Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_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: 1941792
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1463282 original size:200 final size:200
Alignment explanation
Indices: 1462928--1463876 Score: 1709
Period size: 200 Copynumber: 4.7 Consensus size: 200
1462918 CAATATGGGC
* * *
1462928 AACAGGGTGCAACTATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
1462993 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAAA
66 CCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
1463058 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAGTAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTATGGTCCAGAATGAA
1463123 TGGAA
196 TGGAA
*
1463128 AACAGGGTGCAACCATAAAGTGTCGATCCGTATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
1463193 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
1463258 GAATATGTATAAGTAATTTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCAAGAATGAA
131 GAATATGTCTAAGTAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTATGGTCCAGAATGAA
1463323 TGGAA
196 TGGAA
1463328 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1463393 CCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
1463458 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTATGGTCCAGAATGAA
131 GAATATGTCTAAGTAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTATGGTCCAGAATGAA
1463523 TGGAA
196 TGGAA
*
1463528 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAATATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
1463593 GCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGCACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
1463658 GAATATGTCTAAGTAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTATGGTCCAGAATGAA
131 GAATATGTCTAAGTAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTATGGTCCAGAATGAA
1463723 TGGAA
196 TGGAA
*
1463728 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAACAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
1463793 GCAAAAGTGTAATATAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
1463858 GAATATGTCTAAGTAATGT
131 GAATATGTCTAAGTAATGT
1463877 ATCCCCTGCC
Statistics
Matches: 724, Mismatches: 25, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 724 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTGTAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAGTAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTATGGTCCAGAATGAA
TGGAA
Found at i:1464632 original size:25 final size:25
Alignment explanation
Indices: 1464598--1464659 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
1464588 TTATCATTAA
1464598 TAGGTATGTACAATAACTACATATT
1 TAGGTATGTACAATAACTACATATT
1464623 TAGGTATGTACAATAACTACATATT
1 TAGGTATGTACAATAACTACATATT
*
1464648 TAGGTATATACA
1 TAGGTATGTACA
1464660 TCTTTTGAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (25 bp):
TAGGTATGTACAATAACTACATATT
Found at i:1465037 original size:23 final size:23
Alignment explanation
Indices: 1465006--1465078 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1464996 ATAGGTAAAA
*
1465006 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1465029 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1465052 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1465075 ATAT
1 ATAT
1465079 TGTAAAGTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1466183 original size:129 final size:130
Alignment explanation
Indices: 1466010--1466256 Score: 406
Period size: 129 Copynumber: 1.9 Consensus size: 130
1466000 TATTTATATA
* *
1466010 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGATCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1466075 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
1466140 ATCAATTTGATCCTAAATTAAAT-AAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGATCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
1466204 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
1466257 AAAGAAAATT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
129 86 0.80
130 22 0.20
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGATCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1466744 original size:16 final size:18
Alignment explanation
Indices: 1466723--1466756 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1466713 ATTTCTTATT
1466723 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1466739 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1466757 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1466903 original size:21 final size:21
Alignment explanation
Indices: 1466879--1466921 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1466869 TATTACCTTA
1466879 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1466900 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1466921 A
1 A
1466922 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:1466939 original size:35 final size:35
Alignment explanation
Indices: 1466890--1466975 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
1466880 ATTGAAGTAT
** * *
1466890 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
1466925 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
1466960 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
1466976 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:1467359 original size:23 final size:23
Alignment explanation
Indices: 1467328--1467400 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1467318 ATAGGTAAAA
*
1467328 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
1467351 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1467374 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1467397 ATAT
1 ATAT
1467401 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1467425 original size:46 final size:45
Alignment explanation
Indices: 1467328--1467425 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 45
1467318 ATAGGTAAAA
* * *
1467328 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATCTATCCTTT
*
1467374 ATATAATGTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATCTATCCTTT
*
1467420 TTATAA
1 ATATAA
1467426 AAGTGTCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.04
46 40 0.89
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATCTATCCTTT
Found at i:1467849 original size:23 final size:23
Alignment explanation
Indices: 1467818--1467890 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1467808 ATAGGTAAAA
*
1467818 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1467841 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1467864 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1467887 ATAT
1 ATAT
1467891 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1468279 original size:23 final size:23
Alignment explanation
Indices: 1468248--1468320 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1468238 ATAGGTAAAA
*
1468248 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
1468271 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1468294 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1468317 ATAT
1 ATAT
1468321 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1468415 original size:430 final size:431
Alignment explanation
Indices: 1467610--1468486 Score: 1625
Period size: 430 Copynumber: 2.0 Consensus size: 431
1467600 CTTTCGTTAA
* * *
1467610 TATTGTTAAATT-TAAATTCTAAATATTATTTTATCAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
* *
1467674 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAGACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAAATTGA
1467739 AACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAA
131 AACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAA
*
1467804 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATA
*
1467869 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
1467934 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
*
1467999 ATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATAT
391 ATAGGCATCTAATGATTTATTTTTCACGTTACGATATATAT
1468040 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
1468105 TGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAATATGAAACACTATT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAAATTGA
1468169 AACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTAT-GAACACTTTCA
131 AACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATAG-ACACTTTCA
1468233 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATAT
195 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATAT
1468298 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
260 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
1468363 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
* *
1468428 TATAGGCATCTAATGATTTATTTTTTACGTTACGGTATATAT
390 TATAGGCATCTAATGATTTATTTTTCACGTTACGATATATAT
1468470 TATTATTAAATTAAAAA
1 TATTATTAAATTAAAAA
1468487 CAATAAACAT
Statistics
Matches: 434, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
429 1 0.00
430 333 0.77
431 100 0.23
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAAATTGA
AACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATA
ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCATCTAATGATTTATTTTTCACGTTACGATATATAT
Found at i:1468769 original size:23 final size:23
Alignment explanation
Indices: 1468738--1468833 Score: 147
Period size: 23 Copynumber: 4.2 Consensus size: 23
1468728 ATAGGTAAAA
*
1468738 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1468761 ATATAATGTAATAGGTAGAGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1468784 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1468807 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1468830 ATAT
1 ATAT
1468834 TGTAAAGTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1469158 original size:943 final size:920
Alignment explanation
Indices: 1467199--1471298 Score: 5635
Period size: 943 Copynumber: 4.4 Consensus size: 920
1467189 TACTTTACCC
* *
1467199 TTAAATTAATATTGTAGGTGGAAAACATGAAACATTATTAAAAAAATTGAAACATAAATTACATA
1 TTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
* *
1467264 ACTTTAAACAAAGTATCAATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
66 ACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
*
1467329 TATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTG
131 TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTG
*
1467394 CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
196 CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
*
1467459 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
261 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGA
1467524 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
326 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
* *
1467589 TTTATTATTATCTTTCGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATCA-AATATCA
391 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTAT-AGAATATCA
1467653 AAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
455 AAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
* *
1467718 GACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTAT
520 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTAT
1467783 AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
585 AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
*
1467848 GTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTA
650 GTAATAGGTATCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTA
1467913 TAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
715 TAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
1467978 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTAT
780 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTAT
1468043 TATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
845 TATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
1468108 AAATGAAATTA
910 AAATGAAATTA
*
1468119 TTAAATTAATATTGTAGGTGAAAAATATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
1 TTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
* *
1468184 ACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAA
66 ACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
*
1468249 TATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTG
131 TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTG
1468314 CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
196 CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
1468379 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGA
261 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGA
1468444 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
