Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001978.1 Hibiscus syriacus cultivar Beakdansim tig00004013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2594977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1957398 original size:81 final size:80
Alignment explanation
Indices: 1957285--1957497 Score: 282
Period size: 81 Copynumber: 2.6 Consensus size: 80
1957275 ACATTTAGCC
* * * * * *
1957285 TTTCATATAACTTGCATGATTGACACCTTTCTGCCAAATCCACAGCTAGGCTATTAATGTTTTAC
1 TTTCATATAACTGGCATAATTGACACATTTCTGCCAAATACACAGCTAGGCTATTAATCTCTTAC
1957350 TCAAAGGTATTTAACA
66 TCAAAGGTATTTAA-A
* * *
1957366 TTTCATATAACTGGCATAATTGACACATTTCTGTCAAATGCACAACTAGGCTATTAATCTCTTAC
1 TTTCATATAACTGGCATAATTGACACATTTCTGCCAAATACACAGCTAGGCTATTAATCTCTTAC
* *
1957431 TCAACGGTATTTAAT
66 TCAAAGGTATTTAAA
* * *
1957446 TGTTCATCTAACTGACATAATTGACACATTTATGCCAAATACACAGCTAGGC
1 T-TTCATATAACTGGCATAATTGACACATTTCTGCCAAATACACAGCTAGGC
1957498 CTCAAAGGCA
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 114 0.99
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (80 bp):
TTTCATATAACTGGCATAATTGACACATTTCTGCCAAATACACAGCTAGGCTATTAATCTCTTAC
TCAAAGGTATTTAAA
Found at i:1957543 original size:68 final size:68
Alignment explanation
Indices: 1957448--1957635 Score: 250
Period size: 68 Copynumber: 2.8 Consensus size: 68
1957438 TATTTAATTG
* *
1957448 TTCATCTAACTGACATAATTGACACATTTATGCCAAATACACAGCTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATGATTGACACATTTATGCCAAATACACAGCTAGGCCTCAAAGGCACTTAG
1957513 CCT
66 CCT
** * * * *
1957516 TTCATCTAACTGGCATGATTTTCACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATGATTGACACATTTATGCCAAATACACAGCTAGGCCTCAAAGGCACTTAG
1957581 CCT
66 CCT
* * ** * *
1957584 TTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGCACAGATAGGCCT
1 TTCATCTAACTGGCATGATTGACACATTTATGCCAAATACACAGCTAGGCCT
1957636 TAAATCTTGT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 107 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATGATTGACACATTTATGCCAAATACACAGCTAGGCCTCAAAGGCACTTAG
CCT
Found at i:1958599 original size:55 final size:55
Alignment explanation
Indices: 1957816--1958577 Score: 1191
Period size: 55 Copynumber: 13.9 Consensus size: 55
1957806 ATAAATTTAT
* * * * *
1957816 TATGAATTTCTTAATTTTTCTCATAAAGTTCCCATATGGAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
*
1957871 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
*
1957926 TATGAATTTCTTAAGTTTACACGTAAAGTGCCCATACGGAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
*
1957981 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATTCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
*
1958036 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
*
1958091 TATGAACTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
* * *
1958146 TATGAATTTCTTAAGTTTACACATAAAGTGTCCATATGAAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
* * **
1958201 TATGAATTTCTTAAGTTTACACATAAAGTGTCCATACAGAAATTCATCTTCTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
* ** * *
1958256 TATGAATTTCTTAAGTTCACACATAAAGTGCCCATACAAAAATTTAGCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
* * * *
1958311 TATGAATTTCTTATGTTTACATATAAAGTGTCCATACGGAAATTCATTCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
* * * *
1958366 TATGAATTTCTTGATTTTACACATAAAGTGCTCATACGAAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
*
1958421 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
** * *
1958476 TATGAATTTCTTAAGTTTACAGTTAAAGTGTCCATACGAAAATTCATCCACTTAG
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
* *
1958531 TATAAATTTCTTAAGTTTACACATAAAGTGCCCATACAGAAATTCAT
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCAT
1958578 AAACAAATTA
Statistics
Matches: 644, Mismatches: 63, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 644 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (55 bp):
TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAG
Found at i:1966594 original size:90 final size:88
Alignment explanation
Indices: 1966473--1966642 Score: 286
Period size: 90 Copynumber: 1.9 Consensus size: 88
1966463 TCGTAAATAT
*
1966473 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
1966538 GGTAACTTGGATATAAGAGGATTA
65 GGTAACTTGGATATAAGAGGATTA
* *
1966562 TTAAATTCTAATTATTTAAATATAGATTTAATTAATTTGAAATAATAAAACGCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
1966627 GGTAACTTGGCTATAA
65 GGTAACTTGGATATAA
1966643 AAGGGTGTGA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 36 0.47
90 40 0.53
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.39
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAGAGGATTA
Found at i:1967347 original size:20 final size:20
Alignment explanation
Indices: 1967322--1967387 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
1967312 TTGTGATCAA
*
1967322 ATGGTATCGATAC-CATCCTC
1 ATGGTATCGATACTC-CCCTC
1967342 ATGGTATCGATACTCCCCTC
1 ATGGTATCGATACTCCCCTC
1967362 ATGGTATCGATACT-CCCTC
1 ATGGTATCGATACTCCCCTC
*
1967381 TTGGTAT
1 ATGGTAT
1967388 ATATACCACT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 11 0.26
20 31 0.72
21 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGGTATCGATACTCCCCTC
Found at i:1967393 original size:19 final size:20
Alignment explanation
Indices: 1967338--1967393 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1967328 TCGATACCAT
*
1967338 CCTCATGGTATCGATACTCC
1 CCTCATGGTATAGATACTCC
*
1967358 CCTCATGGTATCGATACT-C
1 CCTCATGGTATAGATACTCC
* *
1967377 CCTCTTGGTATATATAC
1 CCTCATGGTATAGATAC
1967394 CACTTGAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (20 bp):
CCTCATGGTATAGATACTCC
Found at i:1974001 original size:13 final size:14
Alignment explanation
Indices: 1973968--1973994 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1973958 CAAATAATAT
1973968 AAAATGTTTTCTAA
1 AAAATGTTTTCTAA
1973982 AAAATGTTTTCTA
1 AAAATGTTTTCTA
1973995 GAAATGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
AAAATGTTTTCTAA
Found at i:1976765 original size:16 final size:16
Alignment explanation
Indices: 1976744--1976774 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1976734 TAGATTGTTG
1976744 AAAGTAAATTATTTAA
1 AAAGTAAATTATTTAA
1976760 AAAGTAAATTATTTA
1 AAAGTAAATTATTTA
1976775 TAGAGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AAAGTAAATTATTTAA
Found at i:1978236 original size:40 final size:40
Alignment explanation
Indices: 1978180--1978299 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
1978170 TAAGAAATAA
* *
1978180 GTTGTAATCTAGAATGTTAATATTTTTATTAATAAAATGG
1 GTTGTGATCTAAAATGTTAATATTTTTATTAATAAAATGG
* *
1978220 GTTGT-A-CTAAAAAATG-TAATGA--TTCACTAA-AAAATGG
1 GTTGTGATCT--AAAATGTTAAT-ATTTTTATTAATAAAATGG
*
1978257 GTTGTGATCTATAATGTTAATATTTTTATTAATAAAATGG
1 GTTGTGATCTAAAATGTTAATATTTTTATTAATAAAATGG
1978297 GTT
1 GTT
1978300 TCGTCCAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
37 18 0.28
38 13 0.20
39 13 0.20
40 21 0.32
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (40 bp):
GTTGTGATCTAAAATGTTAATATTTTTATTAATAAAATGG
Found at i:1978261 original size:77 final size:75
Alignment explanation
Indices: 1978098--1978447 Score: 312
Period size: 77 Copynumber: 4.6 Consensus size: 75
1978088 TGGCTGATTG
* * * * *
1978098 AAATATGTTGTGATCTAAAATGTTAATA-TTTTATTAATAAAATGTGTTTCGCCCAAGAATGTCA
1 AAATAAGTTGTAATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTT--CTCAAGAATGTCA
** *
1978162 TGGCTCACTAAG
64 TGATTCACTAAA
* * *
1978174 AAATAAGTTGTAATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGTACTAAAAAATGTAA
1 AAATAAGTTGTAATCTAGAATGTTAATATTTTTATTAATAAAATGGGTT-T-CTCAAGAATGTCA
1978239 TGATTCACTAAA
64 TGATTCACTAAA
** * *
1978251 AAATGGGTTGTGATCTATAATGTTAATATTTTTATTAATAAAATGGGTTTCGTCCAAGAATGTCA
1 AAATAAGTTGTAATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTTC-T-CAAGAATGTCA
1978316 TGATTCAC-AAA
64 TGATTCACTAAA
* * * * * *
1978327 GAAATAAGTTG-AGATTTGGAATGCTAATATTTTTATTAATAAAATGAGTTACGCCCAAGAATGT
1 -AAATAAGTTGTA-ATCTAGAATGTTAATATTTTTATTAATAAAATGGGTT--TCTCAAGAATGT
* *
1978391 TATGTTTCACTAAGA
62 CATGATTCACTAA-A
* ** * * *
1978406 AAGTAAGTTGCGATATGGAATGTTAATATTTTTGTT-ATAAAA
1 AAATAAGTTGTAATCTAGAATGTTAATATTTTTATTAATAAAA
1978448 AATTTGACAG
Statistics
Matches: 227, Mismatches: 36, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.00
76 30 0.13
77 161 0.71
78 33 0.15
79 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.37
Consensus pattern (75 bp):
AAATAAGTTGTAATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTTCTCAAGAATGTCATG
ATTCACTAAA
Found at i:1978313 original size:40 final size:39
Alignment explanation
Indices: 1978190--1978313 Score: 98
Period size: 40 Copynumber: 3.2 Consensus size: 39
1978180 GTTGTAATCT
*
1978190 AGAATGTTAATATTTTTATTAATAAAATGGG-TTGTACTAA
1 AGAATGTTAATATTTTTATTAATAAAATGGGTTTGT-C-CA
* * * *
1978230 AAAATG-TAATGA--TTCACTAA-AAAATGGGTTGTGAT-CT
1 AGAATGTTAAT-ATTTTTATTAATAAAATGGGTT-TG-TCCA
*
1978267 ATAATGTTAATATTTTTATTAATAAAATGGGTTTCGTCCA
1 AGAATGTTAATATTTTTATTAATAAAATGGGTTT-GTCCA
1978307 AGAATGT
1 AGAATGT
1978314 CATGATTCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
37 14 0.22
38 11 0.17
39 14 0.22
40 25 0.39
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (39 bp):
AGAATGTTAATATTTTTATTAATAAAATGGGTTTGTCCA
Found at i:1978390 original size:154 final size:155
Alignment explanation
Indices: 1978098--1978447 Score: 420
Period size: 154 Copynumber: 2.3 Consensus size: 155
1978088 TGGCTGATTG
* *
1978098 AAATATGTTGTGATCTAAAATGTTAATA-TTTTATTAATAAAATGTGTTTCGCCCAAGAATGTCA
1 AAATAAGTTGTGATCTAAAATGTTAATATTTTTATTAATAAAATGGGTTTCGCCCAAGAATGTCA
* * * * **
1978162 TGGCTCACTAAGAAATAAGTTGTAATCTAGAATGTTAATATTTTTATTAATAAAATGGGTTGTAC
66 TGACTCACAAAGAAATAAGTTGTAATCTAGAATGCTAATATTTTTATTAATAAAATGAGTTACAC
*
1978227 TAAAAAATGTAATGATTCACTAA-A
131 CAAAAAATGTAATGATTCACTAAGA
** * *
1978251 AAATGGGTTGTGATCTATAATGTTAATATTTTTATTAATAAAATGGGTTTCGTCCAAGAATGTCA
1 AAATAAGTTGTGATCTAAAATGTTAATATTTTTATTAATAAAATGGGTTTCGCCCAAGAATGTCA
* * * *
1978316 TGATTCACAAAGAAATAAGTTG-AGATTTGGAATGCTAATATTTTTATTAATAAAATGAGTTACG
66 TGACTCACAAAGAAATAAGTTGTA-ATCTAGAATGCTAATATTTTTATTAATAAAATGAGTTACA
* * * *
1978380 CCCAAGAATGTTATGTTTCACTAAGA
130 CCAAAAAATGTAATGATTCACTAAGA
* * * ** *
1978406 AAGTAAGTTGCGATATGGAATGTTAATATTTTTGTT-ATAAAA
1 AAATAAGTTGTGATCTAAAATGTTAATATTTTTATTAATAAAA
1978448 AATTTGACAG
Statistics
Matches: 166, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
153 26 0.16
154 111 0.67
155 29 0.17
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.37
Consensus pattern (155 bp):
AAATAAGTTGTGATCTAAAATGTTAATATTTTTATTAATAAAATGGGTTTCGCCCAAGAATGTCA
TGACTCACAAAGAAATAAGTTGTAATCTAGAATGCTAATATTTTTATTAATAAAATGAGTTACAC
CAAAAAATGTAATGATTCACTAAGA
Found at i:1978708 original size:53 final size:50
Alignment explanation
Indices: 1978608--1978719 Score: 116
Period size: 53 Copynumber: 2.2 Consensus size: 50
1978598 CACAAGTACT
* * * * * *
1978608 GATACTTTCGAATTAAAAAAACATGGAAAATGAGAATGTTGCTAAGTATC
1 GATACTTTTGAATTAAAAAAACATGAAAAATGAGAAGGCTACAAAGTATC
*
1978658 GATACTTTTGAATTTAAAGAAAAATATGAAAAATGAGAAGGCTACAAAGTATC
1 GATACTTTTGAA-TT-AA-AAAAACATGAAAAATGAGAAGGCTACAAAGTATC
* *
1978711 AATAATTTT
1 GATACTTTT
1978720 TCACAAATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
50 11 0.22
51 2 0.04
52 2 0.04
53 35 0.70
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.29
Consensus pattern (50 bp):
GATACTTTTGAATTAAAAAAACATGAAAAATGAGAAGGCTACAAAGTATC
Found at i:1978974 original size:99 final size:100
Alignment explanation
Indices: 1978819--1979002 Score: 275
Period size: 99 Copynumber: 1.9 Consensus size: 100
1978809 GGCAGCGCAT
* *
1978819 TTTTTTAATGTCAACTATTTAAGTTATAAGTATGAAACCATTTATATAATGAAAAAGTAAGACAA
1 TTTTTTAATGTCAACTATTTAAGTTATAAGTATAAAACCATTTATATAATGAAAAAGAAAGA-AA
*
1978884 AA-CATGTTTCTCATGATAACGTAGTAGGCATCATC
65 AAGCATGTTGCTCATGATAACGTAGTAGGCATCATC
* * *
1978919 TTTTTT-ATGTCAA-TCGTTTAAGTTATAAGTATAAAACCATTTATATTATGCAAAAGAAAGAAA
1 TTTTTTAATGTCAACT-ATTTAAGTTATAAGTATAAAACCATTTATATAATGAAAAAGAAAGAAA
1978982 AAGCATGTTGCTCATGATAAC
65 AAGCATGTTGCTCATGATAAC
1979003 ATACTTTTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
98 5 0.07
99 65 0.86
100 6 0.08
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (100 bp):
TTTTTTAATGTCAACTATTTAAGTTATAAGTATAAAACCATTTATATAATGAAAAAGAAAGAAAA
AGCATGTTGCTCATGATAACGTAGTAGGCATCATC
Found at i:1979307 original size:344 final size:344
Alignment explanation
Indices: 1978659--1979351 Score: 1142
Period size: 344 Copynumber: 2.0 Consensus size: 344
