Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_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: 2814991
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:2156684 original size:84 final size:83
Alignment explanation
Indices: 2156438--2157777 Score: 1241
Period size: 84 Copynumber: 16.1 Consensus size: 83
2156428 GCTATACTGT
* * * *
2156438 AAATGATGTGCCCTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
1 AAATGATGTGCCCTTGAGCTGAGTGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
* *
2156503 TTGACTTATGTTATGCTGC
65 TCGACTTAAGTTATGCTGC
* * * * ** *
2156522 AAATGACGTGCCCTTGAAGATGAGTGTAATTGAACTCGGGGGTC--T-TTGGCAGAT-AGCCTTC
1 AAATGATGTGCCCTTG-AGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
2156583 TCGACTTAAGCTATGCTGC
65 TCGACTTAAGTTATGCTGC
* ** * * *
2156602 AAATGATGTGCCATTGAGCTGAGCATAGTCGAACTCAAAGATCTTGTGTTGGCAGACAACCCTTC
1 AAATGATGTGCCCTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTT-TGTTGGCAGATAACCCTTC
* *
2156667 TAGACTTAAGTTGTGCTGC
65 TCGACTTAAGTTATGCTGC
* ** * *
2156686 AAATGATATG-CCTTGGAGCTGACCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
1 AAATGATGTGCCCTT-GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* * * *
2156750 TAGCCTTGAGTTATGCTGT
65 TCGACTTAAGTTATGCTGC
* * * * ** * *
2156769 GAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG--GGGGTAT-TTGGCAGATAGCCCTTC
1 AAATGATGTGCCCTTG-AGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
2156831 TCGACTTAAGCTATGCTGC
65 TCGACTTAAGTTATGCTGC
* * * *
2156850 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGAAGATAACCCTT
1 AAATGATGTGCCCTT-GAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTT
*
2156914 CTCGACTTAAGTTATACTGC
64 CTCGACTTAAGTTATGCTGC
** ** * *
2156934 AAATGATGTGCCCTCAAAGCTGAGTGTTA-TCGAACTCGGGGGTCTTTTGGATGGCAGATAGCCC
1 AAATGATGTGCCCT-TGAGCTGAGTG-TAGTCGAACTCGAAGGTC-TTT-GTTGGCAGATAACCC
* *
2156998 TTCTCGACTTAAGCTATACTGC
62 TTCTCGACTTAAGTTATGCTGC
* * *
2157020 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTCGGTTGGCAGATAACCCTT
1 AAATGATGTGCCCTT-GAGCTGAGTGTAGTCGAACTCGAAGGTCTT-TGTTGGCAGATAACCCTT
*
2157084 CTCGACTTAAGTTATACTGC
64 CTCGACTTAAGTTATGCTGC
* * ** * * * *
2157104 AAATGATGTGCCCTCGAAACTGAGTGTTA-TCGAACTCGGGGGTGTTTTGGATGGCAGATAGCCT
1 AAATGATGTGCCCTTG-AGCTGAGTG-TAGTCGAACTCGAAGGT-CTTT-GTTGGCAGATAACCC
* * *
2157168 TTCTCGACTTAAGCTATACGGC
62 TTCTCGACTTAAGTTATGCTGC
* * *
2157190 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTCGGTTGGCAGATAACCCTT
1 AAATGATGTGCCCTT-GAGCTGAGTGTAGTCGAACTCGAAGGTCTT-TGTTGGCAGATAACCCTT
* *
2157254 CTCGACTTAAGTTATACTGT
64 CTCGACTTAAGTTATGCTGC
* * *
2157274 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGAGTCTTTG-T---AGATAGCCCTT
1 AAATGATGTGCCCTTG-AGCTGAGTGTAGTCGAACTCGAAG-GTCTTTGTTGGCAGATAACCCTT
* * *
2157334 CTTGACTTAAGCTATGCTGG
64 CTCGACTTAAGTTATGCTGC
* * * * *
2157354 AAATGATGTGTCGTTAAGCTAAGTGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGCCCTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
* * *
2157419 TCGACTTAAGTAATACTGG
65 TCGACTTAAGTTATGCTGC
* * ** * * *
2157438 AAATGATGTGCCCTCGAAGCTGAATGTTA-TCGAACTCGGGGGTCTTTTGGATGGCAAATAGCCC
1 AAATGATGTGCCCTTG-AGCTGAGTG-TAGTCGAACTCGAAGGTC-TTT-GTTGGCAGATAACCC
* *
2157502 TTCTCGACTTAAGCTATACTGC
62 TTCTCGACTTAAGTTATGCTGC
* * ** * *
2157524 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGACAGCCCTTC
1 AAATGATGTGCCCTTG-AGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
2157586 TCGACTTAAGCTATGTTGC
65 TCGACTTAAGTTATGCTGC
* * * *
2157605 AAATGATATGCCGTTGAGCTGAATGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGCCCTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
2157670 TCGACTTAAGTTATGCTGC
65 TCGACTTAAGTTATGCTGC
* * *
2157689 AAATGATGTACCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
1 AAATGATGTGCCCTTG-AGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
2157754 TC-ACCTTGAGTTATGCTGC
65 TCGA-CTTAAGTTATGCTGC
2157773 AAATG
1 AAATG
2157778 TTATCTTAAA
Statistics
Matches: 1025, Mismatches: 183, Indels: 96
0.79 0.14 0.07
Matches are distributed among these distances:
79 42 0.04
80 120 0.12
81 89 0.09
82 11 0.01
83 55 0.05
84 353 0.34
85 182 0.18
86 173 0.17
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (83 bp):
AAATGATGTGCCCTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
CGACTTAAGTTATGCTGC
Found at i:2157031 original size:170 final size:169
Alignment explanation
Indices: 2156430--2157777 Score: 1440
Period size: 170 Copynumber: 8.1 Consensus size: 169
2156420 TGCCTTGAGC
* * * * *
2156430 TATACTGTAAATGATGTGCCCT-GGAGCTGAGCG-TAGTCGAACTCGAAGGTCTTTTGGTGACAG
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTA-TCGAACTCGAGGGTCTTTTGGTGGCAG
* * * * * * * * *
2156493 ATAACCCTTCTTGACTTATGTTATGCTGCAAATGACGTGCCCTTGAAGATGAGTGTAATTGAACT
65 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAGCGTAGTCGAACT
*** * *
2156558 CGGGGGTC--T--TTGGCAGAT-AGCCTTCTCGACTTAAGC
129 CAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* * * ** * * * * *
2156594 TATGCTGCAAATGATGTGCCATTG-AGCTGAG-CATAGTCGAACTCAAAGATCTTGTGTTGGCAG
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTA-TCGAACTCGAGGGTCTTTTGGTGGCAG
