Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009596.1 Hibiscus syriacus cultivar Beakdansim tig00116975_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: 1846166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1497958 original size:233 final size:233
Alignment explanation
Indices: 1497551--1498020 Score: 940
Period size: 233 Copynumber: 2.0 Consensus size: 233
1497541 TGTAAATCCA
1497551 ACATTATGATAGCCCCCTACCTGATGCGTTAAATAGTTCATTACTTGTGACATGCCAACACTGAC
1 ACATTATGATAGCCCCCTACCTGATGCGTTAAATAGTTCATTACTTGTGACATGCCAACACTGAC
1497616 CTCTTTCAATGTTGTTGCCTCATCGATATCAGTCTTACTTACAGCTCTATTAGAACGCATAAATG
66 CTCTTTCAATGTTGTTGCCTCATCGATATCAGTCTTACTTACAGCTCTATTAGAACGCATAAATG
1497681 GTGTCATAGCAGGTGTGCATAATGCATGATTATGTTTCTTATAAGACTTACTTATAACCCACTGA
131 GTGTCATAGCAGGTGTGCATAATGCATGATTATGTTTCTTATAAGACTTACTTATAACCCACTGA
1497746 TCGTTTGTATTTGTTGCTGTAACTACGACTCTAGCCTT
196 TCGTTTGTATTTGTTGCTGTAACTACGACTCTAGCCTT
1497784 ACATTATGATAGCCCCCTACCTGATGCGTTAAATAGTTCATTACTTGTGACATGCCAACACTGAC
1 ACATTATGATAGCCCCCTACCTGATGCGTTAAATAGTTCATTACTTGTGACATGCCAACACTGAC
1497849 CTCTTTCAATGTTGTTGCCTCATCGATATCAGTCTTACTTACAGCTCTATTAGAACGCATAAATG
66 CTCTTTCAATGTTGTTGCCTCATCGATATCAGTCTTACTTACAGCTCTATTAGAACGCATAAATG
1497914 GTGTCATAGCAGGTGTGCATAATGCATGATTATGTTTCTTATAAGACTTACTTATAACCCACTGA
131 GTGTCATAGCAGGTGTGCATAATGCATGATTATGTTTCTTATAAGACTTACTTATAACCCACTGA
1497979 TCGTTTGTATTTGTTGCTGTAACTACGACTCTAGCCTT
196 TCGTTTGTATTTGTTGCTGTAACTACGACTCTAGCCTT
1498017 ACAT
1 ACAT
1498021 CTTGTTCTTG
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 237 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (233 bp):
ACATTATGATAGCCCCCTACCTGATGCGTTAAATAGTTCATTACTTGTGACATGCCAACACTGAC
CTCTTTCAATGTTGTTGCCTCATCGATATCAGTCTTACTTACAGCTCTATTAGAACGCATAAATG
GTGTCATAGCAGGTGTGCATAATGCATGATTATGTTTCTTATAAGACTTACTTATAACCCACTGA
TCGTTTGTATTTGTTGCTGTAACTACGACTCTAGCCTT
Found at i:1499060 original size:23 final size:23
Alignment explanation
Indices: 1499031--1499078 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1499021 AAATATGTCA
* * *
1499031 ATATAAGCGCTACCTATTACATT
1 ATATAAGAGATACCTAATACATT
*
1499054 ATATAAGAGATACCTAATATATT
1 ATATAAGAGATACCTAATACATT
1499077 AT
1 AT
1499079 TGTACTTGAT
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGAGATACCTAATACATT
Found at i:1499119 original size:64 final size:64
Alignment explanation
Indices: 1499041--1499161 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 64
1499031 ATATAAGCGC
* *
1499041 TACCTATTACATTATATAAGAGATACCTAATATATTATTGTACTTGATAATATTTTCGGTTAAA
1 TACCTATTACATTATATAAGAGATACCTAATATATTATTGTAATTAATAATATTTTCGGTTAAA
** * * *
1499105 TACCTATTTTATTATATAAGTGGTACCTAATATGTTATTGTAATTAATAATATTTTC
1 TACCTATTACATTATATAAGAGATACCTAATATATTATTGTAATTAATAATATTTTC
1499162 AATTAAATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (64 bp):
TACCTATTACATTATATAAGAGATACCTAATATATTATTGTAATTAATAATATTTTCGGTTAAA
Found at i:1505838 original size:116 final size:116
Alignment explanation
Indices: 1505634--1505856 Score: 428
Period size: 116 Copynumber: 1.9 Consensus size: 116
1505624 CATCTACGGT
* *
1505634 GGTTCTAAAAGGAGATGGGAGGAGAAGAGGACAATGGTAACTGGTAGTTGGTAAGATAGTGAGTG
1 GGTTCTAAAAGGAGATGGGAGGAGAAGAGGACAATGGTAAATGGTAGTTGGTAAGATAGCGAGTG
1505699 TCTTGTGTCGAAGTTACCTTGTAGTTGTTCAAATGTGTTGCAAATAAAATA
66 TCTTGTGTCGAAGTTACCTTGTAGTTGTTCAAATGTGTTGCAAATAAAATA
1505750 GGTTCTAAAAGGAGATGGGAGGAGAAGAGGACAATGGTAAATGGTAGTTGGTAAGATAGCGAGTG
1 GGTTCTAAAAGGAGATGGGAGGAGAAGAGGACAATGGTAAATGGTAGTTGGTAAGATAGCGAGTG
1505815 TCTTGTGTCGAAGTTACCTTGTAGTTGTTCAAATGTGTTGCA
66 TCTTGTGTCGAAGTTACCTTGTAGTTGTTCAAATGTGTTGCA
1505857 TCTTTGAAGA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.29
Consensus pattern (116 bp):
GGTTCTAAAAGGAGATGGGAGGAGAAGAGGACAATGGTAAATGGTAGTTGGTAAGATAGCGAGTG
TCTTGTGTCGAAGTTACCTTGTAGTTGTTCAAATGTGTTGCAAATAAAATA
Found at i:1508078 original size:58 final size:58
Alignment explanation
Indices: 1507988--1508100 Score: 226
Period size: 58 Copynumber: 1.9 Consensus size: 58
1507978 AATTAAAATC
1507988 ATTTAATTAATTATATTTAGTTAATAAATAAATTTCTTTTTTTATAAATATGAGGAAA
1 ATTTAATTAATTATATTTAGTTAATAAATAAATTTCTTTTTTTATAAATATGAGGAAA
1508046 ATTTAATTAATTATATTTAGTTAATAAATAAATTTCTTTTTTTATAAATATGAGG
1 ATTTAATTAATTATATTTAGTTAATAAATAAATTTCTTTTTTTATAAATATGAGG
1508101 TGAATACAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (58 bp):
ATTTAATTAATTATATTTAGTTAATAAATAAATTTCTTTTTTTATAAATATGAGGAAA
Found at i:1508091 original size:31 final size:31
Alignment explanation
Indices: 1507998--1508091 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 31
1507988 ATTTAATTAA
1507998 TTATATTTAGTTAATAAATAAATTTCTTTTT
1 TTATATTTAGTTAATAAATAAATTTCTTTTT
** * ** ** **
1508029 TTATAAATA--TGA-GGA-AAATTTAATTAA
1 TTATATTTAGTTAATAAATAAATTTCTTTTT
1508056 TTATATTTAGTTAATAAATAAATTTCTTTTT
1 TTATATTTAGTTAATAAATAAATTTCTTTTT
1508087 TTATA
1 TTATA
1508092 AATATGAGGT
Statistics
Matches: 41, Mismatches: 18, Indels: 8
0.61 0.27 0.12
Matches are distributed among these distances:
27 15 0.37
28 1 0.02
29 4 0.10
30 1 0.02
31 20 0.49
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTATATTTAGTTAATAAATAAATTTCTTTTT
Found at i:1510388 original size:22 final size:19
Alignment explanation
Indices: 1510336--1510397 Score: 97
Period size: 19 Copynumber: 3.3 Consensus size: 19
1510326 ATCGTCTCCA
1510336 GGAGCACACGACGACCTAT
1 GGAGCACACGACGACCTAT
1510355 GGAGCACACGACGACCTAT
1 GGAGCACACGACGACCTAT
** *
1510374 GGAGCACTTGGCGACCTAT
1 GGAGCACACGACGACCTAT
1510393 GGAGC
1 GGAGC
1510398 TGCAACAGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.27, C:0.29, G:0.31, T:0.13
Consensus pattern (19 bp):
GGAGCACACGACGACCTAT
Found at i:1512321 original size:17 final size:17
Alignment explanation
Indices: 1512299--1512345 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
1512289 CCCATGGACA
1512299 TATGTGAGAACTGAAGG
1 TATGTGAGAACTGAAGG
1512316 TATGTGAGAACTGAAGG
1 TATGTGAGAACTGAAGG
*
1512333 TATGTGAGTACTG
1 TATGTGAGAACTG
1512346 TGAGATTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.34, T:0.28
Consensus pattern (17 bp):
TATGTGAGAACTGAAGG
Found at i:1512695 original size:30 final size:29
Alignment explanation
Indices: 1512661--1512719 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1512651 TGTAAACATA
* *
1512661 TCACATATTCATATAAGCTCGTAGCTTCAT
1 TCACACATACATATAAGCTCGTAG-TTCAT
* *
1512691 TCACACATACATGTAATCTCGTAGTTCAT
1 TCACACATACATATAAGCTCGTAGTTCAT
1512720 GTCAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (29 bp):
TCACACATACATATAAGCTCGTAGTTCAT
Found at i:1518769 original size:22 final size:22
Alignment explanation
Indices: 1518733--1518795 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
1518723 TCTTCTTTTA
*
1518733 GGGGGTAATCAGTTCCCCCCTGT
1 GGGGGT-ATCGGTTCCCCCCTGT
*
1518756 GGGGGTATCGGTTCCCCACTGT
1 GGGGGTATCGGTTCCCCCCTGT
1518778 GGGGGTATCGGTTCCCCC
1 GGGGGTATCGGTTCCCCC
1518796 ATGACATTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 31 0.84
23 6 0.16
ACGTcount: A:0.10, C:0.30, G:0.35, T:0.25
Consensus pattern (22 bp):
GGGGGTATCGGTTCCCCCCTGT
Found at i:1524604 original size:111 final size:112
Alignment explanation
Indices: 1524204--1524625 Score: 695
Period size: 112 Copynumber: 3.8 Consensus size: 112
1524194 GGGATGTTAC
* *
1524204 ATAACAGGT-AAAAAATGAAAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATA
1 ATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA
1524268 TATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT
66 TATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT
1524315 ATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA
1 ATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA
1524380 TATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT
66 TATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT
*
1524427 ATAACAGGTAAAAAAATGACAAAATCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA
1 ATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA
* * **
1524492 TGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAGTAAT
66 TATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT
* * * * *
1524539 AAAACATGT-AAAAAATGATAAAACCGGTCTATAAATTACAAAACAGATAAAGCGCTACCGGATA
1 ATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA
* * *
1524603 TGTTGATAGTGTCGATAATTTAT
66 TATTGAAAGTGTCGATACTTTAT
1524626 TATAAGTATC
Statistics
Matches: 296, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
111 82 0.28
112 214 0.72
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (112 bp):
ATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATA
TATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT
Found at i:1524809 original size:182 final size:182
Alignment explanation
Indices: 1524499--1524946 Score: 702
Period size: 182 Copynumber: 2.5 Consensus size: 182
1524489 ATATGTTGAT
** * * *
1524499 AGTGTCGATACTTTATAAAAATGTATCGATCCATAGTAATAAAACATGTAAAAA-ATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAAC
** * *
1524563 CGGTCTATAAATTACAAAACAGATAAAGCGCTACCGGATATGTTGATAGTGTCGATAATTTATTA
66 CGGTCTCGAAATGACAAAACAGATAAAGAGCTACCGGATATGTTGATAGTGTCGATAATTTATTA
* *
1524628 TAAGTATC-AGCACTTTTTGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGA-CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
*
1524680 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAAC
* * *
1524745 CGGTCTCGAAATGACAAAACTGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACAGATAAAGAGCTACCGGATATGTTGATAGTGTCGATAATTTATTA
1524810 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
* * *
1524862 AGTGTCAATACTTTATAAAAATGTATTGATCCATAACAATATAACAAGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAAC
*
1524927 CGATCTCGAAATGACAAAAC
66 CGGTCTCGAAATGACAAAAC
1524947 CGGTTGTAAA
Statistics
Matches: 246, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
181 50 0.20
182 195 0.79
183 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAAC
CGGTCTCGAAATGACAAAACAGATAAAGAGCTACCGGATATGTTGATAGTGTCGATAATTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
Found at i:1542180 original size:3 final size:3
Alignment explanation
Indices: 1542162--1542198 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
1542152 CGATAAAATA