326 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
1468509 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAGAATATCAA
391 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAGAATATCAA
* *
1468574 AACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
456 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
1468639 ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATA
521 ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATA
*
1468704 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
586 AAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
1468769 TAATAGGTAGAGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
651 T-A-A--T--AG----------G---TA--T--CGTTTATATAATGTAATAGGTAGTGCTTATAT
1468834 TGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTA
693 TGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTA
1468899 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
758 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
*
1468964 TTCACGTTATGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAA
823 TTCACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAA
1469029 ACAATCAAATAA-TTTTTGTGCAAATGAAATTA
888 ACAATCAAATAATTTTTTGTGCAAATGAAATTA
* *
1469061 TTAAATTAATATTGTAGGTGGAAAACATGAAACATTATTAAAAAAAATTGAAACATAAATTACAT
1 TTAAATTAATATTGTAGGTGAAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACAT
1469126 AACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
65 AACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
1469191 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGT
130 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGT
1469256 GCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACA
195 GCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACA
*
1469321 TTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATG
260 TTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATG
*
1469386 ATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACGT
325 ATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACAT
*
1469451 ATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCA
390 ATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAGAATATCA
* *
1469516 AAACAATCAAATAATTTTTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
455 AAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
*
1469581 AACACTATT-AAAAAAATTAAAACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTAT
520 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTAT
1469645 AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
585 AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
* * *
1469710 GTAATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTA
650 GTAATAGGTATCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTA
*
1469775 TAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAATTT
715 TAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
1469840 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTAT
780 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTAT
1469905 TATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
845 TATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
1469970 AAATGAAATTA
910 AAATGAAATTA
*
1469981 TTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACACA
1 TTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
1470046 ACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
66 ACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
1470111 TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTA-T-
131 TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTG
** * * * * * * *
1470174 CAAAACAAT-CAAA-TA---AT--TTTTTGTGCAAA-TGAAAT-TATTAAATTAATATTGT-A-G
196 C-TTATATTGTAAAGTATCTATCCTTTTTAT-AAAAGTG---TCTA-T-ACTT--T-TT-TCACT
* * ** ** * * * *
1470228 GTGGAAAACA-TAA---AA---CAT-TATT-A-AAAAATTGAA-ACA-TAAATTACATAACTT-T
250 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA-GTAA-TTAT
* * ** * ** ** * * * * **
1470280 A---AAC-AAAGTATCGATCCTTTTTA--TAAAAAGTATGGA-CACT-TTCAA-TATAATA-GGT
313 AGGCATCTAATG-ATTTAT--TTTTTACGT-TACGGTATATATTATTATTAAATTA-AAAACAAT
** *** * * * ** *
1470335 AAA-A-ATATGATGTA-ATAGGTAGCGCTTATATAAT-G-TAATA--GGT--A--T-CGTT-TAT
373 AAACATATAT-AT-TACATATTTA-TTATTATCT-TTGGTTAATATTGTTAAATTTAAATTCTAA
* * *
1470387 AT-A-ATGTAATAG-GTATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
434 ATAATATTTTATAGAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
*
1470449 TATTGTAGGTGGAAAACATGAAACATTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
499 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
* *
1470514 CAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
564 CAAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGT
*
1470579 AATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGCTTATATT
629 AATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGCTTATATT
1470644 GTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAA
694 GTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAA
*
1470709 AGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
759 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
* * * *
1470774 TTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACGTATTTATTAT
824 TCACGTTACGATATATATTATTATTAAATT--AAA-AAT--TC-TAAATATTA--T-TTTA-TA-
* * * ** * **
1470839 TATCTTTGGTTAATATTGTTAAATTTA-AATTCTAAATAATATTTTATAAAATATCAAAACAA
878 -A---------AATA---TCAAA---ACAA-TC-AAATAATTTTTTGTGCAA-AT-GAAATTA
* * * * * * * * *
1470901 TCAAA-TAAT-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA-TGAAAC
1 TTAAATTAATATTGTAG-GTGAA--AAA-CATGAAA-CACTA-T-TA-----AAAAAATTGAAAC
* * * * * * ** *
1470963 ACT--ATTAAAAAAAATTGAAACATAAAT-TAC-ATAACTTTAAACAAAGTATCGATCATTTTTA
54 A-TAAATT-ACATAACTTTAAACA-AAGTAT-CGATCA-TTT--TTATA----------------
1471024 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
96 --AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
* *
1471089 TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTT
159 TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTT
1471154 ATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTT
224 ATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTT
* * *
1471219 TTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTA
289 TTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTACGTTACGGTATATATTA
1471284 TTATTAAATTAAAAA
354 TTATTAAATTAAAAA
1471299 TTCTAAATAA
Statistics
Matches: 2860, Mismatches: 168, Indels: 257
0.87 0.05 0.08
Matches are distributed among these distances:
889 76 0.03
890 319 0.11
891 1 0.00
892 7 0.00
893 5 0.00
894 1 0.00
895 1 0.00
896 9 0.00
898 3 0.00
899 8 0.00
900 14 0.00
901 14 0.00
902 12 0.00
903 8 0.00
904 6 0.00
905 12 0.00
906 7 0.00
907 7 0.00
908 1 0.00
909 3 0.00
910 2 0.00
911 12 0.00
912 3 0.00
913 6 0.00
914 6 0.00
915 3 0.00
916 7 0.00
917 18 0.01
918 25 0.01
919 399 0.14
920 698 0.24
921 5 0.00
922 6 0.00
923 5 0.00
924 2 0.00
925 2 0.00
926 3 0.00
928 3 0.00
929 22 0.01
930 13 0.00
932 2 0.00
936 2 0.00
938 1 0.00
939 2 0.00
940 1 0.00
941 2 0.00
942 176 0.06
943 718 0.25
950 98 0.03
951 7 0.00
952 14 0.00
953 5 0.00
954 3 0.00
955 2 0.00
956 6 0.00
957 3 0.00
958 8 0.00
959 2 0.00
960 3 0.00
961 1 0.00
962 7 0.00
963 7 0.00
964 11 0.00
965 5 0.00
966 8 0.00
967 10 0.00
968 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (920 bp):
TTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
ACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTG
CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGA
TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAGAATATCAA
AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATA
AAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTAT
AAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTATT
ATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTA
Found at i:1469222 original size:23 final size:23
Alignment explanation
Indices: 1469191--1469263 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1469181 ATAGGTAAAA
*
1469191 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1469214 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1469237 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1469260 ATAT
1 ATAT
1469264 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1469288 original size:46 final size:45
Alignment explanation
Indices: 1469191--1469288 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
1469181 ATAGGTAAAA
* * *
1469191 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATAGCTATCCTTT
* *
1469237 ATATAATGTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TAGCTATCCTTT
*
1469283 TTATAA
1 ATATAA
1469289 AAGTGTCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATAGCTATCCTTT
Found at i:1469711 original size:23 final size:23
Alignment explanation
Indices: 1469680--1469752 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1469670 ATAGGTAAAA
*
1469680 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
1469703 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1469726 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1469749 ATAT
1 ATAT
1469753 TGTAAAGTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1469907 original size:489 final size:490
Alignment explanation
Indices: 1468983--1469918 Score: 1723
Period size: 489 Copynumber: 1.9 Consensus size: 490
1468973 TGATATATAT
*
1468983 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGT
1 TATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGT
* *
1469048 GCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATTATTAAAAAAAATTGAA
66 GCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAAA
*
1469113 ACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAAT
131 ACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAAT
1469178 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAA
196 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAA
*
1469243 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTC
261 TGTAATAGGTAGTGCTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTC
*
1469308 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
326 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTA
* *
1469373 TAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC
391 TAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
1469438 ATATATATTACGTATTTATTATTATCTTTGGTTAA
456 ATATATATTACGTATTTATTATTATCTTTGGTTAA
* *
1469473 TATTGTTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTTTG
* *
1469537 TGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTAA
65 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAA
1469601 AACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAA
130 AACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAA
*
1469666 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATA
195 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
*
1469731 ATGTAATAGGTAGTGGTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
260 ATGTAATAGGTAGTGCTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
1469796 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATT
325 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATT
1469861 ATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTATTATTAAATTAAAAA
390 ATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTATTATTAAATTAAAAA
1469919 TTCTAAATAT
Statistics
Matches: 431, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
489 364 0.84
490 67 0.16
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (490 bp):
TATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGT
GCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAAA
ACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATAGACACTTTCAAT
ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAA
TGTAATAGGTAGTGCTTATATTGTAAAGTACCTATCCTTTTTATAAAAGTGTCTATACTTTTTTC
ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTA
TAGGCGTCTAATGATTTATTTTTCACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
ATATATATTACGTATTTATTATTATCTTTGGTTAA
Found at i:1470173 original size:23 final size:23
Alignment explanation
Indices: 1470110--1470174 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
1470100 ATAGGTAAAA
* *
1470110 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCGCTT
*
1470133 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
1470156 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
1470175 AAAACAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:1470343 original size:229 final size:230
Alignment explanation