1978649 CTAAGTATCG
*
1978659 ATACTTTTGAATTTAAAGAAAAATATGAAAAATGAGAAGGCTACAAAGTATCAATAATTTTTCAC
1 ATACTTTTGAATTTAAAGAAAAATATGAAAAATGAGAAGGCTACAAAGTATCAATAATTTTCCAC
*
1978724 AAATATCGATACTTTCAAATTTTATAAAATATTCATAACATTTTAAGGTTTTAACTTATTTTGTT
66 AAATATCGATACTTTCAAATTTTATAAAATATTCATAACATTTTAAGCTTTTAACTTATTTTGTT
* ** *
1978789 ATGCTCGTGATAGCATAGTAGGCAGCGCATTTTTTTAATGTCAACTATTTAAGTTATAAGTATGA
131 ATGCTCGTGATAACATAACAGGCAGCGCACTTTTTTAATGTCAACTATTTAAGTTATAAGTATGA
*
1978854 AACCATTTATATAATGAAAAAGTAAGACAAAACATGTTTCTCATGATAACGTAGTAGGCATCATC
196 AACCATTTATATAATGAAAAAGTAAGACAAAACATGTTTCTCATGATAACATAGTAGGCATCATC
1978919 TTTTTTATGTCAATCGTTTAAGTTATAAGTATAAAACCATTTATATTATGCAAAAGAAAGA-AAA
261 TTTTTTATGTCAATCGTTTAAGTTATAAGTATAAAACCATTTATATTATGCAAAAGAAAGACAAA
1978983 AGCATGTTGCTCATGATAAC
326 A-CATGTTGCTCATGATAAC
* * *
1979003 ATACTTTTGAATTTAAAGAAAAATATGGAAAATGGGAAGGCTACAAAGTATCAATACTTTTCCAC
1 ATACTTTTGAATTTAAAGAAAAATATGAAAAATGAGAAGGCTACAAAGTATCAATAATTTTCCAC
* * *
1979068 AAATATTGATACTTTCAATTTTTTTATAAATATTCATAACATTTTAAGCTTTTAACTTATTTTGT
66 AAATATCGATACTTTCAAATTTTATA-AAATATTCATAACATTTTAAGCTTTTAACTTATTTTGT
*
1979133 TATGCTCGTGATAACATAACAGGTAGTC-C-CTTTTTTAATGTCAACTATTTAAGTTATAAGTAT
130 TATGCTCGTGATAACATAACAGGCAG-CGCACTTTTTTAATGTCAACTATTTAAGTTATAAGTAT
* * *
1979196 GAAACCGTTTATATGATGAAAAAGTAAGACAAAACATGTTTCTCATGATAACATAGTAGGCATCG
194 GAAACCATTTATATAATGAAAAAGTAAGACAAAACATGTTTCTCATGATAACATAGTAGGCATCA
* *
1979261 TCTTTTTTTATGTCAATCGTTTAAGTTATAAGTAT-AAACTATTTATATTATGCAAAAGTAAGAC
259 TC-TTTTTTATGTCAATCGTTTAAGTTATAAGTATAAAACCATTTATATTATGCAAAAGAAAGAC
1979325 AAAACATGTTGCTCATGATAAC
323 AAAACATGTTGCTCATGATAAC
*
1979347 GTACT
1 ATACT
1979352 AGGCATCACC
Statistics
Matches: 325, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
344 228 0.70
345 96 0.30
346 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37
Consensus pattern (344 bp):
ATACTTTTGAATTTAAAGAAAAATATGAAAAATGAGAAGGCTACAAAGTATCAATAATTTTCCAC
AAATATCGATACTTTCAAATTTTATAAAATATTCATAACATTTTAAGCTTTTAACTTATTTTGTT
ATGCTCGTGATAACATAACAGGCAGCGCACTTTTTTAATGTCAACTATTTAAGTTATAAGTATGA
AACCATTTATATAATGAAAAAGTAAGACAAAACATGTTTCTCATGATAACATAGTAGGCATCATC
TTTTTTATGTCAATCGTTTAAGTTATAAGTATAAAACCATTTATATTATGCAAAAGAAAGACAAA
ACATGTTGCTCATGATAAC
Found at i:1979442 original size:101 final size:101
Alignment explanation
Indices: 1979163--1979455 Score: 392
Period size: 99 Copynumber: 2.9 Consensus size: 101
1979153 AGGTAGTCCC
* * *
1979163 TTTTTTAATGTCAACTATTTAAGTTATAAGTATGAAACCGTTTATATGATGAAAAAGTAAGACAA
1 TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
* * **
1979228 AACATGTTTCTCATGATAACATAGTAGGCATCGTCT
66 AACATGTTTCTCATGATAACGTAATAGGCATCACCT
* * **
1979264 TTTTTT-ATGTCAATCGTTTAAGTTATAAGTAT-AAACTATTTATATTATGCAAAAGTAAGACAA
1 TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
* *
1979327 AACATGTTGCTCATGATAACGTACTAGGCATCACCT
66 AACATGTTTCTCATGATAACGTAATAGGCATCACCT
* * * *
1979363 TTTTTTAATGTCAACCAATTAAGCTATATGTATGATACCGTTTATATTATGCAAAAGTAAGACAA
1 TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
* * *
1979428 AACAAGTTTTTCATGATAATGTAATAGG
66 AACATGTTTCTCATGATAACGTAATAGG
1979456 TAGCGCCTTT
Statistics
Matches: 165, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
99 64 0.39
100 44 0.27
101 57 0.35
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (101 bp):
TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
AACATGTTTCTCATGATAACGTAATAGGCATCACCT
Found at i:1979465 original size:101 final size:101
Alignment explanation
Indices: 1979163--1979468 Score: 400
Period size: 101 Copynumber: 3.0 Consensus size: 101
1979153 AGGTAGTCCC
* * *
1979163 TTTTTTAATGTCAACTATTTAAGTTATAAGTATGAAACCGTTTATATGATGAAAAAGTAAGACAA
1 TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
* * *
1979228 AACATGTTTCTCATGATAACATAGTAGGCATCGTCT
66 AACATGTTTCTCATGATAACGTAATAGGCATCGCCT
* * **
1979264 TTTTTT-ATGTCAATCGTTTAAGTTATAAGTAT-AAACTATTTATATTATGCAAAAGTAAGACAA
1 TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
* * *
1979327 AACATGTTGCTCATGATAACGTACTAGGCATCACCT
66 AACATGTTTCTCATGATAACGTAATAGGCATCGCCT
* * * *
1979363 TTTTTTAATGTCAACCAATTAAGCTATATGTATGATACCGTTTATATTATGCAAAAGTAAGACAA
1 TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
* * * * *
1979428 AACAAGTTTTTCATGATAATGTAATAGGTAGCGCCT
66 AACATGTTTCTCATGATAACGTAATAGGCATCGCCT
1979464 TTTTT
1 TTTTT
1979469 ATGCAAAAGT
Statistics
Matches: 175, Mismatches: 28, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
99 64 0.37
100 44 0.25
101 67 0.38
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (101 bp):
TTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAA
AACATGTTTCTCATGATAACGTAATAGGCATCGCCT
Found at i:1981580 original size:29 final size:29
Alignment explanation
Indices: 1981537--1981706 Score: 263
Period size: 29 Copynumber: 5.9 Consensus size: 29
1981527 GTGACAGCAT
* *
1981537 AGGTTGCCATACACGCCCGGCGTCCT-TA
1 AGGTCGCCATGCACGCCCGGCGTCCTATA
1981565 TAGGTCGCCATGCACGCCCGGCGTCCT-TA
1 -AGGTCGCCATGCACGCCCGGCGTCCTATA
1981594 TAGGTCGCCATGCACGCCCGGCGTCCTATA
1 -AGGTCGCCATGCACGCCCGGCGTCCTATA
1981624 AGGTCGCCATGCACGCCCGGCGTCCTATA
1 AGGTCGCCATGCACGCCCGGCGTCCTATA
* *
1981653 AGGCCGCCATGCACGCCCAGCGTCCTATA
1 AGGTCGCCATGCACGCCCGGCGTCCTATA
*
1981682 AGGTCGCCATGCACGCCCAGCGTCC
1 AGGTCGCCATGCACGCCCGGCGTCC
1981707 ATCATTCTTT
Statistics
Matches: 135, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
29 133 0.99
30 2 0.01
ACGTcount: A:0.17, C:0.39, G:0.26, T:0.18
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGTCCTATA
Found at i:1981981 original size:29 final size:29
Alignment explanation
Indices: 1981939--1982054 Score: 133
Period size: 29 Copynumber: 3.9 Consensus size: 29
1981929 GTTGCCATGG
*
1981939 CCGGTGACATGGTAGGTCGCCATGGAGTC
1 CCGGCGACATGGTAGGTCGCCATGGAGTC
* * *
1981968 CCGGCGACATGGTAGGTCGCGAGTCCGGCGAC
1 CCGGCGACATGGTAGGTCGCCA-T--GGAGTC
* *
1982000 ACTGACGACATGGTAGGTCGCCATGGAGTC
1 -CCGGCGACATGGTAGGTCGCCATGGAGTC
*
1982030 CCGGCGACATGGTAGGTCGACATGG
1 CCGGCGACATGGTAGGTCGCCATGG
1982055 TAGGTCTGCA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
29 42 0.59
30 5 0.07
32 5 0.07
33 19 0.27
ACGTcount: A:0.19, C:0.26, G:0.38, T:0.17
Consensus pattern (29 bp):
CCGGCGACATGGTAGGTCGCCATGGAGTC
Found at i:1982052 original size:13 final size:13
Alignment explanation
Indices: 1982034--1982060 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1982024 GGAGTCCCGG
1982034 CGACATGGTAGGT
1 CGACATGGTAGGT
1982047 CGACATGGTAGGT
1 CGACATGGTAGGT
1982060 C
1 C
1982061 TGCATCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (13 bp):
CGACATGGTAGGT
Found at i:1982620 original size:21 final size:21
Alignment explanation
Indices: 1982572--1982620 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1982562 ACTAAAATCT
1982572 AGTTAATTAGTTTGTTAGTATA
1 AGTT-ATTAGTTTGTTAGTATA
* * *
1982594 AATTATTAGTTTGTTGGTTTA
1 AGTTATTAGTTTGTTAGTATA
1982615 AGTTAT
1 AGTTAT
1982621 ATATTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (21 bp):
AGTTATTAGTTTGTTAGTATA
Found at i:1983181 original size:18 final size:18
Alignment explanation
Indices: 1983118--1983183 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
1983108 GCGAGATAAT
* *
1983118 TTTTGTTTAAAAAAAATA
1 TTTTGTTTTAAAAAAATG
* *
1983136 TTGTG-TTTAAAAATATTTAG
1 TTTTGTTTTAAAAA-A-AT-G
*
1983156 TGTTGTTTTAAAAAAATG
1 TTTTGTTTTAAAAAAATG
1983174 TTTTGTTTTA
1 TTTTGTTTTA
1983184 TTTATATTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
17 7 0.19
18 15 0.42
19 2 0.06
20 4 0.11
21 8 0.22
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (18 bp):
TTTTGTTTTAAAAAAATG
Found at i:1983440 original size:26 final size:25
Alignment explanation
Indices: 1983411--1983475 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
1983401 AAATCATATT
*
1983411 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AATAAATATCAAATC
* *
1983437 ATTAGATT-AATAATAATTATTAAATC
1 ATT--ATTAAATAATAAATATCAAATC
1983463 ATTATT-AATAATA
1 ATTATTAAATAATA
1983476 TTAGTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
26 18 0.53
27 3 0.09
28 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAATAAATATCAAATC
Found at i:1986364 original size:60 final size:60
Alignment explanation
Indices: 1986285--1987269 Score: 1125
Period size: 60 Copynumber: 17.3 Consensus size: 60
1986275 TATGTATTTA
*
1986285 TAAT-ATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
1986344 TAATGATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
*
1986404 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATGAT--
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
1986457 T--TGA--TAGTAATGATTAGTAATAATGAAATTATTATAAATTTTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
1986513 TAATGA-TTAATAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* * * * * *
1986572 TAATGA-CTAGTAAT-AAT-GAAATTAT--TATTAATTTTTAATGA-TT--TG-----ATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTGATAG
*
1986621 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* * *
1986681 TAATGATTTAATAATGATTAGTAATAATAAAATTGTTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
*
1986741 TAATGATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
1986801 TAATGATTTAGTAATAATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
*
1986861 T-A--A--T-G--AT--TTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* * ** * * *
1986911 TAATGA-TTAGTAAT-AAT-G-AA-ATTGTTATTAATATT--TA-ATG---ATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* * * * *
1986960 TAATGATTTAGTAAT-AAT-GAAATTAT--TATTAATTTTTAATGA-TT--TG-----ATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTGATAG
* *
1987010 TAATGATTTAGTAATGATTAGAAATAATGAAATTATTATTAATTTTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
1987070 TAATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* *
1987130 TAATGATTTACTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
* * *
1987190 TAATGATTTAGTAATAATTAGTAATAATTAAATTATTATTAATTTTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1987250 TAATGATTTGAGTAATGATT
1 TAATGATTT-AGTAATGATT
1987270 TATAGTATAA
Statistics
Matches: 810, Mismatches: 60, Indels: 110
0.83 0.06 0.11
Matches are distributed among these distances:
49 59 0.07
50 89 0.11
51 14 0.02
52 18 0.02
53 26 0.03
54 16 0.02
55 23 0.03
56 14 0.02
57 11 0.01
58 6 0.01
59 70 0.09
60 455 0.56
61 9 0.01
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (60 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
Found at i:1986642 original size:21 final size:20
Alignment explanation
Indices: 1986618--1987220 Score: 91
Period size: 21 Copynumber: 29.6 Consensus size: 20
1986608 AATGATTTGA
*
1986618 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAATAATGAT
* * *
1986639 TAGTAATA-ATGA-AATTAT
1 TAGTAATATTTAATAATGAT
* * *
1986657 TATTAATTTTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
1986678 TAGTAATGATTTAATAATGAT
1 TAGTAAT-ATTTAATAATGAT
*
1986699 TAGTAATA-ATAA-AATTG-T
1 TAGTAATATTTAATAA-TGAT
* *
1986717 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
*
1986738 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAATAATGAT
* * *
1986759 TAGTAATAATGAA-ATTG-T
1 TAGTAATATTTAATAATGAT
* *
1986777 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
* *
1986798 TAGTAATGATTTAGTAATAAT
1 TAGTAAT-ATTTAATAATGAT
* * *
1986819 TAGTAATAATGAA-ATTG-T
1 TAGTAATATTTAATAATGAT
* *
1986837 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
* *
1986858 TAGTAATGATTTAGTAAT-AA
1 TAGTAAT-ATTTAATAATGAT
* *
1986878 T-GAAAT-TGTTATTAAT-AT
1 TAGTAATAT-TTAATAATGAT
1986896 T--TAATGATTTGATAGTAATGAT
1 TAGTAAT-ATTT-A-A-TAATGAT
* * *
1986918 TAGTAATAATGAA-ATTG-T
1 TAGTAATATTTAATAATGAT
* *
1986936 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
1986957 TAGTAATGATTTAGTAATAATGAAAT
1 TAGTAAT-A-TT--TAATAATG--AT
* * *
1986983 TATTATTAATTT-TTAATGATTT
1 TAGTAAT-ATTTAATAATGA--T
*
1987005 GATAGTAATGATTTAGTAATGAT
1 --TAGTAAT-ATTTAATAATGAT
* * * *
1987028 TAGAAATA-ATGA-AATTAT
1 TAGTAATATTTAATAATGAT
* * *
1987046 TATTAATTTTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
1987067 TAGTAATGATTTAATAATGAT
1 TAGTAAT-ATTTAATAATGAT
* * *
1987088 TAGTAATAATGAA-ATTG-T
1 TAGTAATATTTAATAATGAT
* *
1987106 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
*
1987127 TAGTAATGATTTACTAATGAT
1 TAGTAAT-ATTTAATAATGAT
* * *
1987148 TAGTAATAATGAA-ATTG-T
1 TAGTAATATTTAATAATGAT
* *
1987166 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAAT-A-ATGAT
* *
1987187 TAGTAATGATTTAGTAATAAT