1542162 AAT AACT AATT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AA
1542199 AGAGAGGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
3 26 0.81
4 6 0.19
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1544847 original size:127 final size:127
Alignment explanation
Indices: 1544708--1544960 Score: 409
Period size: 128 Copynumber: 2.0 Consensus size: 127
1544698 AACATAAAAT
* *
1544708 TAAAATTCAAGAATTTTAAAGTTCATACAAAGATAATAAAAT-AAAAAATAAAGCATATAAAACA
1 TAAAACTCAAGAATTTTAAAGTTCATACAAAGATAATAAAATAAAAAAATAAAACATATAAAACA
*
1544772 TAACTTTCACATCATAAAAAATATGTCACATTATATTGTTAATTTTGATTTAATTTTCAAGA
66 TAACTTTCACATCATAAAAAATATGTCACATTATATTGTTAATTTTGATTTAATGTTCAAGA
*
1544834 TAAAACTCTAAGAATTTTAAAGTTCATAGAAAGATAATAAAATAAAAAAATAAAACATATAAAAC
1 TAAAACTC-AAGAATTTTAAAGTTCATACAAAGATAATAAAATAAAAAAATAAAACATATAAAAC
* * * * *
1544899 ATAACTTTCGCATCATCAAAAATATGTCACGTTGTCTTGTTAATTTTGATTTAATGTTCAAG
65 ATAACTTTCACATCATAAAAAATATGTCACATTATATTGTTAATTTTGATTTAATGTTCAAG
1544961 TGACGATAAG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
126 7 0.06
127 33 0.28
128 76 0.66
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (127 bp):
TAAAACTCAAGAATTTTAAAGTTCATACAAAGATAATAAAATAAAAAAATAAAACATATAAAACA
TAACTTTCACATCATAAAAAATATGTCACATTATATTGTTAATTTTGATTTAATGTTCAAGA
Found at i:1553308 original size:20 final size:20
Alignment explanation
Indices: 1553285--1553324 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1553275 AAGGAAGGGA
* *
1553285 CAAAGAGATGTAAGGATTAT
1 CAAAGAGACGAAAGGATTAT
1553305 CAAAGAGACGAAAGGATTAT
1 CAAAGAGACGAAAGGATTAT
1553325 TTTTTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.20
Consensus pattern (20 bp):
CAAAGAGACGAAAGGATTAT
Found at i:1554341 original size:21 final size:17
Alignment explanation
Indices: 1554292--1554326 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1554282 GATTGTATTC
1554292 AGTATTTATAAATTATA
1 AGTATTTATAAATTATA
1554309 AGTATTTATAAATTATA
1 AGTATTTATAAATTATA
1554326 A
1 A
1554327 CGAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
AGTATTTATAAATTATA
Found at i:1555453 original size:41 final size:41
Alignment explanation
Indices: 1555399--1555484 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
1555389 TATAATCTAA
1555399 ATTGATTAATGTCATATCAAATCTGATTCGACTATTCTTTG
1 ATTGATTAATGTCATATCAAATCTGATTCGACTATTCTTTG
1555440 ATTGATTAATGTCATATCAAATCTGATTCGACTATTCTTTG
1 ATTGATTAATGTCATATCAAATCTGATTCGACTATTCTTTG
1555481 ATTG
1 ATTG
1555485 GTGGTGTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (41 bp):
ATTGATTAATGTCATATCAAATCTGATTCGACTATTCTTTG
Found at i:1564039 original size:94 final size:98
Alignment explanation
Indices: 1563826--1564060 Score: 307
Period size: 94 Copynumber: 2.4 Consensus size: 98
1563816 ATTAACGGTT
* * *
1563826 ATCAGTATCATGCATACATGATCATGTTTTCACCGAATGAATAGAGGGTGATACTTAAGATCAGA
1 ATCAGTATCATGCATACATGATCATGTTTTCACCAAATGAATAGAGAGTAATACTTAAGATCAGA
* * *
1563891 GTCATTGATTCCACAATCTGCTGCATTCACCGTG
66 GGCATTGATTCCAC-ATCTGCTGCATTCACCATA
* * * * *
1563925 ATCAGTATCATGTATGCATGATCATGTTTTCATCAAATGAATA-AGAGTAATGCTTGAGATCAGA
1 ATCAGTATCATGCATACATGATCATGTTTTCACCAAATGAATAGAGAGTAATACTTAAGATCAGA
* *
1563989 GGCATTGCTT-C-C-TCTTCTGCATTCACCATA
66 GGCATTGATTCCACATCTGCTGCATTCACCATA
*
1564019 ATCAGCATCATGCATACATGATCATGTTTTCACCAAATGAAT
1 ATCAGTATCATGCATACATGATCATGTTTTCACCAAATGAAT
1564061 GGAAGGCAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
94 53 0.45
96 1 0.01
97 1 0.01
98 25 0.21
99 39 0.33
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (98 bp):
ATCAGTATCATGCATACATGATCATGTTTTCACCAAATGAATAGAGAGTAATACTTAAGATCAGA
GGCATTGATTCCACATCTGCTGCATTCACCATA
Found at i:1565064 original size:3 final size:3
Alignment explanation
Indices: 1565056--1565082 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1565046 GCTTTCGAGT
1565056 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1565083 AAGGAAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1573246 original size:127 final size:127
Alignment explanation
Indices: 1573020--1573274 Score: 483
Period size: 127 Copynumber: 2.0 Consensus size: 127
1573010 GCAGATATTA
*
1573020 CACACTCAAATCTGGCTCGGATACTAATTGTTGCGGAAGACAGCTATCGGATAGAGTAGAATCGC
1 CACACTCAAATCTGGCTCGGATACCAATTGTTGCGGAAGACAGCTATCGGATAGAGTAGAATCGC
1573085 AACTAATAATTTGAGAAAATAAAAATAAAGATAAAAGAGACACAAAATTTACGTGGAAAACC
66 AACTAATAATTTGAGAAAATAAAAATAAAGATAAAAGAGACACAAAATTTACGTGGAAAACC
*
1573147 CACACTCAAATTTGGCTCGGATACCAATTGTTGCGGAAGACAGCTATCGGATAGAGTAGAATCGC
1 CACACTCAAATCTGGCTCGGATACCAATTGTTGCGGAAGACAGCTATCGGATAGAGTAGAATCGC
*
1573212 AACTAATAATTTGAGAAAATAAAAATGAAGATAAAAGAGACACAAAATTTACGTGGAAAACC
66 AACTAATAATTTGAGAAAATAAAAATAAAGATAAAAGAGACACAAAATTTACGTGGAAAACC
1573274 C
1 C
1573275 CTAAATAATA
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (127 bp):
CACACTCAAATCTGGCTCGGATACCAATTGTTGCGGAAGACAGCTATCGGATAGAGTAGAATCGC
AACTAATAATTTGAGAAAATAAAAATAAAGATAAAAGAGACACAAAATTTACGTGGAAAACC
Found at i:1575902 original size:2 final size:2
Alignment explanation
Indices: 1575895--1575948 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1575885 ATATAACATA
1575895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1575937 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1575949 TAATTTTTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1581719 original size:21 final size:20
Alignment explanation
Indices: 1581694--1581748 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
1581684 ATTTTGTTAG
1581694 TATTTTATTTAATTATTGTAT
1 TATTTTATTTAATTATT-TAT
*
1581715 TA-TTTAATT--TT-TTTAT
1 TATTTTATTTAATTATTTAT
*
1581731 TATTTAATTTAATTATTT
1 TATTTTATTTAATTATTT
1581749 TATTTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 9
0.69 0.08 0.23
Matches are distributed among these distances:
16 5 0.19
17 7 0.26
18 2 0.07
19 2 0.07
20 9 0.33
21 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTTATTTAATTATTTAT
Found at i:1581729 original size:29 final size:29
Alignment explanation
Indices: 1581696--1581757 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
1581686 TTTGTTAGTA
1581696 TTTTATTTAATT-ATTGT-ATTATTTAATTT
1 TTTTA-TTAATTAATT-TAATTATTTAATTT
* *
1581725 TTTTATTATTTAATTTAATTATTTTATTT
1 TTTTATTAATTAATTTAATTATTTAATTT
1581754 TTTT
1 TTTT
1581758 GCAGTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTATTAATTAATTTAATTATTTAATTT
Found at i:1581740 original size:16 final size:16
Alignment explanation
Indices: 1581698--1581740 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
1581688 TGTTAGTATT
*
1581698 TTATTTAATTATTGTA
1 TTATTTAATTTTTGTA
*
1581714 TTATTTAATTTTTTTA
1 TTATTTAATTTTTGTA
1581730 TTATTTAATTT
1 TTATTTAATTT
1581741 AATTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATTTAATTTTTGTA
Found at i:1581746 original size:16 final size:16
Alignment explanation
Indices: 1581698--1581747 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1581688 TGTTAGTATT
1581698 TTATTTAA-TTATTGTA
1 TTATTTAATTTATT-TA
*
1581714 TTATTTAATTTTTTTA
1 TTATTTAATTTATTTA
*
1581730 TTATTTAATTTAATTA
1 TTATTTAATTTATTTA
1581746 TT
1 TT
1581748 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TTATTTAATTTATTTA
Found at i:1581950 original size:20 final size:20
Alignment explanation
Indices: 1581932--1581980 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
1581922 GCGTATTTAC
1581932 AGCCGAGAGAAAAAGTTTAAA
1 AGCCGAGAG-AAAAGTTTAAA
*
1581953 AGACGAGAGAAAAGTTTAAA
1 AGCCGAGAGAAAAGTTTAAA
1581973 AGCCGAGA
1 AGCCGAGA
1581981 AATATGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.51, C:0.10, G:0.27, T:0.12
Consensus pattern (20 bp):
AGCCGAGAGAAAAGTTTAAA
Found at i:1582049 original size:13 final size:13
Alignment explanation
Indices: 1582031--1582089 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
1582021 AACTGTAAAA
1582031 AAATAAAATAATT
1 AAATAAAATAATT
1582044 AAATAAAATAA-T
1 AAATAAAATAATT
*
1582056 -AATAAAATTAAAT
1 AAATAAAA-TAATT
1582069 -AATAAAATAATT
1 AAATAAAATAATT
1582081 AAA-AAAATA
1 AAATAAAATA
1582090 CTAACAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
11 7 0.17
12 14 0.33
13 21 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:1582050 original size:21 final size:21
Alignment explanation
Indices: 1582026--1582084 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
1582016 TTTATAACTG
1582026 TAAAAAAATAA-AATAATTAAA
1 TAAAAAAATAATAA-AATTAAA
*
1582047 TAAAATAATAATAAAATTAAA
1 TAAAAAAATAATAAAATTAAA
*
1582068 TAATAAAATAATTAAAA
1 TAAAAAAATAA-TAAAA
1582085 AAATACTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAAAATAATAAAATTAAA
Found at i:1582058 original size:16 final size:16
Alignment explanation
Indices: 1582030--1582073 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1582020 TAACTGTAAA
1582030 AAAATAAAATAAT--T
1 AAAATAAAATAATAAT
1582044 -AAATAAAATAATAAT
1 AAAATAAAATAATAAT
*
1582059 AAAATTAAATAATAA
1 AAAATAAAATAATAA
1582074 AATAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 12 0.46
15 1 0.04
16 13 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATAAAATAATAAT
Found at i:1582080 original size:16 final size:17
Alignment explanation
Indices: 1582026--1582089 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 17
1582016 TTTATAACTG
*
1582026 TAAAAAAATAAAATAAT
1 TAAATAAATAAAATAAT
1582043 TAAATAAAATAATAATAAAAT
1 TAAAT-AAATAA-AAT--AAT
1582064 TAAAT-AATAAAATAAT
1 TAAATAAATAAAATAAT
*
1582080 TAAAAAAATA
1 TAAATAAATA
1582090 CTAACAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
16 7 0.17
17 8 0.20
18 9 0.22
19 8 0.20
21 8 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATAAATAAAATAAT
Found at i:1582826 original size:2 final size:2
Alignment explanation
Indices: 1582821--1582846 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1582811 TTTCAATTCA
1582821 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
1582847 GCCTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1583978 original size:17 final size:17
Alignment explanation
Indices: 1583956--1583989 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1583946 TATGTTATGT
1583956 TATATTATAAT-TATTAA
1 TATATT-TAATCTATTAA
1583973 TATATTTAATCTATTAA
1 TATATTTAATCTATTAA
1583990 GAGACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTTAATCTATTAA
Found at i:1589094 original size:14 final size:13
Alignment explanation
Indices: 1589072--1589112 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
1589062 CTAAAAGGTC
*
1589072 AAAAATATTAGAT
1 AAAAATATTAAAT
1589085 AAAAAGTATTAAAT
1 AAAAA-TATTAAAT
1589099 --AAATATTAAAT
1 AAAAATATTAAAT
1589110 AAA
1 AAA
1589113 TGAAATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 6 0.25
14 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
AAAAATATTAAAT
Found at i:1589740 original size:29 final size:29
Alignment explanation
Indices: 1589698--1589765 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
1589688 TTTCTCGTAA
1589698 GACAGTTTCCACCGTCGCTTGGCAAACAC
1 GACAGTTTCCACCGTCGCTTGGCAAACAC
1589727 GACAGTTTCCACCGTCGCTTGGCAAACAC
1 GACAGTTTCCACCGTCGCTTGGCAAACAC
1589756 GACAGTTTCC
1 GACAGTTTCC
1589766 TGTCCATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.22
Consensus pattern (29 bp):
GACAGTTTCCACCGTCGCTTGGCAAACAC
Found at i:1591563 original size:106 final size:106
Alignment explanation
Indices: 1591378--1591835 Score: 736
Period size: 106 Copynumber: 4.3 Consensus size: 106
1591368 TATTGTTCCA
* ** * * * *
1591378 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGTGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
1591443 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1591484 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
* * *
1591549 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1591590 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
*
1591655 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1591696 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCAGAAATTGGGAAATTGATTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
1591761 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1591802 AGACCAATATCCTTCGTTGTGAAGTTAAAATTGG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1591836 AAAATTGTTT
Statistics
Matches: 324, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 324 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1591748 original size:212 final size:212
Alignment explanation
Indices: 1591378--1592681 Score: 1903
Period size: 212 Copynumber: 6.3 Consensus size: 212
1591368 TATTGTTCCA
* * * * *
1591378 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTG-GAACTGTGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAG-ATTGAGAAATTGTTTATTGACAA
1591442 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
1591507 GTTGAAATTGGTTCTGAAATTGAGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
1591572 TGAACTTGCGTTGCCTCG
195 TGAACTTGCGTTGTCTGG
*
1591590 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
*
1591655 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
1591720 TTGAAATTGGCTCAGAAATTGGGAAATTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1591785 GAACTTGCGTTGTCTGG
196 GAACTTGCGTTGTCTGG
* * *
1591802 AGACCAATATCCTTCGTTGTGAAGTT-AAA----AT-T--G---GA-AAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
*
1591855 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1591920 TTGAAATT-G----G--A-----AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1591973 GAACTTGCGTTGTCTGG
196 GAACTTGCGTTGTCTGG
* *
1591990 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-----T-T--G---G-GAAATTGTTTATTGACAGC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
* *
1592043 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
1592108 TCGAAATTGGCTCTGAAATTGGGAAA-TGTTTATTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTA-TTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
1592172 TGAACTTGCGTTGTCTTG
195 TGAACTTGCGTTGTCTGG
* *
1592190 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
* *
1592255 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCGATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * * * *
1592320 TTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGTGGTCTCTTCGCCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
1592385 GAACTTGTGTTGTCTGG
196 GAACTTGCGTTGTCTGG
* * * * *
1592402 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAATTG-TTTATTGACAA
*
1592467 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
** * *
1592532 GCAGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
1592596 TGAACTTGCGTTGTCTGG
195 TGAACTTGCGTTGTCTGG
*
1592614 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
1592679 CAG
66 CAG
1592682 TTGTTTGTTG
Statistics
Matches: 1003, Mismatches: 59, Indels: 61
0.89 0.05 0.05
Matches are distributed among these distances:
188 173 0.17
189 4 0.00
193 2 0.00
195 2 0.00
199 7 0.01
200 169 0.17
201 2 0.00
204 1 0.00
205 1 0.00
206 2 0.00
207 1 0.00
211 18 0.02
212 518 0.52
213 103 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (212 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTGG
Found at i:1591896 original size:94 final size:94
Alignment explanation
Indices: 1591734--1592647 Score: 1047
Period size: 94 Copynumber: 9.1 Consensus size: 94
1591724 AATTGGCTCA
* *
1591734 GAAATTGGGAAATTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 GAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
1591799 TGGAGACCAATATCCTTCGTTGTGAAGTT
66 TGGAGTCCAATATCCTTCGTTGTGAAGTT
* *
1591828 AAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATC
1 GAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1591893 TGGAGTCCAATATCCTTCGTTGTGAAGTT
66 TGGAGTCCAATATCCTTCGTTGTGAAGTT
1591922 GAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 GAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1591987 TGGAGTCCAATATCCTTCGTTGTGAAGTT
66 TGGAGTCCAATATCCTTCGTTGTGAAGTT
* * *
1592016 GAAATTGGGAAATTGTTTATTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTC
1 GAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1592081 TGGAGTCCAATATCCTTCGCTGTGAAGTCGAAATTGGCTCT
66 TGGAGTCCAATATCCTTCG-T-T---GT-G-AA---G-T-T
*
1592122 GAAATTGGGAAA-TGTTTATTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 GAAATTGGAAAATTGTTTA-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
1592186 CTTGAGTCCAATATCCTTCGCTGTGAAGTT
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTT
1592216 GAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1 GAAATT-G----G--A---A-AA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* *
1592281 ACTTGTGTTGTCTGGAGTCCGATATCCTTCGTTGTGAAGTT
54 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
* * * *
1592322 GAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGTGGTCTCTTCGCCGTGAAGTTGA
1 GAAATT-G----G-AA-----AA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
1592387 ACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
54 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
*
1592428 GAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 GAAATT-G----G-AA-----AA-TTG-TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* **
1592493 AACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGCA
53 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
* *
1592535 GAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
1 GAAATT-G----G--A---A-AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
1592600 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTT
55 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
1592640 GAAATTGG
1 GAAATTGG
1592648 CTCTGAAATT
Statistics
Matches: 748, Mismatches: 37, Indels: 64
0.88 0.04 0.08
Matches are distributed among these distances:
94 269 0.36
95 3 0.00
96 2 0.00
99 5 0.01
100 3 0.00
101 4 0.01
102 1 0.00
104 4 0.01
105 91 0.12
106 268 0.36
107 95 0.13
108 2 0.00
111 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
GAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGTTGTGAAGTT
Found at i:1591924 original size:43 final size:43
Alignment explanation
Indices: 1591863--1592018 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 43
1591853 ACCAGCGGTC
1591863 CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
* * * ** ***
1591906 CCTTCGTTGTGAAGTTGAAATTGGAAAATTGTTTAT-T-GACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTT-G-----CG-TTATCTGGA-GTCCA-ATAT
*
1591956 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
*
1592000 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
1592019 ATTGGGAAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 24
0.66 0.14 0.19
Matches are distributed among these distances:
43 38 0.46
44 5 0.06
45 5 0.06
46 2 0.02
48 2 0.02
49 5 0.06
50 6 0.07
51 20 0.24
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
Found at i:1592200 original size:106 final size:105
Alignment explanation
Indices: 1592015--1592681 Score: 1064
Period size: 106 Copynumber: 6.3 Consensus size: 105
1592005 GTTGTGAAGT
*
1592015 TGAAATTGGGAAATTGTTTATTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAA-TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
*
1592080 CTGGAGTCCAATATCCTTCGCTGTGAAGTCGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
1592121 TGAAATTGGGAAATGTTTATTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATGTTTA-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
*
1592186 CTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
1592227 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
* *
1592292 CTGGAGTCCGATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * * *
1592333 TGAAATTGGGAAGTTATTTATTGACAACCAGTGGTCTCTTCGCCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
*
1592398 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
1592439 TGAAATTGGGAAGTTGTTTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTG
1 TGAAATTGGGAA-ATG-TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTG
* **
1592504 TCTGGAGTCCAATATCCTTCGTTGTGAAGCAGAAATTGGCTC
64 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
1592546 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTC
1592611 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
1592651 TGAAATTGAGAAATTGTTTATTGACAACCAG
1 TGAAATTGGGAAA-TGTTTATTGACAACCAG
1592682 TTGTTTGTTG
Statistics
Matches: 526, Mismatches: 31, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
105 104 0.20
106 321 0.61
107 101 0.19
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTC
TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
Found at i:1596541 original size:14 final size:13
Alignment explanation
Indices: 1596519--1596559 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
1596509 CTAAAAGGTC
*
1596519 AAAAATATTAGAT
1 AAAAATATTAAAT
1596532 AAAAAGTATTAAAT
1 AAAAA-TATTAAAT
1596546 --AAATATTAAAT
1 AAAAATATTAAAT
1596557 AAA
1 AAA
1596560 TGAAATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 6 0.25
14 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
AAAAATATTAAAT
Found at i:1597186 original size:29 final size:29
Alignment explanation
Indices: 1597144--1597211 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
1597134 TTCCTCGTAA
1597144 GACAGTTTCCACCGTCGCTTGGCAAACAC
1 GACAGTTTCCACCGTCGCTTGGCAAACAC
1597173 GACAGTTTCCACCGTCGCTTGGCAAACAC
1 GACAGTTTCCACCGTCGCTTGGCAAACAC
1597202 GACAGTTTCC
1 GACAGTTTCC
1597212 TGTCCATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.22
Consensus pattern (29 bp):
GACAGTTTCCACCGTCGCTTGGCAAACAC
Found at i:1606967 original size:13 final size:13
Alignment explanation
Indices: 1606951--1607010 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
1606941 TAACTGCAAA
* *
1606951 AAATAACATATTT
1 AAATAAAATAATT
1606964 AAATAAAATAATT
1 AAATAAAATAATT
1606977 AAATAATAA-AA-T
1 AAATAA-AATAATT
*
1606989 -AATACAATAATT
1 AAATAAAATAATT
1607001 AAATAAAATA
1 AAATAAAATA
1607011 CTAACAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 2 0.05
11 6 0.15
12 2 0.05
13 27 0.69
14 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:1606982 original size:8 final size:8
Alignment explanation
Indices: 1606969--1607006 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1606959 TATTTAAATA
1606969 AAATAATT
1 AAATAATT
*
1606977 AAATAATA
1 AAATAATT
1606985 AAATAA-T
1 AAATAATT
1606992 ACAATAATT
1 A-AATAATT
1607001 AAATAA
1 AAATAA
1607007 AATACTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 23 0.88
9 2 0.08
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (8 bp):
AAATAATT
Found at i:1606986 original size:16 final size:16
Alignment explanation
Indices: 1606965--1607038 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
1606955 AACATATTTA
1606965 AATAAAATAATTA-AAT
1 AATAAAATAA-TACAAT
1606981 AATAAAATAATACAAT
1 AATAAAATAATACAAT
* * * *
1606997 AATTAAATAAAATACT
1 AATAAAATAATACAAT
* * *
1607013 AACAAAATATTAAATAT
1 AATAAAATAATACA-AT
1607030 AATAAAATA
1 AATAAAATA
1607039 TACCTTATAA
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
15 2 0.04
16 34 0.76
17 9 0.20
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAAAATAATACAAT
Found at i:1607021 original size:24 final size:24
Alignment explanation
Indices: 1606968--1607034 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
1606958 ATATTTAAAT
*
1606968 AAAATAATTAAATAATAA-AATAAT
1 AAAATAATTAAATAA-AATAATAAC
* *
1606992 ACAATAATTAAATAAAATACTAAC
1 AAAATAATTAAATAAAATAATAAC
*
1607016 AAAAT-ATTAAATATAATAA
1 AAAATAATTAAATAAAATAA
1607035 AATATACCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.39
24 22 0.61
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATAATTAAATAAAATAATAAC
Found at i:1607028 original size:23 final size:21
Alignment explanation
Indices: 1606981--1607034 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
1606971 ATAATTAAAT
*
1606981 AATAAAATAATACAATAATTA
1 AATAAAATAATACAAAAATTA
*
1607002 AATAAAATACTAACAAAATATTA
1 AATAAAATAAT-ACAAAA-ATTA
*
1607025 AATATAATAA
1 AATAAAATAA
1607035 AATATACCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.37
22 5 0.19
23 12 0.44
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAAAATAATACAAAAATTA
Found at i:1610249 original size:870 final size:870
Alignment explanation
Indices: 1608570--1610310 Score: 3473
Period size: 870 Copynumber: 2.0 Consensus size: 870
1608560 GACATAACCT
1608570 TTAGTTGGTGTAATTGAATTGCTGCAAGAGAAAGTAGCTTTTTCTTCAGGAAAAACCAATGAAGA
1 TTAGTTGGTGTAATTGAATTGCTGCAAGAGAAAGTAGCTTTTTCTTCAGGAAAAACCAATGAAGA
1608635 TAGTACAACTAAGGACGATTCTGCCAAAAGAAGGAATGAACAAATCGAAGAACAACAAAATCATA
66 TAGTACAACTAAGGACGATTCTGCCAAAAGAAGGAATGAACAAATCGAAGAACAACAAAATCATA
1608700 CTGCCTCTATTGCAAATGATTCTCAAGTCAAAGATCTAACAAAGGAAAACATAGAGAAAAAAGAG
131 CTGCCTCTATTGCAAATGATTCTCAAGTCAAAGATCTAACAAAGGAAAACATAGAGAAAAAAGAG
1608765 GCTCATTAAGCCCTCTCCATAGTGGATCAAACCAGCTCAGACCCAAATGTAGAAACTGTTAAGAA
196 GCTCATTAAGCCCTCTCCATAGTGGATCAAACCAGCTCAGACCCAAATGTAGAAACTGTTAAGAA
1608830 CAAAAGTGAATCTTCCTCGACTATTCCTAAAAAAGAACGAGGAATGCTTGCCAAAGAGAAAACAA
261 CAAAAGTGAATCTTCCTCGACTATTCCTAAAAAAGAACGAGGAATGCTTGCCAAAGAGAAAACAA
1608895 AAATAGATATTTCAGTTTCCTCAAACAAATTCCAGATTCTTAATGATACTGAGGAAATTCTTCCT
326 AAATAGATATTTCAGTTTCCTCAAACAAATTCCAGATTCTTAATGATACTGAGGAAATTCTTCCT
*
1608960 GCTTCAATGGAAATTCAAAAGAAATCTCGTGCATCTTCAAAAGGAGTAGCTGCCATAGTAAAGGA
391 GCTTCAATGGAAATTCAAAAGAAACCTCGTGCATCTTCAAAAGGAGTAGCTGCCATAGTAAAGGA
1609025 GCTTAAGTCGAAAAAGAAAGAAAAGCAAGATAACCAAAAGTGTTTTGTAGTTGGTGGTGGAGGGG
456 GCTTAAGTCGAAAAAGAAAGAAAAGCAAGATAACCAAAAGTGTTTTGTAGTTGGTGGTGGAGGGG
1609090 AAATGGAAACTCCATCCTAACGAACCTAGCTTTTTGGAATGTAAGAAGACTCAACTGTCCTCATA
521 AAATGGAAACTCCATCCTAACGAACCTAGCTTTTTGGAATGTAAGAAGACTCAACTGTCCTCATA
1609155 AGCAAGCAATAGTTATTAGAAGAGCTAACCAAAATAAAATTGACGTGTTCTGTTTGATGGAGACA
586 AGCAAGCAATAGTTATTAGAAGAGCTAACCAAAATAAAATTGACGTGTTCTGTTTGATGGAGACA
1609220 AGAGTGAAGGAAGACAAGTCTGTAAATATCCTAGGTAACAAATTTCATGGCTGGAATGCAGAAAC
651 AGAGTGAAGGAAGACAAGTCTGTAAATATCCTAGGTAACAAATTTCATGGCTGGAATGCAGAAAC
1609285 TAACTATGACCAGGCCTTAAATGGTAGAATATGGATTCTTTAGAGGAAAGGTTTGGACTTCTCGT
716 TAACTATGACCAGGCCTTAAATGGTAGAATATGGATTCTTTAGAGGAAAGGTTTGGACTTCTCGT
1609350 TAATTAAATCTTCATACCAGTGTATTTCTATCTGAGGGATGTTCCAGAACACTCATATAGTCATC
781 TAATTAAATCTTCATACCAGTGTATTTCTATCTGAGGGATGTTCCAGAACACTCATATAGTCATC
1609415 TCAGCAGTATACGACAACAATGACG
846 TCAGCAGTATACGACAACAATGACG
1609440 TTAGTTGGTGTAATTGAATTGCTGCAAGAGAAAGTAGCTTTTTCTTCAGGAAAAACCAATGAAGA
1 TTAGTTGGTGTAATTGAATTGCTGCAAGAGAAAGTAGCTTTTTCTTCAGGAAAAACCAATGAAGA
1609505 TAGTACAACTAAGGACGATTCTGCCAAAAGAAGGAATGAACAAATCGAAGAACAACAAAATCATA
66 TAGTACAACTAAGGACGATTCTGCCAAAAGAAGGAATGAACAAATCGAAGAACAACAAAATCATA
1609570 CTGCCTCTATTGCAAATGATTCTCAAGTCAAAGATCTAACAAAGGAAAACATAGAGAAAAAAGAG
131 CTGCCTCTATTGCAAATGATTCTCAAGTCAAAGATCTAACAAAGGAAAACATAGAGAAAAAAGAG
1609635 GCTCATTAAGCCCTCTCCATAGTGGATCAAACCAGCTCAGACCCAAATGTAGAAACTGTTAAGAA
196 GCTCATTAAGCCCTCTCCATAGTGGATCAAACCAGCTCAGACCCAAATGTAGAAACTGTTAAGAA
1609700 CAAAAGTGAATCTTCCTCGACTATTCCTAAAAAAGAACGAGGAATGCTTGCCAAAGAGAAAACAA
261 CAAAAGTGAATCTTCCTCGACTATTCCTAAAAAAGAACGAGGAATGCTTGCCAAAGAGAAAACAA
1609765 AAATAGATATTTCAGTTTCCTCAAACAAATTCCAGATTCTTAATGATACTGAGGAAATTCTTCCT
326 AAATAGATATTTCAGTTTCCTCAAACAAATTCCAGATTCTTAATGATACTGAGGAAATTCTTCCT
1609830 GCTTCAATGGAAATTCAAAAGAAACCTCGTGCATCTTCAAAAGGAGTAGCTGCCATAGTAAAGGA
391 GCTTCAATGGAAATTCAAAAGAAACCTCGTGCATCTTCAAAAGGAGTAGCTGCCATAGTAAAGGA
1609895 GCTTAAGTCGAAAAAGAAAGAAAAGCAAGATAACCAAAAGTGTTTTGTAGTTGGTGGTGGAGGGG
456 GCTTAAGTCGAAAAAGAAAGAAAAGCAAGATAACCAAAAGTGTTTTGTAGTTGGTGGTGGAGGGG
1609960 AAATGGAAACTCCATCCTAACGAACCTAGCTTTTTGGAATGTAAGAAGACTCAACTGTCCTCATA
521 AAATGGAAACTCCATCCTAACGAACCTAGCTTTTTGGAATGTAAGAAGACTCAACTGTCCTCATA
1610025 AGCAAGCAATAGTTATTAGAAGAGCTAACCAAAATAAAATTGACGTGTTCTGTTTGATGGAGACA
586 AGCAAGCAATAGTTATTAGAAGAGCTAACCAAAATAAAATTGACGTGTTCTGTTTGATGGAGACA
1610090 AGAGTGAAGGAAGACAAGTCTGTAAATATCCTAGGTAACAAATTTCATGGCTGGAATGCAGAAAC
651 AGAGTGAAGGAAGACAAGTCTGTAAATATCCTAGGTAACAAATTTCATGGCTGGAATGCAGAAAC
1610155 TAACTATGACCAGGCCTTAAATGGTAGAATATGGATTCTTTAGAGGAAAGGTTTGGACTTCTCGT
716 TAACTATGACCAGGCCTTAAATGGTAGAATATGGATTCTTTAGAGGAAAGGTTTGGACTTCTCGT
1610220 TAATTAAATCTTCATACCAGTGTATTTCTATCTGAGGGATGTTCCAGAACACTCATATAGTCATC
781 TAATTAAATCTTCATACCAGTGTATTTCTATCTGAGGGATGTTCCAGAACACTCATATAGTCATC
1610285 TCAGCAGTATACGACAACAATGACG
846 TCAGCAGTATACGACAACAATGACG
1610310 T
1 T
1610311 AATTACCAGA
Statistics
Matches: 870, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
870 870 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (870 bp):
TTAGTTGGTGTAATTGAATTGCTGCAAGAGAAAGTAGCTTTTTCTTCAGGAAAAACCAATGAAGA
TAGTACAACTAAGGACGATTCTGCCAAAAGAAGGAATGAACAAATCGAAGAACAACAAAATCATA
CTGCCTCTATTGCAAATGATTCTCAAGTCAAAGATCTAACAAAGGAAAACATAGAGAAAAAAGAG
GCTCATTAAGCCCTCTCCATAGTGGATCAAACCAGCTCAGACCCAAATGTAGAAACTGTTAAGAA
CAAAAGTGAATCTTCCTCGACTATTCCTAAAAAAGAACGAGGAATGCTTGCCAAAGAGAAAACAA
AAATAGATATTTCAGTTTCCTCAAACAAATTCCAGATTCTTAATGATACTGAGGAAATTCTTCCT
GCTTCAATGGAAATTCAAAAGAAACCTCGTGCATCTTCAAAAGGAGTAGCTGCCATAGTAAAGGA
GCTTAAGTCGAAAAAGAAAGAAAAGCAAGATAACCAAAAGTGTTTTGTAGTTGGTGGTGGAGGGG
AAATGGAAACTCCATCCTAACGAACCTAGCTTTTTGGAATGTAAGAAGACTCAACTGTCCTCATA
AGCAAGCAATAGTTATTAGAAGAGCTAACCAAAATAAAATTGACGTGTTCTGTTTGATGGAGACA
AGAGTGAAGGAAGACAAGTCTGTAAATATCCTAGGTAACAAATTTCATGGCTGGAATGCAGAAAC
TAACTATGACCAGGCCTTAAATGGTAGAATATGGATTCTTTAGAGGAAAGGTTTGGACTTCTCGT
TAATTAAATCTTCATACCAGTGTATTTCTATCTGAGGGATGTTCCAGAACACTCATATAGTCATC
TCAGCAGTATACGACAACAATGACG
Found at i:1611658 original size:12 final size:12
Alignment explanation
Indices: 1611641--1611665 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1611631 TAAAGTTGAT
1611641 AAGTTGAATTTG
1 AAGTTGAATTTG
1611653 AAGTTGAATTTG
1 AAGTTGAATTTG
1611665 A
1 A
1611666 CTTATCAATA
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:1611960 original size:22 final size:22
Alignment explanation
Indices: 1611907--1611985 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
1611897 TTCTGGGCAA
*
1611907 GGGGAATCAGTACCCATTCAA-
1 GGGGAATCGGTACCCATTCAAT
*
1611928 -GGGAATCGGTACCAATTCAAT
1 GGGGAATCGGTACCCATTCAAT
*
1611949 GGGGAATTGGTACCCATTCAAT
1 GGGGAATCGGTACCCATTCAAT
*
1611971 GGGGAATCGATACCC
1 GGGGAATCGGTACCC
1611986 CCCTCAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 18 0.36
22 32 0.64
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (22 bp):
GGGGAATCGGTACCCATTCAAT
Found at i:1612527 original size:20 final size:20
Alignment explanation
Indices: 1612499--1612544 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1612489 ATAAGTCGAG
*
1612499 AGATATAGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
1612519 AGATGTAGGGAAATAGAAAT
1 AGATGTAGGGAAATAGAAAT
1612539 AGATGT
1 AGATGT
1612545 TTATAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (20 bp):
AGATGTAGGGAAATAGAAAT
