177
Alignment explanation
Indices: 19548607--19548989 Score: 393
Period size: 180 Copynumber: 2.1 Consensus size: 177
19548597 GCCAAACCAA
* * * *
19548607 TTCAAATCGTTATGACCTTTTT-TCTTGTCATGA-AAC-AAT-TTTTTCAATTCATACT-AGCTT
1 TTCAAATCATTATGA-CTTTTTGTTTTGTCAT-ACAACAAATATTTTT--GTTCATA-TAAGTTT
* * *
19548667 ATTCATAATAAAATAAAATGAATTTATTACTATTTCAAAAAATAATAAGTAAGATATTTAAAAAA
61 ATTCAGAATAAAATAAAATGAATCTATTAATATTTCAAAAAATAATAAGT--G--ATTTAAAAAA
* * * * *
19548732 TAATTCTGTTTATCTAACCAATTCAAAAAATTAT-ACTATTTGAACAGTTATATAT
122 TAAATCTATGTATCAAACCAATTCAAAAAATTATGACTATTTGAACAATTATATAT
*
19548787 TTCAAATCATTATTACTTTTTGTTTTGTCATACAACAAATATTTTTGTTCATATAAGTTTATTCA
1 TTCAAATCATTATGACTTTTTGTTTTGTCATACAACAAATATTTTTGTTCATATAAGTTTATTCA
* * * * *
19548852 GAATAAAGTAATACT-AATCTATTAATATTTCAAAAATTAATAAGTGATTTAGACAATAAATCTA
66 GAATAAAATAA-AATGAATCTATTAATATTTCAAAAAATAATAAGTGATTTAAAAAATAAATCTA
* * * * * ** *
19548916 TGTATCAAACTAGTTTAAATAGTTATGACTATTTGAGTAATTATTTAT
130 TGTATCAAACCAATTCAAAAAATTATGACTATTTGAACAATTATATAT
19548964 TTCAAATCATTATGACTTTTTGTTTT
1 TTCAAATCATTATGACTTTTTGTTTT
19548990 ATTGTAAAAC
Statistics
Matches: 169, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
176 33 0.20
177 42 0.25
178 1 0.01
179 8 0.05
180 75 0.44
181 5 0.03
182 5 0.03
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.43
Consensus pattern (177 bp):
TTCAAATCATTATGACTTTTTGTTTTGTCATACAACAAATATTTTTGTTCATATAAGTTTATTCA
GAATAAAATAAAATGAATCTATTAATATTTCAAAAAATAATAAGTGATTTAAAAAATAAATCTAT
GTATCAAACCAATTCAAAAAATTATGACTATTTGAACAATTATATAT
Found at i:19549626 original size:101 final size:101
Alignment explanation
Indices: 19549451--19549642 Score: 242
Period size: 101 Copynumber: 1.9 Consensus size: 101
19549441 AAAATAAATC
* * * * * * **
19549451 TGTTTACCAAACAAGTTCTAATCATTATGGCTATTTGAGCAATTATTTATTTCAACATGTTATGA
1 TGTTTACCAAACAAGTTCAAATCATTATGACTATCTGAACAATTATCTATTTCAAAACATTATGA
** *
19549516 TTTTTTGTTTTGTCATAAAATAATTATTTCTATTCA
66 CCTTTTGTTTTGTCATAAAACAATTATTTCTATTCA
* * *
19549552 TGTTTACCGAATAAGTTCAAAT-AGTTATGACTATCTGAATAATTATCTATTTCAAAACATTATG
1 TGTTTACCAAACAAGTTCAAATCA-TTATGACTATCTGAACAATTATCTATTTCAAAACATTATG
19549616 ACCTTTTGTTTTGTCATAAAACAATTA
65 ACCTTTTGTTTTGTCATAAAACAATTA
19549643 GCTTTGTTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 1 0.01
101 75 0.99
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (101 bp):
TGTTTACCAAACAAGTTCAAATCATTATGACTATCTGAACAATTATCTATTTCAAAACATTATGA
CCTTTTGTTTTGTCATAAAACAATTATTTCTATTCA
Found at i:19549795 original size:280 final size:279
Alignment explanation
Indices: 19549307--19549814 Score: 654
Period size: 280 Copynumber: 1.8 Consensus size: 279
19549297 TAGGACTGTT
* **
19549307 TGAATAATTATCTATTTGAAATAGCTATAACCTTTTGTTTTGTAATAAAAAATTTTTTCTGTTCA
1 TGAATAATTATCTATTTCAAATAGCTATAACCTTTTGTTTTGTAATAAAAAATTGCTTCTGTTCA
*
19549372 TCTAAACTTATTTCGAATAAAATAATACAAATTTATTAATATTAAAAAAATTAATAAGTAAATGA
66 TCTAAACTTATTTCGAATAAAATAATACAAACTTATTAATATTAAAAAAATTAATAAGTAAAT-A
* * * * *
19549437 TTTAAAAATAAATCTGTTTACCAAACAAGTTCTAATCATTATGGCTATTTGAGCAATTATTTATT
130 TTAAAAAATAAATATGTTTACCAAACAAGTTCAAATCATTATGACTATTTGAGCAATTATCTATT
** *
19549502 TCAACATGTTATGATTTTTTGTTTTGTCATAAAATAATTATTTCTATTCATGTTTACCGAATAAG
195 TCAACATGTTATGACCTTTTATTTTGTCATAAAATAATTATTTCTATTCATGTTTACCGAATAAG
19549567 TTCAAATAGTTATGACTATC
260 TTCAAATAGTTATGACTATC
* *
19549587 TGAATAATTATCTATTTCAAA-A-CATTATGACCTTTTGTTTTGTCATAAAACAATTAGCTT-TG
1 TGAATAATTATCTATTTCAAATAGC--TATAACCTTTTGTTTTGTAATAAAA-AATT-GCTTCTG
* * **
19549649 TTCATGC-AAGCTTATTTCGAATAAAATAATTCAAACTTATTAATATTTCAAAAATTAATAAGTA
62 TTCAT-CTAAACTTATTTCGAATAAAATAATACAAACTTATTAATATTAAAAAAATTAATAAGTA
**** *
19549713 AAT-TTGAAAAAATAAATATGTTTTTTGAACATGTTCAAAT-AGTTATGACTATTTGAAG-AATT
126 AATATT-AAAAAATAAATATGTTTACCAAACAAGTTCAAATCA-TTATGACTATTTG-AGCAATT
*
19549775 ATCTATTTTAA-ATCGTTATGACCTTTTATTTTGTCATAAA
188 ATCTATTTCAACAT-GTTATGACCTTTTATTTTGTCATAAA
19549815 CCAATTGTTT
Statistics
Matches: 195, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
278 1 0.01
279 6 0.03
280 117 0.60
281 68 0.35
282 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.43
Consensus pattern (279 bp):
TGAATAATTATCTATTTCAAATAGCTATAACCTTTTGTTTTGTAATAAAAAATTGCTTCTGTTCA
TCTAAACTTATTTCGAATAAAATAATACAAACTTATTAATATTAAAAAAATTAATAAGTAAATAT
TAAAAAATAAATATGTTTACCAAACAAGTTCAAATCATTATGACTATTTGAGCAATTATCTATTT
CAACATGTTATGACCTTTTATTTTGTCATAAAATAATTATTTCTATTCATGTTTACCGAATAAGT
TCAAATAGTTATGACTATC
Found at i:19549995 original size:181 final size:181
Alignment explanation
Indices: 19549552--19551047 Score: 1250
Period size: 181 Copynumber: 8.3 Consensus size: 181