1 TAGTAAT-ATTTAATAATGAT
*
1987208 TAGTAATAATTAA
1 TAGTAATATTTAA
1987221 ATTATTATTA
Statistics
Matches: 413, Mismatches: 100, Indels: 139
0.63 0.15 0.21
Matches are distributed among these distances:
17 4 0.01
18 97 0.23
19 35 0.08
20 44 0.11
21 135 0.33
22 57 0.14
23 8 0.02
24 14 0.03
25 13 0.03
26 6 0.01
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (20 bp):
TAGTAATATTTAATAATGAT
Found at i:1986733 original size:35 final size:34
Alignment explanation
Indices: 1986692--1987183 Score: 122
Period size: 35 Copynumber: 15.2 Consensus size: 34
1986682 AATGATTTAA
1986692 TAATGATTAGTAATAATAAAATTGTTATTAATATT
1 TAATGATTAGTAATAAT-AAATTGTTATTAATATT
* * *
1986727 TAATGATT--TGATAGT-AA-TG--ATT--TA-G
1 TAATGATTAGTAATAATAAATTGTTATTAATATT
1986752 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAAT-AAATTGTTATTAATATT
* * *
1986787 TAATGATT--TGATAGT-AA-TG--ATT--TA-G
1 TAATGATTAGTAATAATAAATTGTTATTAATATT
*
1986812 TAATAATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAAT-AAATTGTTATTAATATT
* * * * *
1986847 TAATGATTTGATAGTAAT-GA-T-TTAGTAATAATG
1 TAATGATTAG-TAATAATAAATTGTTATTAAT-ATT
* * * * * * *
1986880 AAATTG-TTATTAATATTTAA-TGAT-TTGATA-G
1 TAA-TGATTAGTAATAATAAATTGTTATTAATATT
1986911 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAAT-AAATTGTTATTAATATT
* * * * *
1986946 TAATGATTTGATAGTAAT-GA-T-TTAGTAATAATG
1 TAATGATTAG-TAATAATAAATTGTTATTAAT-ATT
* * * * * * *
1986979 AAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
1 TAATGATTAGTAA----TAATAAATTGTTATTAAT-A-TT
* * *
1987019 AGTAATGATTAGAAATAATGAAATTATTATTAATTTT
1 --TAATGATTAGTAATAAT-AAATTGTTATTAATATT
* * *
1987056 TAATGATT--TGATAGT-AA-TG--ATT--TA-A
1 TAATGATTAGTAATAATAAATTGTTATTAATATT
1987081 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAAT-AAATTGTTATTAATATT
* * *
1987116 TAATGATT--TGATAGT-AA-TG--ATT--TA-C
1 TAATGATTAGTAATAATAAATTGTTATTAATATT
1987141 TAATGATTAGTAATAATGAAATTGTTATTAATATT
1 TAATGATTAGTAATAAT-AAATTGTTATTAATATT
1987176 TAATGATT
1 TAATGATT
1987184 TGATAGTAAT
Statistics
Matches: 319, Mismatches: 75, Indels: 126
0.61 0.14 0.24
Matches are distributed among these distances:
25 31 0.10
26 7 0.02
27 20 0.06
28 12 0.04
29 8 0.03
30 17 0.05
31 20 0.06
32 36 0.11
33 43 0.13
34 18 0.06
35 57 0.18
36 16 0.05
37 2 0.01
38 5 0.02
39 17 0.05
40 1 0.00
42 9 0.03
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (34 bp):
TAATGATTAGTAATAATAAATTGTTATTAATATT
Found at i:1986917 original size:159 final size:161
Alignment explanation
Indices: 1986681--1987207 Score: 630
Period size: 170 Copynumber: 3.2 Consensus size: 161
1986671 GATTTGATAG
* *
1986681 TAATGATTT-A-A-TAATGA-TTAGTAATAATAAAATTGTTATTAATATTTAATGATTTGATAGT
1 TAATGATTTGATAGTAATGATTTAGTAATAATGAAATTATTATTAATATTTAATGA-TT--T-G-
1986742 AATGATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGA
61 AA-G---TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGA
1986807 TTTAGTAATAATTAGTAATAATGAAATTGTTATTAATATT
122 TTTAGTAATAATTAGTAATAATGAAATTGTTATTAATATT
*
1986847 TAATGATTTGATAGTAATGATTTAGTAATAATGAAATTGTTATTAATATTTAATGATTTG-A-TA
1 TAATGATTTGATAGTAATGATTTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAAGTA
1986910 GTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAAT
66 GTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAAT
* * *
1986975 AA-T-GAAATTATTATTAA-T-TT-TTAATGATT
131 AATTAGTAATAATGA--AATTGTTATTAAT-ATT
* * * *
1987004 TGAT-AGTAATGATTTAGTAATGA-TTAGAAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAATGA-T-TTGA--TAGTAATGATTTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1987067 TAGTAATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTA
62 -AGT-A-G------TAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTA
* *
1987132 ATGATTTACTAATGATTAGTAATAATGAAATTGTTATTAATATT
118 ATGATTTAGTAATAATTAGTAATAATGAAATTGTTATTAATATT
1987176 TAATGATTTGATAGTAATGATTTAGTAATAAT
1 TAATGATTTGATAGTAATGATTTAGTAATAAT
1987208 TAGTAATAAT
Statistics
Matches: 315, Mismatches: 17, Indels: 54
0.82 0.04 0.14
Matches are distributed among these distances:
156 6 0.02
157 16 0.05
158 5 0.02
159 107 0.34
160 9 0.03
161 1 0.00
162 1 0.00
163 1 0.00
164 2 0.01
166 10 0.03
167 2 0.01
168 1 0.00
169 17 0.05
170 110 0.35
171 5 0.02
172 16 0.05
173 6 0.02
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (161 bp):
TAATGATTTGATAGTAATGATTTAGTAATAATGAAATTATTATTAATATTTAATGATTTGAAGTA
GTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAAT
AATTAGTAATAATGAAATTGTTATTAATATT
Found at i:1986920 original size:99 final size:99
Alignment explanation
Indices: 1986809--1987207 Score: 465
Period size: 99 Copynumber: 3.7 Consensus size: 99
1986799 AGTAATGATT
*
1986809 TAGTAATAATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1986874 ATAATGAAATTGTTATTAATATTTAATGATTTGA
66 ATAATGAAATTGTTATTAATATTTAATGATTTGA
1986908 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* *
1986973 ATAATGAAATTATTATTAATTTTTAATGATTTGA
66 ATAATGAAATTGTTATTAATATTTAATGATTTGA
* *
1987007 TAGTAATGATTTAGTAATGATTAGAAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTA
1 TAGTAATGA--T--T-A-G--T---AATAATGAAATTGTTATTAATATTTAATGATTTGATAGTA
1987072 ATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATA
55 ATG--------AT--TTAGTAATAATGAAATTGTTATTAATATTTAATGATTTG--A
1987129 GTAATGATTTACTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 -T-A-G------TAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1987194 GATTTAGTAATAAT
57 GATTTAGTAATAAT
1987208 TAGTAATAAT
Statistics
Matches: 259, Mismatches: 9, Indels: 53
0.81 0.03 0.17
Matches are distributed among these distances:
99 105 0.41
101 1 0.00
103 1 0.00
104 1 0.00
105 1 0.00
107 1 0.00
110 52 0.20
112 2 0.01
118 2 0.01
120 78 0.30
122 1 0.00
123 2 0.01
124 1 0.00
125 2 0.01
126 1 0.00
127 1 0.00
129 1 0.00
131 6 0.02
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (99 bp):
TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
ATAATGAAATTGTTATTAATATTTAATGATTTGA
Found at i:1987116 original size:389 final size:393
Alignment explanation
Indices: 1986285--1987265 Score: 1679
Period size: 389 Copynumber: 2.5 Consensus size: 393
1986275 TATGTATTTA
* * *
1986285 TAAT-ATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATG
* * *
1986349 ATTTAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTA
66 ATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTA
*
1986414 GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAAT
131 GTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAAT
*
1986478 AATGAAATTATTATAAATTTTTAATGATTTGATAGTAATGATTAATAATGATTAGTAATAATGAA
196 AATGAAATTATTATAAATATTTAATGATTTGA-AGTAATG----ATAATGATTAGTAATAATGAA
*
1986543 ATTATTATTAATTTTTAATGATTTGATAGTAATGACTAGTAATAATGAAATTATTATTAATTTTT
256 ATTATTATTAATATTTAATGATTTGATAGTAATGACTAGTAATAATGAAATTATTATTAATTTTT
*
1986608 AATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGA
321 AATGATTTGATAGTAATGATTTAGTAATGATTAGAAATAATGAAATTATTATTAATTTTTAATGA
1986673 TTTGATAG
386 TTTGATAG
*
1986681 TAATGATTTAATAATGATTAGTAATAATAAAATTGTTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATG
1986746 ATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTA
66 ATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTA
* *
1986811 GTAATAATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAAT
131 GTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAAT
* * *
1986876 AATGAAATTGTTATTAATATTTAATGATTTG-A-T-A-G-TAATGATTAGTAATAATGAAATTGT
196 AATGAAATTATTATAAATATTTAATGATTTGAAGTAATGATAATGATTAGTAATAATGAAATTAT
*
1986936 TATTAATATTTAATGATTTGATAGTAATGATTTAGTAATAATGAAATTATTATTAATTTTTAATG
261 TATTAATATTTAATGATTTGATAGTAATGA-CTAGTAATAATGAAATTATTATTAATTTTTAATG
1987001 ATTTGATAGTAATGATTTAGTAATGATTAGAAATAATGAAATTATTATTAATTTTTAATGATTTG
325 ATTTGATAGTAATGATTTAGTAATGATTAGAAATAATGAAATTATTATTAATTTTTAATGATTTG
1987066 ATAG
390 ATAG
1987070 TAATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATG
*
1987135 ATTTACTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTA
66 ATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTA
*
1987200 GTAATAATTAGTAATAATTAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTGAGTAA
131 GTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT-AGTAA
1987265 T
195 T
1987266 GATTTATAGT
Statistics
Matches: 559, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
388 53 0.09
389 285 0.51
390 6 0.01
393 1 0.00
394 1 0.00
395 1 0.00
396 5 0.01
397 171 0.31
398 36 0.06
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (393 bp):
TAATGATTTAATAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATG
ATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTA
GTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTAAT
AATGAAATTATTATAAATATTTAATGATTTGAAGTAATGATAATGATTAGTAATAATGAAATTAT
TATTAATATTTAATGATTTGATAGTAATGACTAGTAATAATGAAATTATTATTAATTTTTAATGA
TTTGATAGTAATGATTTAGTAATGATTAGAAATAATGAAATTATTATTAATTTTTAATGATTTGA
TAG
Found at i:1987255 original size:14 final size:14
Alignment explanation
Indices: 1987236--1987276 Score: 61
Period size: 12 Copynumber: 3.1 Consensus size: 14
1987226 TATTAATTTT
1987236 TAATGATTTGATAG
1 TAATGATTTGATAG
1987250 TAATGATTTG--AG
1 TAATGATTTGATAG
1987262 TAATGATTT-ATAG
1 TAATGATTTGATAG
1987275 TA
1 TA
1987277 TAATTATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.44
13 4 0.16
14 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:1989435 original size:15 final size:16
Alignment explanation
Indices: 1989415--1989448 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1989405 CAAAAAAATT
1989415 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
1989430 TAATATAATAAACTTA
1 TAATATAATAAACTTA
1989446 TAA
1 TAA
1989449 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:1989535 original size:30 final size:30
Alignment explanation
Indices: 1989501--1989607 Score: 135
Period size: 30 Copynumber: 3.5 Consensus size: 30
1989491 TTTCTTTAAA
1989501 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
1989531 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
* * *
1989561 AAACTAATAAAATATTTTTTTAATTATAA-TT
1 CAACTAATAAACTA-TTCTTTAA-TATAACTT
*
1989592 CACTACTAAAAAACTA
1 CA--ACTAATAAACTA
1989608 ATTAACTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
30 42 0.63
31 10 0.15
32 5 0.07
33 10 0.15
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAACTT
Found at i:1989553 original size:15 final size:16
Alignment explanation
Indices: 1989505--1989559 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
1989495 TTTAAACAAC
1989505 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
**
1989520 TAATATAAC--TTCAAC
1 TAATATAACTATTC-TT
1989535 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
1989550 TAATATAACT
1 TAATATAACT
1989560 TAAACTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 6 0.19
15 15 0.48
16 10 0.32
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAACTATTCTT
Found at i:1989759 original size:17 final size:17
Alignment explanation
Indices: 1989737--1989772 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1989727 TAAATTTTTT
1989737 ACCCTAACCCTAAACTA
1 ACCCTAACCCTAAACTA
1989754 ACCCTAACCCTAAACTA
1 ACCCTAACCCTAAACTA
1989771 AC
1 AC
1989773 AAACTAATAA
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:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (17 bp):
ACCCTAACCCTAAACTA
Found at i:1990000 original size:27 final size:27
Alignment explanation
Indices: 1989962--1990016 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1989952 AGGGTCGGCT
1989962 GCCATGCACCAATAATTGAAGAATCAC
1 GCCATGCACCAATAATTGAAGAATCAC
1989989 GCCATGCACCAATAATTGAAGAATCAC
1 GCCATGCACCAATAATTGAAGAATCAC
1990016 G
1 G
1990017 AGCCGTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.18
Consensus pattern (27 bp):
GCCATGCACCAATAATTGAAGAATCAC
Found at i:1991753 original size:18 final size:19
Alignment explanation
Indices: 1991730--1991767 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1991720 ATAAAATTTT
*
1991730 TCATAA-ACCATTTAAAAA
1 TCATAACACAATTTAAAAA
*
1991748 TCATAACACAATTTATAAA
1 TCATAACACAATTTAAAAA
1991767 T
1 T
1991768 AAGCACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
TCATAACACAATTTAAAAA
Found at i:1995380 original size:76 final size:75
Alignment explanation
Indices: 1995295--1995457 Score: 229
Period size: 76 Copynumber: 2.1 Consensus size: 75
1995285 TTTTTTGGAT
* *
1995295 CAACCTATTTATTAATAAAAATATTAACATAACATATCACAACATATTTCTTAGTAAACCATG-A
1 CAACCTATTTATTAA-AAAAATATTAACATAACAGATCACAAC-TATTTCTTAGCAAACCATGAA