* * * * * * * *
2156657 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGACCGTAGTCGAACTC
65 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTC
* * * * *
2156722 GAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGT
130 AAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* ** * * * *
2156761 TATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG-GGG-GTATT--TGGCAGA
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGAGGGTCTTTTGGTGGCAGA
*
2156822 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCA
66 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCA
* *
2156887 AAGGTATTTGGTTGGAAGATAACCCTTCTCGACTTAAGT
131 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* *
2156926 TATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTTATCGAACTCGGGGGTCTTTTGGATGGCAG
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGAGGGTCTTTTGG-TGGCAG
* *
2156991 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
65 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTC
*
2157056 AAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGT
130 AAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* * *
2157096 TATACTGCAAATGATGTGCCCTCGAAACTGAGTGTTATCGAACTCGGGGGTGTTTTGGATGGCAG
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGAGGGTCTTTTGG-TGGCAG
* * * *
2157161 ATAGCCTTTCTCGACTTAAGCTATACGGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
65 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTC
*
2157226 AAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGT
130 AAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* * *
2157266 TATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTC-TTT-GT---AGA
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGAGGGTCTTTTGGTGGCAGA
* * * * *
2157326 TAGCCCTTCTTGACTTAAGCTATGCTGGAAATGATGTGTCGTT-AAGCTAAGTGTAGTCGAACTC
66 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAGCGTAGTCGAACTC
2157390 AAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
130 AAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * *
2157430 AATACTGGAAATGATGTGCCCTCGAAGCTGAATGTTATCGAACTCGGGGGTCTTTTGGATGGCAA
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGAGGGTCTTTTGG-TGGCAG
* * * *
2157495 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
65 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAGCGTAGTCGAACT
*** * * *
2157560 CGGGGGTC--T--TTGGCAGACAGCCCTTCTCGACTTAAGC
129 CAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
** * * * * * *
2157597 TATGTTGCAAATGATATGCCGTTG-AGCTGAATG-TAGTCGAACTCAAAGGTC-TTTGGTTGGCA
1 TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTA-TCGAACTCGAGGGTCTTTTGG-TGGCA
* * * * * *
2157659 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCCTCGAAGCTGAGTGTAATCGAAC
64 GATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT-GCCTTGAAGCTGAGCGTAGTCGAAC
* *
2157724 TCGAAGGTCTTT-GTTGGCAGATAACCCTTCTC-ACCTTGAGT
128 TCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGA-CTTAAGT
*
2157765 TATGCTGCAAATG
1 TATACTGCAAATG
2157778 TTATCTTAAA
Statistics
Matches: 1021, Mismatches: 134, Indels: 54
0.84 0.11 0.04
Matches are distributed among these distances:
163 25 0.02
164 297 0.29
165 148 0.14
166 34 0.03
167 82 0.08
168 50 0.05
169 5 0.00
170 357 0.35
171 23 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (169 bp):
TATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGAGGGTCTTTTGGTGGCAGA
TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCA
AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
Found at i:2157063 original size:334 final size:333
Alignment explanation
Indices: 2156567--2157754 Score: 1348
Period size: 334 Copynumber: 3.6 Consensus size: 333
2156557 TCGGGGGTCT
* * * * ** **
2156567 TTGGCAGAT-AGCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCAT-TGAGCTGAG-CATA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTTA
* * * * * * * * *
2156629 GTCGAACTCAAAGATCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATA
66 -TCGAACTCGAGGGTCTT-TGGTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * * *
2156694 TGCCTTGGAGCTGACCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTG
129 TGCCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTA
* * * *
2156758 AGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTATT-TGGCAGA
194 AGTTATACTG-GAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGGGGGTTTTGTGGCAGA
*
2156822 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCA
258 TAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCA
2156887 AAGGTATTTGG
323 AAGGTATTTGG
*
2156898 TTGGAAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTTA
* * *
2156963 TCGAACTCGGGGGTCTTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATG
66 TCGAACTCGAGGGTC-TTTGG-TGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * *
2157028 TGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTA
129 TGCCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTA
* *
2157093 AGTTATACTGCAAATGATGTGCCCTCGAAACTGAGTGTTATCGAACTCGGGGGTGTTTTGGATGG
194 AGTTATACTG-GAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTC-GGGG-GTTTT-G-TGG
* *
