Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008528.1 Hibiscus syriacus cultivar Beakdansim tig00111403_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: 1199389
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:614120 original size:16 final size:18
Alignment explanation
Indices: 614099--614132 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
614089 ATTTATTAAT
614099 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
614115 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
614133 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:614279 original size:21 final size:21
Alignment explanation
Indices: 614255--614297 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
614245 TATTACCTTA
614255 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
614276 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
614297 A
1 A
614298 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:614315 original size:35 final size:35
Alignment explanation
Indices: 614266--614349 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
614256 ATTGAAGTAT
** * *
614266 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
614301 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
614336 TTTAGAATGAAAAT
1 TTTAGAAT-AAAAT
614350 GATGACTGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 36 0.88
36 5 0.12
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.40
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:624003 original size:63 final size:61
Alignment explanation
Indices: 623895--624020 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 61
623885 TTTAAATTGA
* * *
623895 TTGTATAAGTTTTTAGTATTGCATTTATTCTCGTATGTTTGTTTTTTCAAAAAGGTGTTTGTGT
1 TTGTATAAATTTTTAGTATTG-ATTTATTCTCGTATGTTTATTTTTT-AAAAA-GTGTTCGTGT
623959 TTGTATAAATTTTTAGTATTG-TGTTATTCTCGTATGTTTATTTTTTAAAAAGTGTTCGTGT
1 TTGTATAAATTTTTAGTATTGAT-TTATTCTCGTATGTTTATTTTTTAAAAAGTGTTCGTGT
624020 T
1 T
624021 CGATTCATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 10 0.17
62 6 0.10
63 22 0.38
64 20 0.34
ACGTcount: A:0.21, C:0.06, G:0.17, T:0.56
Consensus pattern (61 bp):
TTGTATAAATTTTTAGTATTGATTTATTCTCGTATGTTTATTTTTTAAAAAGTGTTCGTGT
Found at i:625784 original size:18 final size:19
Alignment explanation
Indices: 625752--625788 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
625742 AAAAAGTAAT
625752 TTTTTATATAATTTAATTA
1 TTTTTATATAATTTAATTA
*
625771 TTTTTATAT-TTTTAATTA
1 TTTTTATATAATTTAATTA
625789 ATAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTATATAATTTAATTA
Found at i:657605 original size:297 final size:295
Alignment explanation
Indices: 657068--657664 Score: 845
Period size: 297 Copynumber: 2.0 Consensus size: 295
657058 GAAAATAACA
* * * * * ** * *
657068 AAAACGAAGGTTTGGTACGATCGCATGCATCTGAAAAGAGAAGTTCAAAGTTACCTAAGGTCAAA
1 AAAATGAAGGTTTGGCACAATCACATGCATCTGAAAAGAAAAGCCCAAAGTTACCAAAGGCCAAA
* *
657133 TCTGACACTGCAAAGTCTGGCCAAGAATTTCTTGAAGACAAGAAAAACCATTGATACTTCTGAGG
66 TCTGACACTGCAAAATCTGGCCAAGAATTTCTTGAAGAAAAGAAAAACCATTGATACTTCTGAGG
* *
657198 TTCAGAAGAGAAAGCGAAGGAAGAAGAACAAGAGTATATCAGAAAGCAGCAAAGTATCTGGAAAT
131 TTCAGAAGAGAAAGCGAAGGAAGAAGAACAAGAGTATATCAGAAAGAAGCAAAGTATCTGAAAAT
* * * *
657263 GATGCTGAGAAGCAAAATTCAAGAGAAGACAACCCACGAAAGGATGCTACCACCAGTATGGTGCA
196 GATGCTAAGAAGCAAAATCCAAGAGAAGACAACCCACAAAAGGATGCTACCACCAGAATGGTGCA
** * * *
657328 TTTAGAGAAAAGGCAGCATATCCAGA-AGATAGAAG
261 TGAACAGAAAAGCCAGCAGATCCA-ACAGATAGAAG
*
657363 AAAATGAAGGTTTGGCACAATCACATGCATCTGAAAAGAAAAGCCCAAAGTTATCAAAGGCCAAA
1 AAAATGAAGGTTTGGCACAATCACATGCATCTGAAAAGAAAAGCCCAAAGTTACCAAAGGCCAAA
* * * *
657428 TTTGACATTGCAAAATCAGTTGCCAAGAATTTCTTGAAGAAAAGAAAAGCCATTGATACTTCTGA
66 TCTGACACTGCAAAATC--TGGCCAAGAATTTCTTGAAGAAAAGAAAAACCATTGATACTTCTGA
* * *
657493 GGTTCAGAAGAGGAAGCTAAGGAAGAAGAACAAGAGTATATCAGAGAGAAGCAAAGTATCTGAAA
129 GGTTCAGAAGAGAAAGCGAAGGAAGAAGAACAAGAGTATATCAGAAAGAAGCAAAGTATCTGAAA
* * * *
657558 ATGATGCTAAGGAGCAAAATCCAAGAGAAGACAATCCACAAAAGGATGCTACTACCAGAATGTTG
194 ATGATGCTAAGAAGCAAAATCCAAGAGAAGACAACCCACAAAAGGATGCTACCACCAGAATGGTG
657623 CATGAACAGAAAAGCCAGCAGATCCAACAGATAGAAG
259 CATGAACAGAAAAGCCAGCAGATCCAACAGATAGAAG
*
657660 GAAAT
1 AAAAT
657665 ACATATCGGT
Statistics
Matches: 264, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
295 69 0.26
296 1 0.00
297 194 0.73
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (295 bp):
AAAATGAAGGTTTGGCACAATCACATGCATCTGAAAAGAAAAGCCCAAAGTTACCAAAGGCCAAA
TCTGACACTGCAAAATCTGGCCAAGAATTTCTTGAAGAAAAGAAAAACCATTGATACTTCTGAGG
TTCAGAAGAGAAAGCGAAGGAAGAAGAACAAGAGTATATCAGAAAGAAGCAAAGTATCTGAAAAT
GATGCTAAGAAGCAAAATCCAAGAGAAGACAACCCACAAAAGGATGCTACCACCAGAATGGTGCA
TGAACAGAAAAGCCAGCAGATCCAACAGATAGAAG
Found at i:662082 original size:23 final size:23
Alignment explanation
Indices: 661901--662075 Score: 114
Period size: 23 Copynumber: 7.8 Consensus size: 23
661891 AATAACATAT
661901 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
* *
661924 TAGGCAGCGCTTATACAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
661947 TAGGTAGCGCTTATATAA--TAA
1 TAGGTAGCGCTTATATAATGTAA
* ** *
661968 -A-ATAG-GCATT-TA-ACCGGAAA
1 TAGGTAGCGC-TTATATA-ATGTAA
* * *** * ** *
661988 TA-TTATCAAGTACAATAACATAT
1 TAGGTAGCGCTTA-TATAATGTAA
662011 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
* *
662034 TAGGCAGCGCTTATACAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
662057 TAGGTAGCGCTTATATAAT
1 TAGGTAGCGCTTATATAAT
662076 AAAATAGATT
Statistics
Matches: 111, Mismatches: 31, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
17 1 0.01
18 4 0.04
19 5 0.05
20 3 0.03
21 7 0.06
23 85 0.77
24 6 0.05
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:662182 original size:110 final size:110
Alignment explanation
Indices: 661864--662152 Score: 518
Period size: 110 Copynumber: 2.7 Consensus size: 110
661854 TATGTTATAT
*
661864 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
661929 AGCGCTTATACAATGTAATAGGTAGCGCTTATATAATAAAATAGG
66 AGCGCTTATACAATGTAATAGGTAGCGCTTATATAATAAAATAGG
661974 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
662039 AGCGCTTATACAATGTAATAGGTAGCGCTTATATAATAAAATA-G
66 AGCGCTTATACAATGTAATAGGTAGCGCTTATATAATAAAATAGG
*
662083 -ATTTAACCGGAAATATTATC-AGTACAATAACATATTAGGTAGCGC-T-TAT-ATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
662143 AGCGCTTATA
66 AGCGCTTATA
662153 TTGACCTATT
Statistics
Matches: 177, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
104 20 0.11
105 3 0.02
106 1 0.01
107 25 0.14
108 20 0.11
109 1 0.01
110 107 0.60
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (110 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGC
AGCGCTTATACAATGTAATAGGTAGCGCTTATATAATAAAATAGG
Found at i:662556 original size:199 final size:197
Alignment explanation
Indices: 662148--662869 Score: 786
Period size: 199 Copynumber: 3.6 Consensus size: 197
662138 TAGGTAGCGC
* * * *
662148 TTATATTGACCTATTTTATAAGTAAATCGGTATA-TT-TACC-GGTAACATTGCAAATTTATCTA
1 TTATGTTGACCTATTTTATAA-TAAACCGGTATATTTATACCGGGT-ACATTGTAAATTTACCTA
* * * * * *
662210 TTACATTATAATTATTGGTTTCGATATTTTTTGGATCGATACAATTT--GAAATATATCGACACT
64 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACT
* * * * * *
662273 TTATGCATGCACCTCG-TTGGACATTTATTCTGGAAAAAAGTATTGAGACAAACTTAA-AAGGTG
128 TTATGCGTGCACC-CGTTTGG-CATTCATTCTGGACAAAAGTATCGACACAAATTTAACAA-GTG
* *
662336 TTGATACA
190 TCGATACT
* * *
662344 TTAT-TTAGACTTATTTTATAATAAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTA
1 TTATGTT-GACCTATTTTATAAT-AAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTA
* * *
662408 TCACATTGTAATTATCGGTTTCGATGTTTTTGGGATTGATACTTTTAATAAATGTATCGACACTT
64 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
*
662473 TATGCGTGCACCCGTTTGGCATTCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCG
129 TATGCGTGCACCCGTTTGGCATTCATTCTGGACAAAA-GTATCGACACAAATTTAACAAGTGTCG
662538 ATACT
193 ATACT
* * * * * * *
662543 TTATGCTGACTTATTTTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTATAAT-AAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTAT
* *
662608 TACATTATAATTATCGGTTTTGAT-TTTATTGGGATCGATACTTTTAATAAATGTATCAACACTT
65 TACATTATAATTATCGGTTTCGATGTTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTT
* **
662672 TATGCGTGCATCTCGTTTGAGCATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGT
129 TATGCGTGCA-CCCGTTTG-GCATTCATTCTGGACAA-AAGTATCGACACAAATTTAACAAGTGT
*
662737 CTATA-T
191 CGATACT
* * * * *
662743 ATTATGTTGACCTGTTTTCA-AATTAACAGGTATATTTATACCGGTTACATTGTTAATTTACCTA
1 -TTATGTTGACCTATTTT-ATAATAAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTA
* *
662807 TTACATTATAATTATTGGTTTCAATGTTTTTTGGG-TCGATACTTTTAGA-AAATGTATCGACAC
64 TTACATTATAATTATCGGTTTCGATG-TTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
662870 ATATTTAGGT
Statistics
Matches: 451, Mismatches: 55, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
195 3 0.01
196 27 0.06
197 5 0.01
198 75 0.17
199 177 0.39
200 94 0.21
201 65 0.14
202 5 0.01
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (197 bp):
TTATGTTGACCTATTTTATAATAAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCGTGCACCCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATA
CT
Found at i:665388 original size:19 final size:19
Alignment explanation
Indices: 665343--665391 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
665333 TTACATTCAC
665343 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
** *
665362 ATGTAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
665381 ATACAAAATTA
1 ATACAAAATTA
665392 ACCCTACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:667447 original size:200 final size:197
Alignment explanation
Indices: 666974--667738 Score: 883
Period size: 200 Copynumber: 3.9 Consensus size: 197
666964 CACATTATTT
* * * * * * *
666974 AAAAAGTATCGATACAAATTTAAAAGTGTTGATGCATTATGTTGACATATTCTATCATTAAATCG
1 AAAAAGTATCGACACAAATTTAAAAGTGTCGATACATTATGCTGACATATTCTCTCATAAAACCG
* * *
667039 GTATATTTATACCGATTACATTGTAAATTTACCTATTACGTTATAATTATC-GATTTTGATGTTT
66 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAG-TTTCGATGTTT
** * * * * * *
667103 TTGGGATCGATACAATTT-CAAATGTATCGACACTTTGTGCCTGCACCCCGTTTGGCATTTATTC