* *
1995359 TATTCTTGGGCG
64 AATTATTGGGCG
* *
1995371 CAACCTATTTTATTAAAAAAATATTAACATTACAGATCACAACTATTTCTTAGCGAACCATGAAA
1 CAACCTA-TTTATTAAAAAAATATTAACATAACAGATCACAACTATTTCTTAGCAAACCATGAAA
1995436 ATTATTGGGCG
65 ATTATTGGGCG
1995447 CAACCATATTT
1 CAACC-TATTT
1995458 CTTATATATA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
75 17 0.22
76 51 0.65
77 10 0.13
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (75 bp):
CAACCTATTTATTAAAAAAATATTAACATAACAGATCACAACTATTTCTTAGCAAACCATGAAAA
TTATTGGGCG
Found at i:1996297 original size:18 final size:18
Alignment explanation
Indices: 1996262--1996313 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
1996252 TTATATATTC
** *
1996262 TTTTAATTTGGTTATAAT
1 TTTTAATTTATTTTTAAT
1996280 TTTTAATTTATTTTTAAT
1 TTTTAATTTATTTTTAAT
*
1996298 TTAATAGATTTATTTT
1 TT-TTA-ATTTATTTT
1996314 CTTCCAATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 17 0.61
19 2 0.07
20 9 0.32
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTAATTTATTTTTAAT
Found at i:1996593 original size:30 final size:32
Alignment explanation
Indices: 1996542--1996612 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
1996532 TAAAATATCT
* *
1996542 TTTATTTTTGTTTTAACTTATTAACT-TATAA
1 TTTATTTTTGTCTTAACTTATTAAATATATAA
* *
1996573 TTTATTTTT-TCTTCACTTATTAAATATATAT
1 TTTATTTTTGTCTTAACTTATTAAATATATAA
1996604 TTTATTTTT
1 TTTATTTTT
1996613 ATATTAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (32 bp):
TTTATTTTTGTCTTAACTTATTAAATATATAA
Found at i:1996660 original size:31 final size:30
Alignment explanation
Indices: 1996594--1996682 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
1996584 TTCACTTATT
*
1996594 AAATATATATTTTATTTTTATATTAAT-ATA
1 AAATATATATTTTA-TTTTAAATTAATAATA
* *
1996624 AAATATATATTTTTATATTAAATTAATAATG
1 AAATATATA-TTTTATTTTAAATTAATAATA
* * *
1996655 GAATATTTAAATTTATTTTAAATTAATA
1 AAATATAT-ATTTTATTTTAAATTAATA
1996683 TATTTTTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
30 19 0.39
31 29 0.59
32 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
AAATATATATTTTATTTTAAATTAATAATA
Found at i:1996786 original size:30 final size:30
Alignment explanation
Indices: 1996739--1996822 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
1996729 TATTTTTATA
*
1996739 TTAAAATAAAAATAAAATATATTTAACAAG
1 TTAAAACAAAAATAAAATATATTTAACAAG
* * *
1996769 TTAAGACAAAGATAAAATATATTTAATAAG
1 TTAAAACAAAAATAAAATATATTTAACAAG
*
1996799 TTAAAACAAAAACAAAATATATTT
1 TTAAAACAAAAATAAAATATATTT
1996823 TTAAAATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (30 bp):
TTAAAACAAAAATAAAATATATTTAACAAG
Found at i:2005297 original size:40 final size:40
Alignment explanation
Indices: 2005240--2005321 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
2005230 ATCGTAGTGC
*
2005240 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2005280 TACACATAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2005320 TA
1 TA
2005322 TAAAGCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2008747 original size:22 final size:22
Alignment explanation
Indices: 2008719--2008769 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2008709 AATGTGGATT
2008719 TATGCTTTAAGAAAGTGTTTGG
1 TATGCTTTAAGAAAGTGTTTGG
2008741 TATGCTTTAAGAAAGTGTTTGG
1 TATGCTTTAAGAAAGTGTTTGG
*
2008763 TGTGCTT
1 TATGCTT
2008770 AGACAAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (22 bp):
TATGCTTTAAGAAAGTGTTTGG
Found at i:2010939 original size:45 final size:44
Alignment explanation
Indices: 2010873--2011116 Score: 213
Period size: 45 Copynumber: 5.9 Consensus size: 44
2010863 ATAAAAGAAT
2010873 AATGCATATGGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATAT-GGGTGCATTATTGGCATGAAAGGATGCCATAG-TGA
2010919 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAG-TGA
* * *
2010964 AATGTATATGGGTGCATAATCGGCAT-AAA--A-G--A-A-T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTGA
* * * *
2010998 AATGCATATGTGTGTATTATTGGCATGAAATGACGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAG-TGA
* *
2011043 AATGCATATAGGTGCATTATCGGCAT-AAA--A-G--A-A-T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTGA
* *
2011077 AATGCATATGGGTGCCTTATTGGCATGAAAGGATGTCATA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
2011117 AATAAAATGC
Statistics
Matches: 164, Mismatches: 16, Indels: 41
0.74 0.07 0.19
Matches are distributed among these distances:
34 44 0.27
35 6 0.04
36 2 0.01
37 2 0.01
38 4 0.02
39 2 0.01
40 2 0.01
41 4 0.02
42 2 0.01
43 1 0.01
44 6 0.04
45 80 0.49
46 9 0.05
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTGA
Found at i:2011091 original size:34 final size:34
Alignment explanation
Indices: 2011043--2011107 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
2011033 CCATAGCTGA
2011043 AATGCATATAGGTGCATTATCGGCATAAAAGAAT
1 AATGCATATAGGTGCATTATCGGCATAAAAGAAT
* * * *
2011077 AATGCATATGGGTGCCTTATTGGCATGAAAG
1 AATGCATATAGGTGCATTATCGGCATAAAAG
2011108 GATGTCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (34 bp):
AATGCATATAGGTGCATTATCGGCATAAAAGAAT
Found at i:2011125 original size:79 final size:79
Alignment explanation
Indices: 2010919--2011142 Score: 304
Period size: 79 Copynumber: 2.8 Consensus size: 79
2010909 CCATAGCTGA
* * * *
2010919 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGGTGCATAAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATAGGTGCATTAT
2010984 CGGCATAAAAGAAT
66 CGGCATAAAAGAAT
* * * * *
2010998 AATGCATATGTGTGTATTATTGGCATGAAATGACGCCATAGCTGAAATGCATATAGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATAGGTGCATTAT
2011063 CGGCATAAAAGAAT
66 CGGCATAAAAGAAT
* * * * *
2011077 AATGCATATGGGTGCCTTATTGGCATGAAAGGATGTCATAAATAAAATGCATGAAAGGATGCATT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCAT-ATAGG-TGCATT
2011142 A
64 A
2011143 AATAAAATGA
Statistics
Matches: 125, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
79 114 0.91
80 4 0.03
81 7 0.06
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (79 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGCATATAGGTGCATTAT
CGGCATAAAAGAAT
Found at i:2011135 original size:26 final size:26
Alignment explanation
Indices: 2011099--2011151 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
2011089 TGCCTTATTG
2011099 GCATGAAAGGATGTCA-TAAATAAAAT
1 GCATGAAAGGATG-CATTAAATAAAAT
2011125 GCATGAAAGGATGCATTAAATAAAAT
1 GCATGAAAGGATGCATTAAATAAAAT
2011151 G
1 G
2011152 AAATTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.23
Consensus pattern (26 bp):
GCATGAAAGGATGCATTAAATAAAAT
Found at i:2013627 original size:13 final size:13
Alignment explanation
Indices: 2013521--2013620 Score: 146
Period size: 13 Copynumber: 7.7 Consensus size: 13
2013511 TGCGTCATGA
2013521 ATTTATGACGCGC
1 ATTTATGACGCGC
2013534 ATTTATGACGCGC
1 ATTTATGACGCGC
*
2013547 ATTTATGACACGC
1 ATTTATGACGCGC
*
2013560 ATTTATGACGCGT
1 ATTTATGACGCGC
*
2013573 ATTTATGACACGC
1 ATTTATGACGCGC
*
2013586 ATTTATGTCGCGC
1 ATTTATGACGCGC
**
2013599 ATTTATGACTTGC
1 ATTTATGACGCGC
2013612 ATTTATGAC
1 ATTTATGAC
2013621 TCTCATTGCG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 77 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:2016242 original size:12 final size:12
Alignment explanation
Indices: 2016225--2016249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2016215 CATGTTTAAG
2016225 TGTACATGTTCC
1 TGTACATGTTCC
2016237 TGTACATGTTCC
1 TGTACATGTTCC
2016249 T
1 T
2016250 ATGAAGCTGA
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:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (12 bp):
TGTACATGTTCC
Found at i:2027626 original size:21 final size:20
Alignment explanation
Indices: 2027590--2027628 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2027580 GTTTCAGATT
2027590 TATTTTAATTTAATTATAAC
1 TATTTTAATTTAATTATAAC
2027610 TATTTATAATGTT-ATTATA
1 TATTT-TAAT-TTAATTATA
2027629 TTATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 10 0.59
22 2 0.12
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
TATTTTAATTTAATTATAAC
Found at i:2052908 original size:29 final size:29
Alignment explanation
Indices: 2052870--2052926 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
2052860 TCAACATACA
2052870 ATTCATATATTAATTAATTGTCTATCAAT
1 ATTCATATATTAATTAATTGTCTATCAAT
2052899 ATTCATATATTAATTAATTGTCTATCAA
1 ATTCATATATTAATTAATTGTCTATCAA
2052927 GCAACATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.47
Consensus pattern (29 bp):
ATTCATATATTAATTAATTGTCTATCAAT
Found at i:2053921 original size:211 final size:210
Alignment explanation
Indices: 2053558--2053978 Score: 648
Period size: 211 Copynumber: 2.0 Consensus size: 210
2053548 GAAAGCTAAT
* * * *
2053558 TCGATTATATTTCCAACCATATGGCTCATAGTTTATTTGTTTATACACTAATAAATATTTTCAAT
1 TCGATTATATTTCCAACCATATGGCTCATAATTTAGTTATTTATACACTAATAAATATTTACAAT
** * *
2053623 TAAATTCAGGTCAAATTTTAGTAACTAATATGCTTTTTTTGTAGTTAAATGCACTTTAATGAGTT
66 TAAAGCCAGGTCAAATTTCAGTAACTAATATGCTCTTTTTGTAGTTAAATGCACTTTAATGAGTT
*
2053688 AATTCACCTAAAACCATTACTAGTTACTTTTGGTACTTTTTACCATTGTTTAATAGGTCTTTATT
131 AATTCACCTAAAACCATTACTAGTTACTTTTGGTAATTTTTACCATTGTTTAATAGGTCTTTATT
2053753 ATGTATTTTTAAGTC
196 ATGTATTTTTAAGTC
* * *
2053768 TCGATTATCTTTCCAACCATATATGGCTCATAATTTAGTTATTTATACATTAATACAT-TTTACA
1 TCGATTATATTTCCAACC--ATATGGCTCATAATTTAGTTATTTATACACTAATAAATATTTACA
*
2053832 ATTAAAGCCATGTCAAATTTCAGTAACTAATATGTCTCTTTTTGTAGTTAAATG-ACTTTAATGA
64 ATTAAAGCCAGGTCAAATTTCAGTAACTAATATG-CTCTTTTTGTAGTTAAATGCACTTTAATGA
* * *
2053896 GTTACTTCACCTAAAACCATTACTAGTTACTTTTGGTAATTTTTACCATTTTTTAGTAGGTCTTT
128 GTTAATTCACCTAAAACCATTACTAGTTACTTTTGGTAATTTTTACCATTGTTTAATAGGTCTTT
*
2053961 GTTATGTATTTTTAAGTC
193 ATTATGTATTTTTAAGTC
2053979 CACTTTATTA
Statistics
Matches: 191, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
210 17 0.09
211 123 0.64
212 51 0.27
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (210 bp):
TCGATTATATTTCCAACCATATGGCTCATAATTTAGTTATTTATACACTAATAAATATTTACAAT
TAAAGCCAGGTCAAATTTCAGTAACTAATATGCTCTTTTTGTAGTTAAATGCACTTTAATGAGTT
AATTCACCTAAAACCATTACTAGTTACTTTTGGTAATTTTTACCATTGTTTAATAGGTCTTTATT
ATGTATTTTTAAGTC
Found at i:2054728 original size:15 final size:16
Alignment explanation
Indices: 2054696--2054728 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2054686 CTCCTCTTTG
*
2054696 CTTTCTCTCAATTTTT
1 CTTTCTCTCAAATTTT
2054712 CTTTCTC-CAAATTTT
1 CTTTCTCTCAAATTTT
2054727 CT
1 CT
2054729 CAATTTTTTC
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:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (16 bp):
CTTTCTCTCAAATTTT
Found at i:2066379 original size:14 final size:14
Alignment explanation
Indices: 2066360--2066386 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2066350 CTACATGGTA
2066360 TCTTGTATCTCTTC
1 TCTTGTATCTCTTC
2066374 TCTTGTATCTCTT
1 TCTTGTATCTCTT
2066387 TCACCCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.26, G:0.07, T:0.59
Consensus pattern (14 bp):
TCTTGTATCTCTTC
Found at i:2068478 original size:17 final size:18
Alignment explanation
Indices: 2068453--2068487 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2068443 CCATTTATTT
2068453 TTCTCTCTTTCTTATCTC
1 TTCTCTCTTTCTTATCTC
*
2068471 TTCT-TCTTTCTTCTCTC
1 TTCTCTCTTTCTTATCTC
2068488 ATATTTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (18 bp):
TTCTCTCTTTCTTATCTC
Found at i:2068482 original size:21 final size:23
Alignment explanation
Indices: 2068453--2068514 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
2068443 CCATTTATTT
2068453 TTCTCTCTT-TCT-TATCTCTTC
1 TTCTCTCTTCTCTATATCTCTTC
* *
2068474 TTCTTTCTTCTCTCATATTTCTTC
1 TTCTCTCTTCTCT-ATATCTCTTC
2068498 TTCCTCTCCTTCTCTAT
1 TT-CTCT-CTTCTCTAT
2068515 TTCCCCTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.24
22 3 0.09
24 10 0.30
25 5 0.15
26 7 0.21
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (23 bp):
TTCTCTCTTCTCTATATCTCTTC
Found at i:2068726 original size:33 final size:33
Alignment explanation
Indices: 2068679--2068748 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2068669 TGTTGTTGAC
*
2068679 TTGTTTACTAATTCTTTGTATCCTAAATTAAAT
1 TTGTTTACTAATTCTTTGTATCCTAAATGAAAT
* * * *
2068712 TTGTTTATTGATTCTTTGTATCTTAAATGACAT
1 TTGTTTACTAATTCTTTGTATCCTAAATGAAAT
2068745 TTGT
1 TTGT
2068749 ATCCTAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (33 bp):
TTGTTTACTAATTCTTTGTATCCTAAATGAAAT
Found at i:2068865 original size:24 final size:24
Alignment explanation
Indices: 2068833--2068879 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2068823 GATTCTTTTT