19549542 TTTCTATTCA
* * * *
19549552 TGTTTACCGAATAAGTTCAAATAGTTATGACTATCTGAATAATTATCTATTTCAAAACATTATGA
1 TGTTTA-CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGA
* * * ** *
19549617 CCTTTTGTTTTGTCATAAAACAATTAG--CTTTGTTCATGCAAGCTTATTTC-GAATAAAATAAT
65 TCTTTTGTTTTATCATAAAACAATT-GTTTTTTGTTCATAAAAGCTTA-TTCAAAATAAAATAAT
* * * *
19549679 TCAAACTTATTAATATTTCAAAAATTAATAAGT-A-A-ATTTGAAAAAATAAATA
128 ACTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTT-AAAAAATAAATC
** * * *
19549731 TGTTTTTTGAACATGTTCAAATAGTTATGACTATTTGAAGAATTATCTATTTTAAATCGTTATGA
1 TG-TTTACGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGA
* * * * * *
19549796 CCTTTTATTTTGTCATAAACCAATTGTTTTTTG-TCATAAAAGCTTTTTCAAAATAAAATAGTAC
65 TCTTTTGTTTTATCATAAAACAATTGTTTTTTGTTCATAAAAGCTTATTCAAAATAAAATAATAC
* *
19549860 TAATTTATTAAAATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATC
130 TAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
* *
19549912 TGTTTATCGAGCAAGTTCAAATAGTTATGACTATTTGAATAATTATTTATTTCAAATCGTTATGA
1 TGTTTA-CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGA
* * * *
19549977 TCTTTTGTTTTATCATAAAATAAAT-TTTTTTGTTCATACAAA-ATTATTCAAAATAAAATAATT
65 TCTTTTGTTTTATCATAAAACAATTGTTTTTTGTTCATA-AAAGCTTATTCAAAATAAAATAATA
* * ** * *
19550040 TTTATTTATTAATATTTTGAGAATT-A-AA--AAGAGATTTAAAAACTAAATC
129 CTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
* * * * * * *
19550089 TATTTACTAAACCAGTTCAAATAGTTATGACTATTTGAACATTTATCTATCTT-AAATCATAATG
1 TGTTTAC-GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTAT-TTCAAATCGTTATG
* * * ** * * * *
19550153 ATC-TTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTATTCAGATTAAAATGATA
64 ATCTTTTGTTTTATCATAAAACAATTGTTTTTTGTTCATAAAAGCTTATTCAAAATAAAATAATA
* * *
19550216 CTAATTTAATAATATTTCTAAAA-T--TAA-TAAGAGATTTAAAAAATAAATA
129 CTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
* * * * * *
19550265 TG-TTAGCCGAACTAGTTCAAATAGTTAAGACTATCAT-AATAATAATCTATTTCAAATCATTCT
1 TGTTTA--CGAACAAGTTCAAATAGTTATGACTAT-TTGAATAATTATCTATTTCAAATCGTTAT
* * * ** * ***
19550328 -ATCATTTT-ATTTAGTTATAAAACAATT-ATTTCAGTTCATACAAGCTTATTTGGAATAAAATA
63 GATC-TTTTGTTTTA-TCATAAAACAATTGTTTTTTGTTCATAAAAGCTTATTCAAAATAAAATA
*
19550390 ATACTAATTTATTAACA-TTCAAAAAATT-A-AAGTAAGAGATTTAAAAAATAAATC
126 ATACTAATTTATTAATATTTC-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
* * * * * ** *
19550444 TGTTTACTGAATAATTTCAAATAGATATGACTATTTAAATAATTATCTATTTAAAATTATTTTGA
1 TGTTTAC-GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGA
* * ** * * *
19550509 -CATTTTATTTTGTCATAAAACAATTG-TTTCAGTTAATAAAAACTTA-TCTGAAATAAAATAAT
65 TC-TTTTGTTTTATCATAAAACAATTGTTTTTTGTTCATAAAAGCTTATTC-AAAATAAAATAAT
* * * * *
19550571 ACTACTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAACTAAAAC
128 ACTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
* * * ** * * * *
19550625 TATTTTTCAAAGTAGTTCTAATAGTTATGACTATTTGAACAAATAT-TAATCTCAAATCGTTATG
1 T-GTTTACGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCT-ATTTCAAATCGTTATG
* * * * * *
19550689 AT-GTTTGTTTTATCATAAAATAAATATTTTTT-TATCATATAAGCTAATTC-AAATAAAAATAA
64 ATCTTTTGTTTTATCATAAAACAATTGTTTTTTGT-TCATAAAAGCTTATTCAAAAT-AAAATAA
* * * *
19550751 TACTAATTTAATAATATTTTAAAAATTAATAAGTAAGAGATTTAAAACATAAATG
127 TACTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
* ** * * * *
19550806 TGTTTGAC-TATTAGTTCAAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATCGTTTTGA
1 TGTTT-ACGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGA
* * * * ** * *
19550870 CCTTTTGTTTAATCATAGAATAATTG-TTTCAGTTCATAAAAGCTTATTCGAAAGAAAATAATAC
65 TCTTTTGTTTTATCATAAAACAATTGTTTTTTGTTCATAAAAGCTTATTCAAAATAAAATAATAC
* * * * * * *
19550934 TAATTTATTAACT-TTTGAAAGATTAATAAGCAGGATATTTGAAAAACTAAATT
130 TAATTTATTAA-TATTTCAAAAATTAATAAGTAAGAGATTT-AAAAAATAAATC
* * *
19550987 TGTTTACCGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCGTT
1 TGTTTA-CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTT
19551048 GTGAATTTAA
Statistics
Matches: 1060, Mismatches: 203, Indels: 105
0.77 0.15 0.08
Matches are distributed among these distances:
175 13 0.01
176 127 0.12
177 135 0.13
178 12 0.01
179 259 0.24
180 160 0.15
181 297 0.28
182 57 0.05
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
TGTTTACGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGTTATGAT
CTTTTGTTTTATCATAAAACAATTGTTTTTTGTTCATAAAAGCTTATTCAAAATAAAATAATACT
AATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
Found at i:19551240 original size:11 final size:11
Alignment explanation
Indices: 19551193--19551263 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