130 TT-GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATG-AACCCTTTTGGCATTCATTC
667167 TGGAC
193 TGGAC
** * * * * * * *
667172 AAAATTTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTTATAAATCC
1 AAAAAGTATCGACACAAATTTAAAA-GTGTCGATACATTATGCTGACATATTCTCTCATAAAACC
*
667237 GGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
* * *
667302 TTAGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGTAACCCTTTTGGAATTCGTTT
130 TT-GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATG-AACCCTTTTGGCATTCATTC
*
667367 TGGAA
193 TGGAC
* * *
667372 AAAAAGTATCGACACAAATTTAACAATTGTCGATACTTTATGCTGACATATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAA-AAGTGTCGATACATTATGCTGACATATTCTCTCATAAAACC
* * *
667437 GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTT
65 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
* * * ** * *
667502 GT-GATCGACACTTTTTAAAAATGTATCGACACTTAATGGGTGCACCCTTTTGGCATTCCTTCTG
130 TTGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGAACCCTTTTGGCATTCATTCTG
667566 GAC
195 GAC
* * * * * *
667569 AAAAAGTATCGACACAAATTCCAAAAGTGTCGATTCATT-TTCTAGACCTATTCTCACATAAAAT
1 AAAAAGTATCGACACAAATT-TAAAAGTGTCGATACATTATGCT-GACATATTCTCTCATAAAAC
* * * *
667633 CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATCA-CGAGTTTTGATGT
64 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC-AGTTTCGATGT
* *
667697 TTCTGTGATCGATACTTTTTATAAATGTATCGACACTTTATG
128 TTTTG-GATCGATACTTTTTAAAAATGTATCGACACTTTATG
667739 GGAAACTTTA
Statistics
Matches: 483, Mismatches: 75, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
196 4 0.01
197 127 0.26
198 59 0.12
199 136 0.28
200 155 0.32
201 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (197 bp):
AAAAAGTATCGACACAAATTTAAAAGTGTCGATACATTATGCTGACATATTCTCTCATAAAACCG
GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTT
TGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGAACCCTTTTGGCATTCATTCTGG
AC
Found at i:667709 original size:397 final size:397
Alignment explanation
Indices: 666974--667738 Score: 1011
Period size: 397 Copynumber: 1.9 Consensus size: 397
666964 CACATTATTT
* * * * * *
666974 AAAAAGTATCGATACAAATTTAAAAGTGTTGATGCATTATGTTGACATATTCTATCATTAAATCG
1 AAAAAGTATCGACACAAATTTAAAAGTGTCGATACATTATGCTGACATATTCTATCATAAAACCG
* * **
667039 GTATATTTATACCGATTACATTGTAAATTTACCTATTACGTTATAATTATCGATTTTGATGTTTT
66 GTATATTTATACCGATTACATTGGAAATTTACCTATTACATTATAATTATCGATTTCAATG-TTT
* * ** *
667104 TGGGATCGATACAATTTCAAATGTATCGACACTTTGTGCCTGCACCCCGTTTGGCATTTATTCTG
130 TGGGATCGACACAATTTAAAATGTATCGACACTTAATGCCTGCACCCCGTTTGGCATTCATTCTG
** * * * * **
667169 GACAAAATTTATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTTATAAA
195 GACAAAAAGTATCGACACAAATCCAAAACGTGTCGATACATTATCTACACCTATTCTCACATAAA
* * * *
667234 TCCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATG
260 TCCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATCATCAGTTTCGATG
*
667299 TTTTTAGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGTAACCCTTTTGGAATTCG
325 TTTCTAGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGTAACCCTTTTGGAATTCG
667364 TTTTGGAA
390 TTTTGGAA
* * * *
667372 AAAAAGTATCGACACAAATTTAACAATTGTCGATACTTTATGCTGACATATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAA-AAGTGTCGATACATTATGCTGACATATTCTATCATAAAACC
* *
667437 GGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCAATG-TT
65 GGTATATTTATACCGATTACATTGGAAATTTACCTATTACATTATAATTATCGATTTCAATGTTT
* ** ** * *
667501 TGTGATCGACACTTTTTAAAAATGTATCGACACTTAATGGGTGCA-CCCTTTTGGCATTCCTTCT
130 TGGGATCGACACAATTT-AAAATGTATCGACACTTAATGCCTGCACCCCGTTTGGCATTCATTCT
* * *
667565 GGACAAAAAGTATCGACACAAATTCCAAAA-GTGTCGATTCATTTTCTAGACCTATTCTCACATA
194 GGACAAAAAGTATCGACACAAA-TCCAAAACGTGTCGATACATTATCTACACCTATTCTCACAT-
*
667629 AAAT-CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATCA-CGAGTTTT
257 AAATCCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATCATC-AGTTTC
*
667692 GATGTTTCT-GTGATCGATACTTTTTATAAATGTATCGACACTTTATG
321 GATGTTTCTAG-GATCGATACTTTTTAAAAATGTATCGACACTTTATG
667739 GGAAACTTTA
Statistics
Matches: 315, Mismatches: 46, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
396 2 0.01
397 171 0.54
398 54 0.17
399 88 0.28
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (397 bp):
AAAAAGTATCGACACAAATTTAAAAGTGTCGATACATTATGCTGACATATTCTATCATAAAACCG
GTATATTTATACCGATTACATTGGAAATTTACCTATTACATTATAATTATCGATTTCAATGTTTT
GGGATCGACACAATTTAAAATGTATCGACACTTAATGCCTGCACCCCGTTTGGCATTCATTCTGG
ACAAAAAGTATCGACACAAATCCAAAACGTGTCGATACATTATCTACACCTATTCTCACATAAAT
CCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATCATCAGTTTCGATGT
TTCTAGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGTAACCCTTTTGGAATTCGT
TTTGGAA
Found at i:672895 original size:185 final size:185
Alignment explanation
Indices: 672571--673095 Score: 599
Period size: 185 Copynumber: 2.7 Consensus size: 185
672561 CCAATTTCAA
* * ** *
672571 AAGTGTTGATAAATTATGTAGACCTATTCTCACATAAAACCAATATATTTATATCGGTTACATTA
1 AAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATTTCGGTTACATTA
* * * *
672636 TAAAATTACCTATTATATTATAATTATGGGTTTCGATGTCTTTGAGATCGAAACTTTTAAAAAAT
66 TAAAATTACCTATTACATTATAATTATGGGTTTCGATGT-TTTG-GATCGATACTTTTTATAAAT
* * * *
672701 ATATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGACAAACAA-TATCG
129 GTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAA-AAGTATCG
* * * * * *
672758 -A-TGTCGATACATTATGTAAACTTATTCTCTCATAAAATCGGTATAATTATTTCGGTTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATTTCGGTTACATTA
*
672821 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTAGGATCGATACTTTTTATAAAT
66 TAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT-T-GGATCGATACTTTTTATAAAT
*
672886 GTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCG
129 GTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCG
*
672943 ATACCAATTTCAAAAGTGTCGATACATTATGTAGACCTATTATCACATAAAACCGGTATATTTA-
1 -------------AAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTAT
* * * *
673007 TACTGGTTATATTACAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGA
53 TTC-GGTTACATTATAAAATTACCTATTACATTATAATTATGGGTTTCGATG-TTTT-GGATCGA
673072 TACTTTTTATAAATGTATCGACAC
115 TACTTTTTATAAATGTATCGACAC
673096 ATCTACTTAC
Statistics
Matches: 284, Mismatches: 34, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
184 4 0.01
185 155 0.55
186 2 0.01
199 3 0.01
200 117 0.41
201 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (185 bp):
AAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATTTCGGTTACATTA
TAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTGGATCGATACTTTTTATAAATGT
ATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCG
Found at i:673487 original size:19 final size:19
Alignment explanation
Indices: 673463--673507 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
673453 ATTCACATAA
673463 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
673482 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
673501 AAAATTA
1 AAAATTA
673508 ACCCTACATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:675077 original size:18 final size:18
Alignment explanation
Indices: 675054--675092 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
675044 TCCTCTTCAT
*
675054 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTATTC
675072 TTCCTCCATCTTTTATTC
1 TTCCTCCATCTTTTATTC
675090 TTC
1 TTC
675093 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTATTC
Found at i:675317 original size:33 final size:33
Alignment explanation
Indices: 675275--675374 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
675265 CCATCTTAAG
*
675275 TTCAACCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
675308 TTCACCCCTCAACACCTCAACTTCTTTCATCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
675341 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
675374 T
1 T
675375 CCGTCTATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.25, C:0.46, G:0.00, T:0.29
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:675432 original size:21 final size:21
Alignment explanation
Indices: 675407--675451 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
675397 CTCCCTTATG
*
675407 TCTCTCAAGTGTATCTTCGAC
1 TCTCTCAAGTCTATCTTCGAC
* *
675428 TCTCTCAATTCTCTCTTCGAC
1 TCTCTCAAGTCTATCTTCGAC
675449 TCT
1 TCT
675452 TGATTGTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.33, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTCTCAAGTCTATCTTCGAC
Found at i:678102 original size:20 final size:20
Alignment explanation
Indices: 678077--678128 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
678067 ATCGCTCTAT
678077 ACCGGTTTTGTCCTTTAGAG
1 ACCGGTTTTGTCCTTTAGAG
678097 ACCGGTTTTGTCCTTTAGAG
1 ACCGGTTTTGTCCTTTAGAG
*
678117 ACCAGTTTTGTC
1 ACCGGTTTTGTC
678129 ATATTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.40
Consensus pattern (20 bp):
ACCGGTTTTGTCCTTTAGAG
Found at i:678241 original size:202 final size:201
Alignment explanation
Indices: 677895--678494 Score: 812
Period size: 202 Copynumber: 3.1 Consensus size: 201
677885 GTAGCGCTTT
* *
677895 ACCGGTTTTTTCATTTCA-AGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTATGGATCGA
1 ACCGGTTTTGTCATTT-AGAGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGA
* *
677959 TACATTTTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTTACAAAG
65 TACATTGTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
*
678024 TGTTGATACTTATATTAAAGTATCGACACTTTCAATATATTCGATCGCTCTATACCGGTTTTGTC
130 TGTCGATACTTATATTAAAGTATCGACACTTTCAATATATTCGATCGCTCTATACCGGTTTTGTC
678089 CTTTAGAG
195 CTTT-GAG
* * *
678097 ACCGGTTTTGTCCTTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGAT
1 ACCGGTTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGAT
* *
678162 ACATTGTTATAAAGTATCGACACTTTATAGGCGCTAAAATTGTTTCTCTTTTAAATTCACAAAGT
66 ACATTGTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGT
* *
678227 GTCGATACTTATATTAAAGTATCGACACTTTCAATATATACGGTCGCTCTATA----------CC
131 GTCGATACTTATATTAAAGTATCGACACTTTCAATATATTCGATCGCTCTATACCGGTTTTGTCC
678282 ----A-
196 TTTGAG
*
678283 A----TTTTGTCTTTTAGAGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGAT
1 ACCGGTTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGAT
* * *
678344 ACATTGTTATAAAGTATCGACACTTTATAGACGCTAAAACTGCTACTTTTTTAAATTCACAAAGT
66 ACATTGTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGT
* * *
678409 GTCGATTCTTATATTAAAGTATCGACACTTTCAATATATCTGGTACCGCT-T-TACCGGTTTTGT
131 GTCGATACTTATATTAAAGTATCGACACTTTCAATATAT-TCG-ATCGCTCTATACCGGTTTTGT
*
678472 CTTTTCGAG
194 CCTTT-GAG
*
678481 ACCAGTTTTGTCAT
1 ACCGGTTTTGTCAT
678495 ATTTTTACCT
Statistics
Matches: 348, Mismatches: 27, Indels: 46
0.83 0.06 0.11
Matches are distributed among these distances:
182 157 0.45
183 2 0.01
184 4 0.01
186 1 0.00
187 1 0.00
192 3 0.01
197 1 0.00
198 1 0.00
201 1 0.00
202 177 0.51
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (201 bp):
ACCGGTTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGAT
ACATTGTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGT
GTCGATACTTATATTAAAGTATCGACACTTTCAATATATTCGATCGCTCTATACCGGTTTTGTCC
TTTGAG
Found at i:678409 original size:182 final size:181
Alignment explanation
Indices: 678102--678547 Score: 700
Period size: 182 Copynumber: 2.5 Consensus size: 181
678092 TAGAGACCGG
*
678102 TTTTGTCCTTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATT
1 TTTTGTCTTTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATT
* * * *
678167 GTTATAAAGTATCGACACTTTATAGGCGCTAAAATTGTTTCTCTTTTAAATTCACAAAGTGTCGA
66 GTTATAAAGTATCGACACTTTATAGACGCTAAAACTGCTACTCTTTTAAATTCACAAAGTGTCGA
678232 TACTTATATTAAAGTATCGACACTTTCAATATATAC-GGT-CGCTCTATACCAA
131 TACTTATATTAAAGTATCGACACTTTCAATATAT-CTGGTACGCT-T-TACCAA
* *
678284 TTTTGTCTTTTAGAGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATT
1 TTTTGTCTTTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATT
*
678349 GTTATAAAGTATCGACACTTTATAGACGCTAAAACTGCTACTTTTTTAAATTCACAAAGTGTCGA
66 GTTATAAAGTATCGACACTTTATAGACGCTAAAACTGCTACTCTTTTAAATTCACAAAGTGTCGA
* **
678414 TTCTTATATTAAAGTATCGACACTTTCAATATATCTGGTACCGCTTTACCGG
131 TACTTATATTAAAGTATCGACACTTTCAATATATCTGGTA-CGCTTTACCAA
* * *
678466 TTTTGTCTTTTCGAGACCAGTTTTGTCATATTTTTACCTGTTATATTGATGTGGATCGATACAGT
1 TTTTGTCTTTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACA-T
678531 T-TTATAAAGTATCGACA
65 TGTTATAAAGTATCGACA
678548 TAAACCGACA
Statistics
Matches: 244, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
181 1 0.00
182 236 0.97
183 3 0.01
184 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (181 bp):
TTTTGTCTTTTAGAGACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATT
GTTATAAAGTATCGACACTTTATAGACGCTAAAACTGCTACTCTTTTAAATTCACAAAGTGTCGA
TACTTATATTAAAGTATCGACACTTTCAATATATCTGGTACGCTTTACCAA
Found at i:681836 original size:15 final size:15
Alignment explanation
Indices: 681816--681848 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
681806 ACTAATGAGC
681816 TTAAAA-AATATATTT
1 TTAAAACAATAT-TTT
681831 TTAAAACAATATTTT
1 TTAAAACAATATTTT
681846 TTA
1 TTA
681849 GTTTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAACAATATTTT
Found at i:688218 original size:31 final size:31
Alignment explanation
Indices: 688158--688218 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
688148 GTCAAAATAG
* * *
688158 GTGTCTAATGTTTTCTCTGTTATATTTTTAC
1 GTGTCTAATGTTTTCTCTATTACACTTTTAC
*
688189 GTGTCTAGTGTTTTCTCTATTACACTTTTA
1 GTGTCTAATGTTTTCTCTATTACACTTTTA
688219 GGTGCTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.16, C:0.15, G:0.13, T:0.56
Consensus pattern (31 bp):
GTGTCTAATGTTTTCTCTATTACACTTTTAC
Found at i:688883 original size:24 final size:24
Alignment explanation
Indices: 688856--688905 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
688846 TATAGTTTTG
688856 TTTATTATAATATTGAAATGTAAT
1 TTTATTATAATATTGAAATGTAAT
688880 TTTATTATAATATTGAAATGTAAT
1 TTTATTATAATATTGAAATGTAAT
688904 TT
1 TT
688906 GGACATTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (24 bp):
TTTATTATAATATTGAAATGTAAT
Found at i:695117 original size:2 final size:2
Alignment explanation
Indices: 695112--695136 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
695102 TGAAAACTGA
695112 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
695137 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:695141 original size:2 final size:2
Alignment explanation
Indices: 695136--695168 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
695126 ATATATATAT
695136 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
695169 TTGAGAGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:697712 original size:37 final size:37
Alignment explanation
Indices: 697662--697754 Score: 168
Period size: 37 Copynumber: 2.5 Consensus size: 37
697652 TTTTTTTTGT
697662 CTCGAACCCGACCCGAAATGTTATACCCAAACCTGAA
1 CTCGAACCCGACCCGAAATGTTATACCCAAACCTGAA
*
697699 CTCGAATCCGACCCGAAATGTTATACCCAAACCTGAA
1 CTCGAACCCGACCCGAAATGTTATACCCAAACCTGAA
697736 CTCGAACCCGAACCCGAAA
1 CTCGAACCCG-ACCCGAAA
697755 ATATTTTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
37 45 0.85
38 8 0.15
ACGTcount: A:0.35, C:0.35, G:0.14, T:0.15
Consensus pattern (37 bp):
CTCGAACCCGACCCGAAATGTTATACCCAAACCTGAA
Found at i:697808 original size:36 final size:37
Alignment explanation
Indices: 697752--697842 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 37
697742 CCCGAACCCG
* *
697752 AAAATATT-T-TATATATAATTAAT-ATAAAATATAT
1 AAAATATTATATATATATAATTAATAAAAAAAAATAT
697786 AAAATATTATATATATATAATTAATAGAAAAAAAATAT
1 AAAATATTATATATATATAATTAATA-AAAAAAAATAT
697824 AAAATATTATATATATATA
1 AAAATATTATATATATATA
697843 TATATATATA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
34 8 0.16
35 1 0.02
36 14 0.27
38 28 0.55
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (37 bp):
AAAATATTATATATATATAATTAATAAAAAAAAATAT
Found at i:697836 original size:2 final size:2
Alignment explanation
Indices: 697827--697856 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
697817 AAAATATAAA
697827 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
697857 ATCGGGGCGG
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:706521 original size:35 final size:34
Alignment explanation
Indices: 706436--706522 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
706426 AATATAATTT
*
706436 TAAATACAACAAACTTACAATAAGAATTAAATAG
1 TAAATACAACAAAATTACAATAAGAATTAAATAG
* * *
706470 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATAG
706508 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
706523 ACTGAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 5 0.11
38 9 0.20
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATAG
Found at i:707075 original size:18 final size:18
Alignment explanation
Indices: 707052--707089 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
707042 GAAAGGCGGC
* *
707052 GGCATCATATATGGTTGT
1 GGCATCATAAATGGCTGT
707070 GGCATCATAAATGGCTGT
1 GGCATCATAAATGGCTGT
707088 GG
1 GG
707090 TGGCTGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.32
Consensus pattern (18 bp):
GGCATCATAAATGGCTGT
Found at i:709053 original size:53 final size:50
Alignment explanation
Indices: 708943--709062 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
708933 CCCCTGTACC
*
708943 GCGCTATACCCCACGTGTCAGATAAACAGATATAGTGCGGATCAGGGGCT
1 GCGCTATACCCCACGTGTCAGATAAACAGATATAGCGCGGATCAGGGGCT
* * * *
708993 GCGCTATACCCCACGTGTCAGATAAACGTGGCGTATAGCGCTGATCAGGGGGT
1 GCGCTATACCCCACGTGTCAGATAAAC--AG-ATATAGCGCGGATCAGGGGCT
*
709046 GTGCTATA-CCCACGTGT
1 GCGCTATACCCCACGTGT
709063 AAGCCATGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 27 0.44
52 10 0.16
53 24 0.39
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (50 bp):
GCGCTATACCCCACGTGTCAGATAAACAGATATAGCGCGGATCAGGGGCT
Found at i:709606 original size:29 final size:29
Alignment explanation
Indices: 709548--709615 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
709538 GTATTAGTAG
*
709548 TATATATATTTTTTATCATAAATTATATT
1 TATACATATTTTTTATCATAAATTATATT
*
709577 TA-ACATATTTTTT-TTATAAATTAATAATT
1 TATACATATTTTTTATCATAAATT-AT-ATT
709606 TATAC-TATTT
1 TATACATATTT
709616 ACATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 8 0.24
28 12 0.35
29 12 0.35
30 2 0.06
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (29 bp):
TATACATATTTTTTATCATAAATTATATT
Found at i:714156 original size:12 final size:12
Alignment explanation
Indices: 714128--714160 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
714118 GTTGGAGGCT
714128 AGTTGGTTATGAG
1 AGTT-GTTATGAG
714141 -GTTGTTATGAG
1 AGTTGTTATGAG
714152 AGTTGTTAT
1 AGTTGTTAT
714161 ACAGCTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (12 bp):
AGTTGTTATGAG
Found at i:721527 original size:215 final size:206
Alignment explanation
Indices: 721109--721530 Score: 754
Period size: 215 Copynumber: 2.0 Consensus size: 206
721099 TAGAGATACA
*
721109 GTACGGTATGAGATAAATCGCATGAAATTCAACATCAAATATAAGCTCTACCATGTCGATGCCGG
1 GTACGGTATGAGATAAAGCGCATGAAATTCAACATCAAATATAAGCTCTACCATGTCGATGCCGG
721174 CTTGGATTCCGGCTTGAATTGAGTAGGTATAGTTAGCATGATGAGAGGTGATCCGGTCGATCTTC
66 CTTGGATTCCGGCTTGAATTGAGTAGGTATAGTTAGCATGATGAGAGGTGATCCGGTCGATCTTC
721239 CCATCCGAGATGACAAACCCTGCAACAGTGGAGCAAAATCTGTGTTATGTTTTCTCAGGTTCTTG
131 CCATCCGAGATGACAAACCCTGCAACAGTGGAGCAAAATCTGTGTTATGTTTTCTCAGGTTCTTG
721304 TGCATGTTTAT
196 TGCATGTTTAT
721315 GTACGGTATGAAGATAAAGCGCATGAAATTCAACATCAAATATAAGCTCTAACCATGTCGATGCC
1 GTACGGTATG-AGATAAAGCGCATGAAATTCAACATCAAATATAAGCTCT-ACCATGTCGATGCC
721380 GGCTTGGATTCCGGCTTGAATTGAGTAGGTATAGTTAGCATGAGGTGGAGAGGTGATCCGGTCGA
64 GGCTTGGATTCCGGCTTGAATTGAGTAGGTATAGTTAGCATGA--T-GAGAGGTGATCCGGTCGA
721445 TTCCTTCCCAATCCGAGATGACAAACCCCTGCAACAGTGGAGCAAAATCTGTGTTATGTTTTCTC
126 -T-CTTCCC-ATCCGAGATGACAAA-CCCTGCAACAGTGGAGCAAAATCTGTGTTATGTTTTCTC
721510 AGGTTCTTGTGCATGTTTAT
187 AGGTTCTTGTGCATGTTTAT
721530 G
1 G
721531 CTAGTGACAT
Statistics
Matches: 206, Mismatches: 1, Indels: 9
0.95 0.00 0.04
Matches are distributed among these distances:
206 10 0.05
207 38 0.18
208 57 0.28
210 1 0.00
211 18 0.09
212 1 0.00
213 6 0.03
214 15 0.07
215 60 0.29
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (206 bp):
GTACGGTATGAGATAAAGCGCATGAAATTCAACATCAAATATAAGCTCTACCATGTCGATGCCGG