2068833 TATTTCATTGATGTTTAAATAGAA
1 TATTTCATTGATGTTTAAATAGAA
2068857 TATTTCATTGATGTTTAAATAGA
1 TATTTCATTGATGTTTAAATAGA
2068880 CTGATGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
TATTTCATTGATGTTTAAATAGAA
Found at i:2069096 original size:39 final size:39
Alignment explanation
Indices: 2069022--2069100 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
2069012 ACAACTTCAT
*
2069022 GGTTAATTATGTTCATAACATAACTTCATACGAATTTTA
1 GGTTAATTATGTTCATAACATAAATTCATACGAATTTTA
* * **
2069061 GGTTAGTTATGTTCATAACATAAATTTATGTGAATTTTA
1 GGTTAATTATGTTCATAACATAAATTCATACGAATTTTA
2069100 G
1 G
2069101 ATTGTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (39 bp):
GGTTAATTATGTTCATAACATAAATTCATACGAATTTTA
Found at i:2069563 original size:41 final size:41
Alignment explanation
Indices: 2069506--2069591 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
2069496 TAACCAAGAG
* *
2069506 CCAAGGGTCCAATGGATTTGTTTGTCACTCCTAAAGCTAAT
1 CCAAGAGTCCAATGGATTTATTTGTCACTCCTAAAGCTAAT
2069547 CCAAGAGTCCAATGGATTTATTTGTCACTCCTAAAGCTAAT
1 CCAAGAGTCCAATGGATTTATTTGTCACTCCTAAAGCTAAT
2069588 CCAA
1 CCAA
2069592 ACAATGCTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
CCAAGAGTCCAATGGATTTATTTGTCACTCCTAAAGCTAAT
Found at i:2072535 original size:17 final size:17
Alignment explanation
Indices: 2072513--2072547 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2072503 GGGATAAGTA
*
2072513 TGGTGCGTTATTTCTTT
1 TGGTGCGTTAGTTCTTT
2072530 TGGTGCGTTAGTTCTTT
1 TGGTGCGTTAGTTCTTT
2072547 T
1 T
2072548 TGCCTCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.11, G:0.26, T:0.57
Consensus pattern (17 bp):
TGGTGCGTTAGTTCTTT
Found at i:2073876 original size:29 final size:29
Alignment explanation
Indices: 2073843--2073913 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
2073833 GGAAAATATG
2073843 AATAGTCGGATGATTATTTTGTAATTTTT
1 AATAGTCGGATGATTATTTTGTAATTTTT
2073872 AATAGTCGGATGATTATTTTGTAATTTTT
1 AATAGTCGGATGATTATTTTGTAATTTTT
*
2073901 AATAGTCGAATGA
1 AATAGTCGGATGA
2073914 CTCAATAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.46
Consensus pattern (29 bp):
AATAGTCGGATGATTATTTTGTAATTTTT
Found at i:2074476 original size:14 final size:14
Alignment explanation
Indices: 2074457--2074509 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
2074447 ATGATTTTAT
2074457 TTTTATAATATTAA
1 TTTTATAATATTAA
2074471 TTTTAT-ATATTTAA
1 TTTTATAATA-TTAA
**
2074485 TTTTAATAATAAAAA
1 TTTT-ATAATATTAA
*
2074500 TATTATAATA
1 TTTTATAATA
2074510 ATAACTACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 20 0.61
15 7 0.21
16 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTATAATATTAA
Found at i:2074505 original size:29 final size:29
Alignment explanation
Indices: 2074450--2074585 Score: 77
Period size: 29 Copynumber: 4.8 Consensus size: 29
2074440 GTTGGTAATG
* * ** *
2074450 ATTTTATTTTTATAATATTAATTTTATAT
1 ATTTAATTTTAATAATAAAAATATTATAT
2074479 ATTTAATTTTAATAATAAAAATATTATA-
1 ATTTAATTTTAATAATAAAAATATTATAT
* ** * *
2074507 ATAATAACTACTAAT-ACAAAAATATAATAT
1 AT-TTAA-TTTTAATAATAAAAATATTATAT
* * *
2074537 -TATTACTTTTAA-CAT-TAAAT-TTATAT
1 AT-TTAATTTTAATAATAAAAATATTATAT
*
2074563 TTTTAATTTTAATAATAAAAATA
1 ATTTAATTTTAATAATAAAAATA
2074586 AAATAACAAC
Statistics
Matches: 79, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
26 14 0.18
27 7 0.09
28 11 0.14
29 42 0.53
30 5 0.06
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTTAATTTTAATAATAAAAATATTATAT
Found at i:2074560 original size:84 final size:85
Alignment explanation
Indices: 2074466--2074653 Score: 227
Period size: 84 Copynumber: 2.2 Consensus size: 85
2074456 TTTTTATAAT
* ** * * *
2074466 ATTAATTTTATATATTTAATTTTAATAATAAAAATATTATAATAATAAC-TACTAATACAAA-AA
1 ATTAAATTTATATATTTAATTTTAATAATAAAAATAAAATAACAACAACTTACTAATAAAAATAA
2074529 TATAATATTATTACTTTTAA
66 TATAATATTATTACTTTTAA
* **
2074549 CATTAAATTTATATTTTTAATTTTAATAATAAAAATAAAATAACAACAACTATTACTGCTAAAAA
1 -ATTAAATTTATATATTTAATTTTAATAATAAAAATAAAATAACAACAAC--TTACTAATAAAAA
2074614 TAATATAATATTATTACTTTTAA
63 TAATATAATATTATTACTTTTAA
* *
2074637 TTTAAAAATTATATATT
1 ATT-AAATTTATATATT
2074654 CTTTTAATAT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 43 0.49
87 11 0.13
88 33 0.38
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.44
Consensus pattern (85 bp):
ATTAAATTTATATATTTAATTTTAATAATAAAAATAAAATAACAACAACTTACTAATAAAAATAA
TATAATATTATTACTTTTAA
Found at i:2078568 original size:180 final size:181
Alignment explanation
Indices: 2078159--2079180 Score: 1491
Period size: 182 Copynumber: 5.6 Consensus size: 181
2078149 ATCGATACAA
* * * * *
2078159 ATAAAAATGTATCGATCCATAACAGTATAACATGTAAAAATATGATC-AAACCGGTTTC-ATTAG
1 ATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGA-CAAAACCGGTCTCGA-AAT
* *
2078222 GACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGTTACTTTAATATAAGTATTGACA
64 GACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* * *
2078287 CTTTTGGAATTTAAAAGAGAAGCAGTAACAGAGCCTATAAAGTGTCGATACTTT
129 CTTTTGGAA-TTAAAAGAGATGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * * *
2078341 ATAAAAATGTATCGATCCATAACAATATAGCAGGTAAAAATATGA-AAAAACGGTCTCAAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGA
*
2078405 CAAAAACGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* *
2078470 TTTGGAATTGAAAGAGATGCAATAATAGCGCCTATAAAGTGTCGATACTTT
131 TTTGGAATTAAAAGAGATGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* ** *
2078521 ATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGAAAAAAAGGGTCTTGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGA
* * **
2078586 -AAAATCGGTAAAGCGCTACCGGATATGTTGAAATTGTCGATACTTTAATATAAGTATCGA-AAA
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* *
2078649 TTTAGAATTTAAAAGAGATGCAGTAATAGCGCCTATAAAGTGTCGATAATTT
131 TTTGGAA-TTAAAAGAGATGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * *
2078701 ATAAGAATGTATCGATCTATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTTGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGA
* * *
2078766 CAAAACTGGTAAAGCGCTACTGGATATGTTGAAAGTGTCGATATTTTAATATAAGTATCGACACT
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* *
2078831 TTTGGATTTTAAAAGAGATGGCGGT-ATAGCGCCTATAAAGTGTCGATACTTT
131 TTTGGA-ATTAAAAGAGAT-GCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* *
2078883 ATAAGAATGTATCGATCCATAACAATATAAC-AGATAAAAATATGACAAAACCGGTCTCGAAATT
1 ATAAAAATGTATCGATCCATAACAATATAACAAG-TAAAAATATGACAAAACCGGTCTCGAAATG
* *
2078947 ACAAAACCGATAAAGCGCTACCCGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
* * * * *
2079012 TTTTGGAATTTAAAAGATAAGTAGTAATAGAGCCTATAAAGTGTTGATACTTT
130 TTTTGGAA-TTAAAAGAGATGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * * *
2079065 ATAAAAATGTATCGATTCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTTGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGA
2079130 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATA
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATA
2079181 AGTATTATCG
Statistics
Matches: 761, Mismatches: 67, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
179 7 0.01
180 241 0.32
181 157 0.21
182 351 0.46
183 5 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (181 bp):
ATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGA
CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
TTTGGAATTAAAAGAGATGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:2080169 original size:23 final size:23
Alignment explanation
Indices: 2080140--2080207 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
2080130 CAACTCGTAT
2080140 AAATGCACCGAAGTGCCATATAG
1 AAATGCACCGAAGTGCCATATAG
* * ***
2080163 AATTGCACCGAAGTGTCGCGTAG
1 AAATGCACCGAAGTGCCATATAG
*
2080186 AAATGCACCGTAGTGCCATATA
1 AAATGCACCGAAGTGCCATATA
2080208 AGATATCTAT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCATATAG
Found at i:2086996 original size:30 final size:30
Alignment explanation
Indices: 2086941--2087006 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
2086931 AATCATTCAC
*
2086941 AATTTTCCAAAATTATCAAACTGGTCCCTCA
1 AATTTTCAAAAATTATCAAACTGGTCCCT-A
2086972 AATTTTCAAAAATTAT-AGAA-TGGTCCCTA
1 AATTTTCAAAAATTATCA-AACTGGTCCCTA
2087001 AATTTT
1 AATTTT
2087007 ATAAGGCTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 7 0.21
30 9 0.27
31 17 0.52
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (30 bp):
AATTTTCAAAAATTATCAAACTGGTCCCTA
Found at i:2091090 original size:40 final size:40
Alignment explanation
Indices: 2091039--2091152 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
2091029 TATAATACAT
* *
2091039 TTCGGTTTATATGGTGGGCACGACCTTATGTGTTATAAAC
1 TTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAAAC
* * *
2091079 TTCGGTGTATATAGTGGACACGACCTTATGTGTAATACAC
1 TTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAAAC
* *
2091119 TTCGGTGTATATGGTGGGCACGGCCTAATGTGTA
1 TTCGGTGTATATGGTGGGCACGACCTTATGTGTA
2091153 GCACTATGGT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAAAC
Found at i:2109011 original size:199 final size:199
Alignment explanation
Indices: 2108496--2109829 Score: 1751
Period size: 199 Copynumber: 6.7 Consensus size: 199
2108486 AATAGGTCAA
* ** *
2108496 CATAAAGTGTCGATACATTTATTAAA-AGTATCAATCAGAAAAACATCGAAACCGATAATTACAA
1 CATAAAGTGTCGATACATTTA--AAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAA
** * * * *
2108560 TGTAATAGGTAAATTTACAATGTAATTGGTATAAATATACTGGTTTGATGATAAAATAGGTCTAT
64 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTAC
** ** ** * * *
2108625 ATATTGTATCGACAC-TTTTTAAATTTGTGTCGATACTCTTTGTCCATAATGAATGACAAACTAG
129 ATAAAGTATCGACACAAATTTAAA-AAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAG
2108689 GTGCACG
193 GTGCACG
* * ** * * * * *
2108696 CATAAAGTTTCGATACATTTATTAAA-AGTATTGATGCTAAAAACATCGAAATCGATAATTATAA
1 CATAAAGTGTCGATACATTTA--AAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAA
* * * *
2108760 TGTAATAGGTAAATTTACAATGTATCTGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAAC
64 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTAC
* * ** * *** * *
2108825 ATAATGTATTGACAC-TCTCTATATTTGTGTCGATACATTTTGTCCAGAATGAATTCCAAACTAG
129 ATAAAGTATCGACACAAATTTA-AAAAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAG
2108889 GTGCACG
193 GTGCACG
* * * *
2108896 CATAGAGTGTCAATACATTTAAAACTGTATCAATCCCAAAAACATCGAAACCGATAAATATAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAATG
** * *
2108961 TAATAGGTAAATTTACAATGTAACCAATATAAATATACCGATTTTATGAGAAAATATGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
* * * *
2109026 AAAGTATCGAAACAAATTTAAAAATTGTCGATATTTTTTGTCCGGAATGAATGCCAAACTAGGTG
131 AAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGTG
2109091 CACG
196 CACG
* * * *
2109095 CATGAAGTGTTGATACATTTTAAATTGTATCGATCCCAAAAACATCGAAACCGATAAATACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAATG
*
2109160 TAATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGTTTTATGAGAAAATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
* *
2109225 AAAGTATCGACACAAATTTAAAAAGTGTCAATACTTTTTGTCCAGAATGAATGTCAAACTAGGTG
131 AAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGTG
2109290 CACG
196 CACG
*
2109294 CATAAAGTGTTGATACATTTAAAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAATG
* * *
2109359 TAATAGGTAAATTTACAATGTAACCGGTATAAATATATCAGTTTTATGAGAAGATAGGTCTACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
* *
2109424 AAAGTATCGACACAAACTTAAAAAGTGTCGATATTTTTTGTCCAGAATGAATGCCAAACTAGGTG
131 AAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGTG
*
2109489 CACA
196 CACG
* * *
2109493 CATAAA-TGTAGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAATG
** * * *
2109557 TAATAGGTAAATTTACAATGTAACTAGTATAAATATACTGGTTTTATGAGAAATTAGGTATACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
* * * * *
2109622 AAAGTATCGACACAAATTTAAAAAGTGACAATTCTTTTTGTCCATAATGAATGACAAACTAGGTG
131 AAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGTG
2109687 CACG
196 CACG
* *
2109691 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAACATTGAAACCGATAACTACAATG
1 CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAATG
* * * * * ** *
2109756 TAACATGTAAATTTACAATGTAATCAGTATAAATATATCAATTTTATGAGAAAATAGGTATACAT
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
*
2109821 AATGTATCG
131 AAAGTATCG
2109830 GCACTTTTTA
Statistics
Matches: 1010, Mismatches: 120, Indels: 9
0.89 0.11 0.01
Matches are distributed among these distances:
198 182 0.18
199 634 0.63
200 193 0.19