Indices: 1469941--1470632 Score: 1314
Period size: 229 Copynumber: 3.0 Consensus size: 230
1469931 TTTTATAAAA
*
1469941 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAA
1 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
* * *
1470006 CATGAAACACTATTAAAAAAATTGAAACATAAATTACACAACTTTAAACAAAGTATCGATCATTT
66 CATGAAACATTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTT
1470071 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
131 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
1470136 TAATGTAATAGGTATCGTTTATATAATGTAATAGG
196 TAATGTAATAGGTATCGTTTATATAATGTAATAGG
1470171 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
1 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
*
1470236 CATAAAACATTATT-AAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTT
66 CATGAAACATTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTT
1470300 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
131 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
1470365 TAATGTAATAGGTATCGTTTATATAATGTAATAGG
196 TAATGTAATAGGTATCGTTTATATAATGTAATAGG
1470400 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
1 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
1470465 CATGAAACATTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTT
66 CATGAAACATTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTT
*
1470530 TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTAT
130 TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTAT
1470595 ATAATGTAATAGGTATCGTTTATATAATGTAATAGG
195 ATAATGTAATAGGTATCGTTTATATAATGTAATAGG
1470631 TA
1 TA
1470633 GTGCTTATAT
Statistics
Matches: 453, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
229 226 0.50
230 76 0.17
231 151 0.33
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (230 bp):
TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
CATGAAACATTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTT
TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
TAATGTAATAGGTATCGTTTATATAATGTAATAGG
Found at i:1470402 original size:23 final size:23
Alignment explanation
Indices: 1470339--1470403 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
1470329 ATAGGTAAAA
* *
1470339 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCGCTT
*
1470362 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
1470385 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
1470404 AAAACAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:1470601 original size:23 final size:23
Alignment explanation
Indices: 1470570--1470642 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1470560 ATAGGTAAAA
* *
1470570 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1470593 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1470616 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1470639 ATAT
1 ATAT
1470643 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1471091 original size:23 final size:23
Alignment explanation
Indices: 1471060--1471132 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1471050 ATAGGTAAAA
*
1471060 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1471083 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1471106 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1471129 ATAT
1 ATAT
1471133 TGTAAAGTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1471521 original size:23 final size:23
Alignment explanation
Indices: 1471490--1471576 Score: 147
Period size: 23 Copynumber: 3.8 Consensus size: 23
1471480 ATAGGTAAAA
* * *
1471490 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCGTTT
1471513 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGTTT
1471536 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGTTT
1471559 ATATAATGTAATAGGTAT
1 ATATAATGTAATAGGTAT
1471577 AAAAACAATC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGTTT
Found at i:1471773 original size:254 final size:253
Alignment explanation
Indices: 1471325--1471806 Score: 910
Period size: 254 Copynumber: 1.9 Consensus size: 253
1471315 ATAAAATATC
*
1471325 AAAACAATCAAATAAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATG
1 AAAACAATCAAATAAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACAAG
*
1471390 AAACACTATTTAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTAT
66 AAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTAT
1471455 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
131 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
1471520 GTAATAGGTATCGTTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTATA
196 GTAATAGGTATCGTTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTATA
* *
1471578 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAAG
1 AAAACAATCAAATAAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACAAG
*
1471643 AAACATTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTA
66 AAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTA
1471708 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
130 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
1471773 TGTAATAGGTATCGTTTATATAATGTAATAGGTA
195 TGTAATAGGTATCGTTTATATAATGTAATAGGTA
1471807 GTGGTTATAT
Statistics
Matches: 223, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
253 71 0.32
254 152 0.68
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (253 bp):
AAAACAATCAAATAAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACAAG
AAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTAT
AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
GTAATAGGTATCGTTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTATA
Found at i:1471775 original size:23 final size:23
Alignment explanation
Indices: 1471744--1471816 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1471734 ATAGGTAAAA
*
1471744 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1471767 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1471790 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1471813 ATAT
1 ATAT
1471817 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1472206 original size:23 final size:23
Alignment explanation
Indices: 1472175--1472270 Score: 147
Period size: 23 Copynumber: 4.2 Consensus size: 23
1472165 ATAGGTAAAA
*
1472175 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1472198 ATATAATGTAATAGGTAGAGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1472221 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1472244 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1472267 ATAT
1 ATAT
1472271 TGTAAAGTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1474005 original size:20 final size:20
Alignment explanation
Indices: 1473982--1474031 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1473972 ACAGTTTCCA
*
1473982 AATTCGCAACGCGAATTTGT
1 AATTTGCAACGCGAATTTGT
1474002 AATTTGCAACGCGAATTTGT
1 AATTTGCAACGCGAATTTGT
1474022 AATTTGCAAC
1 AATTTGCAAC
1474032 ACAGAAGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
AATTTGCAACGCGAATTTGT
Found at i:1474082 original size:20 final size:20
Alignment explanation
Indices: 1473944--1474086 Score: 71
Period size: 20 Copynumber: 7.2 Consensus size: 20
1473934 GACCAACTAA
* **
1473944 TTCGCAACGCGAACTCCAAT
1 TTCGCAACGCGAATTTTAAT
* * * *
1473964 TTCGCAACAC-AGTTTCCAAA
1 TTCGCAACGCGAATTT-TAAT
1473984 TTCGCAACGCGAATTTGTAAT
1 TTCGCAACGCGAATTT-TAAT
1474005 TT-GCAACGCGAATTTGTAAT
1 TTCGCAACGCGAATTT-TAAT
* * * *
1474025 TT-GCAACACAGAA-GTCAAA
1 TTCGCAACGC-GAATTTTAAT
* ** *
1474044 TTCGCAAAGCG-CGTTTATT
1 TTCGCAACGCGAATTTTAAT
*
1474063 TTCGCAACGCGAATTTTATT
1 TTCGCAACGCGAATTTTAAT
1474083 TTCG
1 TTCG
1474087 AATTTGAAAC
Statistics
Matches: 93, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
19 19 0.20
20 63 0.68
21 11 0.12
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (20 bp):
TTCGCAACGCGAATTTTAAT
Found at i:1479968 original size:13 final size:13
Alignment explanation
Indices: 1479927--1479970 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1479917 ATGACACGTT
*
1479927 AATAATTTTTTAA
1 AATATTTTTTTAA
* *
1479940 AATATTATTTAAA
1 AATATTTTTTTAA
*
1479953 AATATTTTTTTTA
1 AATATTTTTTTAA
1479966 AATAT
1 AATAT
1479971 GGAAGTGACA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATATTTTTTTAA
Found at i:1482463 original size:31 final size:31
Alignment explanation
Indices: 1482396--1482465 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
1482386 TTTATGGATC
* * * *
1482396 TGTCATAAATTTTTGATAGATCCACTTATTC
1 TGTCACAAATTTGTGATAGATCCACATATTA
* * *
1482427 CGTCACAAATTTGTGATAGATCTACATGTTA
1 TGTCACAAATTTGTGATAGATCCACATATTA
1482458 TGTCACAA
1 TGTCACAA
1482466 TTTTTTGGAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (31 bp):
TGTCACAAATTTGTGATAGATCCACATATTA
Found at i:1488639 original size:62 final size:62
Alignment explanation
Indices: 1488503--1488619 Score: 218
Period size: 62 Copynumber: 1.9 Consensus size: 62
1488493 ATTCTGAAAG
1488503 AAAAGATATGTTCATCGAAAACATAAAATATAATATTTTATTTATATATAACATTCAGACGA
1 AAAAGATATGTTCATCGAAAACATAAAATATAATATTTTATTTATATATAACATTCAGACGA
1488565 AAAAGATATGTTCATC-AGAAACATAAAATATAATATTTTATTTATATATAACATT
1 AAAAGATATGTTCATCGA-AAACATAAAATATAATATTTTATTTATATATAACATT
1488620 TTGACGAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
61 1 0.02
62 53 0.98
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (62 bp):
AAAAGATATGTTCATCGAAAACATAAAATATAATATTTTATTTATATATAACATTCAGACGA
Found at i:1488721 original size:12 final size:12
Alignment explanation
Indices: 1488704--1488737 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1488694 CTCTATTTCC
1488704 TCATAAATTCAG
1 TCATAAATTCAG
1488716 TCATAAATTCAG
1 TCATAAATTCAG
1488728 TCATAAATTC
1 TCATAAATTC
1488738 TATCAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (12 bp):
TCATAAATTCAG
Found at i:1494780 original size:18 final size:18
Alignment explanation
Indices: 1494757--1494811 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
1494747 TGTTTTTAAC
1494757 ATTAAATAAACAGTAGTT
1 ATTAAATAAACAGTAGTT
*
1494775 ATTAAATTAAC---A-TT
1 ATTAAATAAACAGTAGTT
1494789 A-T--ATAAACAGTAGTT
1 ATTAAATAAACAGTAGTT
1494804 ATTAAATA
1 ATTAAATA
1494812 TCAATTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
11 5 0.18
13 1 0.04
14 4 0.14
15 4 0.14
16 1 0.04
18 13 0.46
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (18 bp):
ATTAAATAAACAGTAGTT
Found at i:1494794 original size:29 final size:29
Alignment explanation
Indices: 1494752--1494810 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1494742 TATTTTGTTT
1494752 TTAACATTAAATAAACAGTAGTTATTAAA
1 TTAACATTAAATAAACAGTAGTTATTAAA
*
1494781 TTAACATTATATAAACAGTAGTTATTAAA
1 TTAACATTAAATAAACAGTAGTTATTAAA
1494810 T
1 T
1494811 ATCAATTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (29 bp):
TTAACATTAAATAAACAGTAGTTATTAAA
Found at i:1496072 original size:20 final size:20
Alignment explanation
Indices: 1496043--1496082 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1496033 ACCTCGATTT
* *
1496043 TACCGGTTTTTAGCCGGTTC
1 TACCGATTTTCAGCCGGTTC
1496063 TACCGATTTTCAGCCGGTTC
1 TACCGATTTTCAGCCGGTTC
1496083 ATTGTCAGTC
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:0.12, C:0.28, G:0.23, T:0.38
Consensus pattern (20 bp):
TACCGATTTTCAGCCGGTTC
Found at i:1496931 original size:14 final size:14
Alignment explanation
Indices: 1496912--1496953 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
1496902 ATATTTAAAC
1496912 AAGATATTTATGAG
1 AAGATATTTATGAG
1496926 AAGATATTTAT--G
1 AAGATATTTATGAG
1496938 AAGATATTTATGAG
1 AAGATATTTATGAG
1496952 AA
1 AA
1496954 TTGATATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
14 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (14 bp):
AAGATATTTATGAG
Found at i:1496942 original size:12 final size:12
Alignment explanation
Indices: 1496912--1496950 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
1496902 ATATTTAAAC
1496912 AAGATATTTATGAG
1 AAGATATTTAT--G
1496926 AAGATATTTATG
1 AAGATATTTATG
1496938 AAGATATTTATG
1 AAGATATTTATG
1496950 A
1 A
1496951 GAATTGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 14 0.56
14 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (12 bp):
AAGATATTTATG
Found at i:1499870 original size:21 final size:21
Alignment explanation
Indices: 1499844--1499888 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1499834 GATTTCTGGG
* *
1499844 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1499865 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1499886 CAA
1 CAA
1499889 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1500491 original size:18 final size:18