2157158 CAGATAGCCTTTCTCGACTTAAGCTATACGGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
254 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
2157223 CTCAAAGGTCTTCGG
319 CTCAAAGGTATTTGG
* * *
2157238 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTTA
* * * *
2157303 TCGAACTCGAGAGTCTTT-GT---AGATAGCCCTTCTTGACTTAAGCTATGCTGGAAATGATGTG
66 TCGAACTCGAGGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * *
2157364 TCGTT-AAGCTAAGTGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
131 -CCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAA
* *
2157428 GTAATACTGGAAATGATGTGCCCTCGAAGCTGAATGTTATCGAACTCGGGGGTCTTTTGGATGGC
195 GTTATACTGG-AATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGGGGG--TTTT-G-TGGC
* * * * *
2157493 AAATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
255 AGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* ** *
2157558 CTC--GGGGGTCT--
319 CTCAAAGGTATTTGG
* * * ** * * ** *
2157569 TTGGCAGACAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATATGCCGT-TGAGCTGAATG-TA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTTA
* * *
2157632 GTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
66 -TCGAACTCGAGGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * *
2157697 TACCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCT
129 T-GCCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCT
2157755 CACCTTGAGT
Statistics
Matches: 738, Mismatches: 95, Indels: 44
0.84 0.11 0.05
Matches are distributed among these distances:
329 1 0.00
330 23 0.03
331 51 0.07
332 38 0.05
333 27 0.04
334 261 0.35
335 144 0.20
336 32 0.04
337 5 0.01
338 1 0.00
339 3 0.00
340 152 0.21
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (333 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTTA
TCGAACTCGAGGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCTTGAAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAG
TTATACTGGAATGATGTGCCCTCGAAGCTGAGTGTTATCGAACTCGGGGGTTTTGTGGCAGATAG
CCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
GTATTTGG
Found at i:2162942 original size:12 final size:12
Alignment explanation
Indices: 2162913--2162941 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2162903 AAAAAGAGAG
2162913 AAAAAATTATAT
1 AAAAAATTATAT
2162925 AAAAAATTAT-T
1 AAAAAATTATAT
2162936 AAAAAA
1 AAAAAA
2162942 AACAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:2163016 original size:3 final size:3
Alignment explanation
Indices: 2163003--2163032 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2162993 AAAAAGCTGA
2163003 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2163033 GGTAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2164284 original size:21 final size:20
Alignment explanation
Indices: 2164267--2164314 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 20
2164257 CCGTGACTTG
2164267 TTGGACTGGACAGTTGACCAT
1 TTGGACTGGACAGTTGA-CAT
2164288 TTGGACTGGACAGTTGACCAT
1 TTGGACTGGACAGTTGA-CAT
2164309 TTGGAC
1 TTGGAC
2164315 CTGAAACGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (20 bp):
TTGGACTGGACAGTTGACAT
Found at i:2164345 original size:15 final size:14
Alignment explanation
Indices: 2164325--2164356 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
2164315 CTGAAACGGA
2164325 AAAAAAATAAGTAAT
1 AAAAAAATAA-TAAT
2164340 AAAAAAATAATAAT
1 AAAAAAATAATAAT
2164354 AAA
1 AAA
2164357 TAGCGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAAAAATAATAAT
Found at i:2164387 original size:22 final size:22
Alignment explanation
Indices: 2164345--2164387 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2164335 GTAATAAAAA
**
2164345 AATAATAATAAATAGCGATAAT
1 AATAATAATAAATAAAGATAAT
*
2164367 AATAATAATAAATAAATATAA
1 AATAATAATAAATAAAGATAA
2164388 AACTATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (22 bp):
AATAATAATAAATAAAGATAAT
Found at i:2164505 original size:32 final size:29
Alignment explanation
Indices: 2164459--2164535 Score: 109
Period size: 32 Copynumber: 2.6 Consensus size: 29
2164449 TTTCAATTTT
2164459 TTTTAAAAATTATATAATTTTCAAAAAAATA
1 TTTTAAAAATTATATAATTTT--AAAAAATA
* *
2164490 TTTTCAAAAACTATATAATTTTTAAAAATA
1 TTTT-AAAAATTATATAATTTTAAAAAATA
2164520 TTTTAAAAATTATATA
1 TTTTAAAAATTATATA
2164536 TTATATATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 11 0.26
30 11 0.26
31 4 0.10
32 16 0.38
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTTAAAAATTATATAATTTTAAAAAATA
Found at i:2164681 original size:36 final size:37
Alignment explanation
Indices: 2164501--2164730 Score: 252
Period size: 36 Copynumber: 6.2 Consensus size: 37
2164491 TTTCAAAAAC
* *
2164501 TATATA-ATTTTTAAAAATATTTTAAAAATTATATAT
1 TATATATATTTTCAAAAATGTTTTAAAAATTATATAT
* *
2164537 TATATATCAGTTTTCAAGAATGCTTTAAAAAATTATATAT
1 TATATAT-A-TTTTCAAAAATG-TTTTAAAAATTATATAT
**
2164577 TATATA-AGTTTTCAAAAAATGATTTTAAAAACCATATAT
1 TATATATA-TTTTC-AAAAATG-TTTTAAAAATTATATAT
* *
2164616 TATATATTTTTTCTAAAATGTTTTAAAAATTATATAT
1 TATATATATTTTCAAAAATGTTTTAAAAATTATATAT
* *
2164653 CATATATATTTT-AAAAATGTTTTCAAAATTATATAT
1 TATATATATTTTCAAAAATGTTTTAAAAATTATATAT
* * * *
2164689 CATATATATTTTC-AAAATGTTTTCAATATTATATAA
1 TATATATATTTTCAAAAATGTTTTAAAAATTATATAT
2164725 TATATA