Found at i:1613580 original size:103 final size:103
Alignment explanation
Indices: 1613360--1613572 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
1613350 GGGTCTACGC
1613360 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGACTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGACTGGTGAGACACATACTTGAT
* * *
1613425 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTATTAAGGAATGATATGT
*
1613463 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGACTGGTGAGACACATACTTGAT
*
1613528 CCCTAGTATATGTATATGATTATTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTATTAAGGAATGATATGT
1613566 GGTCCTT
1 GGTCCTT
1613573 ATGGACATTA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGACTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTATTAAGGAATGATATGT
Found at i:1613622 original size:23 final size:23
Alignment explanation
Indices: 1613589--1613656 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1613579 ATTATTATAT
1613589 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
1613612 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1613635 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1613657 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1617176 original size:16 final size:16
Alignment explanation
Indices: 1617147--1617185 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1617137 TAATTTTGTG
1617147 ATAATTA-T-TTTATT
1 ATAATTATTGTTTATT
*
1617161 ATATTTATTGTTTATT
1 ATAATTATTGTTTATT
1617177 ATAATTATT
1 ATAATTATT
1617186 TGAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
16 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
ATAATTATTGTTTATT
Found at i:1619012 original size:25 final size:25
Alignment explanation
Indices: 1618958--1619009 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
1618948 TTATATCTGC
*
1618958 AAAA-AAATTAAATAAGTAAAATATT
1 AAAATAAATTAAAT-AGCAAAATATT
1618983 -AAATAAATTAAATA-CAAAATATT
1 AAAATAAATTAAATAGCAAAATATT
1619006 AAAA
1 AAAA
1619010 ATATAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
23 8 0.33
24 7 0.29
25 9 0.38
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATAAATTAAATAGCAAAATATT
Found at i:1620008 original size:18 final size:18
Alignment explanation
Indices: 1619982--1620016 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1619972 TGCTTTAAGT
*
1619982 TGATGTGACGTCACGTGC
1 TGATATGACGTCACGTGC
1620000 TGATATGACGTCACGTG
1 TGATATGACGTCACGTG
1620017 TTAAAAGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (18 bp):
TGATATGACGTCACGTGC
Found at i:1620687 original size:21 final size:21
Alignment explanation
Indices: 1620658--1620705 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
1620648 ACTTTACATT
*
1620658 TTTTTATTAAATTTTATTCAC
1 TTTTAATTAAATTTTATTCAC
** * *
1620679 TTTTAATTATTTTTTATTGAT
1 TTTTAATTAAATTTTATTCAC
1620700 TTTTAA
1 TTTTAA
1620706 ACATATGGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAATTAAATTTTATTCAC
Found at i:1622296 original size:18 final size:18
Alignment explanation
Indices: 1622273--1622316 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
1622263 GATGGTAAAA
1622273 TATGTTGAAATTCAATAT
1 TATGTTGAAATTCAATAT
1622291 TATGTTGAAATTCAATAT
1 TATGTTGAAATTCAATAT
1622309 TAT-TTGAA
1 TATGTTGAA
1622317 CATGATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (18 bp):
TATGTTGAAATTCAATAT
Found at i:1628715 original size:35 final size:34
Alignment explanation
Indices: 1628650--1628715 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
1628640 TTTTAAATAA
*
1628650 ATTTTTTATAATTTTTTTATTTTGATTCCTATAT
1 ATTTTTTATAATTTTTTTATTTTGAGTCCTATAT
*
1628684 ATTTTTTATTCATTTTTTTCATTTTG-GTCCTA
1 ATTTTTTA-TAATTTTTTT-ATTTTGAGTCCTA
1628716 ATAGACACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 8 0.29
35 14 0.50
36 6 0.21
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.67
Consensus pattern (34 bp):
ATTTTTTATAATTTTTTTATTTTGAGTCCTATAT
Found at i:1633798 original size:3 final size:3
Alignment explanation
Indices: 1633790--1633849 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
1633780 CAATCTCCAT
* * * *** *
1633790 TTC TTC TTC TTG TTC TTC TTC TTC TTC TTC ATA GAA TTC TTC TTC GTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1633838 TTC TTC TTC TTC
1 TTC TTC TTC TTC
1633850 ATCATCATCA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.07, C:0.28, G:0.05, T:0.60
Consensus pattern (3 bp):
TTC
Found at i:1641464 original size:120 final size:120
Alignment explanation
Indices: 1641322--1641563 Score: 371
Period size: 120 Copynumber: 2.0 Consensus size: 120
1641312 AGGCGGCGGC
* *
1641322 GGAGGGGATACATGAGATCCAGCTCTAATAGATGTTGGAGGAG-GGAGAGGGGGAGGTGGAGGAG
1 GGAGGGGATACATGAGATCCAGCTCTAATAGATGCTGGAGGAGTGG-GAGGGGGAGGGGGAGGAG
* **
1641386 GTACAGATTTAGAAGC-CAAGTTTTTCTTCAAAAGTGGCATTGGAGGGGGAGGTGGT
65 GTACAGATTTAGAAGCTCAA-TTTTTCTTCAAAAATGGCATTGGAGCAGGAGGTGGT
* *
1641442 GGAGGGGATACATGAGATCCAGCTCTGATAGGTGCTGGAGGAGTGGGAGGGGGAGGGGGAGGAGG
1 GGAGGGGATACATGAGATCCAGCTCTAATAGATGCTGGAGGAGTGGGAGGGGGAGGGGGAGGAGG
* *
1641507 TGCAGATTTAGAAGCTGAATTTTTCTTCAAAAATGGCATTGGAGCAGGAGGTGGT
66 TACAGATTTAGAAGCTCAATTTTTCTTCAAAAATGGCATTGGAGCAGGAGGTGGT
1641562 GG
1 GG
1641564 TGGTGGTCGA
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
120 107 0.96
121 4 0.04
ACGTcount: A:0.26, C:0.10, G:0.43, T:0.21
Consensus pattern (120 bp):
GGAGGGGATACATGAGATCCAGCTCTAATAGATGCTGGAGGAGTGGGAGGGGGAGGGGGAGGAGG
TACAGATTTAGAAGCTCAATTTTTCTTCAAAAATGGCATTGGAGCAGGAGGTGGT
Found at i:1647457 original size:166 final size:166
Alignment explanation
Indices: 1647183--1647514 Score: 664
Period size: 166 Copynumber: 2.0 Consensus size: 166
1647173 AAATCCGGTA
1647183 GTAATAACTTTGATTTTGGGTGGTTGGGCTACAATTAATTTATAGTATATATTTAAGTGGAAGAA
1 GTAATAACTTTGATTTTGGGTGGTTGGGCTACAATTAATTTATAGTATATATTTAAGTGGAAGAA
1647248 CAAAAGCCTGTGGCCATTGATGTCCCTTCAAAGTTATGTGATTAAAGGAGTTTATGGAACAATGC
66 CAAAAGCCTGTGGCCATTGATGTCCCTTCAAAGTTATGTGATTAAAGGAGTTTATGGAACAATGC
1647313 ATAGTGATTACCCATCATGTATAATATATTATTTCC
131 ATAGTGATTACCCATCATGTATAATATATTATTTCC
1647349 GTAATAACTTTGATTTTGGGTGGTTGGGCTACAATTAATTTATAGTATATATTTAAGTGGAAGAA
1 GTAATAACTTTGATTTTGGGTGGTTGGGCTACAATTAATTTATAGTATATATTTAAGTGGAAGAA
1647414 CAAAAGCCTGTGGCCATTGATGTCCCTTCAAAGTTATGTGATTAAAGGAGTTTATGGAACAATGC
66 CAAAAGCCTGTGGCCATTGATGTCCCTTCAAAGTTATGTGATTAAAGGAGTTTATGGAACAATGC
1647479 ATAGTGATTACCCATCATGTATAATATATTATTTCC
131 ATAGTGATTACCCATCATGTATAATATATTATTTCC
1647515 TGCTCTTCCA
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (166 bp):
GTAATAACTTTGATTTTGGGTGGTTGGGCTACAATTAATTTATAGTATATATTTAAGTGGAAGAA
CAAAAGCCTGTGGCCATTGATGTCCCTTCAAAGTTATGTGATTAAAGGAGTTTATGGAACAATGC
ATAGTGATTACCCATCATGTATAATATATTATTTCC
Found at i:1649271 original size:21 final size:21
Alignment explanation
Indices: 1649245--1649294 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1649235 TAATCATATT
1649245 ATTTTTTTTGCAATTTTTCGG
1 ATTTTTTTTGCAATTTTTCGG
* * *
1649266 ATTTTTTTTGTATTTTTTCTG
1 ATTTTTTTTGCAATTTTTCGG
1649287 ATTTTTTT
1 ATTTTTTT
1649295 ATATTTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.06, G:0.10, T:0.72
Consensus pattern (21 bp):
ATTTTTTTTGCAATTTTTCGG
Found at i:1652099 original size:18 final size:18
Alignment explanation
Indices: 1652073--1652121 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
1652063 GGAATGTTTA
*
1652073 TGAATGAATTGAAATATG
1 TGAAGGAATTGAAATATG
1652091 TGAAGGAATT-AGAATATG
1 TGAAGGAATTGA-AATATG
*
1652109 T--AGAAATTGAAAT
1 TGAAGGAATTGAAAT
1652122 CTGAATCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 9 0.33
17 2 0.07
18 16 0.59
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (18 bp):
TGAAGGAATTGAAATATG
Found at i:1660594 original size:24 final size:24
Alignment explanation
Indices: 1660562--1660618 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
1660552 GGATTGTGGG
1660562 ATTCCCATGGGATGGGAATCACAC
1 ATTCCCATGGGATGGGAATCACAC
1660586 ATTCCCATGGGATGGGAATCACAC
1 ATTCCCATGGGATGGGAATCACAC
1660610 ATTCCCATG
1 ATTCCCATG
1660619 TTTGGTTGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (24 bp):
ATTCCCATGGGATGGGAATCACAC
Found at i:1665609 original size:37 final size:37
Alignment explanation
Indices: 1665536--1665609 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
1665526 TTATATTTTA
*
1665536 AATTTTGTAAAAAAAATTATATAAATATTATGAATTT
1 AATTTTGTAAAAAAAATTATATAAATATTATCAATTT
* * *
1665573 AATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTGTAAAAAAAATTATATAAATATTAT-CAATTT
1665610 GTAATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
AATTTTGTAAAAAAAATTATATAAATATTATCAATTT
Found at i:1665771 original size:18 final size:19
Alignment explanation
Indices: 1665748--1665785 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1665738 CCCAGTAATC
1665748 TTATTCC-CTGGTAATCTT
1 TTATTCCACTGGTAATCTT
1665766 TTATTCCTACTGGTAATCTT
1 TTATTCC-ACTGGTAATCTT
1665786 ACATTCTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (19 bp):
TTATTCCACTGGTAATCTT
Found at i:1667481 original size:11 final size:11
Alignment explanation
Indices: 1667465--1667499 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1667455 TGACTTTGTT
1667465 TATCATTTTAC
1 TATCATTTTAC
*
1667476 TATCATTTCAC
1 TATCATTTTAC
1667487 TATCATTTTAC
1 TATCATTTTAC
1667498 TA
1 TA
1667500 AAAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (11 bp):
TATCATTTTAC
Found at i:1668319 original size:21 final size:21
Alignment explanation
Indices: 1668295--1668334 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1668285 TTTTTATTAT
* *
1668295 TTTATTAAAAGAATTGGTATG
1 TTTAGTAAAACAATTGGTATG
*
1668316 TTTAGTAAAACACTTGGTA
1 TTTAGTAAAACAATTGGTA
1668335 CATTTAGACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGTAAAACAATTGGTATG
Found at i:1672038 original size:75 final size:76
Alignment explanation
Indices: 1671938--1672133 Score: 281
Period size: 75 Copynumber: 2.6 Consensus size: 76
1671928 GTTGTACAAG
* * * *
1671938 GGGGGAATCGGTACCCCCT-TGGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-
1 GGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGC
**
1672001 CAAAACTGTTTA
65 CAAAACCATTTA
* *
1672013 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
1672077 AAAACCATTTA