CTTGGATTCCGGCTTGAATTGAGTAGGTATAGTTAGCATGATGAGAGGTGATCCGGTCGATCTTC
CCATCCGAGATGACAAACCCTGCAACAGTGGAGCAAAATCTGTGTTATGTTTTCTCAGGTTCTTG
TGCATGTTTAT
Found at i:725454 original size:28 final size:31
Alignment explanation
Indices: 725393--725455 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
725383 ATAATTTTAT
* *
725393 ATAAATATTTATATTTTATAATTCAAATTGA
1 ATAAATATTTATATTTTATAATTAAAAATGA
*
725424 ATAAATA-TTAT-TTTTATTATTAAAAAT-A
1 ATAAATATTTATATTTTATAATTAAAAATGA
725452 ATAA
1 ATAA
725456 TAAATTATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.17
29 13 0.45
30 4 0.14
31 7 0.24
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
ATAAATATTTATATTTTATAATTAAAAATGA
Found at i:729742 original size:2 final size:2
Alignment explanation
Indices: 729737--729764 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
729727 TCTCTCTATA
729737 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
729765 TTAAGGACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:730984 original size:2 final size:2
Alignment explanation
Indices: 730977--731007 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
730967 TAGTTTTTCC
730977 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
731008 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:741245 original size:28 final size:28
Alignment explanation
Indices: 741208--741263 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
741198 TGGATTAAGG
741208 TTTGAACAAATATTTATGAATGAATGGT
1 TTTGAACAAATATTTATGAATGAATGGT
741236 TTTGAACAAATATTTATGAATGAATGGT
1 TTTGAACAAATATTTATGAATGAATGGT
741264 ATCTTACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (28 bp):
TTTGAACAAATATTTATGAATGAATGGT
Found at i:744809 original size:39 final size:39
Alignment explanation
Indices: 744736--744860 Score: 137
Period size: 39 Copynumber: 3.2 Consensus size: 39
744726 CTTATTGGTC
* * * *
744736 TGAAGAAGCCATGCA-CTCTGGGGTCTTCTCCATTTGAT
1 TGAAGACGCCATGCAGTTGTGGGGTCTTCTTCATTTGAT
* *
744774 TGAAGACGCCATGCAGTTGTGGGGTATTCTTCATTTGTT
1 TGAAGACGCCATGCAGTTGTGGGGTCTTCTTCATTTGAT
* * * *
744813 TGAAGACGCCATGCAGTCGTGGAGTCTTCAT-ATTTAGCT
1 TGAAGACGCCATGCAGTTGTGGGGTCTTCTTCATTT-GAT
744852 TGAAGACGC
1 TGAAGACGC
744861 GTGGATCACC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
38 18 0.24
39 56 0.76
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (39 bp):
TGAAGACGCCATGCAGTTGTGGGGTCTTCTTCATTTGAT
Found at i:750172 original size:16 final size:17
Alignment explanation
Indices: 750151--750185 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
750141 TTACTATTCA
750151 CGTGAATAGTG-AATTT
1 CGTGAATAGTGAAATTT
750167 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
750184 CG
1 CG
750186 GTCGGCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:761252 original size:18 final size:18
Alignment explanation
Indices: 761231--761266 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
761221 TTTTTTGAAA
761231 TTTTGGCTTTTTTGTTTTT
1 TTTTGG-TTTTTTGTTTTT
*
761250 TTTTTGTTTTTTGTTTT
1 TTTTGGTTTTTTGTTTT
761267 AAAAAATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (18 bp):
TTTTGGTTTTTTGTTTTT
Found at i:762585 original size:24 final size:24
Alignment explanation
Indices: 762540--762589 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
762530 TGGTGGTTGG
762540 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
762564 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
762588 TT
1 TT
762590 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:765835 original size:13 final size:14
Alignment explanation
Indices: 765817--765846 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
765807 TTTGTTTGTT
765817 TTTCTTTA-TTTTA
1 TTTCTTTATTTTTA
765830 TTTCTTTATTTTTA
1 TTTCTTTATTTTTA
765844 TTT
1 TTT
765847 TTAATATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTATTTTTA
Found at i:771705 original size:35 final size:35
Alignment explanation
Indices: 771587--771726 Score: 181
Period size: 36 Copynumber: 3.9 Consensus size: 35
771577 TGAATAAGAA
* * *
771587 GAACGAAAGGAAGCATCAGCACTTTCGGTTCAAAAT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTC-AAGT
* * * *
771623 AAACGGAAGGAAGCATCGACACTTTCGATTCAAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAG-T
771659 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAGT
* *
771694 GAACGGAAGGAAGCATCCGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAA
771727 TTGTTCATCT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
35 33 0.37
36 57 0.63
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (35 bp):
GAACGAAAGGAAGCATCGGCACTTTCGATTCAAGT
Found at i:779256 original size:15 final size:15
Alignment explanation
Indices: 779236--779268 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
779226 TGAAAGTTAC
779236 ATTTAAATCAATGAT
1 ATTTAAATCAATGAT
779251 ATTTAAATCAATGAT
1 ATTTAAATCAATGAT
779266 ATT
1 ATT
779269 CTTTGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTTAAATCAATGAT
Found at i:779669 original size:20 final size:20
Alignment explanation
Indices: 779644--779713 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
779634 GACCAACAAA
779644 TTCGCAACGCAAACTCCAAT
1 TTCGCAACGCAAACTCCAAT
779664 TTCGCAACGCAAACTCCAAT
1 TTCGCAACGCAAACTCCAAT
* ***
779684 TTCGCAACCCAGTTTCCAAT
1 TTCGCAACGCAAACTCCAAT
779704 TTCGCAACGC
1 TTCGCAACGC
779714 GAATATGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.30, C:0.36, G:0.11, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCAAACTCCAAT
Found at i:779938 original size:22 final size:22
Alignment explanation
Indices: 779893--779938 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
779883 GCGACATCTG
* **
779893 TCCCCATCTCCTACGAAATTCA
1 TCCCCATCTCCGACGAAACCCA
*
779915 TCCCCATCTCCGGCGAAACCCA
1 TCCCCATCTCCGACGAAACCCA
779937 TC
1 TC
779939 TATCTCCATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.46, G:0.09, T:0.22
Consensus pattern (22 bp):
TCCCCATCTCCGACGAAACCCA
Found at i:780335 original size:20 final size:20
Alignment explanation
Indices: 780310--780351 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
780300 AAAATCACAT
780310 GATTTTCATTTTCGCGTTGC
1 GATTTTCATTTTCGCGTTGC
*
780330 GATTTTCATTTTCGTGTTGC
1 GATTTTCATTTTCGCGTTGC
780350 GA
1 GA
780352 ATTTAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (20 bp):
GATTTTCATTTTCGCGTTGC
Found at i:780362 original size:20 final size:20
Alignment explanation
Indices: 780319--780362 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
780309 TGATTTTCAT
* * *
780319 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTAAG
*
780339 TTTCGTGTTGCGAATTTAAG
1 TTTCGCGTTGCGAATTTAAG
780359 TTTC
1 TTTC
780363 AAAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAG
Found at i:782325 original size:4 final size:4
Alignment explanation
Indices: 782316--782361 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
782306 TTTTTCGGCA
* * * *
782316 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
782362 TTAGCGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:784102 original size:66 final size:65
Alignment explanation
Indices: 783944--784119 Score: 239
Period size: 66 Copynumber: 2.6 Consensus size: 65
783934 TGGGGTACAC
*
783944 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAATTGATTTGTTTAACTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAACTGATGAGGAAATAA
784008 GAATTA
60 GAATTA
* * *
784014 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-CTGATGAGGAAATAAGAATT
784078 A
65 A
784079 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
784120 GTTTTAAATT
Statistics
Matches: 99, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
64 16 0.16
65 18 0.18
66 40 0.40
67 1 0.01
68 4 0.04
69 20 0.20
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAACTGATGAGGAAATAAGAATTA
Found at i:784238 original size:20 final size:20
Alignment explanation
Indices: 784213--784303 Score: 130
Period size: 20 Copynumber: 4.5 Consensus size: 20
784203 TTGTAATTTT
* * *
784213 GTCAAATTCGAAATGCAAAA
1 GTCAAATTCGCAACGCGAAA
784233 GTCAAATTCGCAACGCGAAA
1 GTCAAATTCGCAACGCGAAA
784253 GTCAAATTCGCAACGCGAAA
1 GTCAAATTCGCAACGCGAAA
*
784273 GTCAAATTTGCAACGCGAATA
1 GTCAAATTCGCAACGCGAA-A
784294 -TCAAATTCGC
1 GTCAAATTCGC
784304 GTTGCGATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 64 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
GTCAAATTCGCAACGCGAAA
Found at i:786309 original size:64 final size:65
Alignment explanation
Indices: 786130--786289 Score: 259
Period size: 65 Copynumber: 2.5 Consensus size: 65
786120 GATTTAATTG
* *
786130 AACATCGAATGCATTTTATGCATCGATGTACATACCATGCATCGATGCACTCAGGGTTTTATAAA
1 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTATAAA
* * *
786195 AACATCGAATGCATTTGATGCATCGACGCACATACCATGCATCGATGCACTCAGGCTTTT-TCAA
1 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTATAAA
*
786259 AACATCGAATGCATTTTATGTATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
786290 TCTTAGTGCA
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 31 0.36
65 56 0.64
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTTTATAAA
Found at i:789805 original size:435 final size:435
Alignment explanation
Indices: 788995--789864 Score: 1704
Period size: 435 Copynumber: 2.0 Consensus size: 435
788985 GTCATGTTTG
788995 ATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCAGATTATGCTTGTTGGTCATAGAATA
1 ATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCAGATTATGCTTGTTGGTCATAGAATA
789060 GGAAACATATACATGGTGCATTTAGATTCTATTGATATGACTAATTTGTGCGATGAACATGATAG
66 GGAAACATATACATGGTGCATTTAGATTCTATTGATATGACTAATTTGTGCGATGAACATGATAG
*
789125 TTGGTTATGGCATATGAGACTAGGACATGCTAGTATGAGTGTTTTGCAACGACTAATTCAAGGTG
131 TTGGTTATGGCATAGGAGACTAGGACATGCTAGTATGAGTGTTTTGCAACGACTAATTCAAGGTG
789190 ATTTAGTTCGAGGGTTGCCTAAACTAAAATTTGATAATGATAAAATCTGTGATGCTTGTGCTAAA
196 ATTTAGTTCGAGGGTTGCCTAAACTAAAATTTGATAATGATAAAATCTGTGATGCTTGTGCTAAA
*
789255 GGAAAACAAAAGCGAGTTTCTTTTAAATCCATTAATGATGTATCAACTAGTAGAGTATTACAATT
261 GGAAAACAAAAGCGAGTTTCTTTTAAATCCATTAATGACGTATCAACTAGTAGAGTATTACAATT
789320 GATCCATATAGATCTTTTTGGGCCAACTAGGACTACTAGCTTGGGTGAAAAACAATATGCATTTG