201 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTAAAATTGTATCAATCCCAAAAACATCGAAACCGATAAATACAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAT
AAAGTATCGACACAAATTTAAAAAGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACTAGGTG
CACG
Found at i:2110511 original size:2 final size:2
Alignment explanation
Indices: 2110504--2110539 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2110494 ATGGGGAAGG
2110504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2110540 CTCCGGATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2112778 original size:24 final size:23
Alignment explanation
Indices: 2112747--2112791 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
2112737 TTCATTTCAT
2112747 ATTTAATTGGAGTTTGAATTTAA
1 ATTTAATTGGAGTTTGAATTTAA
*
2112770 ATTTCAATTTGAGTTTGAATTT
1 ATTT-AATTGGAGTTTGAATTT
2112792 TCAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (23 bp):
ATTTAATTGGAGTTTGAATTTAA
Found at i:2112780 original size:18 final size:19
Alignment explanation
Indices: 2112759--2112796 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2112749 TTAATTGGAG
2112759 TTTGAATTT-AAATTTCAA
1 TTTGAATTTGAAATTTCAA
* *
2112777 TTTGAGTTTGAATTTTCAA
1 TTTGAATTTGAAATTTCAA
2112796 T
1 T
2112797 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTGAATTTGAAATTTCAA
Found at i:2114650 original size:197 final size:199
Alignment explanation
Indices: 2114241--2115079 Score: 1199
Period size: 197 Copynumber: 4.2 Consensus size: 199
2114231 GAATAGGTAA
* *
2114241 ACATAAAGTATCGATA-ATTTTTAAAATTATATCGATCCCAAAAACATTGAAACCTATAATTATA
1 ACATAAAGTGTCGATACA--TTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTATA
* *
2114305 ATGTAATAGGTAAATTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTA
64 ATGTAATAGGTAAATTAACAATGTAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTA
* *
2114370 C-TAATGTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGTCCAACGAG
129 CATAATGTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAG
2114434 GTGCAC
194 GTGCAC
* * * * * *
2114440 GCATATAGTGTCGATACATTTAAAATTATGTCGATCCCAGAAACCTCGAAAACTATAATTATAAT
1 ACATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTATAAT
* * * * *
2114505 GTAATA-ATAAATTTACAATGTAACTAATAGAAATATATCAGTTTTATGAGAAAATAGGTCTACA
66 GTAATAGGTAAATTAACAATGTAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACA
* * *
2114569 TAATGGATCGACGCTTTCTAAATTTGTGTTGATACTTTTTGTCCAGAATGAATG-CCAACGAGGT
131 TAATGTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGT
2114633 GCAC
196 GCAC
* * *
2114637 ACATAAAGTGTCGATACATTTAAAATTGTATTGATCCCTAAAACATCGAAACCTATAATTATAAT
1 ACATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTATAAT
* * * *
2114702 ATAATAGGTAAATTAATAATGAAACTAGTAGAAATATACCAGTTTT-TGAGAAAATAGGTCTACA
66 GTAATAGGTAAATTAACAATGTAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACA
* * * *
2114766 TAATATATCGACACTTTATAAATTTATGTCGATACTTTTT-TCCAGAATGAATACCCAACGAGGT
131 TAATGTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGT
2114830 GCAC
196 GCAC
* **
2114834 ACATATAGTGTCGATACATTTAAAATTGCATCGATCCCAAAAACATCGAAACCTATAATTATAAT
1 ACATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTATAAT
* **
2114899 GTAATAGGTAAATTAACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATATATCTACA
66 GTAATAGGTAAATTAACAATGTAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACA
* * * *
2114964 TAATGTATCGACACTTTCTAAATTTGTGTTGATACTTTTTGTCCAGAATTAATGCCCAACAAGTT
131 TAATGTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGT
2115029 GCA-
196 GCAC
*
2115032 AGCATAAAGTGTCGATACATTTATTAAAAT-TATCGATCCCAAAAACAT
1 A-CATAAAGTGTCGATACATTTA--AAATTATATCGATCCCAAAAACAT
2115080 TTTAGGCGTT
Statistics
Matches: 569, Mismatches: 62, Indels: 17
0.88 0.10 0.03
Matches are distributed among these distances:
196 12 0.02
197 295 0.52
198 184 0.32
199 56 0.10
200 18 0.03
201 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (199 bp):
ACATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTATAAT
GTAATAGGTAAATTAACAATGTAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACA
TAATGTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGT
GCAC
Found at i:2114990 original size:395 final size:395
Alignment explanation
Indices: 2114240--2115079 Score: 1231
Period size: 395 Copynumber: 2.1 Consensus size: 395
2114230 AGAATAGGTA
* *
2114240 AACATAAAGTATCGATA-ATTTTTAAAATTATATCGATCCCAAAAACATTGAAACCTATAATTAT
1 AACATAAAGTGTCGATACA--TTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTAT
* * * *
2114304 AATGTAATAGGTAAATTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAGGTCT
64 AATATAATAGGTAAATTAACAATGAAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCT
* * * * **
2114369 ACTAATGTATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGTCCAACGAG
129 ACTAATATATCGACACTTTATAAATTTATGTCGATACTTTTTGTCCAGAATGAATACCCAACGAG
* ** * *
2114434 GTGCACGCATATAGTGTCGATACATTTAAAATTATGTCGATCCCAGAAACCTCGAAAACTATAAT
194 GTGCACACATATAGTGTCGATACATTTAAAATTACATCGATCCCAAAAACATCGAAAACTATAAT
* * * *
2114499 TATAATGTAATAATAAATTTACAATGTAACTAATAGAAATATATCAGTTTTATGAGAAAATAGGT
259 TATAATGTAATAATAAATTAACAATGTAACCAATAGAAATATACCAGTTTTATGAGAAAATAGAT
*
2114564 CTACATAATGGATCGACGCTTTCTAAATTTGTGTTGATACTTTTTGTCCAGAATGAATG-CCAAC
324 CTACATAATGGATCGACACTTTCTAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAC
*
2114628 GAGGTGC
389 AAGGTGC
* * *
2114635 ACACATAAAGTGTCGATACATTTAAAATTGTATTGATCCCTAAAACATCGAAACCTATAATTATA
1 A-ACATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTATA
* *
2114700 ATATAATAGGTAAATTAATAATGAAACTAGTAGAAATATACCAGTTTT-TGAGAAAATAGGTCTA
65 ATATAATAGGTAAATTAACAATGAAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTA
2114764 CATAATATATCGACACTTTATAAATTTATGTCGATACTTTTT-TCCAGAATGAATACCCAACGAG
130 C-TAATATATCGACACTTTATAAATTTATGTCGATACTTTTTGTCCAGAATGAATACCCAACGAG
* *
2114828 GTGCACACATATAGTGTCGATACATTTAAAATTGCATCGATCCCAAAAACATCGAAACCTATAAT
194 GTGCACACATATAGTGTCGATACATTTAAAATTACATCGATCCCAAAAACATCGAAAACTATAAT
* * * *
2114893 TATAATGTAATAGGTAAATTAACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATATA
259 TATAATGTAATA-ATAAATTAACAATGTAACCAATAGAAATATACCAGTTTTATGAGAAAATAGA
* *
2114958 TCTACATAATGTATCGACACTTTCTAAATTTGTGTTGATACTTTTTGTCCAGAATTAATGCCCAA
323 TCTACATAATGGATCGACACTTTCTAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAA
*
2115023 CAAGTTGC
388 CAAGGTGC
*
2115031 AAGCATAAAGTGTCGATACATTTATTAAAAT-TATCGATCCCAAAAACAT
1 AA-CATAAAGTGTCGATACATTTA--AAATTATATCGATCCCAAAAACAT
2115080 TTTAGGCGTT
Statistics
Matches: 397, Mismatches: 40, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
394 106 0.27
395 223 0.56
396 47 0.12
397 17 0.04
398 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (395 bp):
AACATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACCTATAATTATAA
TATAATAGGTAAATTAACAATGAAACCAGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTAC
TAATATATCGACACTTTATAAATTTATGTCGATACTTTTTGTCCAGAATGAATACCCAACGAGGT
GCACACATATAGTGTCGATACATTTAAAATTACATCGATCCCAAAAACATCGAAAACTATAATTA
TAATGTAATAATAAATTAACAATGTAACCAATAGAAATATACCAGTTTTATGAGAAAATAGATCT
ACATAATGGATCGACACTTTCTAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAACAA
GGTGC
Found at i:2115304 original size:23 final size:23
Alignment explanation
Indices: 2115278--2115328 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2115268 TAAGTAATTA
** *
2115278 ACCTATTTTATTATATCAGTGCT
1 ACCTATTACATTATATAAGTGCT
*
2115301 ACCTATTACGTTATATAAGTGCT
1 ACCTATTACATTATATAAGTGCT
2115324 ACCTA
1 ACCTA
2115329 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTGCT
Found at i:2115336 original size:23 final size:23
Alignment explanation
Indices: 2115288--2115337 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2115278 ACCTATTTTA
* *
2115288 TTATATCAGTGCTACCTATTACG
1 TTATATAAGTGCTACCTAATACG
*
2115311 TTATATAAGTGCTACCTAATATG
1 TTATATAAGTGCTACCTAATACG
2115334 TTAT
1 TTAT
2115338 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (23 bp):
TTATATAAGTGCTACCTAATACG
Found at i:2115387 original size:18 final size:18
Alignment explanation
Indices: 2115366--2115414 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
2115356 CAGTAATTAA
*
2115366 ACTATTTATTATATAAGC
1 ACTATCTATTATATAAGC
*
2115384 ACTACCTATTACATATAAGC
1 ACTATCTATT--ATATAAGC
2115404 ACTATCTATTA
1 ACTATCTATTA
2115415 CATTATATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.35
20 17 0.65
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (18 bp):
ACTATCTATTATATAAGC
Found at i:2115392 original size:22 final size:22
Alignment explanation
Indices: 2115367--2115442 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
2115357 AGTAATTAAA
2115367 CTATTTATTATATAAGCACTAC
1 CTATTTATTATATAAGCACTAC
* *
2115389 CTA-TTA-CATATAAGCACTAT
1 CTATTTATTATATAAGCACTAC
* *
2115409 CTATTACATTATAT-AGCGCTAC
1 CTATT-TATTATATAAGCACTAC
*
2115431 CTAATATATTAT
1 CT-ATTTATTAT
2115443 TGTATTTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 15 0.36
21 4 0.10
22 17 0.40
23 6 0.14
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (22 bp):
CTATTTATTATATAAGCACTAC
Found at i:2115401 original size:20 final size:20
Alignment explanation
Indices: 2115376--2115433 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
2115366 ACTATTTATT
2115376 ATATAAGCACTACCTATTAC
1 ATATAAGCACTACCTATTAC
*
2115396 ATATAAGCACTATCTATTAC
1 ATATAAGCACTACCTATTAC
*
2115416 ATTATATAGCGCTACCTA
1 A-TATA-AGCACTACCTA
2115434 ATATATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 20 0.61
21 4 0.12
22 9 0.27
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (20 bp):
ATATAAGCACTACCTATTAC
Found at i:2120093 original size:19 final size:19
Alignment explanation
Indices: 2120069--2120155 Score: 138
Period size: 19 Copynumber: 4.6 Consensus size: 19
2120059 TGCAGAAATG
*
2120069 GTATCGGTACCATAATAAA
1 GTATCGGTACCGTAATAAA
2120088 GTATCGGTACCGTAATAAA
1 GTATCGGTACCGTAATAAA
*
2120107 GTATTGGTACCGTAATAAA
1 GTATCGGTACCGTAATAAA
*
2120126 GTATCGATACCGTAATAAA
1 GTATCGGTACCGTAATAAA
*
2120145 GTGTCGGTACC
1 GTATCGGTACC
2120156 ATGGTATAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (19 bp):
GTATCGGTACCGTAATAAA
Found at i:2121387 original size:81 final size:81
Alignment explanation
Indices: 2120659--2121352 Score: 1057
Period size: 81 Copynumber: 8.6 Consensus size: 81
2120649 ACTATTTCAA
* * * * *
2120659 AGTAAAAGATTAATAGTCTAGTTGTGTATTTGATAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2120724 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
2120740 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
2120805 AGGTTAAATACATTTG
66 AGGTTAAATACCTTTG
* * * *
2120821 AGTAAAAGATTAATATCCTAGCTGAGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGAT-AT
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA-
2120885 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* *
2120902 TGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
2120967 AGGTTAAATACCATTG
66 AGGTTAAATACCTTTG
* * * *
2120983 AGTAAAAGATTAATAGCCTAGTTGTGCATTTGACATAAATGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
2121048 AGGTTAAATACATTTG
66 AGGTTAAATACCTTTG
* * *
2121064 AGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAATGTGTCAACTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
2121129 ATGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
2121145 AGTAAAAGATTAATAACCTAGATGTGTATTTAACAGAAAGGTTTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
2121210 ATGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
2121226 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATTCTAGTTAGATAAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
2121291 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
2121307 AGTAAAAGATTAATGGCCTAGCTGTGTATTAGACAGGAAGGTGTCA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCA
2121353 GTCCTGTAAA
Statistics
Matches: 562, Mismatches: 49, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
80 1 0.00
81 560 1.00
82 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:2124144 original size:81 final size:81
Alignment explanation
Indices: 2124009--2124426 Score: 563
Period size: 81 Copynumber: 5.2 Consensus size: 81
2123999 GAGAGAAGAA
* ** *
2124009 CTTTGAGTAAAATATTAATAGCCTAGTTGTGCATTTGA-TAGAAAGGTGTCAATTATATCAGTGA
1 CTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACT-GAAAGGTGTCAATTATGCCAGTTA
* *
2124073 GATGTAAGGCTAAATAC
65 GATGAAAGGTTAAATAC
*
2124090 CTTTGAGTAAAAGATTAATAGCCTAGTTATGCATTTGACTGAAAGGTGTCAATTATGCCAGTTAG
1 CTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACTGAAAGGTGTCAATTATGCCAGTTAG