66 AAAACCATTTA
*
1672088 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
1672134 ATCTGTAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
74 37 0.34
75 48 0.44
76 24 0.22
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
AAAACCATTTA
Found at i:1674767 original size:22 final size:22
Alignment explanation
Indices: 1674708--1674767 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
1674698 GGGGTATCGA
*
1674708 TTCCCCTGTGGGGGGGAATCAG
1 TTCCCCTATGGGGGGGAATCAG
* **
1674730 TTCCCCTTTAAAGGGGGAATCAG
1 TTCCCCTAT-GGGGGGGAATCAG
1674753 TT-CCCTCATGGGGGG
1 TTCCCCT-ATGGGGGG
1674768 ATCGATTCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (22 bp):
TTCCCCTATGGGGGGGAATCAG
Found at i:1678632 original size:22 final size:21
Alignment explanation
Indices: 1678590--1678629 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1678580 GAGTTTGTTT
*
1678590 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1678611 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1678630 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1680640 original size:76 final size:77
Alignment explanation
Indices: 1680554--1680752 Score: 280
Period size: 75 Copynumber: 2.6 Consensus size: 77
1680544 CCGTTGTACA
* * * *
1680554 AGGGGGGAATCGGTACCCCCT-TGGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
**
1680618 G-CAAAACTGTTT
65 GCCAAAACCATTT
* *
1680630 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAG
1680694 CCAAAACCATTT
66 CCAAAACCATTT
*
1680706 A-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
1680753 ATCTGTAATT
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
75 58 0.52
76 52 0.47
77 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAG
CCAAAACCATTT
Found at i:1680683 original size:75 final size:77
Alignment explanation
Indices: 1680554--1680762 Score: 282
Period size: 76 Copynumber: 2.8 Consensus size: 77
1680544 CCGTTGTACA
* * * *
1680554 AGGGGGGAATCGGTACCCCCT-TGGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGA
**
1680618 G-CAAAACTGTTT
65 GCCAAAACCATTT
* *
1680630 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
1680694 CCAAAACCATTT
66 CCAAAACCATTT
* * *
1680706 A-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
1680763 TTTGGCTTTG
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
75 58 0.49
76 59 0.50
77 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.24
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
CCAAAACCATTT
Found at i:1682274 original size:12 final size:13
Alignment explanation
Indices: 1682259--1682289 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1682249 ATAATTGAAT
1682259 ATTTTTA-AATTA
1 ATTTTTATAATTA
1682271 ATTTTTATAATTA
1 ATTTTTATAATTA
1682284 ATTTTT
1 ATTTTT
1682290 TATTAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTTTATAATTA
Found at i:1682291 original size:14 final size:14
Alignment explanation
Indices: 1682248--1682292 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
1682238 TTTATAAATA
1682248 TATAATTGAATATTTT
1 TATAATT-AAT-TTTT
1682264 TA-AATTAA-TTTT
1 TATAATTAATTTTT
1682276 TATAATTAATTTTT
1 TATAATTAATTTTT
1682290 TAT
1 TAT
1682293 TAATGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.22
13 6 0.22
14 9 0.33
15 4 0.15
16 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TATAATTAATTTTT
Found at i:1688730 original size:2 final size:2
Alignment explanation
Indices: 1688723--1688763 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1688713 TAGAAACTGA
1688723 AT AT 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 AT AT A
1688764 CTGTTTTAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1691852 original size:22 final size:22
Alignment explanation
Indices: 1691811--1691852 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1691801 ACCTTCATTT
*
1691811 AAATATATGTAGATTCTATTAA
1 AAATATATGTAAATTCTATTAA
* *
1691833 AAATATATTTAAATTTTATT
1 AAATATATGTAAATTCTATT
1691853 TTTTAATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
AAATATATGTAAATTCTATTAA
Found at i:1702584 original size:37 final size:37
Alignment explanation
Indices: 1702533--1702609 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
1702523 TATGTTTCAG
* *
1702533 AAAGAAAACAAGTACTAAGACAATATAGATGAATCCC
1 AAAGAAAACAAGTACCAAGACAATATAGATGAATACC
* *
1702570 AAAGAAAACTAGTACCAAGACAATATATATGAATACC
1 AAAGAAAACAAGTACCAAGACAATATAGATGAATACC
1702607 AAA
1 AAA
1702610 CCTTACAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.17
Consensus pattern (37 bp):
AAAGAAAACAAGTACCAAGACAATATAGATGAATACC
Found at i:1705476 original size:15 final size:15
Alignment explanation
Indices: 1705441--1705475 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
1705431 TGACCAAGGA
1705441 TGAAAACTCCAAGTT
1 TGAAAACTCCAAGTT
*
1705456 TGAAAACT-CAATTT
1 TGAAAACTCCAAGTT
1705470 TGAAAA
1 TGAAAA
1705476 AAATTAGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (15 bp):
TGAAAACTCCAAGTT
Found at i:1709035 original size:22 final size:22
Alignment explanation
Indices: 1709007--1709050 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1708997 TGAGTCTATT
1709007 GAGGTTGTGCACTAATGCTGTC
1 GAGGTTGTGCACTAATGCTGTC
1709029 GAGGTTGTGCACTAATGCTGTC
1 GAGGTTGTGCACTAATGCTGTC
1709051 ACCACAGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (22 bp):
GAGGTTGTGCACTAATGCTGTC
Found at i:1709094 original size:23 final size:23
Alignment explanation
Indices: 1709060--1709128 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1709050 CACCACAGCT
*
1709060 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
1709083 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
1709106 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
1709129 TATAAGATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1709999 original size:21 final size:21
Alignment explanation
Indices: 1709970--1710011 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1709960 ATTCAAAATT
* *
1709970 ATTCTTAGTGCATCGGTACAC
1 ATTCATAGTGCATCGATACAC
1709991 ATTCATAGTGCATCGATACAC
1 ATTCATAGTGCATCGATACAC
1710012 CTTCCCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (21 bp):
ATTCATAGTGCATCGATACAC
Found at i:1714229 original size:23 final size:23
Alignment explanation
Indices: 1714195--1714263 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
1714185 CACCACAGCT
*
1714195 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
1714218 CGTAGAATTGCACC-ATAGTGCCG
1 CGTAGAAATGCACCGA-AGTGCCA
*
1714241 CGTAGAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
1714264 TATAATATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 36 0.95
24 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1727757 original size:84 final size:83
Alignment explanation
Indices: 1727600--1727772 Score: 201
Period size: 84 Copynumber: 2.1 Consensus size: 83
1727590 TTCTAAAAAT
* *
1727600 GCCGCAAAATGTCGATATATAGCGGCTTTTTTAGAAAAAACGCCGCAAAAGGTTAGATATTTAAC
1 GCCGCAAAAAGTCGATATATAGCGGCGTTTTTAGAAAAAACGCCGCAAAAGGTTA-ATATTTAAC
1727665 GGCATTTTTTGACACAAAC
65 GGCATTTTTTGACACAAAC
*
1727684 -CCGCAAAAAGTC-ATATCTATAGCGGCGTTTTT-GAAACAAATGCCGCAAAAGGTT-ATATTAA
1 GCCGCAAAAAGTCGATA--TATAGCGGCGTTTTTAGAAA-AAACGCCGCAAAAGGTTAATATT--
** * *
1727745 TAGTGGCGTTTTTTGATACAAAC
61 TAACGGCATTTTTTGACACAAAC
1727768 GCCGC
1 GCCGC
1727773 TAATTACCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
82 8 0.11
83 15 0.20
84 49 0.64
85 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (83 bp):
GCCGCAAAAAGTCGATATATAGCGGCGTTTTTAGAAAAAACGCCGCAAAAGGTTAATATTTAACG
GCATTTTTTGACACAAAC
Found at i:1727772 original size:43 final size:42
Alignment explanation
Indices: 1727578--1727772 Score: 161
Period size: 42 Copynumber: 4.7 Consensus size: 42
1727568 CCGCTAAAGT
* ** * * *
1727578 TAGCGGCGTTTGTTCTAA-AAATGCCGCAAAATGTCGATA-TA
1 TAGCGGCGTTTTTTGAAACAAACGCCGCAAAAGGT-TATATTA
1727619 TAGCGGC-TTTTTTAGAAA-AAACGCCGCAAAAGGTTAGATATT-
1 TAGCGGCGTTTTTT-GAAACAAACGCCGCAAAAGGTT--ATATTA
* * * * *
1727661 TAACGGCATTTTTTGACACAAAC-CCGCAAAAAGTCATATCTA
1 TAGCGGCGTTTTTTGAAACAAACGCCGCAAAAGGTTATAT-TA
*
1727703 TAGCGGCG-TTTTTGAAACAAATGCCGCAAAAGGTTATATTAA
1 TAGCGGCGTTTTTTGAAACAAACGCCGCAAAAGGTTATATT-A
* *
1727745 TAGTGGCGTTTTTTGATACAAACGCCGC
1 TAGCGGCGTTTTTTGAAACAAACGCCGC
1727773 TAATTACCAT
Statistics
Matches: 124, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
40 9 0.07
41 37 0.30
42 50 0.40
43 28 0.23
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (42 bp):
TAGCGGCGTTTTTTGAAACAAACGCCGCAAAAGGTTATATTA
Found at i:1732758 original size:41 final size:41
Alignment explanation
Indices: 1732650--1732779 Score: 161
Period size: 41 Copynumber: 3.2 Consensus size: 41
1732640 TGGAGGCGTT
* * *
1732650 CTAAAGTACGAGTCTTTGGCGGCATTTATATAAAAACGTCA
1 CTAAAGTACGAGTCTTTGGCGGCGTTTGTATAAAAACGCCA
*
1732691 CGAAAGTACGAGTCTTTGGCGGCGTTTGTATAAAAACGCCA
1 CTAAAGTACGAGTCTTTGGCGGCGTTTGTATAAAAACGCCA
* * * * * * *
1732732 CTAAAGTATGAGGCTTTAGCGACGTTTGTATAGAAATGCGA
1 CTAAAGTACGAGTCTTTGGCGGCGTTTGTATAAAAACGCCA
1732773 CTAAAGT
1 CTAAAGT
1732780 TTGGGTATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (41 bp):
CTAAAGTACGAGTCTTTGGCGGCGTTTGTATAAAAACGCCA
Found at i:1732791 original size:41 final size:41
Alignment explanation
Indices: 1732713--1732809 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
1732703 TCTTTGGCGG
* * *
1732713 CGTTTGTATAAAAACGCCACTAAAGTATGAGGCTTTAGCGA
1 CGTTTGTATAGAAATGCCACTAAAGTATGAGGATTTAGCGA
* * *
1732754 CGTTTGTATAGAAATGCGACTAAAGTTTG-GGTATTTAGCGG
1 CGTTTGTATAGAAATGCCACTAAAGTATGAGG-ATTTAGCGA
*
1732795 TGTTTGTATAGAAAT
1 CGTTTGTATAGAAAT
1732810 TTAGCGGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.04
41 46 0.96
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (41 bp):
CGTTTGTATAGAAATGCCACTAAAGTATGAGGATTTAGCGA
Found at i:1733066 original size:41 final size:40
Alignment explanation
Indices: 1732808--1733085 Score: 225
Period size: 41 Copynumber: 6.8 Consensus size: 40
1732798 TTGTATAGAA
* * * *
1732808 ATTTAGCGG-GTTTTATACAAAAACGCCACTAAATTATAAGA
1 ATTTAGCGGCG-TTTATATAAAAACGCCACTAAAGTACAA-T
* * * * * * * *
1732849 ATTTAGCGGCGTTTGTGCTTAAAATGCCACTAATGAATAGT
1 ATTTAGCGGCGTTTAT-ATAAAAACGCCACTAAAGTACAAT
* **
1732890 ATTTAGCGGCGTTTATATAGAAACGCCACTAAAGTACGAGC