326 GATCCATATAGATCTTTTTGGGCCAACTAGGACTACTAGCTTGGGTGAAAAACAATATGCATTTG
789385 TCTTGGTAGATGAATATTCTAGATATACTTGGGTTATATTCTTAA
391 TCTTGGTAGATGAATATTCTAGATATACTTGGGTTATATTCTTAA
789430 ATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCAGATTATGCTTGTTGGTCATAGAATA
1 ATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCAGATTATGCTTGTTGGTCATAGAATA
789495 GGAAACATATACATGGTGCATTTAGATTCTATTGATATGACTAATTTGTGCGATGAACATGATAG
66 GGAAACATATACATGGTGCATTTAGATTCTATTGATATGACTAATTTGTGCGATGAACATGATAG
*
789560 TTGGTTATGGCATAGGAGACTAGGACATGCTAGTATGAGTGTTTTGCAATGACTAATTCAAGGTG
131 TTGGTTATGGCATAGGAGACTAGGACATGCTAGTATGAGTGTTTTGCAACGACTAATTCAAGGTG
*
789625 ATTTAGTTCGAGGGTTGCCTAAACTAAAATTTGATAATGATAAATTCTGTGATGCTTGTGCTAAA
196 ATTTAGTTCGAGGGTTGCCTAAACTAAAATTTGATAATGATAAAATCTGTGATGCTTGTGCTAAA
789690 GGAAAACAAAAGCGAGTTTCTTTTAAATCCATTAATGACGTATCAACTAGTAGAGTATTACAATT
261 GGAAAACAAAAGCGAGTTTCTTTTAAATCCATTAATGACGTATCAACTAGTAGAGTATTACAATT
789755 GATCCATATAGATCTTTTTGGGCCAACTAGGACTACTAGCTTGGGTGAAAAACAATATGCATTTG
326 GATCCATATAGATCTTTTTGGGCCAACTAGGACTACTAGCTTGGGTGAAAAACAATATGCATTTG
789820 TCTTGGTAGATGAATATTCTAGATATACTTGGGTTATATTCTTAA
391 TCTTGGTAGATGAATATTCTAGATATACTTGGGTTATATTCTTAA
789865 GTACTAAAGA
Statistics
Matches: 431, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
435 431 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (435 bp):
ATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCAGATTATGCTTGTTGGTCATAGAATA
GGAAACATATACATGGTGCATTTAGATTCTATTGATATGACTAATTTGTGCGATGAACATGATAG
TTGGTTATGGCATAGGAGACTAGGACATGCTAGTATGAGTGTTTTGCAACGACTAATTCAAGGTG
ATTTAGTTCGAGGGTTGCCTAAACTAAAATTTGATAATGATAAAATCTGTGATGCTTGTGCTAAA
GGAAAACAAAAGCGAGTTTCTTTTAAATCCATTAATGACGTATCAACTAGTAGAGTATTACAATT
GATCCATATAGATCTTTTTGGGCCAACTAGGACTACTAGCTTGGGTGAAAAACAATATGCATTTG
TCTTGGTAGATGAATATTCTAGATATACTTGGGTTATATTCTTAA
Found at i:792555 original size:24 final size:24
Alignment explanation
Indices: 792527--792606 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
792517 CACTTAACAA
792527 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCATCCCTTTGAATG
* *
792551 TGCATCGATTCAT-CATGTTG-A--
1 TGCATCGATGCATCCCT-TTGAATG
*
792572 TGCACCGATGCA-CGCC-TTGAATG
1 TGCATCGATGCATC-CCTTTGAATG
792595 TGCATCGATGCA
1 TGCATCGATGCA
792607 CAGGGTCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
20 3 0.07
21 11 0.25
22 1 0.02
23 14 0.32
24 15 0.34
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
TGCATCGATGCATCCCTTTGAATG
Found at i:797888 original size:55 final size:54
Alignment explanation
Indices: 797833--798225 Score: 319
Period size: 51 Copynumber: 7.6 Consensus size: 54
797823 TGGCGGGTCT
* * * *
797833 GCTCCCTATTCTTTCATGGAATATAAGACTCGAACAATCTTCAGTAAACGTGTCT
1 GCTCCCTATTCCTTCA-GGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* * *
797888 GCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAAAAAACGGGTCC
1 GCTCCCTATTCCTTCA-GGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
797943 GCTCCCTATTCCTTCAGAGAGTATAAGACTCG----ATCTTCAATAAACGTGTCC
1 GCTCCCTATTCCTTCAG-GAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* *
797994 GCTCCCTATTCCTTCAGAGAGTAT-AG----G-A-AATCTTCAATGAACTTGTCC
1 GCTCCCTATTCCTTCAG-GAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* * ** *
798042 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAG-GAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* * ** *
798093 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAG-GAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* * ** *
798144 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAG-GAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* *
798195 GCTCCCTATTCATTCAGAGAGTATAGGACTC
1 GCTCCCTATTCCTTCAG-GAGTATAAGACTC
798226 AATCTTCAAC
Statistics
Matches: 314, Mismatches: 15, Indels: 21
0.90 0.04 0.06
Matches are distributed among these distances:
46 1 0.00
48 40 0.13
49 1 0.00
50 2 0.01
51 192 0.61
54 1 0.00
55 77 0.25
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (54 bp):
GCTCCCTATTCCTTCAGGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
Found at i:798000 original size:51 final size:51
Alignment explanation
Indices: 797883--798241 Score: 526
Period size: 51 Copynumber: 7.0 Consensus size: 51
797873 TCAGTAAACG
* * * ** *
797883 TGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAAAAAACG
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACT
* * * * ** *
797938 GGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACG
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
* *
797989 TGTCCGCTCCCTATTCCTTCAGAGAGTATAGGA---AATCTTCAATGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
798037 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
798088 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
798139 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
798190 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
798241 T
1 T
798242 ATTTGCTTCA
Statistics
Matches: 288, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
48 44 0.15
51 213 0.74
55 31 0.11
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (51 bp):
TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
Found at i:799392 original size:9 final size:9
Alignment explanation
Indices: 799378--799502 Score: 62
Period size: 9 Copynumber: 14.9 Consensus size: 9
799368 CTTTTATTTC
799378 TCATTTTTT
1 TCATTTTTT
*
799387 TCATTTTTC
1 TCATTTTTT
799396 TC-TTTTTAT
1 TCATTTTT-T
*
799405 T--TTTCTT
1 TCATTTTTT
799412 TC-TTTTTT
1 TCATTTTTT
799420 TCA--TTTT
1 TCATTTTTT
799427 T-ATTTTTT
1 TCATTTTTT
799435 CTCA-TTTTT
1 -TCATTTTTT
*
799444 TCTTTTCTTT
1 TCATTT-TTT
799454 TC-TTCTTTT
1 TCATT-TTTT
*
799463 TC-TTTTTC
1 TCATTTTTT
799471 TCA--TTTT
1 TCATTTTTT
*
799478 T-ATTATTAT
1 TCATT-TTTT
799487 T-ATTTTTT
1 TCATTTTTT
799495 TCATTTTT
1 TCATTTTT
799503 CGTTTTTTCG
Statistics
Matches: 92, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
6 2 0.02
7 11 0.12
8 31 0.34
9 41 0.45
10 7 0.08
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.77
Consensus pattern (9 bp):
TCATTTTTT
Found at i:799401 original size:14 final size:14
Alignment explanation
Indices: 799384--799477 Score: 50
Period size: 14 Copynumber: 6.3 Consensus size: 14
799374 TTTCTCATTT
799384 TTTTCATTTTTCTC
1 TTTTCATTTTTCTC
*
799398 TTTTTATTTTTCTTTC
1 TTTTCATTTTTC--TC
* *
799414 TTTTTTTCATTTTTATTT
1 ---TTTTCATTTTT-CTC
799432 TTTCTCATTTTT-TC
1 TTT-TCATTTTTCTC
*
799446 TTTTCTTTTCTTCT-
1 TTTTCATTT-TTCTC
799460 TTTTC-TTTTTCTC
1 TTTTCATTTTTCTC
799473 ATTTT
1 -TTTT
799478 TATTATTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
12 4 0.06
13 8 0.13
14 26 0.41
15 4 0.06
16 10 0.16
18 1 0.02
19 10 0.16
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCATTTTTCTC
Found at i:799401 original size:15 final size:15
Alignment explanation
Indices: 799383--799517 Score: 70
Period size: 15 Copynumber: 8.8 Consensus size: 15
799373 ATTTCTCATT
799383 TTTTTCATTTTTCTC
1 TTTTTCATTTTTCTC
799398 TTTTT-ATTTTTCTTTC
1 TTTTTCATTTTTC--TC
* *
799414 TTTTTTTCATTTTTATT
1 --TTTTTCATTTTTCTC
799431 TTTTCTCATTTTT-TC
1 TTTT-TCATTTTTCTC
799446 -TTTTC--TTTTCTTC
1 TTTTTCATTTTTC-TC
799459 TTTTTC-TTTTTCTC
1 TTTTTCATTTTTCTC
* *
799473 ATTTTT-ATTATTATTATT
1 -TTTTTCA-T-TT-TTCTC
799491 TTTTTCATTTTTCGT-
1 TTTTTCATTTTTC-TC
*
799506 TTTTTCGTTTTT
1 TTTTTCATTTTT
799518 TTATTTTATA
Statistics
Matches: 96, Mismatches: 7, Indels: 34
0.70 0.05 0.25
Matches are distributed among these distances:
11 4 0.04
13 4 0.04
14 17 0.18
15 33 0.34
16 14 0.15
17 9 0.09
18 9 0.09
19 6 0.06
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTTCATTTTTCTC
Found at i:799424 original size:42 final size:45
Alignment explanation
Indices: 799378--799478 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 45
799368 CTTTTATTTC
*
799378 TCATTTTTTTCATTTTTCTC-TTTTTAT-TTTTC-TTTCTT-TTTT
1 TCATTTTTATCATTTTTCTCATTTTT-TCTTTTCTTTTCTTCTTTT
799420 TCATTTTTAT--TTTTTCTCATTTTTTCTTTTCTTTTCTTCTTTT
1 TCATTTTTATCATTTTTCTCATTTTTTCTTTTCTTTTCTTCTTTT
*
799463 TC-TTTTTCTCATTTTT
1 TCATTTTTATCATTTTT
799479 ATTATTATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
40 9 0.18
41 10 0.20
42 21 0.41
43 6 0.12
44 5 0.10
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (45 bp):
TCATTTTTATCATTTTTCTCATTTTTTCTTTTCTTTTCTTCTTTT
Found at i:799442 original size:35 final size:35
Alignment explanation
Indices: 799381--799478 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 35
799371 TTATTTCTCA
*
799381 TTTTTTTCATTTTTCTCTTTT-T-ATTTTTC-TTTC
1 TTTTTTTCATTTTT-TTTTTTCTCATTTTTCTTTTC
799414 TTTTTTTCATTTTTATTTTTTCTCATTTTTTCTTTTC
1 TTTTTTTCATTTTT-TTTTTTCTCA-TTTTTCTTTTC
* *
799451 TTTTCTTC-TTTTTCTTTTTCTCATTTTT
1 TTTTTTTCATTTTTTTTTTTCTCATTTTT
799479 ATTATTATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 19 0.33
34 6 0.11
35 10 0.18
36 11 0.19
37 11 0.19
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (35 bp):
TTTTTTTCATTTTTTTTTTTCTCATTTTTCTTTTC
Found at i:799456 original size:20 final size:19
Alignment explanation
Indices: 799391--799468 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
799381 TTTTTTTCAT
*
799391 TTTTCTCTTT-TTATTTTTC
1 TTTTCT-TTTCTTCTTTTTC
* *
799410 -TTTCTTTTTTTCATTTTTA
1 TTTTCTTTTCTTC-TTTTTC
* *
799429 TTTT-TTCTCAT-TTTTTC
1 TTTTCTTTTCTTCTTTTTC
799446 TTTTCTTTTCTTCTTTTTC
1 TTTTCTTTTCTTCTTTTTC
799465 TTTT
1 TTTT
799469 TCTCATTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 12 0.26
18 12 0.26
19 19 0.41
20 3 0.07
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTTTTCTTCTTTTTC
Found at i:799518 original size:75 final size:75
Alignment explanation
Indices: 799383--799524 Score: 182
Period size: 75 Copynumber: 1.9 Consensus size: 75
799373 ATTTCTCATT
* * * *
799383 TTTTTCATTTTTCTCTTTTTATTTTTCTTTCTTTTTTTCATTTTTATTTTTTCTCATTTTTTCTT
1 TTTTTCATTTTTCTCTTTTTATTATTCATTATTTTTTTCATTTTTATTTTTTCT-ATTTTTTATT
799448 TTCTTTTCTTC
65 TTCTTTTCTTC
*
799459 TTTTTC-TTTTTCTCATTTTTATTATT-ATTATTTTTTTCATTTTTCGTTTTTTCGT-TTTTTTA
1 TTTTTCATTTTTCTC-TTTTTATTATTCATTATTTTTTTCATTTTT-ATTTTTTC-TATTTTTTA
799521 TTTT
63 TTTT
799525 ATATTTTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