19551183 ATTATTGTTA
*
19551193 TTAATTAACAT
1 TTAATTAATAT
* *
19551204 TTAATTAGTAAA
1 TTAATTAAT-AT
*
19551216 TTAA-TAATAA
1 TTAATTAATAT
19551226 TTAATTAATAT
1 TTAATTAATAT
19551237 TTAATTTAATA-
1 TTAA-TTAATAT
19551248 -TAA-TAAT-T
1 TTAATTAATAT
19551256 TTAATTAA
1 TTAATTAA
19551264 ACAAAATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 12 0.24
11 19 0.39
12 11 0.22
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (11 bp):
TTAATTAATAT
Found at i:19551389 original size:31 final size:31
Alignment explanation
Indices: 19551340--19551398 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
19551330 TATAAAACTA
*
19551340 ATTTAATATATATTAAATATTAA-TATTAATT
1 ATTTAATATATATAAAATA-TAACTATTAATT
19551371 ATTTAATAT-TAATAAAATATAACTATTA
1 ATTTAATATAT-ATAAAATATAACTATTA
19551399 TATTTTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTTAATATATATAAAATATAACTATTAATT
Found at i:19551469 original size:13 final size:13
Alignment explanation
Indices: 19551432--19551475 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
19551422 GATTAATAAT
*
19551432 ATAATTTCATATTCC
1 ATAATTT-ATATT-A
*
19551447 ATAATATATATTA
1 ATAATTTATATTA
19551460 ATAATTTATATTA
1 ATAATTTATATTA
19551473 ATA
1 ATA
19551476 TATAGATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 5 0.19
15 6 0.23
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTTATATTA
Found at i:19551478 original size:25 final size:28
Alignment explanation
Indices: 19551432--19551484 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 28
19551422 GATTAATAAT
* *
19551432 ATAATTTCATATTCCATAATATATATTA
1 ATAATTTCATATTCAATAATATAGATTA
19551460 ATAATTT-ATATT-AAT-ATATAGATTA
1 ATAATTTCATATTCAATAATATAGATTA
19551485 GTACGAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 5 0.22
28 7 0.30
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (28 bp):
ATAATTTCATATTCAATAATATAGATTA
Found at i:19551996 original size:22 final size:24
Alignment explanation
Indices: 19551949--19552002 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
19551939 TTGATTATAT
19551949 ATTATAT-TATAATAAAAATAATTA
1 ATTATATATATAAT-AAAATAATTA
*
19551973 ATTATATATATAAT-ATATAA-TA
1 ATTATATATATAATAAAATAATTA
19551995 ATTATATA
1 ATTATATA
19552003 GTTTTACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.36
23 5 0.18
24 7 0.25
25 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTATATATATAATAAAATAATTA
Found at i:19552364 original size:32 final size:32
Alignment explanation
Indices: 19552323--19552425 Score: 79
Period size: 32 Copynumber: 3.2 Consensus size: 32
19552313 TCGAAGCTAA
*
19552323 TTAAAATTATTAGATATTAATTAATTAAATAT
1 TTAATATTATTAGATATTAATTAATTAAATAT
* * *
19552355 TTAATATTATGA-ATTATTCA-TAATTAAATTAA
1 TTAATATTATTAGA-TATTAATTAATTAAA-TAT
* *
19552387 TTAATTAAGTATTAGATATTAGCTTAA-T-AATAT
1 TTAA-T-ATTATTAGATATTA-ATTAATTAAATAT
19552420 TTAATA
1 TTAATA
19552426 ATTTAGTATA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
31 10 0.18
32 22 0.40
33 7 0.13
34 11 0.20
35 2 0.04
36 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (32 bp):
TTAATATTATTAGATATTAATTAATTAAATAT
Found at i:19552450 original size:15 final size:16
Alignment explanation
Indices: 19552423--19552473 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
19552413 ATAATATTTA
19552423 ATAA-TTTAGTATAAT
1 ATAATTTTAGTATAAT
*
19552438 ATAATTTTA-TATAAG
1 ATAATTTTAGTATAAT
*
19552453 ACTACATTTTATTATAAT
1 A-TA-ATTTTAGTATAAT
19552471 ATA
1 ATA
19552474 TATAAGGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 10 0.33
16 6 0.20
17 8 0.27
18 6 0.20
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
ATAATTTTAGTATAAT
Found at i:19553453 original size:28 final size:26
Alignment explanation
Indices: 19553421--19553499 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 26
19553411 AAATTAAGGC
19553421 ATAATTTAAATTTAATTGTTATAAATT
1 ATAATTTAAATTTAATT-TTATAAATT
* *
19553448 ATTAATATAAATTTAAATTTATTGAAATT
1 A-TAATTTAAATTTAATTTTA-T-AAATT
*
19553477 ATAA-TTAAATTTAGTTATTATAA
1 ATAATTTAAATTTAATT-TTATAA
19553500 CTTAGAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.05
27 14 0.33
28 21 0.49
29 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATAATTTAAATTTAATTTTATAAATT
Found at i:19556581 original size:422 final size:421
Alignment explanation
Indices: 19555781--19556542 Score: 910
Period size: 422 Copynumber: 1.8 Consensus size: 421
19555771 AATAAGGTTA
*
19555781 TATGAATTGAAATAATTTTTTTATGACAGAAGAAAAGGTCATAATGATATGAAATAAATAACTAT
1 TATGAATTGAAATAATTTTTTTATGACAAAAGAAAAGGTCATAATGATATGAAATAAATAACTAT
* * * * * * *