1 ATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTAC-AAT
* * * * * *
1732931 ATTTAACGACGTTTGTGCTTAAAACGCCACTAAAGTACATT
1 ATTTAGCGGCGTTTAT-ATAAAAACGCCACTAAAGTACAAT
* * * *
1732972 ATTTAGCGGTGTTTATACAAAAATGACACTAAAGTACAAT
1 ATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACAAT
1733012 ATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACAAAT
1 ATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTAC-AAT
* * * * *
1733053 ATTTACCGACGTTTGTTTAAAAACGCCGCTAAA
1 ATTTAGCGGCGTTTATATAAAAACGCCACTAAA
1733086 AGTGCCGCTA
Statistics
Matches: 186, Mismatches: 46, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
40 65 0.35
41 87 0.47
42 34 0.18
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (40 bp):
ATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACAAT
Found at i:1736203 original size:18 final size:17
Alignment explanation
Indices: 1736171--1736206 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1736161 TTATACTTAA
*
1736171 AATTTCATCTTATATTC
1 AATTTAATCTTATATTC
1736188 AATTTAATCATTATATTC
1 AATTTAATC-TTATATTC
1736206 A
1 A
1736207 CTAATACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTAATCTTATATTC
Found at i:1737055 original size:108 final size:108
Alignment explanation
Indices: 1736846--1737044 Score: 281
Period size: 108 Copynumber: 1.8 Consensus size: 108
1736836 TGTTTAAAGC
* * * *
1736846 TGATGAAGCCTTAGAAATATGATGATAAAAAAATATGTTAATTACTTAATATGTTATCAATATTA
1 TGATGAAGCCTTAAAAATATGACGACAAAAAAATAGGTTAATTACTTAATATGTTATCAATATTA
* * *
1736911 TCAATATATTAGGTAGCGCTTAAAATACTACCAAAGTTTATGT
66 TCAACATATTAGGTAGCACATAAAATACTACCAAAGTTTATGT
* * * * * *
1736954 TGATGAGGCCTTAAAAATTTGACGACAACAAAATAGGTTAATTACTTATTTTGTTATTAATATTA
1 TGATGAAGCCTTAAAAATATGACGACAAAAAAATAGGTTAATTACTTAATATGTTATCAATATTA
1737019 TCAACATATTAGGTAGCACATAAAAT
66 TCAACATATTAGGTAGCACATAAAAT
1737045 GTTACTAAAG
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 78 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (108 bp):
TGATGAAGCCTTAAAAATATGACGACAAAAAAATAGGTTAATTACTTAATATGTTATCAATATTA
TCAACATATTAGGTAGCACATAAAATACTACCAAAGTTTATGT
Found at i:1737856 original size:23 final size:23
Alignment explanation
Indices: 1737787--1737858 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
1737777 CGGTAACTAG
*
1737787 TTTAACGTAATAGGTAGCGCTTA
1 TTTAACGTAATAGGTAGCGCCTA
* * * *
1737810 CTTAACGTAATAGATAGTGTCTA
1 TTTAACGTAATAGGTAGCGCCTA
* *
1737833 TTTAACATAATAGGTAGCACCTA
1 TTTAACGTAATAGGTAGCGCCTA
1737856 TTT
1 TTT
1737859 TATTTTACCA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCGCCTA
Found at i:1738008 original size:75 final size:75
Alignment explanation
Indices: 1737833--1738001 Score: 266
Period size: 75 Copynumber: 2.3 Consensus size: 75
1737823 ATAGTGTCTA
* * *
1737833 TTTAACATAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTATTAACAATTAAATAAAC
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCATTTACATTATTATTAACAATTAAACAAAC
1737898 CGGTAGCTAG
66 CGGTAGCTAG
* * * *
1737908 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTATATTATTATTAACATTTAAACAAAT
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCATTTACATTATTATTAACAATTAAACAAAC
*
1737973 CGGTAGTTAG
66 CGGTAGCTAG
1737983 TTTAACGTAATAGGTAGCG
1 TTTAACGTAATAGGTAGCG
1738002 TTTATTTAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 86 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (75 bp):
TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCATTTACATTATTATTAACAATTAAACAAAC
CGGTAGCTAG
Found at i:1738085 original size:75 final size:74
Alignment explanation
Indices: 1738006--1738338 Score: 373
Period size: 75 Copynumber: 4.4 Consensus size: 74
1737996 GTAGCGTTTA
* * * * ** * *
1738006 TTTAACATAATAAGTAAAACATATATTATTTTACTATTTACATTATTATTAACCTTTAAACAAAG
1 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAA-
1738071 C-GGTAGTTAG
65 CTGGTAG-TAG
* * ** * *
1738081 TTTAACATAATATGTAGCGTCTATTTTATTTTACCGTTTACTTTATTAGTAACCTTTAAACAAAC
1 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAAC
* * *
1738146 CGATAACTAG
66 TGGT-AGTAG
* *
1738156 TTTAACGTAATAGGTAACACCTACTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAAC
1 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAAC
*
1738221 TGGTAAGTAT
66 TGGT-AGTAG
* * *
1738231 TTTAACGTAATAGGTAGCACCTATTTTATTTTACCGTTTACATTATTAGTAACATTCAAACAAAC
1 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAAC
1738296 TGGTAGGTAG
66 TGGTA-GTAG
* *
1738306 TTTAACATAATATGTAGA-GCCTATTTTATTTTA
1 TTTAACATAATAGGTA-ACACCTATTTTATTTTA
1738339 ACCGGATAAG
Statistics
Matches: 221, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
74 2 0.01
75 218 0.99
76 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (74 bp):
TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAAC
TGGTAGTAG
Found at i:1738107 original size:173 final size:173
Alignment explanation
Indices: 1737811--1738171 Score: 499
Period size: 173 Copynumber: 2.1 Consensus size: 173
1737801 TAGCGCTTAC
* * * ** * *
1737811 TTAACGTAATAGATAGTGTCTATTTAACATAATAGGTAGCACCTATTTTATTTTACCATTTACAT
1 TTAACGTAATAGGTAGCGTCTATTTAACATAATAAGTAAAACATATATTATTTTACCATTTACAT
* *
1737876 TATTATTAACAATTAAATAAACCGGTAGCTAGTTTAACGTAATAGGTAGCGCCTATTTTATTTTA
66 TATTATTAACAATTAAACAAACCGGTAGCTAGTTTAACATAATAGGTAGCGCCTATTTTATTTTA
* * * **
1737941 CCGTTTA-TATTATTATTAACATTTAAACAAATCGGTAGTTAGT
131 CCGTTTACT-TTATTAGTAACATTTAAACAAACCGATAACTAGT
* *
1737984 TTAACGTAATAGGTAGCGTTTATTTAACATAATAAGTAAAACATATATTATTTTACTATTTACAT
1 TTAACGTAATAGGTAGCGTCTATTTAACATAATAAGTAAAACATATATTATTTTACCATTTACAT
** * * * *
1738049 TATTATTAACCTTTAAACAAAGCGGTAGTTAGTTTAACATAATATGTAGCGTCTATTTTATTTTA
66 TATTATTAACAATTAAACAAACCGGTAGCTAGTTTAACATAATAGGTAGCGCCTATTTTATTTTA
*
1738114 CCGTTTACTTTATTAGTAACCTTTAAACAAACCGATAACTAGT
131 CCGTTTACTTTATTAGTAACATTTAAACAAACCGATAACTAGT
1738157 TTAACGTAATAGGTA
1 TTAACGTAATAGGTA
1738172 ACACCTACTT
Statistics
Matches: 164, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
173 163 0.99
174 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (173 bp):
TTAACGTAATAGGTAGCGTCTATTTAACATAATAAGTAAAACATATATTATTTTACCATTTACAT
TATTATTAACAATTAAACAAACCGGTAGCTAGTTTAACATAATAGGTAGCGCCTATTTTATTTTA
CCGTTTACTTTATTAGTAACATTTAAACAAACCGATAACTAGT
Found at i:1739735 original size:23 final size:23
Alignment explanation
Indices: 1739686--1739736 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1739676 TAATGATAAA
* * *
1739686 TATTTAGCATAATAAGTAACGCT
1 TATTTAACATAATAAGTAACACC
* *
1739709 TATTTAACCTAATAAGTGACACC
1 TATTTAACATAATAAGTAACACC
1739732 TATTT
1 TATTT
1739737 TATTTTACCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (23 bp):
TATTTAACATAATAAGTAACACC
Found at i:1739812 original size:23 final size:23
Alignment explanation
Indices: 1739786--1739837 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1739776 CAGTAGATAG
1739786 TTTAACGTAATAGGTAGCACTTA
1 TTTAACGTAATAGGTAGCACTTA
*
1739809 TTTAACGTAATAGGTAGCGCTTA
1 TTTAACGTAATAGGTAGCACTTA
1739832 TTTAAC
1 TTTAAC
1739838 ATAGGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCACTTA
Found at i:1739843 original size:20 final size:21
Alignment explanation
Indices: 1739794--1739844 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
1739784 AGTTTAACGT
1739794 AATAGGTAGCACTTATTTAAC
1 AATAGGTAGCACTTATTTAAC
*
1739815 GTAATAGGTAGCGCTTATTTAAC
1 --AATAGGTAGCACTTATTTAAC
1739838 -ATAGGTA
1 AATAGGTA
1739845 AAACATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.26
23 20 0.74
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
AATAGGTAGCACTTATTTAAC
Found at i:1739943 original size:75 final size:75
Alignment explanation
Indices: 1739854--1740161 Score: 444
Period size: 75 Copynumber: 4.1 Consensus size: 75
1739844 AAAACATATA
* *
1739854 TTATTTTACCGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACATAATATGT
1 TTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAATCGGTAGGTAGTTTAACATAATATGT
1739919 AGCGCCTATT
66 AGCGCCTATT
* *
1739929 TTATTTTACTGTTTACATTATTAGTAACCTTTAAACAAAACGGTAGGTAGTTTAACGA-AATA-G
1 TTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAATCGGTAGGTAGTTTAAC-ATAATATG
1739992 ATAGCGCCTATT
65 -TAGCGCCTATT
* * * *
1740004 TTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAA-CTGGTAAGTATTTTAACGTAATAGG
1 TTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAATC-GGTAGGTAGTTTAACATAATATG
1740068 TAGCGCCTATT
65 TAGCGCCTATT
* * *
1740079 TTATTTTACCGTTTACATTATTAGTAACATTCAAACAAATTGGTAGGTAGTTTAACATAAT-TGG
1 TTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAATCGGTAGGTAGTTTAACATAATAT-G
*
1740143 TAGAGCCTATT
65 TAGCGCCTATT
1740154 TTATTTTA
1 TTATTTTA
1740162 ACCGAATAAG
Statistics
Matches: 210, Mismatches: 16, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
74 2 0.01
75 206 0.98
76 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (75 bp):
TTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAATCGGTAGGTAGTTTAACATAATATGT
AGCGCCTATT
Found at i:1741219 original size:21 final size:20
Alignment explanation
Indices: 1741177--1741217 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1741167 TAAGATATAA
1741177 TATAAAAATGTTTGTTTTTT
1 TATAAAAATGTTTGTTTTTT
1741197 TATAAAAATGTTTGTTTTTT
1 TATAAAAATGTTTGTTTTTT
1741217 T
1 T
1741218 TAATTCGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (20 bp):
TATAAAAATGTTTGTTTTTT
Found at i:1743908 original size:13 final size:12
Alignment explanation
Indices: 1743881--1743915 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1743871 TCCGGATTTG
*
1743881 TTTTTATTTTAT
1 TTTTTATATTAT
1743893 TTTTTATATTAT
1 TTTTTATATTAT
1743905 TTTTT-TATTAT
1 TTTTTATATTAT
1743916 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTATATTAT
Found at i:1743918 original size:2 final size:2
Alignment explanation
Indices: 1743913--1743939 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1743903 ATTTTTTTAT
1743913 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
1743940 TAGTGTAGTA
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:1744008 original size:2 final size:2
Alignment explanation
Indices: 1744001--1744036 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1743991 TTATGAAAAC
*