Alignment explanation
Indices: 1500468--1500502 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1500458 CTAGGAGATT
1500468 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
1500486 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
1500503 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:1500588 original size:21 final size:22
Alignment explanation
Indices: 1500559--1500602 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1500549 GTTGTATGAT
1500559 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
1500580 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
1500602 A
1 A
1500603 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:1501657 original size:23 final size:23
Alignment explanation
Indices: 1501613--1501657 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1501603 ATTATTATAT
*
1501613 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
1501636 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1501658 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1502266 original size:15 final size:15
Alignment explanation
Indices: 1502246--1502281 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1502236 TTTTCTTAAG
1502246 AGTCAAGGTTTGAAA
1 AGTCAAGGTTTGAAA
1502261 AGTCAAGGTTTGAAA
1 AGTCAAGGTTTGAAA
*
1502276 ATTCAA
1 AGTCAA
1502282 TGTGACACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (15 bp):
AGTCAAGGTTTGAAA
Found at i:1503501 original size:16 final size:17
Alignment explanation
Indices: 1503470--1503516 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1503460 GAAAATGATC
*
1503470 TATGTGTTTATATGTGA
1 TATGTGATTATATGTGA
1503487 TATGTGATT-TATGTGA
1 TATGTGATTATATGTGA
*
1503503 TCATGAG-TTATATG
1 T-ATGTGATTATATG
1503517 AAAATAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (17 bp):
TATGTGATTATATGTGA
Found at i:1503594 original size:15 final size:15
Alignment explanation
Indices: 1503574--1503603 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1503564 GTGAATTATA
*
1503574 TGATAAGAAGCTATG
1 TGATAAGAAGATATG
1503589 TGATAAGAAGATATG
1 TGATAAGAAGATATG
1503604 AGTTTATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAAGAAGATATG
Found at i:1505420 original size:29 final size:29
Alignment explanation
Indices: 1505377--1505486 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
1505367 TTTCATATAT
1505377 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
1505405 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1505434 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1505463 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
1505487 ATATCACATA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:1511565 original size:22 final size:21
Alignment explanation
Indices: 1511539--1511581 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1511529 AAACTTTCAT
1511539 TAAAACAA-AATACTTTAATACA
1 TAAAA-AAGAATAC-TTAATACA
*
1511561 TAAAAAAGACTACTTAATACA
1 TAAAAAAGAATACTTAATACA
1511582 AAATTGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAAAAAGAATACTTAATACA
Found at i:1512120 original size:15 final size:15
Alignment explanation
Indices: 1512096--1512129 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1512086 TCGTAGGACC
*
1512096 ACTACATCCCGAAGG
1 ACTACATCCCGAAAG
*
1512111 ACTACGTCCCGAAAG
1 ACTACATCCCGAAAG
1512126 ACTA
1 ACTA
1512130 TTATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAAG
Found at i:1512255 original size:29 final size:29
Alignment explanation
Indices: 1512214--1512323 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
1512204 TTTCATATGT
*
1512214 TCATGTA-CTCATGTCATTTATCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
* *
1512242 TTATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1512271 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1512300 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
1512324 ATATCACATA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
28 6 0.08
29 64 0.85
30 5 0.07
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.46
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:1512787 original size:61 final size:61
Alignment explanation
Indices: 1512720--1512837 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 61
1512710 GCACTACTTG
* *
1512720 TGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATT-AATGAGATGCATAGATGCATGCA
1 TGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAAAAGAG-TGCATAGATGCATGCA
* * *
1512781 TGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAGAGTGCATCGATGCA
1 TGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAGAGTGCATAGATGCA
1512838 CTACCAGTGC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
61 36 0.73
62 13 0.27
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (61 bp):
TGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAGAGTGCATAGATGCATGCA
Found at i:1519231 original size:21 final size:21
Alignment explanation
Indices: 1519207--1519252 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
1519197 AAGTCGGTAA
1519207 GATTCTATAAAGAGATTGTTG
1 GATTCTATAAAGAGATTGTTG
1519228 GATTCTATAAAGAGATTGTTG
1 GATTCTATAAAGAGATTGTTG
1519249 GATT
1 GATT
1519253 TTGCAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (21 bp):
GATTCTATAAAGAGATTGTTG
Found at i:1520691 original size:6 final size:6
Alignment explanation
Indices: 1520680--1520708 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1520670 GGGTCTTACA
1520680 TTATAT TTATAT TTATAT TTATAT TTATA
1 TTATAT TTATAT TTATAT TTATAT TTATA
1520709 GTATTCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:1521267 original size:21 final size:21
Alignment explanation
Indices: 1521243--1521288 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1521233 TGATTTATTA
1521243 TTATAGAGTTCAAGTTGGTTG
1 TTATAGAGTTCAAGTTGGTTG
* * *
1521264 TTATGGATTTCAAGTTTGTTG
1 TTATAGAGTTCAAGTTGGTTG
1521285 TTAT
1 TTAT
1521289 GGATGTCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.50
Consensus pattern (21 bp):
TTATAGAGTTCAAGTTGGTTG
Found at i:1521289 original size:21 final size:21
Alignment explanation
Indices: 1521251--1521301 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
1521241 TATTATAGAG
*
1521251 TTCAAGTTGGTTGTTATGGAT
1 TTCAAGTTTGTTGTTATGGAT
1521272 TTCAAGTTTGTTGTTATGGAT
1 TTCAAGTTTGTTGTTATGGAT
*
1521293 GTCAAGTTT
1 TTCAAGTTT
1521302 ATTGGATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.06, G:0.25, T:0.49
Consensus pattern (21 bp):
TTCAAGTTTGTTGTTATGGAT
Found at i:1529667 original size:24 final size:24
Alignment explanation
Indices: 1529635--1529687 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
1529625 TTTTTAAGAC
1529635 TGTTATAGTGATCTGTAAACCAGA
1 TGTTATAGTGATCTGTAAACCAGA
**
1529659 TGTTATAGTGATCTGTTCACCAGA
1 TGTTATAGTGATCTGTAAACCAGA
1529683 TGTTA
1 TGTTA
1529688 AAGTACTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (24 bp):
TGTTATAGTGATCTGTAAACCAGA
Found at i:1534720 original size:23 final size:23
Alignment explanation
Indices: 1534690--1534736 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1534680 CATGAGAATA
1534690 AATCGATCAAGTTTACGTTACGT
1 AATCGATCAAGTTTACGTTACGT
1534713 AATCGATCAAGTTTACGTTACGT
1 AATCGATCAAGTTTACGTTACGT
1534736 A
1 A
1534737 TTGGAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (23 bp):
AATCGATCAAGTTTACGTTACGT
Found at i:1538854 original size:22 final size:22
Alignment explanation
Indices: 1538829--1538882 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1538819 AGTTATGACG
1538829 TGGAATAGTTAACTCAATAACA
1 TGGAATAGTTAACTCAATAACA
1538851 TGGAATAGTTAACTCAATAACA
1 TGGAATAGTTAACTCAATAACA
*
1538873 TGAAATAGTT
1 TGGAATAGTT
1538883 TAATAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (22 bp):
TGGAATAGTTAACTCAATAACA
Found at i:1538938 original size:36 final size:37
Alignment explanation
Indices: 1538864--1538939 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
1538854 AATAGTTAAC
1538864 TCAATAACATGAAATAGTTTAATAATAAACATCCACA
1 TCAATAACATGAAATAGTTTAATAATAAACATCCACA
1538901 TCAATAACATGAAATAGTTTAATAAT-AACATCCACA
1 TCAATAACATGAAATAGTTTAATAATAAACATCCACA
1538937 TCA
1 TCA
1538940 GATTGACAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
36 13 0.33
37 26 0.67
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (37 bp):
TCAATAACATGAAATAGTTTAATAATAAACATCCACA
Found at i:1539189 original size:41 final size:41
Alignment explanation
Indices: 1539113--1539190 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
1539103 ACTTTAAATG
* *
1539113 CAAGCTCGACTCGACTCAAAAACTCGCGAGCCTAAAATTTT
1 CAAGCTCGACTCGACTCAAAAACGCGCGAGACTAAAATTTT
* * *
1539154 CAAGCTCGACTCGAACTCGAAAAGGCTCGA-ACTAAAA
1 CAAGCTCGACTCG-ACTCAAAAACGCGCGAGACTAAAA
1539191 AAAAAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 19 0.61
42 12 0.39
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (41 bp):
CAAGCTCGACTCGACTCAAAAACGCGCGAGACTAAAATTTT
Found at i:1539264 original size:11 final size:11
Alignment explanation
Indices: 1539229--1539324 Score: 86
Period size: 11 Copynumber: 8.5 Consensus size: 11
1539219 GAGACTCAAA
* *
1539229 CTCGATTAAAA
1 CTCGATTTAAG
*
1539240 CTCGATTTTGAG
1 CTCGA-TTTAAG
*
1539252 CTCGATTCAAG
1 CTCGATTTAAG
1539263 CTCGACTTTAAG
1 CTCGA-TTTAAG
*
1539275 CTCGATTCAAG
1 CTCGATTTAAG
*
1539286 CTCGACTTTGAG
1 CTCGA-TTTAAG
*
1539298 CTAGATTTAAG
1 CTCGATTTAAG
1539309 CTCG-TTTGAAG
1 CTCGATTT-AAG
1539320 CTCGA
1 CTCGA
1539325 AGACGGTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
10 3 0.04
11 39 0.57
12 26 0.38
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (11 bp):
CTCGATTTAAG
Found at i:1539266 original size:23 final size:23
Alignment explanation
Indices: 1539229--1539324 Score: 115
Period size: 23 Copynumber: 4.2 Consensus size: 23
1539219 GAGACTCAAA
* * *
1539229 CTCGATTAAAACTCGATTTTGAG
1 CTCGATTCAAGCTCGACTTTGAG
*
1539252 CTCGATTCAAGCTCGACTTTAAG
1 CTCGATTCAAGCTCGACTTTGAG
1539275 CTCGATTCAAGCTCGACTTTGAG
1 CTCGATTCAAGCTCGACTTTGAG
* *
1539298 CTAGATTTAAGCTCG--TTTGAAG
1 CTCGATTCAAGCTCGACTTTG-AG
1539320 CTCGA
1 CTCGA
1539325 AGACGGTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.06
22 6 0.09
23 54 0.84
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
CTCGATTCAAGCTCGACTTTGAG
Found at i:1540807 original size:21 final size:22
Alignment explanation
Indices: 1540755--1540808 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1540745 TATAATCGGA
*
1540755 TTTAGATTTTA-GGTTTTAGGG
1 TTTAGAATTTATGGTTTTAGGG
* *
1540776 TTTATAGTTTATGG-TTTAGGG
1 TTTAGAATTTATGGTTTTAGGG
1540797 TTTAGAATTTAT
1 TTTAGAATTTAT
1540809 TACACAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (22 bp):
TTTAGAATTTATGGTTTTAGGG
Found at i:1540882 original size:14 final size:14
Alignment explanation
Indices: 1540858--1540905 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
1540848 AGATAATATA
* *
1540858 ATTTAGGGTTTATG
1 ATTTAGAGTTTAAG
* *
1540872 GTTTATAGTTTAAG
1 ATTTAGAGTTTAAG
1540886 ATTTAGAGTTTAAG
1 ATTTAGAGTTTAAG
1540900 ATTTAG
1 ATTTAG
1540906 GATTTACGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
ATTTAGAGTTTAAG
Found at i:1540883 original size:21 final size:20
Alignment explanation
Indices: 1540858--1540927 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
1540848 AGATAATATA
*
1540858 ATTTAGGGTTTATGGTTTATAG
1 ATTTAGGATTTA-GGTTTA-AG
*
1540880 -TTTAAGATTTAGAGTTTAAG
1 ATTTAGGATTTAG-GTTTAAG
1540900 ATTTAGGATTTACGGTTTAAG
1 ATTTAGGATTTA-GGTTTAAG
1540921 ATTTAGG
1 ATTTAGG
1540928 GTTCCTTGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 3 0.07
21 38 0.90
22 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (20 bp):
ATTTAGGATTTAGGTTTAAG
Found at i:1540991 original size:11 final size:11
Alignment explanation
Indices: 1540977--1541039 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
1540967 GTATTATAAA
1540977 ATTTTTAATAT
1 ATTTTTAATAT
1540988 ATTTTTAA-AT
1 ATTTTTAATAT
1540998 -TTTTATAAT-T
1 ATTTT-TAATAT
*** *
1541008 ATCAATAATGT
1 ATTTTTAATAT
1541019 ATTTTTAATAT
1 ATTTTTAATAT
1541030 ATTTTTAATA
1 ATTTTTAATA
1541040 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 4 0.10
10 10 0.24
11 27 0.66
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:1545314 original size:15 final size:15
Alignment explanation
Indices: 1545275--1545317 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
1545265 ACTAATTTAT
1545275 TAACCC-TAACTT-C
1 TAACCCTTAACTTAC
1545288 TAA--CTT-ACTTAC
1 TAACCCTTAACTTAC
1545300 TAACCCTTAACTTAC
1 TAACCCTTAACTTAC
1545315 TAA
1 TAA
1545318 TTTACTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.20
12 5 0.20
13 3 0.12
14 3 0.12
15 9 0.36