19555846 TCAAATAGTCATGATTGTTTGATCTAGTTCAATAAACATATTTAATTTTTTACATTTTTTACTTA
66 TCAAATAGTCATAACTATTTGATCTAGTTCAACAAACATATTTAATTTTTTAAATCTCTTACTTA
*
19555911 TTAATTATCAAAATATTAATAAATTTATATTATTTTAATCCAAATAAGCTTGAATAAATAGAAAC
131 TTAATTATCAAAATATTAATAAATTTATATTATTTTAATCCAAATAAGCTTGAATAAATAGAAAA
* ** * *
19555976 TATTATCTTAAAACAGAACAAAAAGTTATAATGATTTGAAATAAATAATTGCTTAAATAGTCGTA
196 TATTATCTTAAAACAAAACAAAAAGTTATAACAATTTGAAATAAACAATTGCTTAAATAGTCATA
*
19556041 ATTTGAACCAGTTTGATAAATAGATTTATTTTTTAAAATTTTTATTAATTTTTGAAATATTAATA
261 ATTTGAACCAGTTTGATAAATAGATTTATTTTTTAAAATTTTTATTAATTTTTGAAAGATTAATA
* * *
19556106 GATTAGTATTATTTTATTTCAAGCAAACTTATATGAACAAAAACATTTAATTTTTGAAATTTTAA
326 AATTAGTATTATTTTAATTCAA-CAAACTAATAT-AACAAAAACATTTAATTTTTGAAATTTTAA
19556171 TAAATTTATTTTATTTTATTCTACATAAGCTAG
389 TAAATTTATTTTATTTTATTCTACATAAGCTAG
* * * *
19556204 TATGAATTGAAA-ATATTGTTTTT-TGACAAAATAAAAGGTTATAATGATTTGAAATAAATAATT
1 TATGAATTGAAATA-ATT-TTTTTATGACAAAAGAAAAGGTCATAATGATATGAAATAAATAACT
* ** * * *
19556267 ATTCATATAGTTTTAACTATTTGCA-CTAGTTCGACAAACA-ATTTTATTTTTTAAATCTCTTAG
64 ATTCAAATAGTCATAACTATTTG-ATCTAGTTCAACAAACATATTTAATTTTTTAAATCTCTTAC
* * * * * * * * * * *
19556330 TTATTAATTTTTAGAATATTATTAGA-TTAGTTTTGTTTTATTTCAAATAAGCTTGTATGAATA-
128 TTATTAATTATCAAAATATTAATAAATTTA-TATTATTTTAATCCAAATAAGCTTGAATAAATAG
* * ** * * * *
19556393 AAAATAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAATTGCTTTAATAG
192 AAAAT-ATTATCTTAAAACAAAACAAAAAGTTATAACAATTTGAAATAAACAATTGCTTAAATAG
***
19556458 TCATAACTATTTGAATTGGTTTTG-TAAATAGATTTATTTTTT-AAATCTTTTATTAATTTTTGA
256 TCAT-A--ATTTGAACCAG-TTTGATAAATAGATTTATTTTTTAAAAT-TTTTATTAATTTTTGA
19556521 AAGATTAATAAATTAGTATTAT
316 AAGATTAATAAATTAGTATTAT
19556543 ATAATTAATT
Statistics
Matches: 281, Mismatches: 48, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
421 7 0.02
422 117 0.42
423 81 0.29
424 10 0.04
425 62 0.22
426 4 0.01
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (421 bp):
TATGAATTGAAATAATTTTTTTATGACAAAAGAAAAGGTCATAATGATATGAAATAAATAACTAT
TCAAATAGTCATAACTATTTGATCTAGTTCAACAAACATATTTAATTTTTTAAATCTCTTACTTA
TTAATTATCAAAATATTAATAAATTTATATTATTTTAATCCAAATAAGCTTGAATAAATAGAAAA
TATTATCTTAAAACAAAACAAAAAGTTATAACAATTTGAAATAAACAATTGCTTAAATAGTCATA
ATTTGAACCAGTTTGATAAATAGATTTATTTTTTAAAATTTTTATTAATTTTTGAAAGATTAATA
AATTAGTATTATTTTAATTCAACAAACTAATATAACAAAAACATTTAATTTTTGAAATTTTAATA
AATTTATTTTATTTTATTCTACATAAGCTAG
Found at i:19556636 original size:18 final size:18
Alignment explanation
Indices: 19556613--19556651 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19556603 ATAATAACTT
*
19556613 TTATTATTAATACTAAAA
1 TTATTAATAATACTAAAA
* *
19556631 TTATTAATATTAGTAAAA
1 TTATTAATAATACTAAAA
19556649 TTA
1 TTA
19556652 AATTATTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATTAATAATACTAAAA
Found at i:19556770 original size:13 final size:13
Alignment explanation
Indices: 19556752--19556790 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
19556742 TTTTGAAAAT
19556752 AATTAATTAATTA
1 AATTAATTAATTA
19556765 AATTAA-TAATTA
1 AATTAATTAATTA
19556777 TAA-TAATTAATTA
1 -AATTAATTAATTA
19556790 A
1 A
19556791 TAACAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:19556774 original size:20 final size:20
Alignment explanation
Indices: 19556749--19556793 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
19556739 TTGTTTTGAA
*
19556749 AATAATTA-ATTAATTAAATT
1 AATAATTATAATAATT-AATT
19556769 AATAATTATAATAATTAATT
1 AATAATTATAATAATTAATT
19556789 AATAA
1 AATAA
19556794 CAAAAGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATAATTATAATAATTAATT
Found at i:19556820 original size:27 final size:27
Alignment explanation
Indices: 19556779--19556840 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
19556769 AATAATTATA
19556779 ATAATTAATTAATAACAA-AAGTATTGTT
1 ATAATT-ATTAATAACAATAAGTATT-TT
*
19556807 ATAATTATTAATAACAATAATTATTTT
1 ATAATTATTAATAACAATAAGTATTTT
*
19556834 ATTATTA
1 ATAATTA
19556841 AACTAATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (27 bp):
ATAATTATTAATAACAATAAGTATTTT
Found at i:19557232 original size:25 final size:24
Alignment explanation
Indices: 19557191--19557240 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
19557181 AAATAATTAA
19557191 ATATTTTTAATAATTATTATTAAAT
1 ATATTTTTAATAATTA-TATTAAAT
* * *
19557216 ATATTTTTACTAGTTATATTTAAT
1 ATATTTTTAATAATTATATTAAAT
19557240 A
1 A
19557241 CTATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATTTTTAATAATTATATTAAAT
Found at i:19557650 original size:17 final size:17
Alignment explanation
Indices: 19557628--19557662 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19557618 CCATTTATGA