1744001 AT AT AT AT AT AT AT AT AA AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1744037 GTTTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1744056 original size:95 final size:92
Alignment explanation
Indices: 1743913--1744108 Score: 270
Period size: 95 Copynumber: 2.1 Consensus size: 92
1743903 ATTTTTTTAT
* * *
1743913 TATATATATATATATATATATATATATTAGTGTAGTATAATTTTTGAAAACTTATATAATATACA
1 TATATATATATAAATATATATATATATTAGTGTAGTAAAAATTTTGAAAACTTATATAATATACA
1743978 GTTTTTAAAAACATTATGAAAACATATA
66 GTTTTT-AAAACATTATGAAAACATATA
**
1744006 TATATATATATAAATATATATATTATATATAGT-TTTTAAAACATTTTGAAAACTTATATAATAT
1 TATATATATATAAATATATATA-TATAT-TAGTGTAGTAAAA-ATTTTGAAAACTTATATAATAT
* * *
1744070 ATAGTTTTTAAAACATTTTGAAAATATATA
63 ACAGTTTTTAAAACATTATGAAAACATATA
1744100 TA-ATATATA
1 TATATATATA
1744109 GCTTTTTAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
93 28 0.30
94 31 0.34
95 33 0.36
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (92 bp):
TATATATATATAAATATATATATATATTAGTGTAGTAAAAATTTTGAAAACTTATATAATATACA
GTTTTTAAAACATTATGAAAACATATA
Found at i:1744064 original size:38 final size:36
Alignment explanation
Indices: 1744021--1744284 Score: 326
Period size: 36 Copynumber: 7.4 Consensus size: 36
1744011 ATATATAAAT
*
1744021 ATATATATTATATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
1744057 ACT-TATATAATATATAGTTTTTAAAACATTTTGAAA
1 A-TATATATAATATATAGTTTTTAAAACATTTTGAAA
1744093 ATATATATAATATATAGCTTTTTAAAAACATTTTGAAA
1 ATATATATAATATATAG-TTTTT-AAAACATTTTGAAA
*
1744131 ATTTATATAATATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
1744167 ATTTATATATAATATATAGTTTTGAAAAAATTTT-AAA
1 A--TATATATAATATATAGTTTTTAAAACATTTTGAAA
* * *
1744204 ATATATATAATATATGGTTTTCAAAATATTTTTG-AA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
**
1744240 ATATATAT--TATATAG-TTTTAAAA-AAATTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
1744272 ATATTTATTATAT
1 ATATATATAATAT
1744285 GGTTTTGAAA
Statistics
Matches: 204, Mismatches: 13, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
31 3 0.01
32 10 0.05
33 7 0.03
34 9 0.04
35 25 0.12
36 77 0.38
37 15 0.07
38 58 0.28
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:1744101 original size:74 final size:72
Alignment explanation
Indices: 1744017--1744253 Score: 320
Period size: 74 Copynumber: 3.2 Consensus size: 72
1744007 ATATATATAT
1744017 AAATATATATATTATATATAGTTTTTAAAACATTTTGAAAACTTATATAATATATAGTTTTTAAA
1 AAATATATATA-TATATATAGTTTTTAAAACATTTTGAAAA-TTATATAATATATAGTTTTTAAA
1744082 ACATTTTGA
64 ACATTTTGA
1744091 AAATATATATA-ATATATAGCTTTTTAAAAACATTTTGAAAATTTATATAATATATAGTTTTTAA
1 AAATATATATATATATATAG-TTTTT-AAAACATTTTGAAAA-TTATATAATATATAGTTTTTAA
1744155 AACATTTTGA
63 AACATTTTGA
* * * * *
1744165 AAATTTATATATAATATATAGTTTTGAAAAAATTTT-AAAATATATATAATATATGGTTTTCAAA
1 AAATATATATAT-ATATATAGTTTTTAAAACATTTTGAAAAT-TATATAATATATAGTTTTTAAA
*
1744229 ATATTTTTG-
64 ACA-TTTTGA
1744238 AAATATATAT-TATATA
1 AAATATATATATATATA
1744254 GTTTTAAAAA
Statistics
Matches: 149, Mismatches: 8, Indels: 15
0.87 0.05 0.09
Matches are distributed among these distances:
71 5 0.03
72 10 0.07
73 40 0.27
74 82 0.55
75 4 0.03
76 8 0.05
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (72 bp):
AAATATATATATATATATAGTTTTTAAAACATTTTGAAAATTATATAATATATAGTTTTTAAAAC
ATTTTGA
Found at i:1744292 original size:23 final size:24
Alignment explanation
Indices: 1744266--1744315 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
1744256 TTTAAAAAAA
* *
1744266 TTGAAAAT-ATTTATTATATGGTT
1 TTGAAAATAATATATTATATGATT
1744289 TTGAAAATAAATATATTATATGATT
1 TTGAAAAT-AATATATTATATGATT
1744314 TT
1 TT
1744316 TATATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (24 bp):
TTGAAAATAATATATTATATGATT
Found at i:1745839 original size:22 final size:22
Alignment explanation
Indices: 1745798--1745878 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
1745788 CTCGTATAAA
1745798 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1745821 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1745843 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1745865 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
1745879 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1745874 original size:13 final size:13
Alignment explanation
Indices: 1745812--1745874 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
1745802 CCGAAGTGCC
1745812 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1745825 CC---GAAGTGC-
1 CCGTAGAATTGCA
1745834 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1745847 CC---GAAGTGC-
1 CCGTAGAATTGCA
1745856 CCGTAGAATTGCA
1 CCGTAGAATTGCA
1745869 CCGTAG
1 CCGTAG
1745875 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:1747574 original size:21 final size:21
Alignment explanation
Indices: 1747550--1747594 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1747540 TCTTGTTCGT
* *
1747550 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1747571 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1747592 TTG
1 TTG
1747595 CCCAGAAATC
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:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1750802 original size:22 final size:22
Alignment explanation
Indices: 1750761--1750841 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
1750751 CTCGTATAAA
1750761 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1750784 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1750806 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1750828 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
1750842 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1750837 original size:13 final size:13
Alignment explanation
Indices: 1750775--1750837 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
1750765 CCGAAGTGCC
1750775 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1750788 CC---GAAGTGC-
1 CCGTAGAATTGCA
1750797 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
1750810 CC---GAAGTGC-
1 CCGTAGAATTGCA
1750819 CCGTAGAATTGCA
1 CCGTAGAATTGCA
1750832 CCGTAG
1 CCGTAG
1750838 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:1751501 original size:2 final size:2
Alignment explanation
Indices: 1751494--1751545 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1751484 TCTCTTAAAC
1751494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1751536 AT AT AT AT AT
1 AT AT AT AT AT
1751546 CACATGTTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1752562 original size:21 final size:21
Alignment explanation
Indices: 1752538--1752582 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1752528 TCTTGTTCGT
* *
1752538 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1752559 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1752580 TTG
1 TTG
1752583 CCCAGAAATC
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:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1754065 original size:20 final size:20
Alignment explanation
Indices: 1754036--1754075 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1754026 TTTCAGAATG
1754036 TCATAGGGGTACCGATACCC
1 TCATAGGGGTACCGATACCC
* *
1754056 TCATATGGGTACTGATACCC
1 TCATAGGGGTACCGATACCC
1754076 CCTTGAACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (20 bp):
TCATAGGGGTACCGATACCC
Found at i:1754777 original size:23 final size:23
Alignment explanation
Indices: 1754750--1754808 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1754740 TGGCACTACA
*
1754750 GTGCATTTCTACGTGGCACTTCG
1 GTGCATTTCTACGTGACACTTCG
* *
1754773 TTGCAATTCTACGTGACACTTCG
1 GTGCATTTCTACGTGACACTTCG
*
1754796 GTGCATTTATACG
1 GTGCATTTCTACG
1754809 AGCTGTGGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (23 bp):
GTGCATTTCTACGTGACACTTCG
Found at i:1755936 original size:23 final size:23
Alignment explanation
Indices: 1755871--1755939 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
1755861 CACCACAGCT
*
1755871 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
1755894 CGTAGAATTACATC-ATAGTGCCG
1 CGTAGAAATGCACCGA-AGTGCCA
*
1755917 CTTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
1755940 TATATGGTTC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1757626 original size:20 final size:22
Alignment explanation
Indices: 1757601--1757658 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
1757591 TTCCCATTGA
1757601 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
1757621 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
1757644 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1757659 CTACCCATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:1757736 original size:64 final size:63
Alignment explanation
Indices: 1757646--1757786 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
1757636 TCTTTAACAT
* *
1757646 GTGCATCGATGCACTACCCATACATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACTACCCATACATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * * *
1757709 GATGTATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATACATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
1757773 GTGCATCGATGCAC
1 GTGCATCGATGCAC
1757787 ATTCAATGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
63 20 0.31
64 45 0.69
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATACATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:1761286 original size:23 final size:23
Alignment explanation
Indices: 1761260--1761325 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
1761250 CACCACAACT
*
1761260 CGTATAAATGCATCGAAGTGCCA
1 CGTAGAAATGCATCGAAGTGCCA
* * * *
1761283 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCATCGAAGTGCCA
* *
1761306 CATAGAAATACATCGAAGTG
1 CGTAGAAATGCATCGAAGTG
1761326 TTATATAAGG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (23 bp):
CGTAGAAATGCATCGAAGTGCCA
Found at i:1763041 original size:24 final size:20
Alignment explanation
Indices: 1762984--1763041 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
1762974 TTCCCCTTGA
*
1762984 AGTGCATCAATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
1763004 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
1763027 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1763042 CTACCCATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Done.