2124155 ATGAAAGGTTAAATAC
66 ATGAAAGGTTAAATAC
* * * *
2124171 CTTTGAGTAAAAGATTAACAACCTAGATGTGCATTTGACAT-AAAGGTGCCAATTATGCCAGTTA
1 CTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGAC-TGAAAGGTGTCAATTATGCCAGTTA
2124235 GATGAAAGGTTAAATAC
65 GATGAAAGGTTAAATAC
* *
2124252 CTTAGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAG
1 CTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACTGAAAGGTGTCAATTATGCCAGTTAG
2124317 ATGAAAGGTTAAATAC
66 ATGAAAGGTTAAATAC
* * * * * * * *
2124333 CTTTGAGTAAAAGATTAATGGCCTAGCTGTGTATTGGACATG-AAGGTGCCAATCATGCAAATTA
1 CTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGAC-TGAAAGGTGTCAATTATGCCAGTTA
* * *
2124397 GATGAAAGGCTATATGC
65 GATGAAAGGTTAAATAC
*
2124414 CTTTGGGTAAAAG
1 CTTTGAGTAAAAG
2124427 GCTAAATGCT
Statistics
Matches: 301, Mismatches: 32, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
81 298 0.99
82 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (81 bp):
CTTTGAGTAAAAGATTAATAGCCTAGTTGTGCATTTGACTGAAAGGTGTCAATTATGCCAGTTAG
ATGAAAGGTTAAATAC
Found at i:2127879 original size:20 final size:20
Alignment explanation
Indices: 2127854--2127979 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
2127844 TTCATTTATG
2127854 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
2127874 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
2127899 GTCATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
* *
2127920 GCATCCTTTCATACATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
* *
2127945 GGTATTCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
2127966 GCATCCTTTCATGC
1 GCATCCTTTCATGC
2127980 ATTTCATTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 24
0.71 0.08 0.20
Matches are distributed among these distances:
20 38 0.45
21 9 0.11
22 2 0.02
24 2 0.02
25 9 0.11
26 24 0.29
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:2127893 original size:46 final size:46
Alignment explanation
Indices: 2127842--2127990 Score: 262
Period size: 46 Copynumber: 3.2 Consensus size: 46
2127832 TTATTCGTTA
2127842 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
2127888 ATTTCATTTATGTCATCCTTTCATGCCTTAATGCATCCTTTCATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
2127934 ATTTCATTTATGGTATTCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
2127980 ATTTCATTTAT
1 ATTTCATTTAT
2127991 TGATTCGTTT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 97 1.00
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:2128442 original size:22 final size:21
Alignment explanation
Indices: 2128415--2128485 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
2128405 TACCCCTACC
2128415 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATAC-TCTATACT
2128437 ATGGTA-CTGATAC-CT-TACT
1 ATGGTATC-GATACTCTATACT
* * *
2128456 CTCAGTATCGATACTACTACACT
1 AT-GGTATCGATACT-CTATACT
2128479 ATGGTAT
1 ATGGTAT
2128486 TGGTACTCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 5 0.13
20 10 0.26
21 2 0.05
22 17 0.45
23 4 0.11
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (21 bp):
ATGGTATCGATACTCTATACT
Found at i:2132839 original size:117 final size:116
Alignment explanation
Indices: 2132665--2133143 Score: 586
Period size: 117 Copynumber: 4.1 Consensus size: 116
2132655 GAGAGTTAAC
* * *
2132665 AATGAGAAGAACTCATCTAAAA-ATGAGAAAAAATTCATAACGAGAAGAACTTGTTCAACCTTTC
1 AATGAGAAGAACTCATCCAAAAGA-GAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTC
* *
2132729 ACCCAAATCCATCATATAAGGAGGTGGATTAACATTTCAATGAGGAGTTCAT
65 ACTCAAATCCATCACATAAGGAGGTGGATTAACATTTCAATGAGGAGTTCAT
* * * * * *
2132781 AATGAGAAGAACTCGTCCACAAAGGGAGAAGAAGTTCTTAATGAGAAGAACTTATTCAACTTTTC
1 AATGAGAAGAACTCATCCA-AAAGAGAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTC
* * *
2132846 ACTCAAAGT-CATCATATAAGTAGATGGATTAACATTTCAATGAGGAGTTCAT
65 ACTCAAA-TCCATCACATAAGGAGGTGGATTAACATTTCAATGAGGAGTTCAT
* * * * *
2132898 AATAAGAAGAACTCATCCAAGAGAGAGAAAAAGTTCATAATGAGAAGAACTTGTTCGACATTTCG
1 AATGAGAAGAACTCATCCAAAAGAGAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCA
* * * *
2132963 TTCAAATCCGTCACATAAAGAGGTGGATTAACATTTCAATGAGGAGTTTAT
66 CTCAAATCCATCACATAAGGAGGTGGATTAACATTTCAATGAGGAGTTCAT
* * * * * * *
2133014 ATTGAGAAGAACTCGTCCATGAATAGAGAAGAAGTTCATAATAAGAAGAACTTGTTCGACCTTTC
1 AATGAGAAGAACTCATCCA-AAAGAGAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTC
* * * *
2133079 ACTCAAATTCATCACATAAGTAGGTGGATCAACATTTTCAATG-GAAGTTCAT
65 ACTCAAATCCATCACATAAGGAGGTGGATTAACA-TTTCAATGAGGAGTTCAT
2133131 AATGAGAAGAACT
1 AATGAGAAGAACT
2133144 TGGATAATCT
Statistics
Matches: 309, Mismatches: 48, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
115 1 0.00
116 113 0.37
117 186 0.60
118 9 0.03
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (116 bp):
AATGAGAAGAACTCATCCAAAAGAGAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCA
CTCAAATCCATCACATAAGGAGGTGGATTAACATTTCAATGAGGAGTTCAT
Found at i:2133081 original size:233 final size:233
Alignment explanation
Indices: 2132669--2133143 Score: 657
Period size: 233 Copynumber: 2.0 Consensus size: 233
2132659 GTTAACAATG
* *
2132669 AGAAGAACTCATCTAAAAATGAGAAAAAATTCATAACGAGAAGAACTTGTTCAACCTTTCACCCA
1 AGAAGAACTCATCCAAAAATGAGAAAAAATTCATAACGAGAAGAACTTGTTCAACATTTCACCCA
* *
2132734 AATCCATCATATAAGGAGGTGGATTAACATTTCAATGAGGAGTTCATAATGAGAAGAACTCGTCC
66 AATCCATCACATAAAGAGGTGGATTAACATTTCAATGAGGAGTTCATAATGAGAAGAACTCGTCC
* * * * *
2132799 ACAAAGGGAGAAGAAGTTCTTAATGAGAAGAACTTATTCAACTTTTCACTCAAAGTCATCATATA
131 ACAAAGAGAGAAGAAGTTCATAATAAGAAGAACTTATTCAACCTTTCACTCAAAGTCATCACATA
* *
2132864 AGTAGATGGATTAACA-TTTCAATGAGGAGTTCATAATA
196 AGTAGATGGATCAACATTTTCAATG-GAAGTTCATAATA
* * * * ***
2132902 AGAAGAACTCATCCAAGAGA-GAGAAAAAGTTCATAATGAGAAGAACTTGTTCGACATTTCGTTC
1 AGAAGAACTCATCCAA-AAATGAGAAAAAATTCATAACGAGAAGAACTTGTTCAACATTTCACCC
* * *
2132966 AAATCCGTCACATAAAGAGGTGGATTAACATTTCAATGAGGAGTTTATATTGAGAAGAACTCGTC
65 AAATCCATCACATAAAGAGGTGGATTAACATTTCAATGAGGAGTTCATAATGAGAAGAACTCGTC
** * * * *
2133031 CATGAATAGAGAAGAAGTTCATAATAAGAAGAACTTGTTCGACCTTTCACTCAAATTCATCACAT
130 CACAAAGAGAGAAGAAGTTCATAATAAGAAGAACTTATTCAACCTTTCACTCAAAGTCATCACAT
* *
2133096 AAGTAGGTGGATCAACATTTTCAATGGAAGTTCATAATG
195 AAGTAGATGGATCAACATTTTCAATGGAAGTTCATAATA
2133135 AGAAGAACT
1 AGAAGAACT
2133144 TGGATAATCT
Statistics
Matches: 211, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
233 201 0.95
234 10 0.05
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (233 bp):
AGAAGAACTCATCCAAAAATGAGAAAAAATTCATAACGAGAAGAACTTGTTCAACATTTCACCCA
AATCCATCACATAAAGAGGTGGATTAACATTTCAATGAGGAGTTCATAATGAGAAGAACTCGTCC
ACAAAGAGAGAAGAAGTTCATAATAAGAAGAACTTATTCAACCTTTCACTCAAAGTCATCACATA
AGTAGATGGATCAACATTTTCAATGGAAGTTCATAATA
Found at i:2139564 original size:3 final size:3
Alignment explanation
Indices: 2139556--2139640 Score: 79
Period size: 3 Copynumber: 29.0 Consensus size: 3
2139546 TTTTACTTAA
** *
2139556 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* *
2139602 A-T ATT A-T ATAT ATT A-T ATT ATT ATT A-A ATA ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2139641 TACAAACCGG
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
2 7 0.10
3 56 0.82
4 5 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:2139640 original size:25 final size:25
Alignment explanation
Indices: 2139555--2139640 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
2139545 ATTTTACTTA
*
2139555 AATTATTATTAAAATTATTATT-AT
1 AATTATTATTAATATTATTATTAAT
*
2139579 TATTATTATTAAATATTATTATT-AT
1 AATTATTATT-AATATTATTATTAAT
*
2139604 -ATTATATATATTATATTATTATTAAAT
1 AATTAT-TAT-TAATATTATTATT-AAT
2139631 AATTATTATT
1 AATTATTATT
2139641 TACAAACCGG
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
24 14 0.26
25 27 0.51
26 2 0.04
27 5 0.09
28 5 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AATTATTATTAATATTATTATTAAT
Found at i:2140537 original size:22 final size:22
Alignment explanation
Indices: 2140512--2140572 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 22
2140502 TAGTCACTAA
2140512 TTTTA-ATTATAAGTTTTATTACT
1 TTTTATATT-TAA-TTTTATTACT
2140535 TTTTATATTTAATTTTATTA-T
1 TTTTATATTTAATTTTATTACT
*
2140556 TTATAT-TTTAATTTTAT
1 TTTTATATTTAATTTTAT
2140573 ATGTTTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 11 0.31
21 6 0.17
22 8 0.22
23 8 0.22
24 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATATTTAATTTTATTACT
Found at i:2141548 original size:16 final size:15
Alignment explanation
Indices: 2141527--2141561 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2141517 TCTTTCAAAT
2141527 TTTTTATTACTTATTA
1 TTTTTA-TACTTATTA
*
2141543 TTTTTATACTTTTTA
1 TTTTTATACTTATTA
2141558 TTTT
1 TTTT
2141562 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTATACTTATTA
Found at i:2147855 original size:114 final size:114
Alignment explanation
Indices: 2147655--2147994 Score: 563
Period size: 114 Copynumber: 3.0 Consensus size: 114
2147645 AAGTGCCATG
* *
2147655 TTCTCGTAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
2147720 TGGTTTGGTATGAACCTCAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
* *
2147769 TTCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
2147834 TGGTTTGGTATTAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
*
2147883 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TTCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
2147948 TGGTTCGGTAGGAACCCCAGAACTAATCATTAGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
2147995 CTGCATGATC
Statistics
Matches: 210, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 210 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (114 bp):
TTCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
Found at i:2150043 original size:50 final size:54
Alignment explanation
Indices: 2149911--2150046 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
2149901 TAATTGAGAA
*
2149911 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
* * *
2149965 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC-ATC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
2150018 -TC-GA-CAGAAACCACAGGAAAA-GATGAATG
1 ATCTGAGCAGAAACCACA-GAAAAGGATGAATG
2150047 CACTGTCAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
50 19 0.25
51 7 0.09
52 2 0.03
53 2 0.03
54 47 0.61
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (54 bp):
ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
Found at i:2150054 original size:50 final size:50
Alignment explanation
Indices: 2149911--2150064 Score: 141
Period size: 54 Copynumber: 3.0 Consensus size: 50
2149901 TAATTGAGAA
* *** * *
2149911 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGCACTGTCAAAT-ATTT---TAC
*** * *
2149965 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGCACTGTCAAATATTTTAC
2150015 ATCTCGA-CAGAAACCACAGGAAAA-GATGAATGCACTGTCAAATATTTTAC
1 ATCT-GAGCAGAAACCACA-GAAAAGGATGAATGCACTGTCAAATATTTTAC
2150065 GAACTTGCTA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 38 0.43
51 7 0.08
53 3 0.03
54 41 0.46
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (50 bp):
ATCTGAGCAGAAACCACAGAAAAGGATGAATGCACTGTCAAATATTTTAC
Found at i:2151336 original size:186 final size:185
Alignment explanation
Indices: 2151019--2151387 Score: 659
Period size: 186 Copynumber: 2.0 Consensus size: 185
2151009 CCAATCAACA
2151019 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
2151084 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
*
2151149 TGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCGAGAGCTTTTTGATAT
131 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATAT
**
2151204 TGTTATTTTGAAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAAT
1 TGTTATTTTG-AAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAAT
* *
2151268 GAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTACTTATTAAACTATTTCCTACA
65 GAAATTGTTGAAAAGTAAGAAAACGATTTCCTTAG-TTTTTTTACTTAGTAAACTATTTCCCACA
*
2151333 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
129 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGAT
2151388 GTTTTCAAAG
Statistics
Matches: 176, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
185 50 0.28
186 126 0.72
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (185 bp):
TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATAT
Found at i:2151531 original size:75 final size:75
Alignment explanation
Indices: 2151331--2151733 Score: 700
Period size: 75 Copynumber: 5.3 Consensus size: 75
2151321 CTATTTCCTA
2151331 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2151396 AGCCTTAGGGT