1 TATATA
2164731 CATATATATT
Statistics
Matches: 167, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
36 66 0.40
37 25 0.15
38 14 0.08
39 40 0.24
40 22 0.13
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (37 bp):
TATATATATTTTCAAAAATGTTTTAAAAATTATATAT
Found at i:2165396 original size:25 final size:23
Alignment explanation
Indices: 2165368--2165422 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
2165358 ATTTACTCAC
*
2165368 TTAATTTTATTTTTTTCCTATTTT
1 TTAATTTTATATTTTT-CTATTTT
* *
2165392 ATTAATTATATATTTTTGTATTTT
1 -TTAATTTTATATTTTTCTATTTT
2165416 TTAATTT
1 TTAATTT
2165423 ACTCGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 6 0.23
24 6 0.23
25 14 0.54
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
TTAATTTTATATTTTTCTATTTT
Found at i:2169262 original size:42 final size:42
Alignment explanation
Indices: 2169199--2169284 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
2169189 AGCTTAGCAG
* *
2169199 AATAAGGTTCTATAAAAGAAACAAATTGAAGATAAATGTCAA
1 AATAAGGTGCTATAAAAGAAACAAATCGAAGATAAATGTCAA
* *
2169241 AATAAGGTGCTATAAATGAAACAGATCGAAGATAAATGTCAA
1 AATAAGGTGCTATAAAAGAAACAAATCGAAGATAAATGTCAA
2169283 AA
1 AA
2169285 CTTCGTGGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.22
Consensus pattern (42 bp):
AATAAGGTGCTATAAAAGAAACAAATCGAAGATAAATGTCAA
Found at i:2180652 original size:15 final size:15
Alignment explanation
Indices: 2180632--2180713 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
2180622 TTCCAGAAAA
2180632 TGAATTACTGGAATT
1 TGAATTACTGGAATT
2180647 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
2180662 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
2180677 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
2180692 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
2180706 TGAATTAC
1 TGAATTAC
2180714 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:2180666 original size:30 final size:30
Alignment explanation
Indices: 2180632--2180713 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
2180622 TTCCAGAAAA
**
2180632 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
2180662 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
2180692 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
2180714 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:2180691 original size:45 final size:44
Alignment explanation
Indices: 2180627--2180713 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
2180617 TGGTTTTCCA
**
2180627 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
2180672 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
2180714 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:2180719 original size:20 final size:20
Alignment explanation
Indices: 2180696--2180765 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
2180686 GGAATTTGAA
2180696 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
2180716 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
2180736 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
2180756 TTCTGGAAAA
1 TTCTGGAAAA
2180766 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:2180957 original size:30 final size:28
Alignment explanation
Indices: 2180911--2180977 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
2180901 TTTACTAAAA
* * *
2180911 TATTATTGAAATATATAAATAATATTAT
1 TATTATTAAAATATATAAAAAAAATTAT
2180939 TCATTATTAAATATATATAAAAAAAATTAT
1 T-ATTATTAAA-ATATATAAAAAAAATTAT
2180969 TATATATTA
1 TAT-TATTA
2180978 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 10 0.30
30 22 0.67
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TATTATTAAAATATATAAAAAAAATTAT
Found at i:2180975 original size:23 final size:24
Alignment explanation
Indices: 2180941--2181002 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
2180931 AATATTATTC
*
2180941 ATTATTAAATA-TATATAAAA-AAA
1 ATTATTATATATTAT-TAAAATAAA
2180964 ATTATTATATATTATTAAAATAAA
1 ATTATTATATATTATTAAAATAAA
* * *
2180988 AATATAATATCTTAT
1 ATTATTATATATTAT
2181003 ATTATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTATTATATATTATTAAAATAAA
Found at i:2181012 original size:54 final size:53
Alignment explanation
Indices: 2180954--2181065 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 53
2180944 ATTAAATATA
2180954 TATAAAAAAAATT-ATTATATATTAT-TAA-AATAAAAATATAATATCTTATATTAT
1 TATAAAAAAAATTGATTAT-T-TTATATAATAATAAAAATATAATA--TTATATTAT
* * *
2181008 TAT-AATATAATTGATTATTTTATATAATATTAAAAATATAATATTATATTAT
1 TATAAAAAAAATTGATTATTTTATATAATAATAAAAATATAATATTATATTAT
2181060 TATAAA
1 TATAAA
2181066 TATTAATAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
52 16 0.31
53 13 0.25
54 22 0.43
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (53 bp):
TATAAAAAAAATTGATTATTTTATATAATAATAAAAATATAATATTATATTAT
Found at i:2181055 original size:22 final size:23
Alignment explanation
Indices: 2181030--2181073 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2181020 GATTATTTTA
2181030 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
2181052 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
2181074 AATATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:2181083 original size:23 final size:22