75 34 0.59
76 23 0.40
77 1 0.02
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.77
Consensus pattern (75 bp):
TTTTTCATTTTTCTCTTTTTATTATTCATTATTTTTTTCATTTTTATTTTTTCTATTTTTTATTT
TCTTTTCTTC
Found at i:799552 original size:9 final size:8
Alignment explanation
Indices: 799381--799554 Score: 79
Period size: 8 Copynumber: 21.2 Consensus size: 8
799371 TTATTTCTCA
799381 TTTTTTTC
1 TTTTTTTC
*
799389 ATTTTTCTC
1 -TTTTTTTC
799398 TTTTTATT-
1 TTTTT-TTC
*
799406 TTTCTTTC
1 TTTTTTTC
799414 TTTTTTTC
1 TTTTTTTC
*
799422 ATTTTTAT-
1 -TTTTTTTC
*
799430 TTTTTCTC
1 TTTTTTTC
*
799438 ATTTTTTC
1 TTTTTTTC
799446 TTTTCTTTTC
1 -TTT-TTTTC
799456 TTCTTTTTC
1 TT-TTTTTC
*
799465 TTTTTCTC
1 TTTTTTTC
*
799473 ATTTTTAT-
1 -TTTTTTTC
* * *
799481 TATTATTA
1 TTTTTTTC
799489 TTTTTTTC
1 TTTTTTTC
*
799497 -ATTTTTC
1 TTTTTTTC
*
799504 GTTTTTTC
1 TTTTTTTC
799512 GTTTTTTT-
1 -TTTTTTTC
* * *
799520 ATTTTATA
1 TTTTTTTC
* *
799528 TTTTTATA
1 TTTTTTTC
799536 TTTTTTTC
1 TTTTTTTC
799544 TTTTATTTC
1 TTTT-TTTC
799553 TT
1 TT
799555 CTTCAAGCGA
Statistics
Matches: 127, Mismatches: 25, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
7 23 0.18
8 55 0.43
9 43 0.34
10 6 0.05
ACGTcount: A:0.10, C:0.11, G:0.01, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:809257 original size:44 final size:46
Alignment explanation
Indices: 809197--809294 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 46
809187 TTGTTATCCA
809197 CAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTATT
1 CAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATT
* *
809242 CAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCATTTATT
1 CAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATT
809288 CGAAAAA
1 C-AAAAA
809295 ACGAAAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
44 28 0.58
45 9 0.19
46 6 0.12
47 5 0.10
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (46 bp):
CAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATT
Found at i:812416 original size:64 final size:65
Alignment explanation
Indices: 812299--812425 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 65
812289 AAGCATCTAC
*
812299 ACCATGCATCGATGCACTCAGGGTTTTATAAAAACATCGAATGCATTTGATGCATCAATGCACAT
1 ACCATGCATCGATGCACTCAGGATTTTATAAAAACATCGAATGCATTTGATGCATCAATGCACAT
* * *
812364 ACCATGCATCGATGCACTCAGGATTTT-TCAAAACATCGAATGCATTTTATGCATCGATGCAC
1 ACCATGCATCGATGCACTCAGGATTTTATAAAAACATCGAATGCATTTGATGCATCAATGCAC
812426 TCTTAGTGCA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 32 0.55
65 26 0.45
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (65 bp):
ACCATGCATCGATGCACTCAGGATTTTATAAAAACATCGAATGCATTTGATGCATCAATGCACAT
Found at i:812789 original size:40 final size:40
Alignment explanation
Indices: 812740--812828 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
812730 TTTTCATTCA
812740 ATATTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATT
1 ATATTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATT
812780 ATATTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATT
1 ATATTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATT
*
812820 GTATTCATT
1 ATATTCATT
812829 CTTGAGTGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (40 bp):
ATATTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATT
Found at i:812798 original size:21 final size:21
Alignment explanation
Indices: 812739--812801 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
812729 TTTTTCATTC
812739 AATATTCATTTTGCTTTCAAG
1 AATATTCATTTTGCTTTCAAG
* * *
812760 AACACTT-ATTGTGC--TCAAT
1 AATA-TTCATTTTGCTTTCAAG
*
812779 TATATTCATTTTGCTTTCAAG
1 AATATTCATTTTGCTTTCAAG
812800 AA
1 AA
812802 CACTTATTGT
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
18 2 0.07
19 12 0.40
21 14 0.47
22 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (21 bp):
AATATTCATTTTGCTTTCAAG
Found at i:812814 original size:21 final size:21
Alignment explanation
Indices: 812750--812814 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
812740 ATATTCATTT
812750 TGCTTTCAAGAACACTTATTG
1 TGCTTTCAAGAACACTTATTG
** * *
812771 TGC--TCAATTATA-TTCATTT
1 TGCTTTCAAGAACACTT-ATTG
812790 TGCTTTCAAGAACACTTATTG
1 TGCTTTCAAGAACACTTATTG
812811 TGCT
1 TGCT
812815 CAATTGTATT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
21 16 0.50
22 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.43
Consensus pattern (21 bp):
TGCTTTCAAGAACACTTATTG
Found at i:814326 original size:24 final size:24
Alignment explanation
Indices: 814292--814345 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
814282 CCATCACATC
814292 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
814316 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
814340 ATCAAA
1 ATCAAA
814346 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:814359 original size:24 final size:24
Alignment explanation
Indices: 814292--814359 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
814282 CCATCACATC
* * *
814292 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
814316 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
814340 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
814360 TAGTATTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:815111 original size:16 final size:15
Alignment explanation
Indices: 815089--815127 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
815079 AAAATCATTG
815089 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
815105 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
815120 AAAAATTA
1 AAAAATTA
815128 GAGATGAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:815409 original size:20 final size:19
Alignment explanation
Indices: 815360--815413 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
815350 CGATTTACAT
815360 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
815379 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
815399 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
815414 TTTGTTAGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:831311 original size:12 final size:12
Alignment explanation
Indices: 831294--831318 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
831284 AAAGAAAAGA
831294 TTGCAGACACTG
1 TTGCAGACACTG
831306 TTGCAGACACTG
1 TTGCAGACACTG
831318 T
1 T
831319 ATGTGATGCA
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:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TTGCAGACACTG
Found at i:839215 original size:21 final size:21
Alignment explanation
Indices: 839159--839215 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
839149 GGATGCAACC
* *
839159 ACTGCTCCACTTGATTCTTCC
1 ACTGCTCCAATTGATTCTTCA
* *
839180 ACGGCTCCAACTGATTCTTCA
1 ACTGCTCCAATTGATTCTTCA
*
839201 ACTGCTCTAATTGAT
1 ACTGCTCCAATTGAT
839216 CCTTAGCTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (21 bp):
ACTGCTCCAATTGATTCTTCA
Found at i:839232 original size:54 final size:54
Alignment explanation
Indices: 839168--839273 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
839158 CACTGCTCCA
* *
839168 CTTGATTCTTCCACGGCTCCAACTGATTCTTCAACTGCTCTAATTGATCCTTAG
1 CTTGATTCTTCCACGGCTCCAACTGAATCTTAAACTGCTCTAATTGATCCTTAG
* *
839222 CTTGATTCTTCCACGGCTCCAATTGAATCTTAAACTGCTCTAATTGCTCCTT
1 CTTGATTCTTCCACGGCTCCAACTGAATCTTAAACTGCTCTAATTGATCCTT
839274 CCACTGTTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (54 bp):
CTTGATTCTTCCACGGCTCCAACTGAATCTTAAACTGCTCTAATTGATCCTTAG
Found at i:845156 original size:19 final size:19
Alignment explanation
Indices: 845128--845165 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
845118 TACAGTGATC
*
845128 TCATAGGTCGTCAAGTGTT
1 TCATAAGTCGTCAAGTGTT
845147 TCATAAGTCGTCAAGTGTT
1 TCATAAGTCGTCAAGTGTT
845166 CTTACGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (19 bp):
TCATAAGTCGTCAAGTGTT
Found at i:846433 original size:14 final size:16
Alignment explanation
Indices: 846404--846435 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
846394 TAAAAATGGT
846404 ATTTTTTAATTGTATA
1 ATTTTTTAATTGTATA
*
846420 ATTTTTTAATTATATA
1 ATTTTTTAATTGTATA
846436 GTTTCTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTTTTTAATTGTATA
Found at i:846683 original size:2 final size:2
Alignment explanation
Indices: 846676--846706 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
846666 TAATTTTTGG
846676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
846707 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:852278 original size:20 final size:20
Alignment explanation
Indices: 852242--852279 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
852232 ATCCTATTCC
**
852242 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
852262 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
852280 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:853397 original size:2 final size:2
Alignment explanation
Indices: 853392--853419 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
853382 AGGGGGGGGG
853392 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
853420 ACCCTGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:858581 original size:37 final size:38
Alignment explanation
Indices: 858521--858593 Score: 121
Period size: 37 Copynumber: 1.9 Consensus size: 38
858511 GCAACAAGTC
*
858521 AAATAGTAACCGAGGGATGAACATAATTTAGAGCACAA
1 AAATAGTAACCGAGGGATCAACATAATTTAGAGCACAA
*
858559 AAAT-GTAACTGAGGGATCAACATAATTTAGAGCAC
1 AAATAGTAACCGAGGGATCAACATAATTTAGAGCAC
858594 TACGATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 29 0.88
38 4 0.12
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (38 bp):
AAATAGTAACCGAGGGATCAACATAATTTAGAGCACAA
Found at i:859142 original size:27 final size:27
Alignment explanation
Indices: 859107--859158 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
859097 ATATTTATCA
859107 ATATATAAAA-AAATAAATAAAAATACG
1 ATATATAAAATAAA-AAATAAAAATACG
*
859134 ATATATAAAATAAACAATAAAAATA
1 ATATATAAAATAAAAAATAAAAATA
859159 AATAAACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (27 bp):
ATATATAAAATAAAAAATAAAAATACG
Found at i:861166 original size:2 final size:2
Alignment explanation