66 A-CCTTAGGGT
*
2151407 CATCTGTAAGTCCTGCAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2151472 ACCTTCGGGT
66 ACCTTAGGGT
* **
2151482 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2151547 ACCTTCGGGT
66 ACCTTAGGGT
**
2151557 CATCTGTAAGTCCTATAGTGCATGATGTTT-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2151621 AGCCTTAGGGT
66 A-CCTTAGGGT
2151632 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
2151697 AACCTTAGGGT
65 AACCTTAGGGT
2151708 CATCTGTAAGTCCTGCAGTGCATGAT
1 CATCTGTAAGTCCTGCAGTGCATGAT
2151734 TTTTTTAAGA
Statistics
Matches: 312, Mismatches: 12, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
74 33 0.11
75 144 0.46
76 132 0.42
77 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (75 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCTTAGGGT
Found at i:2151899 original size:3 final size:3
Alignment explanation
Indices: 2151891--2151975 Score: 75
Period size: 3 Copynumber: 28.0 Consensus size: 3
2151881 TTTTACTTAA
** *
2151891 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * *
2151937 ATA ATAT ATAT ATT A-T ATT ATT ATT A-A ATA ATT ATT ATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2151976 TACAAACCGG
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 3 0.04
3 57 0.84
4 8 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:2151933 original size:22 final size:22
Alignment explanation
Indices: 2151891--2151975 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
2151881 TTTTACTTAA
2151891 ATTATTATTAAAATTATTATTATT
1 ATTATTATT-AAA-TATTATTATT
2151915 ATTATTATTAAATATTATTATT
1 ATTATTATTAAATATTATTATT
*
2151937 A-TA--A-TATATA-TATTA-T
1 ATTATTATTAAATATTATTATT
2151953 ATTATTATTAAATAATTATTATT
1 ATTATTATTAAAT-ATTATTATT
2151976 TACAAACCGG
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.04
17 7 0.13
18 5 0.10
19 2 0.04
20 4 0.08
21 3 0.06
22 16 0.31
23 4 0.08
24 9 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATTATTAAATATTATTATT
Found at i:2151937 original size:25 final size:25
Alignment explanation
Indices: 2151890--2151975 Score: 106
Period size: 25 Copynumber: 3.4 Consensus size: 25
2151880 ATTTTACTTA
2151890 AATTATTATTAAA-ATTATTATTAT
1 AATTATTATTAAATATTATTATTAT
*
2151914 TATTATTATTAAATATTATTATTAT
1 AATTATTATTAAATATTATTATTAT
2151939 AATATATATATT--ATATTATTATTAAAT
1 AAT-TAT-TATTAAATATTATTATT--AT
2151966 AATTATTATT
1 AATTATTATT
2151976 TACAAACCGG
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
24 12 0.22
25 28 0.51
26 6 0.11
27 9 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
AATTATTATTAAATATTATTATTAT
Found at i:2152779 original size:35 final size:35
Alignment explanation
Indices: 2152736--2152813 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
2152726 GAGGGAAGCT
2152736 AGAGAGAAGGCAGAGAATTCTGGTTCTCTCATTAG
1 AGAGAGAAGGCAGAGAATTCTGGTTCTCTCATTAG
*
2152771 AGAGAGAAGGCAGAGAATTCTGGTTCTCTCGTTAG
1 AGAGAGAAGGCAGAGAATTCTGGTTCTCTCATTAG
2152806 AGAGAGAA
1 AGAGAGAA
2152814 CCAGAAGAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (35 bp):
AGAGAGAAGGCAGAGAATTCTGGTTCTCTCATTAG
Found at i:2152823 original size:37 final size:35
Alignment explanation
Indices: 2152736--2152823 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 35
2152726 GAGGGAAGCT
* *
2152736 AGAGAGAAGGCAGAGAATTCTGGTTCTCTCATTAG
1 AGAGAGAAAGAAGAGAATTCTGGTTCTCTCATTAG
* * *
2152771 AGAGAGAAGGCAGAGAATTCTGGTTCTCTCGTTAG
1 AGAGAGAAAGAAGAGAATTCTGGTTCTCTCATTAG
2152806 AGAGAGAACCAGAAGAGA
1 AGAGAGAA--AGAAGAGA
2152824 GAAAATGAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
35 42 0.88
37 6 0.12
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (35 bp):
AGAGAGAAAGAAGAGAATTCTGGTTCTCTCATTAG
Found at i:2153245 original size:22 final size:22
Alignment explanation
Indices: 2153220--2153278 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 22
2153210 TAGTCACTAA
2153220 TTTTA-ATTATAAGTTTTATTACT
1 TTTTATATT-TAA-TTTTATTACT
2153243 TTTTATATTTAATTTTATTA-T
1 TTTTATATTTAATTTTATTACT
*
2153264 TTATAT-TTTAATTTT
1 TTTTATATTTAATTTT
2153279 GTATGTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.26
21 6 0.18
22 8 0.24
23 8 0.24
24 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTATATTTAATTTTATTACT
Found at i:2157396 original size:2 final size:2
Alignment explanation
Indices: 2157389--2157418 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2157379 TAAACCTTTA
2157389 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2157419 CTTTTAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2157430 original size:19 final size:18
Alignment explanation
Indices: 2157390--2157449 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
2157380 AAACCTTTAA
2157390 TATATATATATA-TATATA-
1 TATAT-TATATACT-TATAG
*
2157408 TATATTATATACTTTTAAG
1 TATATTATATACTTAT-AG
* *
2157427 TATAATGTATACTTATAG
1 TATATTATATACTTATAG
2157445 TATAT
1 TATAT
2157450 ATTTTTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 8 0.24
18 13 0.38
19 13 0.38
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (18 bp):
TATATTATATACTTATAG
Found at i:2157727 original size:2 final size:2
Alignment explanation
Indices: 2157720--2157745 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2157710 TTCATCATAA
2157720 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2157746 TAGAATCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2162214 original size:15 final size:15
Alignment explanation
Indices: 2162194--2162235 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
2162184 AAGTTTCGAT
2162194 GCCCTTGGAGTCTTC
1 GCCCTTGGAGTCTTC
*
2162209 GCCCTTGGAGCCTTC
1 GCCCTTGGAGTCTTC
2162224 GCCCTTGGAGTC
1 GCCCTTGGAGTC
2162236 CTCTAGCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.36, G:0.29, T:0.29
Consensus pattern (15 bp):
GCCCTTGGAGTCTTC
Found at i:2166490 original size:19 final size:19
Alignment explanation
Indices: 2166466--2166526 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
2166456 AAACCGAAAC
2166466 CGGTTTTTTCGGTTCGGTT
1 CGGTTTTTTCGGTTCGGTT
*
2166485 CGGTTTTTT---TAACGGTT
1 CGGTTTTTTCGGT-TCGGTT
*
2166502 CGGGTTTTTCGGTTCGGTT
1 CGGTTTTTTCGGTTCGGTT
2166521 CGGTTT
1 CGGTTT
2166527 ATCGGTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.03
17 13 0.38
19 19 0.56
20 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.31, T:0.51
Consensus pattern (19 bp):
CGGTTTTTTCGGTTCGGTT
Found at i:2166525 original size:18 final size:18
Alignment explanation
Indices: 2166470--2166533 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
2166460 CGAAACCGGT
2166470 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
2166488 TTTTT---TTAACGGTTCGGG
1 TTTTTCGGTT--CGGTTC-GG
2166506 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
*
2166524 TTTATCGGTT
1 TTTTTCGGTT
2166534 TTTCAATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
15 2 0.05
17 6 0.15
18 23 0.59
19 6 0.15
21 2 0.05
ACGTcount: A:0.05, C:0.14, G:0.30, T:0.52
Consensus pattern (18 bp):
TTTTTCGGTTCGGTTCGG
Found at i:2168854 original size:12 final size:13
Alignment explanation
Indices: 2168811--2168853 Score: 72
Period size: 12 Copynumber: 3.5 Consensus size: 13
2168801 GCCCCGATTA
2168811 CCCGATTACCCGC
1 CCCGATTACCCGC
2168824 CCCGATTA-CCGC
1 CCCGATTACCCGC
2168836 CCCGA-TACCCGC
1 CCCGATTACCCGC
2168848 CCCGAT
1 CCCGAT
2168854 AAATATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.07
12 18 0.64
13 8 0.29
ACGTcount: A:0.16, C:0.53, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:2168914 original size:24 final size:26
Alignment explanation
Indices: 2168887--2168947 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
2168877 ATATATATAT
*
2168887 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
2168911 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
2168935 AT-ATATATATATA
1 ATAATATAAATATA
2168948 CCCGGCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 18 0.58
25 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:2168929 original size:19 final size:19
Alignment explanation
Indices: 2168905--2168944 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2168895 AATAAATTTA
2168905 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
2168924 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
2168943 AT
1 AT
2168945 ATACCCGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 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):
ATTTAAATAAAAAATATAT
Found at i:2168989 original size:12 final size:12
Alignment explanation
Indices: 2168965--2169010 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
2168955 CGATTCCCAG
2168965 CCCAATA-CCGA
1 CCCAATACCCGA
2168976 CCCAATACCCGA
1 CCCAATACCCGA
* *
2168988 CCCAATACCTGG
1 CCCAATACCCGA
2169000 CCCAATACCCG
1 CCCAATACCCG
2169011 TTTAAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:2168992 original size:23 final size:24
Alignment explanation
Indices: 2168965--2169010 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2168955 CGATTCCCAG
2168965 CCCAATACC-GACCCAATACCCGA
1 CCCAATACCTGACCCAATACCCGA
*
2168988 CCCAATACCTGGCCCAATACCCG
1 CCCAATACCTGACCCAATACCCG
2169011 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (24 bp):
CCCAATACCTGACCCAATACCCGA
Found at i:2175446 original size:29 final size:31
Alignment explanation
Indices: 2175393--2175451 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
2175383 GTCTTATTTT
* *
2175393 TGTTTGAAATTGTATTGGTTTTTTATTAGTA
1 TGTTTAAAATTGTATTGGTTATTTATTAGTA
2175424 TGTTTAAAATT-TATT-GTTATTTATTAGT
1 TGTTTAAAATTGTATTGGTTATTTATTAGT
2175452 TGAAATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 4 0.15
31 10 0.38
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.59
Consensus pattern (31 bp):
TGTTTAAAATTGTATTGGTTATTTATTAGTA
Found at i:2183383 original size:28 final size:28
Alignment explanation
Indices: 2183347--2183407 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
2183337 AATTATGGCT
2183347 AATCCCATTTGAATTACAAAAATCAGTA
1 AATCCCATTTGAATTACAAAAATCAGTA
*
2183375 AATCTCATTTGAATTACAAAAATCAGTA
1 AATCCCATTTGAATTACAAAAATCAGTA
2183403 AATCC
1 AATCC
2183408 AAGATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.30
Consensus pattern (28 bp):
AATCCCATTTGAATTACAAAAATCAGTA
Found at i:2186625 original size:20 final size:19
Alignment explanation
Indices: 2186600--2186674 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 19
2186590 CAACTCAACG
2186600 GTATCGATACTGTCCAGGTA
1 GTATCGATACTGTCCA-GTA
*
2186620 GTATCGATACTACTCTGTGCAGTA
1 GTATCG--A-TA--CTGTCCAGTA
*
2186644 GTATCGATACCGTCCAGTGA
1 GTATCGATACTGTCCAGT-A
2186664 GTATCGATACT
1 GTATCGATACT
2186675 ACTATGTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
19 7 0.16
20 17 0.38
21 2 0.04
22 2 0.04
23 2 0.04
24 9 0.20
25 6 0.13
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (19 bp):
GTATCGATACTGTCCAGTA
Found at i:2186644 original size:24 final size:24
Alignment explanation
Indices: 2186617--2186697 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
2186607 TACTGTCCAG
2186617 GTAGTATCGATACTACTCTGTGCA
1 GTAGTATCGATACTACTCTGTGCA
*
2186641 GTAGTATCG--A-TAC-C-GTCCA
1 GTAGTATCGATACTACTCTGTGCA
* *
2186660 GTGAGTATCGATACTACTATGTGAA
1 GT-AGTATCGATACTACTCTGTGCA
*
2186685 GTAGTATCAATAC
1 GTAGTATCGATAC
2186698 CGAACATGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 6 0.13
20 8 0.17
21 3 0.07
22 2 0.04
23 3 0.07
24 19 0.41
25 5 0.11
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (24 bp):
GTAGTATCGATACTACTCTGTGCA
Found at i:2186667 original size:44 final size:44
Alignment explanation
Indices: 2186600--2186699 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
2186590 CAACTCAACG
* * *
2186600 GTATCGATACTGTCCAGGTAGTATCGATACTACTCTGTGCAGTA
1 GTATCGATACCGTCCAGGTAGTATCGATACTACTATGTGAAGTA
2186644 GTATCGATACCGTCCA-GTGAGTATCGATACTACTATGTGAAGTA
1 GTATCGATACCGTCCAGGT-AGTATCGATACTACTATGTGAAGTA
*
2186688 GTATCAATACCG
1 GTATCGATACCG
2186700 AACATGGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 2 0.04
44 49 0.96
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
GTATCGATACCGTCCAGGTAGTATCGATACTACTATGTGAAGTA
Found at i:2187068 original size:18 final size:18
Alignment explanation
Indices: 2187047--2187099 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
2187037 CTAATAATTG
* *
2187047 AATCGAATATAATATTTA
1 AATCGAATATAAAATCTA
2187065 AATCGAATATAAAATCTA
1 AATCGAATATAAAATCTA
*
2187083 AATAGAATATAAAATCT
1 AATCGAATATAAAATCT
2187100 TAAAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (18 bp):
AATCGAATATAAAATCTA
Done.