Alignment explanation
Indices: 2181029--2181092 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
2181019 TGATTATTTT
*
2181029 ATATAATATTAAAAATA-TAATA
1 ATAT-ATATTATAAATATTAATA
*
2181051 TTATATTATTATAAATATTAATAA
1 ATATA-TATTATAAATATTAAT-A
*
2181075 ATATATATTTTAAATATT
1 ATATATATTATAAATATT
2181093 TTAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 13 0.37
23 16 0.46
24 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATATATTATAAATATTAATA
Found at i:2181091 original size:54 final size:53
Alignment explanation
Indices: 2180969--2181092 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 53
2180959 AAAAAATTAT
**
2180969 TATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTGA
1 TATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAAA
2181022 T-TAT-TTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAAA
1 TATATATTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAAA
2181076 TATATATTTTAAATATT
1 TATATATTTTAAATATT
2181093 TTAATAATTA
Statistics
Matches: 61, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 1 0.02
51 4 0.07
52 17 0.28
53 6 0.10
54 25 0.41
55 5 0.08
56 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (53 bp):
TATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAAA
Found at i:2181328 original size:42 final size:42
Alignment explanation
Indices: 2181281--2181400 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
2181271 ATGAATTACA
* *
2181281 TTCCGGAAAACAAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
2181323 TTCCGGAAAATGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
2181365 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
2181401 TTCGGGAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:2181638 original size:60 final size:60
Alignment explanation
Indices: 2181528--2181640 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
2181518 GTCGAGTGAC
* * * * *
2181528 AATTTTATAAATTTTAATAGTCAAGGGACTCAACAAAATAATATCTTATAGTTGAGAGAT
1 AATTTTATAAATTTTAATAGTCAAGGGACTAAACAAAACAACACCATATAGTTGAGAGAT
* *
2181588 AATTTTATAATTTTTAATAGTC-GGGAGACTAAACAAAACAACACCATATAGTT
1 AATTTTATAAATTTTAATAGTCAAGG-GACTAAACAAAACAACACCATATAGTT
2181641 AGGGACTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 2 0.04
60 43 0.96
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (60 bp):
AATTTTATAAATTTTAATAGTCAAGGGACTAAACAAAACAACACCATATAGTTGAGAGAT
Found at i:2191228 original size:20 final size:20
Alignment explanation
Indices: 2191203--2191255 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
2191193 GTCTTGAATA
2191203 AATTTATTAAATATTAATTT
1 AATTTATTAAATATTAATTT
**
2191223 AATTTAATTATTTA-TAATTT
1 AATTT-ATTAAATATTAATTT
2191243 AA-TTA-TAAATATT
1 AATTTATTAAATATT
2191256 TTGTAATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 4 0.15
18 2 0.07
19 2 0.07
20 13 0.48
21 6 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTATTAAATATTAATTT
Found at i:2196387 original size:21 final size:21
Alignment explanation
Indices: 2196363--2196403 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2196353 ATTACCAGCT
*
2196363 ACGCCCGCAACGGCCGCAATA
1 ACGCCCGCAACGGCCACAATA
* *
2196384 ACGCCTGCGACGGCCACAAT
1 ACGCCCGCAACGGCCACAAT
2196404 CACGGTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.41, G:0.24, T:0.07
Consensus pattern (21 bp):
ACGCCCGCAACGGCCACAATA
Found at i:2198271 original size:110 final size:111
Alignment explanation
Indices: 2198104--2198304 Score: 316
Period size: 110 Copynumber: 1.8 Consensus size: 111
2198094 AGTCCTTCTT
*
2198104 GTGGTTCCGGGATCGGGTTCCGACTTGATTTGATTTATGTTGGAGCCGTCACCGATCATTTTAAT
1 GTGGTTCCGGGATCGGGTTCCGACTTGATTTGATGTATGTTGGAGCCGTCACCGATCATTTTAAT
*
2198169 TTGGTCGATCGGATACCATAACTTACTTTTAGTAACCATACTTTGG
66 TTGGTCGATCAGATACCATAACTTACTTTTAGTAACCATACTTTGG
* * *
2198215 GTGGTT-CTGGATCGGGTTCCGACTTGATTTGATGTGTGTTGGAGCC-TCCACTGATCATTTTAA
1 GTGGTTCCGGGATCGGGTTCCGACTTGATTTGATGTATGTTGGAGCCGT-CACCGATCATTTTAA
* *
2198278 TTTGGTTGATCAGATACTATAACTTAC
65 TTTGGTCGATCAGATACCATAACTTAC
2198305 CGTTATCTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
109 1 0.01
110 75 0.91
111 6 0.07
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (111 bp):
GTGGTTCCGGGATCGGGTTCCGACTTGATTTGATGTATGTTGGAGCCGTCACCGATCATTTTAAT
TTGGTCGATCAGATACCATAACTTACTTTTAGTAACCATACTTTGG
Found at i:2199805 original size:2 final size:2
Alignment explanation
Indices: 2199800--2200170 Score: 251
Period size: 2 Copynumber: 197.0 Consensus size: 2
2199790 AAAATGTAAC
*
2199800 TA TA TA -A TA TA TA GTA CTA AA TA TA -A TA -A TA TA TA -A TA TA
1 TA TA TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
2199840 TA -A CTA TA TA -A TA TA TA -A TA AA TA TA AA TA TA CA CTA TA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
2199880 TA TA TA -A TA TA TA TA -A TA TA -A CTA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
2199919 TA -A TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2199958 TA -A TA TA TA -A TA TA -A TA TA TA -A TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2199995 CTA TA -A TA TA TA -A TA CTA TA TA -A TA TA TA TA -A TA -A CA AA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