Indices: 861159--861194 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
861149 AATAATAAAA
861159 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
861195 TCAAAATTAG
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:864055 original size:17 final size:17
Alignment explanation
Indices: 864014--864058 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
864004 CTATACTTGA
864014 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
864031 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
864048 TTAAATATTTA
1 TTAAATATTTA
864059 TTTTTACACG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:865179 original size:35 final size:35
Alignment explanation
Indices: 865132--865211 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
865122 AACACATTCA
*
865132 TCAATTATATTCTAAACCCCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCTAAAATACT
* ** *
865167 TCAATTACATTCTAAACCTCAGTTTTTAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCTAAAATACT
865202 TCAATTACAT
1 TCAATTACAT
865212 GACCAACCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCTAAAATACT
Found at i:868232 original size:18 final size:18
Alignment explanation
Indices: 868209--868245 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
868199 AGAATGTTTC
*
868209 TGAAGAAATTAGAATCTG
1 TGAAGAAATTAAAATCTG
868227 TGAAGAAATTAAAATCTG
1 TGAAGAAATTAAAATCTG
868245 T
1 T
868246 CAGGAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (18 bp):
TGAAGAAATTAAAATCTG
Found at i:868258 original size:17 final size:17
Alignment explanation
Indices: 868233--868276 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
868223 TCTGTGAAGA
*
868233 AATTAAAATCTGTCAGG
1 AATTGAAATCTGTCAGG
868250 AATTGAAATCTGTCAGG
1 AATTGAAATCTGTCAGG
*
868267 AATTGGAATC
1 AATTGAAATC
868277 CAATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (17 bp):
AATTGAAATCTGTCAGG
Found at i:868722 original size:2 final size:2
Alignment explanation
Indices: 868715--868751 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
868705 AATTGGTAAA
868715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
868752 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:872577 original size:21 final size:21
Alignment explanation
Indices: 872552--872595 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
872542 AAAAATATTA
* *
872552 AAAAATATTAATGTTTTACGT
1 AAAAATAATAATATTTTACGT
*
872573 AAAAATAATAATATTTTAGGT
1 AAAAATAATAATATTTTACGT
872594 AA
1 AA
872596 TTTTTATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAATAATAATATTTTACGT
Found at i:874872 original size:24 final size:23
Alignment explanation
Indices: 874829--874874 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
874819 AAGTGAATTT
874829 AATAATTTATCAAAGGAATAGAAA
1 AATAATTTATCAAA-GAATAGAAA
874853 AATAATTCTATCATAA-AATAGA
1 AATAATT-TATCA-AAGAATAGA
874875 TCTAATCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 13 0.65
25 5 0.25
26 2 0.10
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (23 bp):
AATAATTTATCAAAGAATAGAAA
Found at i:875688 original size:84 final size:84
Alignment explanation
Indices: 875547--875718 Score: 335
Period size: 84 Copynumber: 2.0 Consensus size: 84
875537 AAGGGAACCA
*
875547 AATGATTTTGTGCCAATTAACTTTGTTTCTTTTTTCTCTAACAGCTTCCCAAACATCTCTAGTAG
1 AATGATTTTGTGCCAATTAACTTTGTTTCTTTTTTCTCTAACAGCTTCCCAAACATCTATAGTAG
875612 TTTTAGTTCCTGCATTGAG
66 TTTTAGTTCCTGCATTGAG
875631 AATGATTTTGTGCCAATTAACTTTGTTTCTTTTTTCTCTAACAGCTTCCCAAACATCTATAGTAG
1 AATGATTTTGTGCCAATTAACTTTGTTTCTTTTTTCTCTAACAGCTTCCCAAACATCTATAGTAG
875696 TTTTAGTTCCTGCATTGAG
66 TTTTAGTTCCTGCATTGAG
875715 AATG
1 AATG
875719 GGGAGTGCAG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (84 bp):
AATGATTTTGTGCCAATTAACTTTGTTTCTTTTTTCTCTAACAGCTTCCCAAACATCTATAGTAG
TTTTAGTTCCTGCATTGAG
Found at i:881823 original size:22 final size:21
Alignment explanation
Indices: 881798--881839 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
881788 TTGACCGAAT
881798 CGAATTAATTCGGTTCGGTTAC
1 CGAATTAATTCGG-TCGGTTAC
*
881820 CGAATTAGTTCGGTCGGTTA
1 CGAATTAATTCGGTCGGTTA
881840 ATGGTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (21 bp):
CGAATTAATTCGGTCGGTTAC
Found at i:882312 original size:183 final size:183
Alignment explanation
Indices: 881926--882312 Score: 638
Period size: 183 Copynumber: 2.1 Consensus size: 183
881916 ATTAAATTTT
*
881926 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
*
881991 TTTAAGATTCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTTAAGATTCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
882056 TATTTTATAAATATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAA
131 TATTTTATAAATATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
882109 AAATATTAAATATATTATATATAACATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGCTCAA-CCCAAACCATTTAAAACCCAATTAATA
* *
882173 ATTTAAGA-TCTAATAATTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAAT
65 ATTTAAGATTC-AATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAAT
*
882237 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
128 TTTTATTTTATAAATATATATTATTTAAATTAATTATAAACTGTTTTTT-AATTAAA
* *
882293 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
882313 AATTAGAAAT
Statistics
Matches: 192, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
182 4 0.02
183 122 0.64
184 66 0.34
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATTCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAAATATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
Found at i:882853 original size:23 final size:23
Alignment explanation
Indices: 882826--882873 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
882816 TAAACTTAGC
882826 TCGATTGAAGTTCAAACTCGAGT
1 TCGATTGAAGTTCAAACTCGAGT
* * * *
882849 TCGATTTAGGTTCGAACTTGAGT
1 TCGATTGAAGTTCAAACTCGAGT
882872 TC
1 TC
882874 ATACTTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (23 bp):
TCGATTGAAGTTCAAACTCGAGT
Found at i:888816 original size:24 final size:25
Alignment explanation
Indices: 888776--888827 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
888766 TCTTAATTTA
888776 TTATGAGAAAAAAATAATCTCTAAC
1 TTATGAGAAAAAAATAATCTCTAAC
*
888801 TTATGAG-AAAAAATAATCTTTAAC
1 TTATGAGAAAAAAATAATCTCTAAC
888825 TTA
1 TTA
888828 GAAAAACCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (25 bp):
TTATGAGAAAAAAATAATCTCTAAC
Found at i:892102 original size:15 final size:15
Alignment explanation
Indices: 892082--892111 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
892072 ATTAAAAGAA
892082 GGGTAAATTATAAAT
1 GGGTAAATTATAAAT
892097 GGGTAAATTATAAAT
1 GGGTAAATTATAAAT
892112 TTGGTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
GGGTAAATTATAAAT
Found at i:897972 original size:22 final size:22
Alignment explanation
Indices: 897910--897973 Score: 92
Period size: 23 Copynumber: 2.9 Consensus size: 22
897900 ATTAAACAAA
897910 GAAGGCATAAAAAACAAAATGT
1 GAAGGCATAAAAAACAAAATGT
* *
897932 GAAGGGAGAAAGAAACAAAATGT
1 GAAGGCATAAA-AAACAAAATGT
*
897955 GAAGACATAAAAAACAAAA
1 GAAGGCATAAAAAACAAAA
897974 GAAACAACCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.62, C:0.08, G:0.20, T:0.09
Consensus pattern (22 bp):
GAAGGCATAAAAAACAAAATGT
Found at i:909481 original size:10 final size:10
Alignment explanation
Indices: 909466--909505 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
909456 TTCATCACAC
909466 CAAATTCTCT
1 CAAATTCTCT
909476 CAAATTCTCT
1 CAAATTCTCT
*
909486 CAACTTCTCT
1 CAAATTCTCT
*
909496 CAAATACTCT
1 CAAATTCTCT
909506 TATAATCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.38
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:911814 original size:13 final size:13
Alignment explanation
Indices: 911796--911842 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
911786 TATTTAGTAC
*
911796 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
911809 TGTTTATTGGACT
1 TTTTTATTGTAAT
911822 TTTTTATTGTAAT
1 TTTTTATTGTAAT
911835 TTTTTATT
1 TTTTTATT
911843 ATTTATCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:914643 original size:24 final size:24
Alignment explanation
Indices: 914616--914661 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
914606 CTCATTATGG
914616 CATTAAAATCATTACACATTACAA
1 CATTAAAATCATTACACATTACAA
914640 CATTAAAATCATTACACATTAC
1 CATTAAAATCATTACACATTAC
914662 TGTCGTCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (24 bp):
CATTAAAATCATTACACATTACAA
Found at i:917245 original size:2 final size:2
Alignment explanation
Indices: 917238--917264 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
917228 TTAAATAAAT
917238 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
917265 TAAAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:919491 original size:29 final size:29
Alignment explanation
Indices: 919439--919495 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
919429 AGTGTTGGCC
*
919439 GTAGGTCGCCATTCCTTCCAGGCGACCTT
1 GTAGGTCGCCATGCCTTCCAGGCGACCTT
*
919468 GTAGGTCGCCATGCAC-TCCGGGCGACCT
1 GTAGGTCGCCATGC-CTTCCAGGCGACCT
919496 ACCCTTGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.14, C:0.35, G:0.28, T:0.23
Consensus pattern (29 bp):
GTAGGTCGCCATGCCTTCCAGGCGACCTT
Found at i:919588 original size:29 final size:29
Alignment explanation
Indices: 919554--919609 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
919544 TCCCAACACA
* *
919554 TAGGTCGACATGCCCTCCGGGCGACCTTG
1 TAGGTCGACATGCACTCCGGACGACCTTG
*
919583 TAGGTCGCCATGCACTCCGGACGACCT
1 TAGGTCGACATGCACTCCGGACGACCT
919610 ACCCTCACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.36, G:0.29, T:0.20
Consensus pattern (29 bp):
TAGGTCGACATGCACTCCGGACGACCTTG
Found at i:919654 original size:23 final size:23
Alignment explanation
Indices: 919627--919680 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
919617 CTCGGCTGCC
* *
919627 CTCGGATTCCCTCGCATAGCTCG
1 CTCGGATGCCATCGCATAGCTCG
*
919650 CTCGGCTGCCATCGCATAGCTCG
1 CTCGGATGCCATCGCATAGCTCG
*
919673 TTCGGATG
1 CTCGGATG
919681 GCCTCGGATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.13, C:0.35, G:0.26, T:0.26
Consensus pattern (23 bp):
CTCGGATGCCATCGCATAGCTCG