19557628 AATATTAGA-TAATTAAT
1 AATATTA-ATTAATTAAT
19557645 AATATTAATTAATTAAT
1 AATATTAATTAATTAAT
19557662 A
1 A
19557663 TTTTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AATATTAATTAATTAAT
Found at i:19557655 original size:13 final size:14
Alignment explanation
Indices: 19557637--19557682 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
19557627 AAATATTAGA
19557637 TAATTAA-TAATAT
1 TAATTAATTAATAT
19557650 TAATTAATTAATATT
1 TAATTAATTAATA-T
* *
19557665 TTATTAATT-TTAT
1 TAATTAATTAATAT
19557678 TAATT
1 TAATT
19557683 TTATATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 12 0.43
14 7 0.25
15 9 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:19557695 original size:9 final size:9
Alignment explanation
Indices: 19557662--19557686 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19557652 ATTAATTAAT
19557662 ATTTTATTA
1 ATTTTATTA
19557671 ATTTTATTA
1 ATTTTATTA
19557680 ATTTTAT
1 ATTTTAT
19557687 ATTATTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTATTA
Found at i:19558453 original size:180 final size:181
Alignment explanation
Indices: 19557987--19558494 Score: 578
Period size: 180 Copynumber: 2.8 Consensus size: 181
19557977 TTTTAATGCC
* * * * * *
19557987 AATTTATCAATATTTTGAAAATTAATAATTAAGAGATTTAAAAAAATGAATTTGTTTATTGGACA
1 AATTTATTAATATTTTGAAAATTAATAAGTAAAAGATTT-AAAAAATAAATTTGTTTATCGAACA
* * * * * * *
19558052 AGTTTAAATAATTATGACAATTTGAACATTTATTTATTTGAAATTAG-TATAACCTTTTGTTTTA
65 AGTTCAAATAGTTATGACAATTTGAATAATTATTTATTTCAAATT-GTTATGACCTTTTGTTTTG
*
19558116 TCATAAAATAAAATT-TTT-TGTTCATACAAGCTTATTTTAAATAAAATAATATA
129 TCAT-AAA-ACAATTGTTTCTGTTCATACAAGCTTATTTTAAATAAAATAATATA
** * *
19558169 AATTTATTAATA-TTAAAACAATTAATAAGTAAAAGATTTTAAAAATAAATTTGTTTATCGAATA
1 AATTTATTAATATTTTGAA-AATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAACA
* * * *
19558233 AGTTCAAATCGTTATGACTATTTGAATAATTATTTATTTCAAATTGTTATGACTTTTTGTTTTGC
65 AGTTCAAATAGTTATGACAATTTGAATAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGT
* * *
19558298 CATAAAACAATTGTTTCTGTTCATACAAGGTTA-TTTAGATTAAAATAATATT
130 CATAAAACAATTGTTTCTGTTCATACAAGCTTATTTTA-AATAAAATAATATA
* * * *
19558350 AATTTATTAAT-TTTTGATAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAA
1 AATTTATTAATATTTTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAACAA
* ** ** ** * *
19558414 GTTGAAATAGCCATGACAATTTGAATAATTAACTATTTCAAATCATTATGTCCTTTTGTTTTGTA
66 GTTCAAATAGTTATGACAATTTGAATAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTC
19558479 ATAAAACAATTGTTTC
131 ATAAAACAATTGTTTC
19558495 AGTTTAAATA
Statistics
Matches: 274, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
179 5 0.02
180 120 0.44
181 120 0.44
182 29 0.11
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (181 bp):
AATTTATTAATATTTTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAACAA
GTTCAAATAGTTATGACAATTTGAATAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTC
ATAAAACAATTGTTTCTGTTCATACAAGCTTATTTTAAATAAAATAATATA
Found at i:19560041 original size:11 final size:11
Alignment explanation
Indices: 19560015--19560046 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19560005 TTTTTTTAAT
19560015 TTAATTAAA-A
1 TTAATTAAATA
19560025 -TAATTAAATA
1 TTAATTAAATA
19560035 TTAATTAAATA
1 TTAATTAAATA
19560046 T
1 T
19560047 ATTACTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.40
10 1 0.05
11 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TTAATTAAATA
Found at i:19561341 original size:10 final size:9
Alignment explanation
Indices: 19561297--19561348 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
19561287 TAATTAGTAA
19561297 ATAATAAATT
1 ATAAT-AATT
* *
19561307 ATATTTATT
1 ATAATAATT
19561316 -TAATCAATT
1 ATAAT-AATT
19561325 ATAATAATT
1 ATAATAATT
19561334 ATATATAATT
1 ATA-ATAATT
19561344 ATAAT
1 ATAAT
19561349 TAATAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 3 0.09
9 15 0.43
10 17 0.49
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (9 bp):
ATAATAATT
Found at i:19561368 original size:21 final size:22
Alignment explanation
Indices: 19561334--19561374 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19561324 TATAATAATT
* *
19561334 ATATATAATTATAATTAATAAA
1 ATATATAATAATAACTAATAAA
19561356 ATAT-TAATAATAACTAATA
1 ATATATAATAATAACTAATA
19561375 GTCTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATATAATAATAACTAATAAA
Found at i:19561835 original size:17 final size:17
Alignment explanation
Indices: 19561815--19561850 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
19561805 AATTATCCAT
19561815 TTAAAATCATTATGACG
1 TTAAAATCATTATGACG