2200034 TA TA TA CTA TA -A TA TA TA -A TA TA TA CTA TA TA TA TA TA CTA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
*
2200075 TA -A TA TA TA -A GA CTA TA TA -A TA TA TA TCA TA TA CTA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA TA -TA TA TA
* *
2200115 -A T- TA CTA TA -A TA TA TA -A TA TA -A AA TA -A TA TA TA GA -A
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2200151 TA TA GTG TA TA T- TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA
2200171 AAAAAAAGAA
Statistics
Matches: 301, Mismatches: 16, Indels: 104
0.71 0.04 0.25
Matches are distributed among these distances:
1 38 0.13
2 238 0.79
3 25 0.08
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (2 bp):
TA
Found at i:2199912 original size:47 final size:47
Alignment explanation
Indices: 2199707--2200171 Score: 331
Period size: 44 Copynumber: 10.1 Consensus size: 47
2199697 AATAAAATTA
* * *
2199707 ATAATAATATAATATAATATATAAAATAAATA-ATAATAATATAACATA-
1 ATAAT-ATATACTATAATATAT-AAATATATATATAAT-ATATAATATAT
* * * * * * *
2199755 GTAATATTATAATATAATGCTAGTATATA-ATATATAAAATGTAA-CTAT
1 ATAATA-TATACTATAAT-ATA-TAAATATATATATAATATATAATATAT
* *
2199803 ATAATATATAGTACTAA-ATAT-AATA-ATATATAATATATAA-CTAT
1 ATAATATATACTA-TAATATATAAATATATATATAATATATAATATAT
*
2199847 ATAATATATA--ATAA-ATATAAATATACACTATAATATATAATATAT
1 ATAATATATACTATAATATATAAATATATA-TATAATATATAATATAT
*
2199892 ATAATATA-ACTATAATATATATATATATA-AT-ATAATATAATATAT
1 ATAATATATACTATAATATATAAATATATATATAAT-ATATAATATAT
2199937 AT-ATATATA-TATATATATATATAATATATAATATAATATATAATATAT
1 ATAATATATACTATA-ATATATA-AATATAT-ATATAATATATAATATAT
*
2199985 ATAATATATACTATAATATAT-AATACTATATA-ATATATATAATA-AC
1 ATAATATATACTATAATATATAAATA-TATATATA-ATATATAATATAT
*
2200031 A-AATATATACTATAATATAT-AATATATACTAT-ATATAT-ATA-CT
1 ATAATATATACTATAATATATAAATATATA-TATAATATATAATATAT
* * *
2200074 ATAATATATA--AGACTATATAATATATATCATATACTATATAAT-TACT
1 ATAATATATACTATAATATATAA-ATATAT-ATATAATATATAATATA-T
* * * * *
2200121 ATAATATATAATATAA-A-ATAATATATAGAATATAGTGTATATTATAT
1 ATAATATATACTATAATATATAA-ATATA-TATATAATATATAATATAT
2200168 ATAA
1 ATAA
2200172 AAAAAAGAAC
Statistics
Matches: 349, Mismatches: 30, Indels: 77
0.77 0.07 0.17
Matches are distributed among these distances:
41 7 0.02
42 12 0.03
43 7 0.02
44 81 0.23
45 66 0.19
46 17 0.05
47 75 0.21
48 52 0.15
49 27 0.08
50 5 0.01
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (47 bp):
ATAATATATACTATAATATATAAATATATATATAATATATAATATAT
Found at i:2200044 original size:19 final size:19
Alignment explanation
Indices: 2199801--2200069 Score: 174
Period size: 19 Copynumber: 13.3 Consensus size: 19
2199791 AAATGTAACT
*
2199801 ATATAATATATAGTACTA-A
1 ATATAAAATATA-TACTATA
*
2199820 ATATAATAATATATAATATATA
1 ATATAA-AATATAT-A-CTATA
* *
2199842 ACTATATAATATATAATA-A
1 A-TATAAAATATATACTATA
*
2199861 ATAT-AAATATACACTATA
1 ATATAAAATATATACTATA
*
2199879 ATATATAATATATATAATATA
1 ATATA-AA-ATATATACTATA
2199900 ACTATAATATATATATA-TATA
1 A-TATAA-A-ATATATACTATA
*
2199921 ATATAATATAATATA-TATA
1 ATATAAAAT-ATATACTATA
*
2199940 TATATATATATATATA-TATA
1 -ATATA-AAATATATACTATA
*
2199960 ATATATAATATAATA-TATA
1 ATATAAAATAT-ATACTATA
2199979 ATATATATAATATATACTATA
1 ATATA-A-AATATATACTATA
*
2200000 ATATATAATACTATATAATATA
1 ATATA-AA-A-TATATACTATA
2200022 TATAATAACAAATATATACTATA
1 -AT-AT-A-AAATATATACTATA
*
2200045 ATATATAATATATACTATA
1 ATATAAAATATATACTATA
2200064 TATATA
1 -ATATA
2200070 TACTATAATA
Statistics
Matches: 210, Mismatches: 16, Indels: 47
0.77 0.06 0.17
Matches are distributed among these distances:
17 9 0.04
18 14 0.07
19 48 0.23
20 40 0.19
21 43 0.20
22 34 0.16
23 16 0.08
24 3 0.01
25 3 0.01
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATAAAATATATACTATA
Found at i:2200169 original size:7 final size:7
Alignment explanation
Indices: 2199718--2200154 Score: 304
Period size: 7 Copynumber: 60.4 Consensus size: 7
2199708 TAATAATATA
2199718 ATATAAT
1 ATATAAT
*
2199725 ATATAAA
1 ATATAAT
2199732 ATA-AAT
1 ATATAAT
2199738 A-ATAAT
1 ATATAAT
*
2199744 AATATAAC
1 -ATATAAT
2199752 ATAGTAAT
1 ATA-TAAT
2199760 ATTATAAT
1 A-TATAAT
*
2199768 ATAATGCTAGT
1 AT-A---TAAT
2199779 ATATAAT
1 ATATAAT
*
2199786 ATATAAA
1 ATATAAT
*
2199793 ATGTAACT
1 ATATAA-T
2199801 ATATAAT
1 ATATAAT
*
2199808 ATATAGT
1 ATATAAT
2199815 ACTA-AAT
1 A-TATAAT
2199822 ATAATAAT
1 AT-ATAAT
2199830 ATATAAT
1 ATATAAT
2199837 ATATAACT
1 ATATAA-T
2199845 ATATAAT
1 ATATAAT
2199852 ATATAAT
1 ATATAAT
2199859 AAATATAA-
1 --ATATAAT
2199867 ATATACA-
1 ATATA-AT
*
2199874 CTATAAT
1 ATATAAT
2199881 ATATAAT
1 ATATAAT
2199888 ATAT-AT
1 ATATAAT
2199894 AATATAA-
1 -ATATAAT
*
2199901 CTATAAT
1 ATATAAT
2199908 ATATATAT
1 ATATA-AT
2199916 ATATAAT
1 ATATAAT
2199923 ATA-ATAT
1 ATATA-AT
2199930 AATATATAT
1 -ATATA-AT
2199939 ATATATAT
1 ATATA-AT
2199947 ATATATAT
1 ATATA-AT
2199955 ATATAAT
1 ATATAAT
2199962 ATAT-A-
1 ATATAAT
2199967 ATATAAT
1 ATATAAT
2199974 ATATAAT
1 ATATAAT
2199981 ATAT-AT
1 ATATAAT
2199987 A-ATATAT
1 ATATA-AT
2199994 ACTATAAT
1 A-TATAAT
2200002 ATATAAT
1 ATATAAT
2200009 ACTAT-AT
1 A-TATAAT
2200016 A-AT-AT
1 ATATAAT
2200021 ATATAAT
1 ATATAAT
*
2200028 A-ACAA-
1 ATATAAT
2200033 ATAT-AT