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (15 bp):
TAACCCTTAACTTAC
Found at i:1545540 original size:19 final size:20
Alignment explanation
Indices: 1545484--1545540 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 20
1545474 CACTTTATTT
1545484 TTTCCTATTATTTACA-TTTA
1 TTTCC-ATTATTTACATTTTA
* *
1545504 -TTCCCTT-TTTATATTTTTA
1 TTTCCATTATTTACA-TTTTA
1545523 TTTCCATTATTTA-ATTTT
1 TTTCCATTATTTACATTTT
1545541 GTCATTTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
17 5 0.17
18 2 0.07
19 12 0.40
20 7 0.23
21 4 0.13
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCCATTATTTACATTTTA
Found at i:1547325 original size:19 final size:19
Alignment explanation
Indices: 1547301--1547351 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
1547291 AATAGAAATT
1547301 GGGTATCGATACTGTGGAA
1 GGGTATCGATACTGTGGAA
1547320 GGGTATCGATACTGTGGAA
1 GGGTATCGATACTGTGGAA
1547339 GGGTATCGATACT
1 GGGTATCGATACT
1547352 ACAAGCATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.27
Consensus pattern (19 bp):
GGGTATCGATACTGTGGAA
Found at i:1548152 original size:30 final size:30
Alignment explanation
Indices: 1548116--1548202 Score: 156
Period size: 30 Copynumber: 2.9 Consensus size: 30
1548106 TTGGATTATG
*
1548116 TATGTGGTCCTTCGAGACATATATGTGTTA
1 TATGTGGTCCTTCGGGACATATATGTGTTA
1548146 TATGTGGTCCTTCGGGACATATATGTGTTA
1 TATGTGGTCCTTCGGGACATATATGTGTTA
*
1548176 TATGTGGTCCTTCGGGACATCTATGTG
1 TATGTGGTCCTTCGGGACATATATGTG
1548203 GTCATTCGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (30 bp):
TATGTGGTCCTTCGGGACATATATGTGTTA
Found at i:1548202 original size:21 final size:21
Alignment explanation
Indices: 1548176--1548215 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1548166 ATATGTGTTA
*
1548176 TATGTGGTCCTTCGGGACATC
1 TATGTGGTCATTCGGGACATC
1548197 TATGTGGTCATTCGGGACA
1 TATGTGGTCATTCGGGACA
1548216 AATTCTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (21 bp):
TATGTGGTCATTCGGGACATC
Found at i:1548459 original size:9 final size:9
Alignment explanation
Indices: 1548446--1548480 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1548436 TTATATGAAT
1548446 TAATGATAA
1 TAATGATAA
* *
1548455 GAATGTTAA
1 TAATGATAA
1548464 TAATGATAA
1 TAATGATAA
1548473 TAATGATA
1 TAATGATA
1548481 TGTGTACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (9 bp):
TAATGATAA
Found at i:1550705 original size:65 final size:65
Alignment explanation
Indices: 1550595--1550754 Score: 203
Period size: 65 Copynumber: 2.5 Consensus size: 65
1550585 CCTAGGACGT
* * * *
1550595 CTCCGGGGTCACATAGCATCGGAGCCTACGTTCTACTAGTTTACTCCTCAGACTACTTGGAACGC
1 CTCCGGGGTCACATAGCATCGGAGCCTACGTTATACTAATCTACTCCTCAAACTACTTGGAACGC
* * * * * * *
1550660 CTCCGGGGTCATATACCATCGGAGCTTATGTTATGCTAATCTACTCCTCAAAGTACTTGGAATGC
1 CTCCGGGGTCACATAGCATCGGAGCCTACGTTATACTAATCTACTCCTCAAACTACTTGGAACGC
* *
1550725 CTACGGGGTCACATAGCATTGGAGCCTACG
1 CTCCGGGGTCACATAGCATCGGAGCCTACG
1550755 CCCAACTAGC
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (65 bp):
CTCCGGGGTCACATAGCATCGGAGCCTACGTTATACTAATCTACTCCTCAAACTACTTGGAACGC
Found at i:1551524 original size:393 final size:391
Alignment explanation
Indices: 1550750--1551535 Score: 1464
Period size: 393 Copynumber: 2.0 Consensus size: 391
1550740 GCATTGGAGC
1550750 CTACGCCCAACTAGCATTTAAAAGGATTAAGCACTGACTTAACACATCCAATGTATAACCACACA
1 CTACGCCCAACTAGCATTTAAAAGGATTAAGCACTGACTTAACACATCCAATGTATAACCACACA
1550815 AGACGATCGTCATACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGG
66 AGACGATCGTCATACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGG
*
1550880 CTAGTTTATGACATCTTATTTTATGTCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTT
131 CTAGTTTATGACATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTT
1550945 GTATCGTATTAGAGGAATCCTGATGGATCTTAATCCCCTTACTGAACACTTGTAATTAAATTAGG
196 GTATCGTATTAGAGGAATCCTGATGGATCTTAATCCCCTTACTGAACACTTGTAATTAAATTAGG
1551010 TTTCTAACCCGATCTAGAACGAAGGTACCGATAATGGACTTTACAGTATCAAAAATGACCATAGG
261 TTTCTAACCCGATCTAGAACGAAGGTACCGATAATGGACTTTACAGTATCAAAAATGACCATAGG
1551075 GTATCGATAATACTCCGAGTATCGATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGAT
326 GTATCGATAATACTCCGAGTATCGATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGAT
1551140 A
391 A
* *
1551141 CTACGCCCAACTAGCATTTAAAAGGATTAAGCACTGACTTAATACATCCGGATGTATAACCACAC
1 CTACGCCCAACTAGCATTTAAAAGGATTAAGCACTGACTTAACACATCC-AATGTATAACCACAC
*
1551206 AAGACGATCGTCATACATCTAAAGTAATTCCTGTGTCTTGCTCTTTTCTTGAATGTCACACAAGG
65 AAGACGATCGTCATACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGG
1551271 GCTAGTTTTATGACATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCAC
130 GCTAG-TTTATGACATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCAC
* *
1551336 TTGTATCTTATTAGAGGAATCCTGATGGATCTTAATCCCCTTCCTGAACACTTGTAATTAAATTA
194 TTGTATCGTATTAGAGGAATCCTGATGGATCTTAATCCCCTTACTGAACACTTGTAATTAAATTA
* * *
1551401 GGTTTCTGACCCGATCTAGGACGAAGGTACCGATAATGGACTTTATAGTATCAAAAATGACCATA
259 GGTTTCTAACCCGATCTAGAACGAAGGTACCGATAATGGACTTTACAGTATCAAAAATGACCATA
*
1551466 GGGTATCGATAATACTCTGAGTATCGATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGG
324 GGGTATCGATAATACTCCGAGTATCGATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGG
1551531 ATA
389 ATA
1551534 CT
1 CT
1551536 CTTACATAGA
Statistics
Matches: 383, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
391 48 0.13
392 83 0.22
393 252 0.66
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (391 bp):
CTACGCCCAACTAGCATTTAAAAGGATTAAGCACTGACTTAACACATCCAATGTATAACCACACA
AGACGATCGTCATACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGG
CTAGTTTATGACATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTT
GTATCGTATTAGAGGAATCCTGATGGATCTTAATCCCCTTACTGAACACTTGTAATTAAATTAGG
TTTCTAACCCGATCTAGAACGAAGGTACCGATAATGGACTTTACAGTATCAAAAATGACCATAGG
GTATCGATAATACTCCGAGTATCGATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGAT
A
Found at i:1552343 original size:592 final size:592
Alignment explanation
Indices: 1551219--1552407 Score: 2252
Period size: 592 Copynumber: 2.0 Consensus size: 592
1551209 ACGATCGTCA
*
1551219 TACATCTAAAGTAATTCCTGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGGCTAGTTTTATGA
1 TACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGGCTAGTTTTATGA
1551284 CATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTTGTATCTTATTA
66 CATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTTGTATCTTATTA
1551349 GAGGAATCCTGATGGATCTTAATCCCCTTCCTGAACACTTGTAATTAAATTAGGTTTCTGACCCG
131 GAGGAATCCTGATGGATCTTAATCCCCTTCCTGAACACTTGTAATTAAATTAGGTTTCTGACCCG
* * *
1551414 ATCTAGGACGAAGGTACCGATAATGGACTTTATAGTATCAAAAATGACCATAGGGTATCGATAAT
196 ATCTAGGACGAAGGTACCGATAATGGACTTTACAGTATAAAAAATGACCATAGAGTATCGATAAT
* *
1551479 ACTCTGAGTATCGATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGATACTCTTACATA
261 ACTCCGAGTATCAATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGATACTCTTACATA
1551544 GAGTATCAATACTCCAATTTGAGGGTATCGATACTACTCCGAGTACCAATACAAAAAATAGTTTC
326 GAGTATCAATACTCCAATTTGAGGGTATCGATACTACTCCGAGTACCAATACAAAAAATAGTTTC
*
1551609 GATGTTTAGGAAAATTACTCAGTATCAATACTCTTACTGGGAGTATCGATACTCTACCCTTAGTA
391 GATGTTTAGGAAAATTACTCAGTATCAATACTCTCACTGGGAGTATCGATACTCTACCCTTAGTA
* *
1551674 TTGATACTCCCTTGAGTATGGATAGCAAAAATGGTTATTGGAATCTGAATTGTTATGTTAGTATC
456 TTGATACTCACTTGAGTATGGATAGCAAAAATGGTTATTGAAATCTGAATTGTTATGTTAGTATC
*
1551739 AATACTATTTGGACAATATCGAAACTACATGCCCAACAAGAGTTTAGGGGTGACTTCACCCGATA
521 AATACTATTTGGACAATATCGAAACTACATGCCCAACAAGAGTTTAGGGATGACTTCACCCGATA
1551804 TGAACCC
586 TGAACCC
1551811 TACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGGCTAGTTTTATGA
1 TACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGGCTAGTTTTATGA
1551876 CATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTTGTATCTTATTA
66 CATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTTGTATCTTATTA
1551941 GAGGAATCCTGATGGATCTTAATCCCCTTCCTGAACACTTGTAATTAAATTAGGTTTCTGACCCG
131 GAGGAATCCTGATGGATCTTAATCCCCTTCCTGAACACTTGTAATTAAATTAGGTTTCTGACCCG
1552006 ATCTAGGACGAAGGTACCGATAATGGACTTTACAGTATAAAAAATGACCATAGAGTATCGATAAT
196 ATCTAGGACGAAGGTACCGATAATGGACTTTACAGTATAAAAAATGACCATAGAGTATCGATAAT
1552071 ACTCCGAGTATCAATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGATACTCTTACATA
261 ACTCCGAGTATCAATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGATACTCTTACATA
*
1552136 GAGTATCAATACTCCAATTTGAGGGTATCGATACTACTCCGAGTACCGATACAAAAAATAGTTTC
326 GAGTATCAATACTCCAATTTGAGGGTATCGATACTACTCCGAGTACCAATACAAAAAATAGTTTC
*
1552201 GATGTTTTGGAAAATTACTCAGTATCAATACTCTCACTGGGAGTATCGATACTCTACCCTTAGTA
391 GATGTTTAGGAAAATTACTCAGTATCAATACTCTCACTGGGAGTATCGATACTCTACCCTTAGTA
1552266 TTGATACTCACTTGAGTATGGATAGCAAAAATGGTTATTGAAATCTGAATTGTTATGTTAGTATC
456 TTGATACTCACTTGAGTATGGATAGCAAAAATGGTTATTGAAATCTGAATTGTTATGTTAGTATC
* *
1552331 GATACTATTTGGACAATATCGAAACTACATGCTCAACAAGAGTTTAGGGATGACTTCACCCGATA
521 AATACTATTTGGACAATATCGAAACTACATGCCCAACAAGAGTTTAGGGATGACTTCACCCGATA
1552396 TGAACCC
586 TGAACCC
1552403 TACAT
1 TACAT
1552408 TTTGATATAA
Statistics
Matches: 583, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
592 583 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (592 bp):
TACATCTAAAGTAATTCATGTGTCTTGCTCTTTTCTTGAATGTCACACAAGGGCTAGTTTTATGA
CATCTTATTTTATATCGTTCTCGATATAATAAAGATTATTAGTTGTTCTCACTTGTATCTTATTA
GAGGAATCCTGATGGATCTTAATCCCCTTCCTGAACACTTGTAATTAAATTAGGTTTCTGACCCG
ATCTAGGACGAAGGTACCGATAATGGACTTTACAGTATAAAAAATGACCATAGAGTATCGATAAT
ACTCCGAGTATCAATACAAAAATGGCTTTGATGTTTTGAAAAATTACTATGGATACTCTTACATA
GAGTATCAATACTCCAATTTGAGGGTATCGATACTACTCCGAGTACCAATACAAAAAATAGTTTC
GATGTTTAGGAAAATTACTCAGTATCAATACTCTCACTGGGAGTATCGATACTCTACCCTTAGTA
TTGATACTCACTTGAGTATGGATAGCAAAAATGGTTATTGAAATCTGAATTGTTATGTTAGTATC
AATACTATTTGGACAATATCGAAACTACATGCCCAACAAGAGTTTAGGGATGACTTCACCCGATA
TGAACCC
Found at i:1554499 original size:20 final size:20
Alignment explanation
Indices: 1554474--1554514 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1554464 CAACGGCATA
1554474 CCCAGAGTGCTAAAGAACAT
1 CCCAGAGTGCTAAAGAACAT
1554494 CCCAGAGTGCTAAAGAACAT
1 CCCAGAGTGCTAAAGAACAT
1554514 C
1 C
1554515 AAGGAAGCAT
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:0.39, C:0.27, G:0.20, T:0.15
Consensus pattern (20 bp):
CCCAGAGTGCTAAAGAACAT
Found at i:1554594 original size:21 final size:20
Alignment explanation
Indices: 1554570--1554638 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 20
1554560 ATTGGTTCTG
1554570 TAAAACAATTAAATATTACTT
1 TAAAA-AATTAAATATTACTT
*
1554591 TAAAAACATTATGACT-TTACTT
1 TAAAAA-ATTA--AATATTACTT
1554613 TAAAAATAATTAAATATTACTT
1 T-AAAA-AATTAAATATTACTT
1554635 TAAA
1 TAAA
1554639 CACATTATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
20 1 0.03
21 14 0.35
22 14 0.35
23 10 0.25
24 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (20 bp):
TAAAAAATTAAATATTACTT
Found at i:1554597 original size:22 final size:22
Alignment explanation
Indices: 1554571--1554638 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
1554561 TTGGTTCTGT
1554571 AAAACAATTAAATATTACTTTA
1 AAAACAATTAAATATTACTTTA
*
1554593 AAAAC-ATTATGACT-TTACTTTA
1 AAAACAATTA--AATATTACTTTA
*
1554615 AAAATAATTAAATATTACTTTA
1 AAAACAATTAAATATTACTTTA
1554637 AA
1 AA
1554639 CACATTATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 6 0.15
22 27 0.69
23 6 0.15
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (22 bp):
AAAACAATTAAATATTACTTTA
Found at i:1554632 original size:44 final size:45
Alignment explanation
Indices: 1554571--1554664 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 45
1554561 TTGGTTCTGT
*
1554571 AAAACAATTAAATATTACTTTAAAAACATTATGACTTTACTTTA-
1 AAAATAATTAAATATTACTTTAAAAACATTATGACTTTACTTTAG
*
1554615 AAAATAATTAAATATTACTTTAAACACATTATGACTTTACTTTAG
1 AAAATAATTAAATATTACTTTAAAAACATTATGACTTTACTTTAG
1554660 AAAAT
1 AAAAT
1554665 TGGTCGATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 42 0.89
45 5 0.11
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (45 bp):
AAAATAATTAAATATTACTTTAAAAACATTATGACTTTACTTTAG
Found at i:1554654 original size:22 final size:21
Alignment explanation
Indices: 1554585--1554658 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 21
1554575 CAATTAAATA
1554585 TTACTTTAAAAACATTATGACT
1 TTACTTT-AAAACATTATGACT
* * *
1554607 TTACTTTAAAA-ATAATTAAAT
1 TTACTTTAAAACATTA-TGACT
1554628 ATTACTTTAAACACATTATGACT
1 -TTACTTTAAA-ACATTATGACT
1554651 TTACTTTA
1 TTACTTTA
1554659 GAAAATTGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 3 0.07
21 7 0.17
22 25 0.60
23 4 0.10
24 3 0.07
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (21 bp):
TTACTTTAAAACATTATGACT
Found at i:1557238 original size:40 final size:41