19561832 TTAAAATCATTATGACG
1 TTAAAATCATTATGACG
19561849 TT
1 TT
19561851 TTGTTTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (17 bp):
TTAAAATCATTATGACG
Found at i:19562206 original size:27 final size:28
Alignment explanation
Indices: 19562139--19562206 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
19562129 TTAAATATCT
19562139 ATTAATTAATAAAAATCAATAATTAAAATA
1 ATTAA-TAAT-AAAATCAATAATTAAAATA
* * * *
19562169 TTTAA-ATTAAAATCAAT-ATTCAGATA
1 ATTAATAATAAAATCAATAATTAAAATA
19562195 ATTAATAATAAA
1 ATTAATAATAAA
19562207 TTATAAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.35
27 14 0.45
28 2 0.06
30 4 0.13
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (28 bp):
ATTAATAATAAAATCAATAATTAAAATA
Found at i:19562207 original size:26 final size:27
Alignment explanation
Indices: 19562141--19562207 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
19562131 AAATATCTAT
19562141 TAATTAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * * *
19562167 TATTTAA-ATTAAAATCAAT-ATTCAGA
1 TAATTAATAAT-AAATCAATAATTAAAA
19562193 TAATTAATAATAAAT
1 TAATTAATAATAAAT
19562208 TATAAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:19562571 original size:19 final size:19
Alignment explanation
Indices: 19562544--19562581 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19562534 TTAATAATTC
*
19562544 AATATTATTATTAAAATAT
1 AATAATATTATTAAAATAT
19562563 AATAATATTATTAAAATAT
1 AATAATATTATTAAAATAT
19562582 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATAATATTATTAAAATAT
Found at i:19563158 original size:21 final size:22
Alignment explanation
Indices: 19563134--19563184 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
19563124 ATTAGTTAAA
*
19563134 TAATTATACTA-ATTATAATTT
1 TAATTATAATACATTATAATTT
*
19563155 TAATTA-AATACATTATATTTT
1 TAATTATAATACATTATAATTT
*
19563176 TAGTTATAA
1 TAATTATAA
19563185 CAATTAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTATAATACATTATAATTT
Found at i:19563190 original size:21 final size:20
Alignment explanation
Indices: 19563134--19563190 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
19563124 ATTAGTTAAA
*
19563134 TAATTATACTAATTATAATTT
1 TAATTAAAC-AATTATAATTT
* *
19563155 TAATTAAATACATTATATTTT
1 TAATTAAACA-ATTATAATTT
*
19563176 TAGTTATAACAATTA
1 TAATTA-AACAATTA
19563191 AACAATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.86
22 3 0.10
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATTAAACAATTATAATTT
Found at i:19563851 original size:13 final size:13
Alignment explanation
Indices: 19563820--19563854 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
19563810 CTATTTATGA
19563820 TATT-ATTATATT
1 TATTAATTATATT
19563832 T-TTAATTATATT
1 TATTAATTATATT
19563844 TATTAATTATA
1 TATTAATTATA
19563855 ATAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 10 0.48
13 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTAATTATATT
Found at i:19563914 original size:10 final size:11
Alignment explanation
Indices: 19563879--19563924 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
19563869 ATAAATTCTT
19563879 ATTATATAATTA
1 ATTAT-TAATTA
*
19563891 ATATAGTAATTA
1 AT-TATTAATTA
19563903 ATTATT-ATTA
1 ATTATTAATTA
19563913 A-TATTAATTA
1 ATTATTAATTA
19563923 AT
1 AT
19563925 AATATGCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
9 4 0.14
10 10 0.34
11 3 0.10
12 10 0.34
13 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
ATTATTAATTA
Found at i:19564610 original size:182 final size:180
Alignment explanation
Indices: 19564306--19564969 Score: 615
Period size: 182 Copynumber: 3.7 Consensus size: 180
19564296 ATTTGTTTAA
* ** *
19564306 TAAACAAATTTATTTTTTAAAACTCCTGCTTATTAACTTTCAAAATATTAAGAAATTAGTATTAT
1 TAAACAAATTTATTTTTTAAAA-TCCTGCTTATTAATTTTTGAAATATTAATAAATTAGTATTAT
* * * *
19564371 TTTATTT-TAAATAAGCTTTTATGA-ACTAAAACAATTATCTTATGTCAAAATAAAAGGTCATAA
65 TTTATTTCTAAATAAGCTTGTATGATA-TAAAACAAGTAT-TTATGACAAAACAAAAGGTCATAA
* *
19564434 CTATTTTAAATAAATAATTTTTCAAATAGTCATAACTATTTGAACTTGTTCGG
128 CTATTTAAAATAAATAATTTTTCAAATAGTCATAACTATTTGAACTGGTTCGG
* ** * * *
19564487 TAAACAGATTTATTTTTTCAAATATTTTGCTTATTAATTTTTCG-AATGTTAATAAATTTGGATT
1 TAAACAAATTTATTTTTT-AAA-ATCCTGCTTATTAATTTTT-GAAATATTAATAAATTAGTATT
* * * * *
19564551 ATTTT-TTTCTAAATAAGCTTGTAAGATATGAAACAAGTATTTGATGACTAAACAAAAGGTAAGA
63 ATTTTATTTCTAAATAAGCTTGTATGATATAAAACAAGTATTT-ATGACAAAACAAAAGGTCATA
* * * ** *
19564615 A-TGATCTAAAATAAATAATTATTCTAATCA-TTTTAACTATTTGAACTGGTTCCG
127 ACT-ATTTAAAATAAATAATTTTTCAAAT-AGTCATAACTATTTGAACTGGTTCGG
* * * *
19564669 TAAGCAAATTTATTTTTT-AAATCTCTTACTTATTAATTTTTGAAATATTATTAAATTAGTAATA