1 ATATAAT
2200039 ACTATAAT
1 A-TATAAT
2200047 ATATAAT
1 ATATAAT
2200054 ATATACTAT
1 ATATA--AT
2200063 ATATATAT
1 ATATA-AT
2200071 ACTATAAT
1 A-TATAAT
2200079 ATATAAGACT
1 ATAT-A-A-T
2200089 ATATAAT
1 ATATAAT
2200096 ATAT-AT
1 ATATAAT
*
2200102 CATATACT
1 -ATATAAT
2200110 ATATAATT
1 ATATAA-T
2200118 ACTATAAT
1 A-TATAAT
2200126 ATATAAT
1 ATATAAT
*
2200133 ATAAAAT
1 ATATAAT
2200140 A-AT-AT
1 ATATAAT
*
2200145 ATAGAAT
1 ATATAAT
2200152 ATA
1 ATA
2200155 GTGTATATTA
Statistics
Matches: 357, Mismatches: 23, Indels: 100
0.74 0.05 0.21
Matches are distributed among these distances:
5 17 0.05
6 37 0.10
7 171 0.48
8 88 0.25
9 33 0.09
10 6 0.02
11 5 0.01
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:2203227 original size:65 final size:64
Alignment explanation
Indices: 2203092--2203247 Score: 206
Period size: 65 Copynumber: 2.4 Consensus size: 64
2203082 TACACTAGGG
* * * *
2203092 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAGAGCCAGGAGTGCATCGATGCATGGTCT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAGCCAAGAGTGCATCGATGCATGGTCT
* * ** *
2203156 GTGCATCGGTACACAAAATGCATTTGATGTTTCAAAATATTCAAGAGTGCATTGATGCATGG-CT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTC-AAAGAGCCAAGAGTGCATCGATGCATGGTC-
2203220 T
64 T
2203221 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
2203248 AATGGGTGTG
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 30 0.38
65 50 0.62
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAGCCAAGAGTGCATCGATGCATGGTCT
Found at i:2205923 original size:23 final size:22
Alignment explanation
Indices: 2205889--2205962 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
2205879 CACAGCAGAG
2205889 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGG-A
* *
2205912 TGCATCGGTGCATC-TTC-ATGA
1 TGCATCGATGCA-CATTCAAGGA
* *
2205933 TGTATCTATGCACATTCAAGTGA
1 TGCATCGATGCACATTCAAG-GA
2205956 TGCATCG
1 TGCATCG
2205963 GTACACTGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 1 0.03
21 13 0.33
22 3 0.08
23 21 0.54
24 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:2211475 original size:10 final size:10
Alignment explanation
Indices: 2211460--2211485 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2211450 GTTTGATGCT
2211460 TTCTCTTTGA
1 TTCTCTTTGA
2211470 TTCTCTTTGA
1 TTCTCTTTGA
2211480 TTCTCT
1 TTCTCT
2211486 AGCTTCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.23, G:0.08, T:0.62
Consensus pattern (10 bp):
TTCTCTTTGA
Found at i:2211868 original size:65 final size:64
Alignment explanation
Indices: 2211727--2211882 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 64
2211717 TACACTAGGG
* * * * * *
2211727 GTGCATCGATACACTAATTACATTCGATGTTTCAAAGAACCAGGAGTGCATCGATGCATGGTCT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAACCAAGAGTGCACCGATGCATGGTCT
* * * *
2211791 GTACATCGGTACACAAAATGCATTCGATGTTTCAAA-ATATTCAAGAGTGCACCTATGTATGG-C
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGA-A-CCAAGAGTGCACCGATGCATGGTC
2211854 TT
64 -T
2211856 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
2211883 AATGGGTGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
63 1 0.01
64 33 0.42
65 44 0.56
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAACCAAGAGTGCACCGATGCATGGTCT
Found at i:2212271 original size:7 final size:7
Alignment explanation
Indices: 2212259--2212332 Score: 86
Period size: 7 Copynumber: 11.1 Consensus size: 7
2212249 GGATTCAACT
2212259 TATATAA
1 TATATAA
2212266 TATATAA
1 TATATAA
2212273 CTATATAA
1 -TATATAA
2212281 TATATAA
1 TATATAA
2212288 TA-ATAA
1 TATATAA
*
2212294 -ATATAC
1 TATATAA
2212300 TATATAA
1 TATATAA
2212307 TATA-AA
1 TATATAA
*
2212313 TATA-CA
1 TATATAA
2212319 T-TATAA
1 TATATAA
2212325 TATATAA
1 TATATAA
2212332 T
1 T
2212333 GTATGTAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
5 3 0.05
6 17 0.29
7 31 0.53
8 7 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:2212313 original size:18 final size:18
Alignment explanation
Indices: 2212275--2212328 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
2212265 ATATATAACT
*
2212275 ATATAATATATAATAATAA
1 ATATACTATATAAT-ATAA
2212294 ATATACTATATAATATAA
1 ATATACTATATAATATAA
2212312 ATATAC-ATTATAATATA
1 ATATACTA-TATAATATA
2212329 TAATGTATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 1 0.03
18 19 0.58
19 13 0.39
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATACTATATAATATAA
Found at i:2212369 original size:25 final size:25
Alignment explanation
Indices: 2212267--2212371 Score: 89
Period size: 25 Copynumber: 4.3 Consensus size: 25
2212257 CTTATATAAT
*
2212267 ATATAACTATATAATATATAATAATA
1 ATATAACTATATAATATGTAAT-ATA
*
2212293 A-ATATACTATATAATAT-AAATATA
1 ATATA-ACTATATAATATGTAATATA
*
2212317 CATTATAA-TATAT-A-ATGT-ATGTA
1 -A-TATAACTATATAATATGTAATATA
2212340 ATATAACTATAATAAT-TGTAATATA
1 ATATAACTAT-ATAATATGTAATATA
2212365 ATATAAC
1 ATATAAC
2212372 GTAACGTAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 21
0.72 0.04 0.23
Matches are distributed among these distances:
21 5 0.08
22 4 0.06
23 8 0.12
24 8 0.12
25 23 0.35
26 14 0.22
27 3 0.05
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (25 bp):