Alignment explanation
Indices: 1557125--1557238 Score: 108
Period size: 40 Copynumber: 2.8 Consensus size: 41
1557115 GTTGGGGGAC
* * * *
1557125 GACACGACTCATACGTGATGAAGAGGTCTGGTTGTTTAACGGT
1 GACACGGCTCATACGTGATGAAGAGATCTGGTCGTGT-A-GGT
* *
1557168 GACACGGCTCCTATGTGAT-AAGGAGATCTGGTCG-GT-GGAT
1 GACACGGCTCATACGTGATGAA-GAGATCTGGTCGTGTAGG-T
*
1557208 GACACGGCTCATACGTGATGAAGAGTTCTGG
1 GACACGGCTCATACGTGATGAAGAGATCTGG
1557239 CCATCTTTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
39 2 0.03
40 26 0.44
41 2 0.03
42 3 0.05
43 26 0.44
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (41 bp):
GACACGGCTCATACGTGATGAAGAGATCTGGTCGTGTAGGT
Found at i:1557453 original size:133 final size:131
Alignment explanation
Indices: 1557165--1557760 Score: 666
Period size: 133 Copynumber: 4.5 Consensus size: 131
1557155 GTTGTTTAAC
* * * * * * *
1557165 GGTGACACGGCTCCTATGTGATAAGGAGATCTGGTCGGTGGATGACACGGCTCATACGTGATGAA
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACAGTTCATACGCGATGAA
* * *
1557230 GAGTTCTGGCCATCTTTAGGGAGGGTGATAACACAGTTCCTACACAATGAGGACGGCTGGTTAT-
66 GAGTTCT-GCCATCTTTA-GGAGGGTGATAACACGGTTCCTACACGATGAGGACGACTGGTTATC
*
1557294 ATCTG
129 A--GG
* *
1557299 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGG-GGATAGA-ACAGTTCCTACGCGATG
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTC-GGTGGAT-GACACAGTTCATACGCGATG
* * * **
1557362 AGGACG-GCATGCCATCTTTAGGAGGGTGATAACACGGTTTCTACGGGATGAGGACGACTGGTTA
64 AAGA-GTTC-TGCCATCTTTAGGAGGGTGATAACACGGTTCCTACACGATGAGGACGACTGGTTA
1557426 TCTAGG
127 TC-AGG
* * * * * * * * *
1557432 GTTGACGCGACTCCTATGTGATGAGTAAGTCTGGTCGGGGGATGACACGGCTCATACGTGATGAA
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACAGTTCATACGCGATGAA
* ** * *
1557497 GAGTTCTGACCATCTTTAGGGAGGGTGATAACACGATTCCTATGCGATGAGGATGGCTGGTTATC
66 GAGTTCTG-CCATCTTTA-GGAGGGTGATAACACGGTTCCTACACGATGAGGACGACTGGTTATC
1557562 AGG
129 AGG
* * *
1557565 GGTGACACGTCTCCTACGTAATGAGGAGGTCTGGTCGGTGGATGACACGAGTT-ATACGTGATGA
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACAC-AGTTCATACGCGATGA
*
1557629 AGAGTTCTGGCGATCTTTAGGAGGGGTGATAACACGGTTCCTACACGATGA-GACGACTGGTTAT
65 AGAGTTCT-GCCATCTTTAGGA-GGGTGATAACACGGTTCCTACACGATGAGGACGACTGGTTAT
1557693 CAGG
128 CAGG
* *
1557697 GGTGACAC-AGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTACGCGATGA
1 GGTGACACGA-CTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACAGTTCATACGCGATGA
1557761 GGACGATAGG
Statistics
Matches: 391, Mismatches: 55, Indels: 34
0.81 0.11 0.07
Matches are distributed among these distances:
131 3 0.01
132 79 0.20
133 195 0.50
134 107 0.27
135 7 0.02
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (131 bp):
GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACAGTTCATACGCGATGAA
GAGTTCTGCCATCTTTAGGAGGGTGATAACACGGTTCCTACACGATGAGGACGACTGGTTATCAG
G
Found at i:1557658 original size:267 final size:263
Alignment explanation
Indices: 1557165--1557760 Score: 758
Period size: 267 Copynumber: 2.2 Consensus size: 263
1557155 GTTGTTTAAC
* * *
1557165 GGTGACACGGCTCCTATGTGATAAGGAGATCTGGTCGGTGGATGACACGGCTCATACGTGATGAA
1 GGTGACACAGCTCCTATGTGATGAGAAG-TCTGGTCGGTGGATGACACGGCTCATACGTGATGAA
*
1557230 GAGTTCTGGCCATCTTTAGGGAGGGTGATAACACAGTTCCTACACAATGAGGACGGCTGGTTATA
65 GAGTTCTGACCATCTTTAGGGAGGGTGATAACACAGTTCCTACACAATGAGGACGGCTGGTTATA
* * *
1557295 TCTGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGGGGATAGAACAGTTCCTACGCGA
130 -CGGGGTGACACGGCTCCTACGTAATGAGGAGGTCTGGTCAGGGGATAGAACAGTTCATACGCGA
* * **
1557360 TGAGGACGGCATGCCATCTTTAGGAGGGTGATAACACGGTTTCTACGGGATGAGGACGACTGGTT
194 TGAAGACGGCATGCCATCTTTAGGAGGGTGATAACACGGTTCCTACACGATGA-GACGACTGGTT
1557425 ATCTAGG
258 ATC-AGG
* * *
1557432 GTTGACGC-GACTCCTATGTGATGAGTAAGTCTGGTCGGGGGATGACACGGCTCATACGTGATGA
1 GGTGACACAG-CTCCTATGTGATGAG-AAGTCTGGTCGGTGGATGACACGGCTCATACGTGATGA
** * *
1557496 AGAGTTCTGACCATCTTTAGGGAGGGTGATAACAC-GATTCCTATGCGATGAGGATGGCTGGTTA
64 AGAGTTCTGACCATCTTTAGGGAGGGTGATAACACAG-TTCCTACACAATGAGGACGGCTGGTTA
*
1557560 T-CAGGGGTGACACGTCTCCTACGTAATGAGGAGGTCTGGTC-GGTGGAT-GACACGAGTT-ATA
128 TAC-GGGGTGACACGGCTCCTACGTAATGAGGAGGTCTGGTCAGG-GGATAGA-AC-AGTTCATA
* * *
1557621 CGTGATGAAGA-GTTC-TGGCGATCTTTAGGAGGGGTGATAACACGGTTCCTACACGATGAGACG
189 CGCGATGAAGACG-GCAT-GCCATCTTTAGGA-GGGTGATAACACGGTTCCTACACGATGAGACG
1557684 ACTGGTTATCAGG
251 ACTGGTTATCAGG
* * * * *
1557697 GGTGACACAGCTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTACGCGATGA
1 GGTGACACAGCTCCTATGTGATGA-GAAGTCTGGTCGGTGGATGACACGGCTCATACGTGATGA
1557761 GGACGATAGG
Statistics
Matches: 288, Mismatches: 29, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
265 62 0.22
266 83 0.29
267 141 0.49
268 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (263 bp):
GGTGACACAGCTCCTATGTGATGAGAAGTCTGGTCGGTGGATGACACGGCTCATACGTGATGAAG
AGTTCTGACCATCTTTAGGGAGGGTGATAACACAGTTCCTACACAATGAGGACGGCTGGTTATAC
GGGGTGACACGGCTCCTACGTAATGAGGAGGTCTGGTCAGGGGATAGAACAGTTCATACGCGATG
AAGACGGCATGCCATCTTTAGGAGGGTGATAACACGGTTCCTACACGATGAGACGACTGGTTATC
AGG
Found at i:1557814 original size:29 final size:31
Alignment explanation
Indices: 1557782--1557845 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1557772 CATCTTTAGG
*
1557782 GATGA-TGGTTTCAAGAGAAA-CAACTCAAA
1 GATGATTGGTTTCAAGAGAAATAAACTCAAA
* *
1557811 GATGATTTTGTTTTAAGAGAAATAAACTCAAA
1 GATGA-TTGGTTTCAAGAGAAATAAACTCAAA
1557843 GAT
1 GAT
1557846 TTTGTGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 5 0.17
31 13 0.45
32 11 0.38
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (31 bp):
GATGATTGGTTTCAAGAGAAATAAACTCAAA
Found at i:1557854 original size:31 final size:30
Alignment explanation
Indices: 1557789--1557863 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
1557779 AGGGATGATG
*
1557789 GTTTCAAGAGAAACAACTCAAAGATGATTTT
1 GTTTCAAGAGAAAAAACTCAAAGAT-ATTTT
*
1557820 GTTTTAAGAGAAATAAACTCAAAGAT-TTTGT
1 GTTTCAAGAGAAA-AAACTCAAAGATATTT-T
*
1557851 GTTTCCAGA-AAAA
1 GTTTCAAGAGAAAA
1557864 TTGCTTGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 6 0.16
31 20 0.53
32 11 0.29
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (30 bp):
GTTTCAAGAGAAAAAACTCAAAGATATTTT
Found at i:1559256 original size:26 final size:25
Alignment explanation
Indices: 1559205--1559262 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
1559195 GTTTCTTGTC
*
1559205 CTCTATTTTTCTTTGTTTTTCTTTTG
1 CTCT-TTTTTCTTTGTTTGTCTTTTG
*
1559231 TTCTTTTTCTCTTTGCTTTGTC-TTTG
1 CTCTTTTT-TCTTTG-TTTGTCTTTTG
1559257 CTCTTT
1 CTCTTT
1559263 GTTTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.15
26 18 0.67
27 5 0.19
ACGTcount: A:0.02, C:0.19, G:0.09, T:0.71
Consensus pattern (25 bp):
CTCTTTTTTCTTTGTTTGTCTTTTG
Found at i:1559272 original size:18 final size:18
Alignment explanation
Indices: 1559210--1559272 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
1559200 TTGTCCTCTA
* *
1559210 TTTTTCTTTG-TTTTTCT
1 TTTTTCTTTGCTCTTTGT
* *
1559227 TTTGTTCTTTTTCTCTTTGC
1 TTT-TTC-TTTGCTCTTTGT
*
1559247 TTTGTCTTTGCTCTTTGT
1 TTTTTCTTTGCTCTTTGT
1559265 TTTTTCTT
1 TTTTTCTT
1559273 CTTTGATCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
17 3 0.09
18 20 0.57
19 5 0.14
20 7 0.20
ACGTcount: A:0.00, C:0.16, G:0.10, T:0.75
Consensus pattern (18 bp):
TTTTTCTTTGCTCTTTGT
Found at i:1566206 original size:29 final size:29
Alignment explanation
Indices: 1566174--1566293 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
1566164 AAAATAAATT
* *
1566174 TAATATTTTAAACTAAAACAAGTTCAATA
1 TAATATTTTAAAATAAAATAAGTTCAATA
** *
1566203 TAATA-TTTAAAATAAAAATTTGTTTAA-A
1 TAATATTTTAAAAT-AAAATAAGTTCAATA
*
1566231 T-AT-TTTTAAACTAAAATAAGTTCAATA
1 TAATATTTTAAAATAAAATAAGTTCAATA
*
1566258 TAATA-TTTAAAATAAAAATAAGTTTAATA
1 TAATATTTTAAAAT-AAAATAAGTTCAATA
1566287 TAA-ATTT
1 TAATATTT
1566294 AATATATTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
26 10 0.14
27 11 0.15
28 19 0.26
29 33 0.45
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (29 bp):
TAATATTTTAAAATAAAATAAGTTCAATA
Found at i:1566283 original size:55 final size:54
Alignment explanation
Indices: 1566162--1566284 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
1566152 AAATTCAGTT
*
1566162 TAAAAATAAATTT-AATATTTTAAACTAAAACAAGTTCAATATAATATTTAAAA
1 TAAAAATAAGTTTAAATATTTTAAACTAAAACAAGTTCAATATAATATTTAAAA
** *
1566215 TAAAAATTTGTTTAAATATTTTTAAACTAAAATAAGTTCAATATAATATTTAAAA
1 TAAAAATAAGTTTAAATA-TTTTAAACTAAAACAAGTTCAATATAATATTTAAAA
1566270 TAAAAATAAGTTTAA
1 TAAAAATAAGTTTAA
1566285 TATAAATTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
53 10 0.16
54 4 0.06
55 48 0.77
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (54 bp):
TAAAAATAAGTTTAAATATTTTAAACTAAAACAAGTTCAATATAATATTTAAAA
Found at i:1568443 original size:24 final size:24
Alignment explanation
Indices: 1568389--1568435 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1568379 AATCACCAAG
1568389 AACAATTATCTTTCTACCCTCCTA
1 AACAATTATCTTTCTACCCTCCTA
1568413 AACAATTATCTTTCTACCCTCCT
1 AACAATTATCTTTCTACCCTCCT
1568436 GATCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (24 bp):
AACAATTATCTTTCTACCCTCCTA
Found at i:1571524 original size:29 final size:29
Alignment explanation
Indices: 1571476--1571565 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 29
1571466 CAGCAATGAA
1571476 CATAATCTTTTGAATAATTACACATTCAG-CC
1 CATAA-CTTTTGAA-AATTACACATT-AGTCC
*
1571507 CATAACTTTTTAAAATTACTGA-ATTAGTCC
1 CATAACTTTTGAAAATTAC--ACATTAGTCC
* *
1571537 CTTAACTTTTGAAAATTACACATTGGTCC
1 CATAACTTTTGAAAATTACACATTAGTCC
1571566 AAATTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
28 1 0.02
29 15 0.29
30 29 0.57
31 6 0.12
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (29 bp):
CATAACTTTTGAAAATTACACATTAGTCC
Found at i:1571853 original size:7 final size:7
Alignment explanation
Indices: 1571841--1571876 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
1571831 ACAAGTGATT
1571841 TTAATCA
1 TTAATCA
1571848 TTAATCA
1 TTAATCA
1571855 TTAATCA
1 TTAATCA
1571862 TTAATCA
1 TTAATCA
1571869 TTAATCA
1 TTAATCA
1571876 T
1 T
1571877 GCTTGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAATCA
Found at i:1577131 original size:20 final size:21
Alignment explanation
Indices: 1577094--1577132 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1577084 TTTTGATCGA
*
1577094 AAATAGTTTATTTATTTTATG
1 AAATAGTTTATATATTTTATG
*
1577115 AAATA-TTTATATGTTTTA
1 AAATAGTTTATATATTTTA
1577133 CATAAATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (21 bp):
AAATAGTTTATATATTTTATG
Found at i:1578357 original size:11 final size:11
Alignment explanation
Indices: 1578341--1578567 Score: 87
Period size: 11 Copynumber: 21.2 Consensus size: 11
1578331 GAGATACGTT
1578341 TATAAACTATA
1 TATAAACTATA
1578352 TATAAACTATA
1 TATAAACTATA
*
1578363 TAGT---TTATA
1 TA-TAAACTATA
*
1578372 TATAAAGTATA
1 TATAAACTATA
*
1578383 TAT--ATTATA
1 TATAAACTATA
1578392 TATAAACTATA
1 TATAAACTATA
*
1578403 TAGT---GTATA
1 TA-TAAACTATA
1578412 TATAAACTATA
1 TATAAACTATA
* *
1578423 TAT--ATTATG
1 TATAAACTATA
1578432 TATAAACTATATTAA
1 TATAAAC--TA-T-A
1578447 TATAAACTATA
1 TATAAACTATA
1578458 TATAAACT-T-
1 TATAAACTATA
*
1578467 T-GAAA-TA-A
1 TATAAACTATA
1578475 TTATAATA-TATA
1 -TATAA-ACTATA
1578487 TATAAACTATA
1 TATAAACTATA
*
1578498 TAATAATATAATATA
1 T-AT-A-A-ACTATA
1578513 TATAAACTA-A
1 TATAAACTATA
***
1578523 -ATAGTTTATA
1 TATAAACTATA
*
1578533 TATAAAGTATA
1 TATAAACTATA
*
1578544 TATATTA-TATA
1 TATA-AACTATA
1578555 TATAAACTATA
1 TATAAACTATA
1578566 TA
1 TA
1578568 GTTTATATTT
Statistics
Matches: 163, Mismatches: 22, Indels: 62
0.66 0.09 0.25
Matches are distributed among these distances:
7 1 0.01
8 5 0.03
9 34 0.21
10 7 0.04
11 85 0.52
12 8 0.05
13 6 0.04
14 4 0.02
15 13 0.08
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (11 bp):
TATAAACTATA
Found at i:1578371 original size:20 final size:20
Alignment explanation
Indices: 1578348--1578750 Score: 161
Period size: 20 Copynumber: 20.2 Consensus size: 20
1578338 GTTTATAAAC
1578348 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
1578368 TATATATAAAGTATATA-TAT
1 TATATATAAACTATATAGT-T
*
1578388 TATATATAAACTATATAGTG
1 TATATATAAACTATATAGTT
1578408 TATATATAAACTATATA-TAT
1 TATATATAAACTATATAGT-T
*
1578428 TATGTATAAAC--TATA--T
1 TATATATAAACTATATAGTT
1578444 TA-ATATAAACTATATA---
1 TATATATAAACTATATAGTT
* * * *
1578460 TAAACTTTGAAA-TAATTATAATA
1 TATA-TAT-AAACT-A-TATAGTT
*
1578483 TATATATAAACTATATAATAATAT
1 TATATATAAAC--TAT-ATAGT-T
*
1578507 AATATATATAAACTAAATAGTT
1 --TATATATAAACTATATAGTT
* *
1578529 TATATATAAAGTATATATATT
1 TATATATAAACTATATA-GTT
1578550 ATATATATAAACTATATAGTT
1 -TATATATAAACTATATAGTT