1 TAAACAAATTTATTTTTTAAAATC-C-TGCTTATTAATTTTTGAAATATTAATAAATTAGTATTA
** * * ** *
19564733 TTTT-TAACTGAATAAGCTTCTATGATCGAAAACAATTGT-TTTATGAC-AAA-AAAAGATC-TC
64 TTTTATTTCTAAATAAGCTTGTATGATATAAAACAA--GTATTTATGACAAAACAAAAGGTCAT-
* * * ** * * *
19564793 AACAATTTGAGATTGATAATTGTTCAAATAGTCCTAACTATTTGAACTGGTTTGG
126 AACTATTTAAAATAAATAATTTTTCAAATAGTCATAACTATTTGAACTGGTTCGG
*
19564848 TAAATAAATTTATTTTTT-AAAT-CT-CTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
1 TAAACAAATTTATTTTTTAAAATCCTGCTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
* * *
19564910 TTATTTC-GAATAAGCTTGTATGATAAAAAACAATTGCA-TTATGACAAAACAAAAGGTCAT
66 TTATTTCTAAATAAGCTTGTATGATATAAAACAA--GTATTTATGACAAAACAAAAGGTCAT
19564970 TTATTAAATC
Statistics
Matches: 391, Mismatches: 71, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
175 71 0.18
176 6 0.02
177 8 0.02
178 2 0.01
179 68 0.17
180 6 0.02
181 85 0.22
182 140 0.36
183 5 0.01
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (180 bp):
TAAACAAATTTATTTTTTAAAATCCTGCTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
TTATTTCTAAATAAGCTTGTATGATATAAAACAAGTATTTATGACAAAACAAAAGGTCATAACTA
TTTAAAATAAATAATTTTTCAAATAGTCATAACTATTTGAACTGGTTCGG
Found at i:19565045 original size:33 final size:33
Alignment explanation
Indices: 19565008--19565091 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 33
19564998 AAGTAATAAT
* *
19565008 TATTTAATTATATATAACT-AATATTTTATTTAC
1 TATTTAAATAT-TATAACTAAATATTATATTTAC
* *
19565041 TATTTAAATATTATAATTAAATATTATA-TTAA
1 TATTTAAATATTATAACTAAATATTATATTTAC
19565073 T-TTATAAATATTAATAACT
1 TATT-TAAATATT-ATAACT
19565092 GAATTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.05
32 18 0.42
33 23 0.53
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTTAAATATTATAACTAAATATTATATTTAC
Found at i:19565579 original size:23 final size:23
Alignment explanation
Indices: 19565549--19565608 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
19565539 TAGTAATTTT
19565549 AATAATTATTTATAAATTAATTA
1 AATAATTATTTATAAATTAATTA
* * *
19565572 AATAATTAATTATTATTTAATTA
1 AATAATTATTTATAAATTAATTA
*
19565595 ATTTAA-TATTTATA
1 A-ATAATTATTTATA
19565609 TAGATTATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATAATTATTTATAAATTAATTA
Found at i:19565604 original size:19 final size:19
Alignment explanation
Indices: 19565542--19565604 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
19565532 ATATAACTAG
*
19565542 TAATTTTAA-TAATT-ATT
1 TAATATTAATTAATTAATT
* *
19565559 TATAAATTAATTAAATAA-T
1 TA-ATATTAATTAATTAATT
*
19565578 TAATTATTATTTAATTAATT
1 TAA-TATTAATTAATTAATT
19565598 TAATATT
1 TAATATT
19565605 TATATAGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 2 0.06
18 6 0.17
19 22 0.63
20 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATTAATTAATTAATT
Found at i:19565757 original size:18 final size:19
Alignment explanation
Indices: 19565721--19565761 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19565711 TTAATTTTTT
*
19565721 ATTAATTTAACTAATATAA
1 ATTAATTTAAATAATATAA
19565740 ATTAATTTAAAT-ATATAA
1 ATTAATTTAAATAATATAA
19565758 ATTA
1 ATTA
19565762 TTAATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAATTTAAATAATATAA
Found at i:19565775 original size:23 final size:23
Alignment explanation
Indices: 19565746--19565836 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 23
19565736 ATAAATTAAT
*
19565746 TTAAATATATAAATTATTAATTA
1 TTAAATATATAATTTATTAATTA
* *
19565769 TTAAATATTTAATTTATTAATGA
1 TTAAATATATAATTTATTAATTA
19565792 TT--ATAT-TAATTTATTAA-TA
1 TTAAATATATAATTTATTAATTA
*
19565811 TTAATAAATATATATTTATTGAATTA
1 TTAA-ATATATA-ATTTATT-AATTA
19565837 ATTGATATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.05
20 11 0.20
21 4 0.07
22 3 0.05
23 24 0.43
24 7 0.12
25 2 0.04
26 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATATATAATTTATTAATTA
Found at i:19565787 original size:16 final size:16
Alignment explanation
Indices: 19565762--19565812 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
19565752 ATATAAATTA
19565762 TTAA-TTATTAAATAT
1 TTAATTTATTAAATAT
19565777 TTAATTTATTAATGATTAT
1 TTAATTTATTAA--A-TAT
19565796 ATTAATTTATT-AATAT
1 -TTAATTTATTAAATAT
19565812 T
1 T
19565813 AATAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.16
16 10 0.32
17 1 0.03
18 1 0.03
19 4 0.13
20 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTAATTTATTAAATAT
Found at i:19565802 original size:20 final size:19
Alignment explanation
Indices: 19565760--19565813 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
19565750 ATATATAAAT
19565760 TATTAA-TTATTAA-A-TA