Found at i:919974 original size:29 final size:29
Alignment explanation
Indices: 919917--919974 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
919907 GTGTTGGCCG
* * *
919917 TAGGTCGCCATGCCTTCCGGGTGACCTAC
1 TAGGTCACCATGCCTTCCCGGCGACCTAC
* *
919946 TAGGTCACCATGTCTTCCCGGCGAGCTAC
1 TAGGTCACCATGCCTTCCCGGCGACCTAC
919975 AAGAGATAGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (29 bp):
TAGGTCACCATGCCTTCCCGGCGACCTAC
Found at i:920051 original size:34 final size:33
Alignment explanation
Indices: 920013--920088 Score: 107
Period size: 34 Copynumber: 2.3 Consensus size: 33
920003 AACACGCTGG
920013 GCATCCGAGGCCATCCGACCGAGGCTATCCGAGA
1 GCATCCGAGGCCATCCGACCGA-GCTATCCGAGA
* * *
920047 GCATCCGAGGCCATCCGAGCGAGCTATGCGAGG
1 GCATCCGAGGCCATCCGACCGAGCTATCCGAGA
*
920080 GCAGCCGAG
1 GCATCCGAG
920089 CGAGCTATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 17 0.45
34 21 0.55
ACGTcount: A:0.22, C:0.33, G:0.34, T:0.11
Consensus pattern (33 bp):
GCATCCGAGGCCATCCGACCGAGCTATCCGAGA
Found at i:920087 original size:23 final size:23
Alignment explanation
Indices: 920052--920103 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
920042 CGAGAGCATC
* *
920052 CGAGGCCATCCGAGCGAGCTATG
1 CGAGGGCAGCCGAGCGAGCTATG
920075 CGAGGGCAGCCGAGCGAGCTATG
1 CGAGGGCAGCCGAGCGAGCTATG
920098 CGAGGG
1 CGAGGG
920104 AATCCGAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.42, T:0.10
Consensus pattern (23 bp):
CGAGGGCAGCCGAGCGAGCTATG
Found at i:920110 original size:23 final size:23
Alignment explanation
Indices: 920059--920111 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
920049 ATCCGAGGCC
*
920059 ATCCGAGCGAGCTATGCGAGGGC
1 ATCCGAGCGAGCTATGCGAGGGA
*
920082 AGCCGAGCGAGCTATGCGAGGGA
1 ATCCGAGCGAGCTATGCGAGGGA
920105 ATCCGAG
1 ATCCGAG
920112 GGCAGCCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.40, T:0.11
Consensus pattern (23 bp):
ATCCGAGCGAGCTATGCGAGGGA
Found at i:920161 original size:28 final size:29
Alignment explanation
Indices: 920129--920183 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
920119 GAGCGAGGGT
*
920129 AGGTCGCCCGGAGTGCAT-GCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
920157 AGGTCTCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
920184 TGTGTTGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.20, C:0.31, G:0.35, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:920284 original size:29 final size:29
Alignment explanation
Indices: 920242--920328 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
920232 GAGAAATGGT
920242 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* * ***
920271 AGGTCGTCCGGAGTGTATGGCGACCTTGT
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
920300 AGGTCGCCCGGAAG-GCATGGCGACCTACA
1 AGGTCGCCCGG-AGTGCATGGCGACCTACA
920329 GCCAACACTG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 45 0.96
30 2 0.04
ACGTcount: A:0.20, C:0.28, G:0.36, T:0.17
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:925953 original size:16 final size:16
Alignment explanation
Indices: 925932--925962 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
925922 TAATAAATAA
925932 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
925948 ACGAACATAAACGAA
1 ACGAACATAAACGAA
925963 TAAATTTTTT
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:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:942668 original size:22 final size:22
Alignment explanation
Indices: 942595--942659 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
942585 TAATAAATTA
942595 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
942617 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
942639 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
942660 CTAATAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:942682 original size:32 final size:29
Alignment explanation
Indices: 942640--942927 Score: 122
Period size: 22 Copynumber: 10.6 Consensus size: 29
942630 AATCCATATT
942640 TTAAAATAAATCAATTCATACTAATAAATTA
1 TTAAAATAAATCAA-TCATACT-ATAAATTA
* *
942671 TCTAAAATAAATCAAT-ATA-TA-CAACTA
1 T-TAAAATAAATCAATCATACTATAAATTA
*
942698 -CAATAATAAATCAATC---C-AT--ATT-
1 TTAA-AATAAATCAATCATACTATAAATTA
942720 TTAAAATAAATCAATTCATACTAATAAATTA
1 TTAAAATAAATCAA-TCATACT-ATAAATTA
942751 TTTAAAATAAATCAATC---C-AT--ATT-
1 -TTAAAATAAATCAATCATACTATAAATTA
*
942774 TTAAAATAAATCAATATATACTAATAAATTA
1 TTAAAATAAATCAAT-CATACT-ATAAATTA
* * *
942805 TTTAAAATAAATAAATCA-ATCAATACAACTA
1 -TTAAAATAAATCAATCATA-CTATA-AATTA
*
942836 -CAATAATAAATCAAT--T--TAT--ATT-
1 TTAA-AATAAATCAATCATACTATAAATTA
942858 TTAAAATAAATCAAT--T--TAT--ATT-
1 TTAAAATAAATCAATCATACTATAAATTA
942880 TTAAAATAAATCAATCCATACTAATAAATTA
1 TTAAAATAAATCAAT-CATACT-ATAAATTA
942911 TTTAAAATAAATCAATC
1 -TTAAAATAAATCAATC
942928 TATAGAAAAT
Statistics
Matches: 201, Mismatches: 15, Indels: 82
0.67 0.05 0.28
Matches are distributed among these distances:
22 58 0.29
23 10 0.05
24 4 0.02
25 3 0.01
26 17 0.08
27 5 0.02
28 8 0.04
29 3 0.01
30 26 0.13
31 11 0.05
32 56 0.28
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (29 bp):
TTAAAATAAATCAATCATACTATAAATTA
Found at i:942766 original size:54 final size:54
Alignment explanation
Indices: 942702--942927 Score: 259
Period size: 54 Copynumber: 4.2 Consensus size: 54
942692 CAACTACAAT
942702 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
942756 AATAAATCAATCCATATTTTAAAATAAATCAATAT-ATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAA
* ** * ** **
942810 AATAAATAAAT-CA-ATCAATACAACTACAAT-AATAAAT-C-AATTTA-TATTTTAA
1 AATAAATCAATCCATAT-TTTA-AAATA-AATCAATTCATACTAATAAATTA-TTTAA
** *
942862 AATAAATCAATTTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
942916 AATAAATCAATC
1 AATAAATCAATC
942928 TATAGAAAAT
Statistics
Matches: 143, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
51 5 0.03
52 30 0.21
53 9 0.06
54 93 0.65
55 6 0.04
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
Found at i:942922 original size:138 final size:133
Alignment explanation
Indices: 942619--942931 Score: 362
Period size: 138 Copynumber: 2.3 Consensus size: 133
942609 ATCCATATTT
** *
942619 TAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATCTAAAATAAATC
1 TAAAATAAATCAATAAATATTTTAAAATAAATCAATT-ATACTAATAAATTATCTAAAATAAATA
*
942684 AATATATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAAT
65 AATATATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAAA
**
942749 TATT
130 TAAA
** *
942753 TAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATA
1 TAAAATAAATCAATAAATATTTTAAAATAAATCAAT-TATACTAATAAATTATCTAAAATAAATA
** * **
942818 AATCAATCAATACAACTACAATAATAAATCAATTTATATTTTAAAATAAATCAATTTATA-TTTT
65 AAT--AT--ATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAAT
942882 AAAATAAA
126 AAAATAAA
* **
942890 T-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCTATA
1 TAAAATAAAT-C-AATAAATAT-TTTAAAATAAATCAAT-TATA
942932 GAAAATAACC
Statistics
Matches: 155, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
134 64 0.41
135 1 0.01
136 7 0.05
137 10 0.06
138 73 0.47
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (133 bp):
TAAAATAAATCAATAAATATTTTAAAATAAATCAATTATACTAATAAATTATCTAAAATAAATAA
ATATATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAAAT
AAA
Found at i:943167 original size:42 final size:40
Alignment explanation
Indices: 943140--943312 Score: 172
Period size: 42 Copynumber: 4.2 Consensus size: 40
943130 TCGAAGTTCG
* *
943140 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATT
* **
943180 CATTGCGATAGTCCAAGTTCGCGTTGTAATTTATTCCAAATTT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAA-TT
* **
943223 C-TTGCGATAGTCCTAGTTCGCGTTGCGATTTATTAAAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATT
* *
943264 CGTTGCGATAGTCCAAGTT--CGTTGCGATAGTCCAAGTT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATT
943302 CGCGTTGCGAT
1 --CGTTGCGAT
943313 TTATTCCAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
38 7 0.06
40 42 0.38
41 3 0.03
42 57 0.51
43 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (40 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATT
Found at i:943198 original size:40 final size:41
Alignment explanation
Indices: 943142--943291 Score: 191
Period size: 42 Copynumber: 3.7 Consensus size: 41
943132 GAAGTTCGCG
*
943142 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTC
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
**
943181 ATTGCGATAGTCCAAGTTCGCGTTGTAATTTATTCCAAATTTC
1 -TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAA-TTC
* **
943224 TTGCGATAGTCCTAGTTCGCGTTGCGATTTATTAAAAATTC
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
943265 GTTGCGATAGTCCAAGTT--CGTTGCGAT
1 -TTGCGATAGTCCAAGTTCGCGTTGCGAT
943292 AGTCCAAGTT
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 33 0.34
41 5 0.05
42 56 0.58
43 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (41 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
Found at i:943241 original size:103 final size:102
Alignment explanation
Indices: 943121--943340 Score: 282
Period size: 103 Copynumber: 2.1 Consensus size: 102
943111 CATATTCGCA
* ** * **
943121 TTGCGATAGTCGAAGTTCGCGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCATTG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTAGTAAAAATT--CGTTGCGATAGTCCAAATTCATTG
*
943185 CGATAGTCCAAGTTCGCGTTGTAATTTATTCCAAATTTC-
64 CGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAA-TTCG
* * * *
943224 TTGCGATAGTCCTAGTTCGCGTTGCGATTTATTAAAAATTCGTTGCGATAGTCCAAGTTCGTTGC
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTAGTAAAAATTCGTTGCGATAGTCCAAATTCATTGC
*
943289 GATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
65 GATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCG
943327 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
943341 AAATCATGCA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
102 3 0.03
103 91 0.90
105 7 0.07
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (102 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTAGTAAAAATTCGTTGCGATAGTCCAAATTCATTGCG
ATAGTCCAAGTTCGCGTTGCAATTTATTCCAAATTCG
Done.