* * * *
1578571 TATATTTATATTATTATA-TAC
1 TATATATAAACTA-TATAGT-T
* * * *
1578592 TGTATATAAAGTGTGT-GTAT
1 TATATATAAACTATATAGT-T
* *
1578612 ATATATATATA-TATATA-TA
1 -TATATATAAACTATATAGTT
*
1578631 TATGTATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
1578651 TATAT-T-TA-TAT-TA-TT
1 TATATATAAACTATATAGTT
* *
1578666 GTATAT-T---GTATATAATT
1 -TATATATAAACTATATAGTT
*
1578683 TATTAATATAAATTATATAGTT
1 TA-T-ATATAAACTATATAGTT
* * *
1578705 TATATATAAATTTTATATGAAT
1 TATATATAAACTATATA-G-TT
*
1578727 TATATATAAACTATATAGTA
1 TATATATAAACTATATAGTT
1578747 TATA
1 TATA
1578751 GATAGTAGTA
Statistics
Matches: 296, Mismatches: 46, Indels: 82
0.70 0.11 0.19
Matches are distributed among these distances:
15 12 0.04
16 17 0.06
17 11 0.04
18 18 0.06
19 14 0.05
20 120 0.41
21 31 0.10
22 46 0.16
23 13 0.04
24 3 0.01
26 11 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:1578403 original size:40 final size:39
Alignment explanation
Indices: 1578348--1578655 Score: 229
Period size: 40 Copynumber: 7.6 Consensus size: 39
1578338 GTTTATAAAC
1578348 TATATATAAACTATATAGTTTATATATAAAGTATATATAT
1 TATATATAAACTATATAGTTTATATATAAA-TATATATAT
*
1578388 TATATATAAACTATATAGTGTATATATAAACTATATATAT
1 TATATATAAACTATATAGTTTATATATAAA-TATATATAT
*
1578428 TATGTATAAAC--TATA--TTA-ATATAAACTATATATAAACTT
1 TATATATAAACTATATAGTTTATATATAAA-TATATAT--A--T
* * * *
1578467 TGAAATAATTATAA-TATATA-TATAAACTATATAATA-ATATAA
1 T-ATAT-A-TA-AACTATATAGTTTATA-TATA-AATATATATAT
*
1578509 TATATATAAACTAAATAGTTTATATATAAAGTATATATATT
1 TATATATAAACTATATAGTTTATATATAAA-TATATATA-T
* * *
1578550 ATATATATAAACTATATAGTTTATATTTATATTATTATATAC
1 -TATATATAAACTATATAGTTTATATATA-AATA-TATATAT
* * * * * *
1578592 TGTATATAAAGTGTGT-GTATATATATATATATATATAT
1 TATATATAAACTATATAGTTTATATATAAATATATATAT
*
1578630 ATATGTATAAACTATATAGTTTATAT
1 -TATATATAAACTATATAGTTTATAT
1578656 TTATATTATT
Statistics
Matches: 212, Mismatches: 32, Indels: 48
0.73 0.11 0.16
Matches are distributed among these distances:
35 15 0.07
36 2 0.01
37 1 0.00
38 14 0.07
39 28 0.13
40 76 0.36
41 16 0.08
42 31 0.15
43 9 0.04
44 5 0.02
45 2 0.01
46 5 0.02
47 6 0.03
48 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (39 bp):
TATATATAAACTATATAGTTTATATATAAATATATATAT
Found at i:1578567 original size:15 final size:14
Alignment explanation
Indices: 1578480--1578558 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 14
1578470 AATAATTATA
1578480 ATATATATATAAACT
1 ATATATATATAAA-T
1578495 ATATA-ATAATATAAT
1 ATATATAT-ATA-AAT
*
1578510 ATATATAAACTAAAT
1 ATATATATA-TAAAT
*
1578525 AGTTTATATATAAAGT
1 A-TATATATATAAA-T
*
1578541 ATATATAT-TATAT
1 ATATATATATAAAT
1578554 ATATA
1 ATATA
1578559 AACTATATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.11
14 5 0.09
15 29 0.55
16 13 0.25
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (14 bp):
ATATATATATAAAT
Found at i:1578650 original size:80 final size:80
Alignment explanation
Indices: 1578529--1578680 Score: 252
Period size: 80 Copynumber: 1.9 Consensus size: 80
1578519 CTAAATAGTT
1578529 TATATATAAAGTATATATATTATATATATAAACTATATAGTTTATATTTATATTATTATATACTG
1 TATATATAAAGTATATATATTATATATATAAACTATATAGTTTATATTTATATTATTATATACTG
1578594 TATATAAAGTGTGTG
66 TATATAAAGTGTGTG
* * * *
1578609 TATATATATA-TATATATATATATATGTATAAACTATATAGTTTATATTTATATTATTGTATATT
1 TATATATAAAGTATATATAT-TATATATATAAACTATATAGTTTATATTTATATTATTATATACT
1578673 GTATATAA
65 GTATATAA
1578681 TTTATTAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
79 9 0.13
80 58 0.87
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (80 bp):
TATATATAAAGTATATATATTATATATATAAACTATATAGTTTATATTTATATTATTATATACTG
TATATAAAGTGTGTG
Found at i:1578709 original size:80 final size:80
Alignment explanation
Indices: 1578531--1578712 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 80
1578521 AAATAGTTTA
*
1578531 TATATAAA-GTATATATAT-TATATATATAAACTATATAGTTTATATTTATATTATTATATACTG
1 TATATAAATATATATATATATATATATATAAACTATATAGTTTATATTTATATTATTATATACTG
*
1578594 TATATAAAGTGTGTG
66 TATATAAAGTGTATG
* * * *
1578609 TATATATATATATATATATATATATGTATAAACTATATAGTTTATATTTATATTATTGTATATTG
1 TATATAAATATATATATATATATATATATAAACTATATAGTTTATATTTATATTATTATATACTG
*
1578674 TATAT-AA-TTTAT-
66 TATATAAAGTGTATG
*
1578686 TAATATAAAT-TATATAGTTTATATATA
1 T-ATATAAATATATATA-TATATATATA
1578713 AATTTTATAT
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
77 7 0.08
78 25 0.28
79 11 0.12
80 47 0.52
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (80 bp):
TATATAAATATATATATATATATATATATAAACTATATAGTTTATATTTATATTATTATATACTG
TATATAAAGTGTATG
Found at i:1578721 original size:11 final size:11
Alignment explanation
Indices: 1578674--1578743 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
1578664 TTGTATATTG
*
1578674 TATATAATTTA
1 TATATAAATTA
1578685 TTAATATAAATTA
1 -T-ATATAAATTA
1578698 TATAGT---TTA
1 TATA-TAAATTA
*
1578707 TATATAAATTT
1 TATATAAATTA
*
1578718 TATATGAATTA
1 TATATAAATTA
*
1578729 TATATAAACTA
1 TATATAAATTA
1578740 TATA
1 TATA
1578744 GTATATAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 7 0.15
11 27 0.57
12 3 0.06
13 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (11 bp):
TATATAAATTA
Found at i:1578775 original size:2 final size:2
Alignment explanation
Indices: 1578348--1578764 Score: 97
Period size: 2 Copynumber: 207.0 Consensus size: 2
1578338 GTTTATAAAC
* * *
1578348 TA TA TA TA AA CTA TA TA GTT TA TA TA TA AA GTA TA TA TA T- TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
1578390 TA TA TA AA CTA TA TA GTG TA TA TA TA AA CTA TA TA TA T- TA TG
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
1578432 TA TA AA CTA TA T- TA -A TA TA AA CTA TA TA TA AA CTT TGA AA TA
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA T-A TA TA
*
1578474 -A T- TA TA -A TA TA TA TA TA AA CTA TA TA -A TA -A TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
1578511 TA TA TA AA CTA AA TA GTT TA TA TA TA AA GTA TA TA TA T- TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
1578553 TA TA TA AA CTA TA TA GTT TA TA TT TA TA T- TA T- TA TA TA CTG
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
1578594 TA TA TA AA GTG TG TG TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1578637 TA AA CTA TA TA GTT TA TA TT TA TA T- TA T- TG TA TA T- TG TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1578678 TA -A TT TA T- TA -A TA TA AA T- TA TA TA GTT TA TA TA TA AA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
1578716 TT TA TA TGA -A T- TA TA TA TA AA CTA TA TA GTA TA TA GA TA GTA
1 TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA
1578758 GTA TA TA
1 -TA TA TA
1578765 AACAATATAT
Statistics
Matches: 298, Mismatches: 69, Indels: 96
0.64 0.15 0.21
Matches are distributed among these distances:
1 23 0.08
2 248 0.83
3 27 0.09
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1579704 original size:19 final size:21
Alignment explanation
Indices: 1579676--1579728 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
1579666 TGCAGAAATG
*
1579676 GTATCTATACTATAATAT-AA
1 GTATCGATACTATAATATAAA
*
1579696 -TATCGATACCATAATATAAAA
1 GTATCGATACTATAATAT-AAA
1579717 GTATCGATACTA
1 GTATCGATACTA
1579729 GGAGAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.56
21 2 0.07
22 10 0.37
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (21 bp):
GTATCGATACTATAATATAAA
Found at i:1579800 original size:94 final size:95
Alignment explanation
Indices: 1579622--1579820 Score: 215
Period size: 94 Copynumber: 2.1 Consensus size: 95
1579612 ACTGATGTGG
* * * * *
1579622 GTATCGATACTATGAGGAAGGTATCGATACCATTGATTACAGAATGCAGAAATGGTATCTATACT
1 GTATCGATACTAGGAGAAAAGTATCGATACCATGGATTACAGAATGCAGAAATGGTATCGATACT
* * *
1579687 ATAATATAATATCGATACCATAATATAAAA
66 ATAAGAGAATATCGATACCACAATATAAAA
* * * *
1579717 GTATCGATACTAGGAGAAAAGTATTGATACCATGGA-TCCAGAATGTAGAAATGGTATCGGTACT
1 GTATCGATACTAGGAGAAAAGTATCGATACCATGGATTACAGAATGCAGAAATGGTATCGATACT
* * * *
1579781 GA-AAGGGAGTATC-AGTACCACATTATAGAA
66 -ATAAGAGAATATCGA-TACCACAATATAAAA
1579811 GTATCGATAC
1 GTATCGATAC
1579821 CATGGTAGGG
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
93 1 0.01
94 53 0.62
95 32 0.37
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (95 bp):
GTATCGATACTAGGAGAAAAGTATCGATACCATGGATTACAGAATGCAGAAATGGTATCGATACT
ATAAGAGAATATCGATACCACAATATAAAA
Found at i:1580216 original size:54 final size:54
Alignment explanation
Indices: 1580129--1580572 Score: 712
Period size: 54 Copynumber: 8.2 Consensus size: 54
1580119 GCATGCTGCT
* * *
1580129 TAATAAGTTTATTAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTTA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
*
1580183 TAATGAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* * * *
1580237 TAAAGAGTTTATGAATTTCTGTATTAGCACTATCTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* *
1580291 TAATGAGTTTATGAGTTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* *
1580345 TAATGAGTTTATGAGTTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
1580399 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* * *
1580453 TAATGAGTTTATGAATTTCTGTATTGACACTATGTGTGCTACTTAAG-AATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* *
1580506 TAATGAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACCTAA-AATATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAA-ATTCA
1580560 TAATGAGTTTATG
1 TAATGAGTTTATG
1580573 TGTAATACCC
Statistics
Matches: 365, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
53 50 0.14
54 315 0.86
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (54 bp):
TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
Found at i:1590554 original size:54 final size:54
Alignment explanation
Indices: 1590472--1590943 Score: 714
Period size: 54 Copynumber: 8.8 Consensus size: 54
1590462 GCATGTTGCT
* * *
1590472 TAATGAGTTTATAAATTTTC-TAATTGGCACTATGTGTGCAACTTAAGAAATTTA
1 TAATGAGTTTATGAATTTCCGT-ATTGGCACTATGTGTGCAACTTAAGAAATTCA
* *
1590526 TAATGAGTTTATGTATTTCCATATTGGCACTATGTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
*
1590580 TAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* * *
1590634 TAATGAGTTTATGAATTTCCGTATTAGCACTATGTGTGCAACTTAATAAATCCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
*
1590688 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGTAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* *
1590742 TAATGAGTTTATGAATTTCTGTATTGACACTATGTGTGCAACTTAAG-AATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* * *
1590795 TAATGAATTTATGAATTTCTGTATTGGCACTATGTGTGCAACCTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
** * *
1590849 TAATTTGTTTATGAATTTTCGTATTGGCACTATTTGTGCAACTTAAGAAATTCA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
* * **
1590903 TAATAAGTTTATGAATTTCCGTATTGGTACTGGGTGTGCAA
1 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAA
1590944 ATCACTTAAT
Statistics
Matches: 381, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
53 50 0.13
54 330 0.87
55 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (54 bp):
TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAATTCA
Found at i:1590982 original size:269 final size:270
Alignment explanation
Indices: 1590472--1590982 Score: 749
Period size: 269 Copynumber: 1.9 Consensus size: 270
1590462 GCATGTTGCT
* * *
1590472 TAATGAGTTTATAAATTTTCTAATTGGCACTATGTGTGCAACTTAAGAAATTTATAATGAGTTTA
1 TAATGAGTTTATAAATTTTCTAATTGACACTATGTGTGCAACTTAAGAAATTCATAATGAATTTA
* *
1590537 TGTATTTCCATATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGT
66 TGAATTTCCATATTGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCGT
* *
1590602 ATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTAT
131 ATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTAGCACTAG
* * *
1590667 GTGTGCAACTTAATAAATCCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGTAACTT
196 GTGTGCAAATCAATAAATCCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGTAACTT
1590732 AAGAAATTCA
261 AAGAAATTCA
* *
1590742 TAATGAGTTTATGAA-TTTCTGTATTGACACTATGTGTGCAACTTAAG-AATTCATAATGAATTT
1 TAATGAGTTTATAAATTTTCT-AATTGACACTATGTGTGCAACTTAAGAAATTCATAATGAATTT
** **
1590805 ATGAATTTCTGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTTGTTTATGAATTTTCG
65 ATGAATTTCCATATTGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCG
* * * *
1590870 TATTGGCACTATTTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGTACTG
130 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTAGCACTA
* * ** * *
1590935 GGTGTGCAAATCACTTAATTTATAGTAAGTTTGTGAATTAT-CGTATTG
195 GGTGTGCAAATCAATAAATCCATAATAAGTTTATGAATT-TCCGTATTG
1590983 ATACTACATG
Statistics