1 TATTAATTTATTAATATTA
19565776 T-TTAATTTATTAATGATTA
1 TATTAATTTATTAAT-ATTA
19565795 TATTAATTTATTAATATTA
1 TATTAATTTATTAATATTA
19565814 ATAAATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 4 0.12
16 8 0.24
18 1 0.03
19 7 0.21
20 13 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTAATTTATTAATATTA
Found at i:19566365 original size:180 final size:179
Alignment explanation
Indices: 19566059--19566544 Score: 453
Period size: 180 Copynumber: 2.7 Consensus size: 179
19566049 TTTTTTATTC
* ** * * * *
19566059 AGAATAAAATAAAAACTAATTTAATAATATTCTGAACTTAATAACCAAGAAAATTAAAAAATAAA
1 AGAATAAAAT-AATACTAATTTAATAATATTCAAAAATTAATAACAAAGAGATTTAAAAAATAAA
* * * *
19566124 TCTAATTATCGAACTAGTTGAAATAGTTAATACTATATGAATGATTATTTATTTCAAATCGTTAT
65 TCTAATTACCGAACTAGTTGAAATAGTTAAGACTATATGAATAATTATCTATTTCAAATCGTTAT
* * * * * *
19566189 GACCTTTTCTTTTGTCT-TAAAACAATTATTTT-GTTCGTACAAGCTTAATT
130 AACATTTTATTTGGT-TATAAAACAATTATTTTAGTTCATAAAAG-TTAATT
* * * *
19566239 GGATTAAAATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGGTTTAAAAAATAAA
1 AGAATAAAATAATACTAATTTAATAATA-TTCAAAAATTAATAACAAAGAGATTTAAAAAATAAA
* ** * * * *
19566304 TTTGTTTACCGAA-TCAGTTTAAATGGTTAAGACTAT-TAGAGTAATTATCTATTTTAAATCGTT
65 TCTAATTACCGAACT-AGTTGAAATAGTTAAGACTATAT-GAATAATTATCTATTTCAAATCGTT
* * *
19566367 CTAATATTTTATTTGGTTATAAAACAATTATTTTAGTTCATAAAAGTTATTT
128 ATAACATTTTATTTGGTTATAAAACAATTATTTTAGTTCATAAAAGTTAATT
* * *
19566419 AGAATAAATTAATACTAATTTAGTAACATTCAAATAATTAATAA-AAATGAGATTTAAAAAAAAT
1 AGAATAAAATAATACTAATTTAATAATATTCAAA-AATTAATAACAAA-GAGATTT--AAAAAAT
* * ** ** * * *
19566483 AAATCT-ATTACCGAACAACTACAAATAGTTATTACTATTTGAACAATTATCTATTTTAAATC
62 AAATCTAATTACCGAACTAGTTGAAATAGTTAAGACTATATGAATAATTATCTATTTCAAATC
19566545 ATTAAAACCA
Statistics
Matches: 247, Mismatches: 48, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
179 28 0.11
180 154 0.62
181 52 0.21
182 13 0.05
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.38
Consensus pattern (179 bp):
AGAATAAAATAATACTAATTTAATAATATTCAAAAATTAATAACAAAGAGATTTAAAAAATAAAT
CTAATTACCGAACTAGTTGAAATAGTTAAGACTATATGAATAATTATCTATTTCAAATCGTTATA
ACATTTTATTTGGTTATAAAACAATTATTTTAGTTCATAAAAGTTAATT
Found at i:19569644 original size:22 final size:19
Alignment explanation
Indices: 19569619--19569671 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
19569609 AATTATCAGT
19569619 AATAATAATATATCAATATTAC
1 AATAATAATA-AT-AATATT-C
* *
19569641 AATAATTATAATAATATTT
1 AATAATAATAATAATATTC
*
19569660 AATAATATTAAT
1 AATAATAATAAT
19569672 TTAATTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 10 0.37
20 6 0.22
21 2 0.07
22 9 0.33
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAATAATAATAATATTC
Found at i:19569678 original size:19 final size:19
Alignment explanation
Indices: 19569656--19569695 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19569646 TTATAATAAT
*
19569656 ATTTAA-TAATATTAATTTA
1 ATTTAACTAATAAT-ATTTA
19569675 ATTTAACTAATAATATTTA
1 ATTTAACTAATAATATTTA
19569694 AT
1 AT
19569696 CTTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAACTAATAATATTTA
Found at i:19570022 original size:12 final size:12
Alignment explanation
Indices: 19570005--19570029 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19569995 ATTCTAATCC
19570005 AATAATTATAAT
1 AATAATTATAAT
19570017 AATAATTATAAT
1 AATAATTATAAT
19570029 A
1 A
19570030 GAAGGAAATA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAATTATAAT
Found at i:19570374 original size:25 final size:26
Alignment explanation
Indices: 19570333--19570409 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 26
19570323 ACTAATATGA
*
19570333 TATTA-TTATTACAAATAATAATAAT
1 TATTAGTTATTACTAATAATAATAAT
19570358 TATTAGTTA-TACTAATAA-AATAAT
1 TATTAGTTATTACTAATAATAATAAT
*
19570382 T-TATAGTTATTATTAATATATAAATAAT
1 TAT-TAGTTATTACTAATA-AT-AATAAT
19570410 AAATATCATA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.02
24 13 0.30
25 20 0.45
26 4 0.09
28 6 0.14
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (26 bp):
TATTAGTTATTACTAATAATAATAAT
Found at i:19571770 original size:25 final size:27
Alignment explanation
Indices: 19571711--19571772 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
19571701 AAGTTTTATA
*
19571711 AAACAATTATAAAACTTAACTTATATT
1 AAACAATTATAAAACTAAACTTATATT
19571738 AATA-AATTA-AATAA-TAAACTTAT-TT
1 AA-ACAATTATAA-AACTAAACTTATATT
19571763 AAACAATTAT
1 AAACAATTAT
19571773 CTAATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
24 1 0.03
25 9 0.30
26 10 0.33
27 9 0.30
28 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (27 bp):
AAACAATTATAAAACTAAACTTATATT
Done.