Matches: 213, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
269 174 0.82
270 39 0.18
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (270 bp):
TAATGAGTTTATAAATTTTCTAATTGACACTATGTGTGCAACTTAAGAAATTCATAATGAATTTA
TGAATTTCCATATTGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCGT
ATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTAGCACTAG
GTGTGCAAATCAATAAATCCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGTAACTT
AAGAAATTCA
Found at i:1590983 original size:215 final size:215
Alignment explanation
Indices: 1590472--1591019 Score: 654
Period size: 215 Copynumber: 2.5 Consensus size: 215
1590462 GCATGTTGCT
* * * * * * * *
1590472 TAATGAGTTTATAAATTTTC-TAATTGGCACTATGTGTGCAACTTAAGAAATTTATAATGAGTTT
1 TAATAAGTTTATGAATTTCCGT-ATTGGCACTAGGTGTGCAAATCAAGAAATTCATAATAAGTTT
* ** * *
1590536 ATGTATTTCCATATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCG
65 ATGAATTTCTGTATTGACACTATGTGTGCAACTTAAG-AATTCATAATGAATTTATGAATTTTCG
*
1590601 TATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTA
129 TATTGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTA
*
1590666 TGTGTGCAACTTAATAAATCCA
194 TGTGTGCAACTTAAGAAATCCA
* * * * * *
1590688 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGTAACTTAAGAAATTCATAATGAGTTTA
1 TAATAAGTTTATGAATTTCCGTATTGGCACTAGGTGTGCAAATCAAGAAATTCATAATAAGTTTA
1590753 TGAATTTCTGTATTGACACTATGTGTGCAACTTAAGAATTCATAATGAATTTATGAA-TTTCTGT
66 TGAATTTCTGTATTGACACTATGTGTGCAACTTAAGAATTCATAATGAATTTATGAATTTTC-GT
** * *
1590817 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTTGTTTATGAATTTTCGTATTGGCACTAT
130 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTAT
* *
1590882 TTGTGCAACTTAAGAAATTCA
195 GTGTGCAACTTAAGAAATCCA
* * *** * * *
1590903 TAATAAGTTTATGAATTTCCGTATTGGTACTGGGTGTGCAAATCACTTAATTTATAGTAAGTTTG
1 TAATAAGTTTATGAATTTCCGTATTGGCACTAGGTGTGCAAATCAAGAAATTCATAATAAGTTTA
* ** * *
1590968 TGAATTATC-GTATTGATACTACATGTGCAAAC-TATAGAGTTTATAATGAATT
66 TGAATT-TCTGTATTGACACTATGTGTGC-AACTTA-AGAATTCATAATGAATT
1591020 GATAGAGTTA
Statistics
Matches: 291, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
214 4 0.01
215 175 0.60
216 111 0.38
217 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (215 bp):
TAATAAGTTTATGAATTTCCGTATTGGCACTAGGTGTGCAAATCAAGAAATTCATAATAAGTTTA
TGAATTTCTGTATTGACACTATGTGTGCAACTTAAGAATTCATAATGAATTTATGAATTTTCGTA
TTGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTATG
TGTGCAACTTAAGAAATCCA
Found at i:1590995 original size:108 final size:107
Alignment explanation
Indices: 1590472--1590997 Score: 594
Period size: 108 Copynumber: 4.9 Consensus size: 107
1590462 GCATGTTGCT
* * * * * *
1590472 TAATGAGTTTATAAATTTTC-TAATTGGCACTATGTGTGCAACTTAAGAAATTTATAATGAGTTT
1 TAATAAGTTTATGAATTTCCGT-ATTGGCACTATGTGTGCAAATCAAGAAATTCATAATGAGTTT
* * *
1590536 ATGTATTTCCATATTGGCACTATGTGTGCAACTTAAGAAATTCA
65 ATGAATTT-CGTATTGACACTATGTGTGCAACTTAAGAAATTCA
* * * *
1590580 TAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTA
1 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATCAAGAAATTCATAATGAGTTTA
* *
1590645 TGAATTTCCGTATT-AGCACTATGTGTGCAACTTAATAAATCCA
66 TGAATTT-CGTATTGA-CACTATGTGTGCAACTTAAGAAATTCA
* * * *
1590688 TAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGTAACTTAAGAAATTCATAATGAGTTTA
1 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATCAAGAAATTCATAATGAGTTTA
1590753 TGAATTTCTGTATTGACACTATGTGTGCAACTTAAG-AATTCA
66 TGAATTTC-GTATTGACACTATGTGTGCAACTTAAGAAATTCA
* * **
1590795 TAATGAA-TTTATGAATTTCTGTATTGGCACTATGTGTGC-AACCTAAGAAATTCATAATTTGTT
1 TAAT-AAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATC-AAGAAATTCATAATGAGTT
* *
1590858 TATGAATTTTCGTATTGGCACTATTTGTGCAACTTAAGAAATTCA
64 TATGAA-TTTCGTATTGACACTATGTGTGCAACTTAAGAAATTCA
* ** *** * * * *
1590903 TAATAAGTTTATGAATTTCCGTATTGGTACTGGGTGTGCAAATCACTTAATTTATAGTAAGTTTG
1 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATCAAGAAATTCATAATGAGTTTA
* **
1590968 TGAATTATCGTATTGATACTACATGTGCAA
66 TGAATT-TCGTATTGACACTATGTGTGCAA
1590998 ACTATAGAGT
Statistics
Matches: 369, Mismatches: 38, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
106 1 0.00
107 92 0.25
108 271 0.73
109 5 0.01
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.40
Consensus pattern (107 bp):
TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATCAAGAAATTCATAATGAGTTTA
TGAATTTCGTATTGACACTATGTGTGCAACTTAAGAAATTCA
Found at i:1591641 original size:24 final size:24
Alignment explanation
Indices: 1591614--1591663 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1591604 CTATATAAAC
1591614 TATATAGTTTACGTAA-GAACTATA
1 TATATAGTTTA-GTAATGAACTATA
*
1591638 TATATAGTTTATTAATGAACTATA
1 TATATAGTTTAGTAATGAACTATA
1591662 TA
1 TA
1591664 AACTATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (24 bp):
TATATAGTTTAGTAATGAACTATA
Found at i:1591659 original size:53 final size:53
Alignment explanation
Indices: 1591602--1591817 Score: 172
Period size: 53 Copynumber: 4.3 Consensus size: 53
1591592 TATATATATA
*
1591602 AACTATATAAACTATATAGTTTACGTAAGAACTATATATATAGTTTATTAATG
1 AACTATATAAACTATATAGTTTACATAAGAACTATATATATAGTTTATTAATG
* * * * *** *
1591655 AACTATATAAACTATGTA-TATA-ATATA-TACTACATATATAAACTATATATATA
1 AACTATATAAACTATATAGTTTACATA-AGAACTATATATATAGTTTAT-TA-ATG
** * *
1591708 AACTATATGTACCATATAGTTTACATATGAAC----TATATA---TA-TAA-G
1 AACTATATAAACTATATAGTTTACATAAGAACTATATATATAGTTTATTAATG
* *
1591752 --CTATATAAACTATATAGTTTACTTATGAACTATATATATAGTTTATTAATG
1 AACTATATAAACTATATAGTTTACATAAGAACTATATATATAGTTTATTAATG
1591803 AACTATATAAACTAT
1 AACTATATAAACTAT
1591818 TTATATAGTA
Statistics
Matches: 125, Mismatches: 21, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
42 26 0.21
45 1 0.01
46 8 0.06
48 2 0.02
49 2 0.02
50 3 0.02
51 23 0.18
52 6 0.05
53 46 0.37
54 3 0.02
55 5 0.04
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (53 bp):
AACTATATAAACTATATAGTTTACATAAGAACTATATATATAGTTTATTAATG
Found at i:1591713 original size:13 final size:13
Alignment explanation
Indices: 1591671--1591715 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
1591661 ATAAACTATG
*
1591671 TATATAATATATAC
1 TATAT-ATATAAAC
*
1591685 TACATATATAAAC
1 TATATATATAAAC
1591698 TATATATATAAAC
1 TATATATATAAAC
1591711 TATAT
1 TATAT
1591716 GTACCATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 24 0.86
14 4 0.14
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:1591748 original size:24 final size:23
Alignment explanation
Indices: 1591721--1591811 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 23
1591711 TATATGTACC
1591721 ATATAGTTTACATATGAACTATAT
1 ATATAGTTTA-ATATGAACTATAT
* *
1591745 ATATAAG-CT-ATAT-AA--A-CT
1 ATAT-AGTTTAATATGAACTATAT
*
1591763 ATATAGTTTACTTATGAACTATAT
1 ATATAGTTTA-ATATGAACTATAT
*
1591787 ATATAGTTTATTAATGAACTATAT
1 ATATAGTTTAAT-ATGAACTATAT
1591811 A
1 A
1591812 AACTATTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
17 2 0.04
18 6 0.11
19 1 0.02
20 3 0.06
21 4 0.08
22 4 0.08
23 3 0.06
24 28 0.53
25 2 0.04
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (23 bp):
ATATAGTTTAATATGAACTATAT
Found at i:1591767 original size:42 final size:42
Alignment explanation
Indices: 1591690--1591791 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
1591680 TATACTACAT
* **
1591690 ATATAAACTATATATATAAACTATATGTACCATATAGTTTAC
1 ATATGAACTATATATATAAACTATATAAACCATATAGTTTAC
* *
1591732 ATATGAACTATATATATAAGCTATATAAACTATATAGTTTAC
1 ATATGAACTATATATATAAACTATATAAACCATATAGTTTAC
*
1591774 TTATGAACTATATATATA
1 ATATGAACTATATATATA
1591792 GTTTATTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (42 bp):
ATATGAACTATATATATAAACTATATAAACCATATAGTTTAC
Found at i:1591797 original size:20 final size:20
Alignment explanation
Indices: 1591733--1591797 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
1591723 ATAGTTTACA
*
1591733 TATGAACTATATATATAAGCTA
1 TATGAACTATATATAT-AG-TT
* * *
1591755 TATAAACTATATAGTTTA-CT
1 TATGAACTATATA-TATAGTT
1591775 TATGAACTATATATATAGTT
1 TATGAACTATATATATAGTT
1591795 TAT
1 TAT
1591798 TAATGAACTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 3 0.09
20 16 0.47
22 13 0.38
23 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (20 bp):
TATGAACTATATATATAGTT
Found at i:1591811 original size:20 final size:20
Alignment explanation
Indices: 1591721--1591787 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
1591711 TATATGTACC
*
1591721 ATATAGTTTACATATGAACT
1 ATATAGTTTACTTATGAACT
* *
1591741 ATATA-TATAAGCTATATAAACT
1 ATATAGT-TTA-CT-TATGAACT
1591763 ATATAGTTTACTTATGAACT
1 ATATAGTTTACTTATGAACT
1591783 ATATA
1 ATATA
1591788 TATAGTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 1 0.03
20 19 0.50
21 3 0.08
22 14 0.37
23 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
ATATAGTTTACTTATGAACT
Found at i:1591820 original size:24 final size:24
Alignment explanation
Indices: 1591765--1591821 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
1591755 TATAAACTAT
*
1591765 ATAGTTTACTT-ATGAACTATATAT
1 ATAGTTTA-TTAATGAACTATATAA
1591789 ATAGTTTATTAATGAACTATATAA
1 ATAGTTTATTAATGAACTATATAA
1591813 ACTA-TTTAT
1 A-TAGTTTAT
1591822 ATAGTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATAGTTTATTAATGAACTATATAA
Found at i:1591842 original size:20 final size:19
Alignment explanation
Indices: 1591819--1591938 Score: 68
Period size: 20 Copynumber: 6.1 Consensus size: 19
1591809 ATAAACTATT
1591819 TATATAGTATATACTATATA
1 TATATAGTATATA-TATATA
* *
1591839 TATAAACTATATATA-A-A
1 TATATAGTATATATATATA
*
1591856 T-TATAGTTTTTATATATATA
1 TATATAG--TATATATATATA
* *
1591876 CTATTTAGTATAGT-TGATATT
1 -TATATAGTATA-TAT-ATATA
* *
1591897 TATATACTATATATTCTATA
1 TATATAGTATATA-TATATA
*
1591917 TATAAAGTATATATACTATA
1 TATATAGTATATATA-TATA
1591937 TA
1 TA
1591939 GTTTACATAT
Statistics
Matches: 74, Mismatches: 15, Indels: 22
0.67 0.14 0.20
Matches are distributed among these distances:
16 3 0.04
17 2 0.03
18 8 0.11
19 5 0.07
20 45 0.61
21 7 0.09
22 4 0.05
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
TATATAGTATATATATATA
Found at i:1591844 original size:31 final size:31
Alignment explanation
Indices: 1591806--1591889 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
1591796 ATTAATGAAC
1591806 TATATAAACTATTTATATAGTATA-TACTATA
1 TATATAAACTATTTATATAGTATAGT-CTATA
* * * * *
1591837 TATATAAACTATATATAAATTATAGTTTTTA
1 TATATAAACTATTTATATAGTATAGTCTATA
*
1591868 TATATATACTATTTAGTATAGT
1 TATATAAACTATTTA-TATAGT
1591890 TGATATTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
31 37 0.88
32 5 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (31 bp):
TATATAAACTATTTATATAGTATAGTCTATA
Found at i:1591873 original size:148 final size:148
Alignment explanation
Indices: 1591576--1591853 Score: 502
Period size: 148 Copynumber: 1.9 Consensus size: 148
1591566 TATAGTTTAG
1591576 TAGTTTACATATGAACTATATATATAAACTATATAAACTATATAGTTTACGTAAGAACTATATAT
1 TAGTTTACATATGAACTATATATATAAACTATATAAACTATATAGTTTACGTAAGAACTATATAT
1591641 ATAGTTTATTAATGAACTATATAAACTATGTATATAATATATACTACATATATAAACTATATATA
66 ATAGTTTATTAATGAACTATATAAACTATGTATATAATATATACTACATATATAAACTATATATA
1591706 TAAACTATATGTACCATA
131 TAAACTATATGTACCATA
* * *
1591724 TAGTTTACATATGAACTATATATATAAGCTATATAAACTATATAGTTTACTTATGAACTATATAT
1 TAGTTTACATATGAACTATATATATAAACTATATAAACTATATAGTTTACGTAAGAACTATATAT
* * *
1591789 ATAGTTTATTAATGAACTATATAAACTATTTATATAGTATATACTATATATATAAACTATATATA
66 ATAGTTTATTAATGAACTATATAAACTATGTATATAATATATACTACATATATAAACTATATATA
1591854 AATTATAGTT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 124 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (148 bp):
TAGTTTACATATGAACTATATATATAAACTATATAAACTATATAGTTTACGTAAGAACTATATAT
ATAGTTTATTAATGAACTATATAAACTATGTATATAATATATACTACATATATAAACTATATATA
TAAACTATATGTACCATA
Found at i:1591948 original size:29 final size:29
Alignment explanation
Indices: 1591897--1591958 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
1591887 AGTTGATATT
* *
1591897 TATATACTATATATTCTATATATAAAGTA
1 TATATACTATATATTCTACATATAAACTA
*
1591926 TATATACTATATAGTT-TACATATGAACTA
1 TATATACTATATA-TTCTACATATAAACTA
1591955 TATA
1 TATA
1591959 AAAACTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (29 bp):
TATATACTATATATTCTACATATAAACTA
Found at i:1592080 original size:20 final size:20
Alignment explanation
Indices: 1592037--1592080 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1592027 TTGATATTTA
**
1592037 TATACTATATAAATATAATT
1 TATACTATATAAATATAAAG
1592057 TATACTATATAAAT-TCAAAG
1 TATACTATATAAATAT-AAAG
1592077 TATA
1 TATA
1592081 TATTATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (20 bp):
TATACTATATAAATATAAAG
Done.