ATATAACTATATAATATGTAATATA
Found at i:2212376 original size:5 final size:5
Alignment explanation
Indices: 2212368--2212460 Score: 186
Period size: 5 Copynumber: 18.6 Consensus size: 5
2212358 TAATATAATA
2212368 TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG
1 TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG
2212418 TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAA
1 TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAACG TAA
2212461 ATTGAATTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 88 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (5 bp):
TAACG
Found at i:2213011 original size:5 final size:5
Alignment explanation
Indices: 2213001--2213094 Score: 92
Period size: 5 Copynumber: 19.2 Consensus size: 5
2212991 TATTTTTATA
*
2213001 ATAAT ATAAT ATAAT ATAACT -GAAT AT-AT ATTAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT
*
2213051 ATAAT ATAACT -GAAT AT-AT ATTAAT ATAAT ATAA- A-AAT ATAAT A
1 ATAAT ATAA-T ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT A
2213095 CTATTAAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
3 2 0.03
4 10 0.13
5 55 0.73
6 8 0.11
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:2213048 original size:40 final size:40
Alignment explanation
Indices: 2213001--2213094 Score: 174
Period size: 40 Copynumber: 2.4 Consensus size: 40
2212991 TATTTTTATA
2213001 ATAATATAATATAATATAACTGAATATATATTAATATAAT
1 ATAATATAATATAATATAACTGAATATATATTAATATAAT
2213041 ATAATATAATATAATATAACTGAATATATATTAATATAAT
1 ATAATATAATATAATATAACTGAATATATATTAATATAAT
2213081 ATAA-A-AATATAATA
1 ATAATATAATATAATA
2213095 CTATTAAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 9 0.17
39 1 0.02
40 44 0.81
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (40 bp):
ATAATATAATATAATATAACTGAATATATATTAATATAAT
Found at i:2228631 original size:11 final size:11
Alignment explanation
Indices: 2228615--2228639 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2228605 GGCTTGTAGC
2228615 AGTTGTTGCAG
1 AGTTGTTGCAG
2228626 AGTTGTTGCAG
1 AGTTGTTGCAG
2228637 AGT
1 AGT
2228640 CTTGCATCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (11 bp):
AGTTGTTGCAG
Found at i:2241674 original size:14 final size:14
Alignment explanation
Indices: 2241655--2241688 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2241645 TTTTTTGGAG
*
2241655 TCGAGTCGAGTTAA
1 TCGAGTCAAGTTAA
*
2241669 TCGAGTCAAGTTAT
1 TCGAGTCAAGTTAA
2241683 TCGAGT
1 TCGAGT
2241689 TTCTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (14 bp):
TCGAGTCAAGTTAA
Found at i:2245075 original size:20 final size:20
Alignment explanation
Indices: 2245060--2245108 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2245050 TTTGTTGACT
*
2245060 GTTGACTTTGAATGTTGATC
1 GTTGACTTTGAATGTTGATA
**
2245080 GTTGACTTTGACCGTTGATA
1 GTTGACTTTGAATGTTGATA
2245100 GTTGACTTT
1 GTTGACTTT
2245109 TCTTTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.45
Consensus pattern (20 bp):
GTTGACTTTGAATGTTGATA
Found at i:2246142 original size:2 final size:2
Alignment explanation
Indices: 2246083--2246128 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
2246073 TGTGTGTGTG
2246083 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
2246126 TA T
1 TA T
2246129 TTGTTTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2246743 original size:257 final size:257
Alignment explanation
Indices: 2246098--2246852 Score: 1296
Period size: 257 Copynumber: 3.0 Consensus size: 257
2246088 ATATATATAT
* *
2246098 ATATATATATATATATATATATATATGATATTTGTTTACTATATATGATACATTGAGCTTTGTAG
1 ATATATATATATATATATATATAT-TGATATTTGTTTACTATAGATGACACATTGAGCTTTGTAG
* * * *
2246163 CTCACTCTATTTCTGTCTTTCCTTTTTTAGATTATTTAGTTATAAGACCAGTTTGACTATTGGAG
65 CTCACTCTATTTCTGTCTTTCCTTTTTCAGATTATTCAGTTATAAGATCAGTTTGGCTATTGGAG
*
2246228 GTGTGGTCTCGATTGTATATTGTATGAGTTTAAAACTTATTTTTAACCTCTTTAAAAGTGGCATG
130 GTGTGGTCTCGATTGTATATTGTATGAGTTTAAAATTTATTTTTAACCTCTTTAAAAGTGGCATG
*
2246293 TGTTTATTTTTGATTTTGTATTTGATAAATGTTTTAAAAGGACTCATTAAACATACTTCACTC
195 AGTTTATTTTTGATTTTGTATTTGATAAATGTTTTAAAAGGACTCATTAAACATACTTCACTC
*
2246356 ----------ATATATATATATATTGATATTTGTTTACTATAGATGACAAATTGAGCTTTGTAGC
1 ATATATATATATATATATATATATTGATATTTGTTTACTATAGATGACACATTGAGCTTTGTAGC
2246411 TCACTCTATTTCTGTCTTTCCTTTTTCAGATTATTCAGTTATAAGATCAGTTTGGCTATTGGAGG
66 TCACTCTATTTCTGTCTTTCCTTTTTCAGATTATTCAGTTATAAGATCAGTTTGGCTATTGGAGG
* * * *
2246476 CGTGGTCTCGATTGTATATTGTATGAGTTTAAAATTTATTTTTAATCACTTTAATAGTGGCATGA
131 TGTGGTCTCGATTGTATATTGTATGAGTTTAAAATTTATTTTTAACCTCTTTAAAAGTGGCATGA
2246541 GTTTATTTTTGATTTTGTATTTGATAAATGTTTTAAAAGGACTCATTAAACATACTTCACTC
196 GTTTATTTTTGATTTTGTATTTGATAAATGTTTTAAAAGGACTCATTAAACATACTTCACTC
2246603 ATATATATATATATATATATATATTGATATTTGTTTACTATAGATGACACATTGAGCTTTGTAGC
1 ATATATATATATATATATATATATTGATATTTGTTTACTATAGATGACACATTGAGCTTTGTAGC
*
2246668 TCACTCTGTTTCTGTCTTTCCTTTTTCAGATTATTCAGTTATAAGATCAGTTTGGCTATTGGAGG
66 TCACTCTATTTCTGTCTTTCCTTTTTCAGATTATTCAGTTATAAGATCAGTTTGGCTATTGGAGG
2246733 TGTGGTCTCGATTGTATATTGTATGAGTTTAAAATTTATTTTTAACCTCTTTAAAAGTGGCATGA
131 TGTGGTCTCGATTGTATATTGTATGAGTTTAAAATTTATTTTTAACCTCTTTAAAAGTGGCATGA
*
2246798 GTTTATTTTTGATTTTGTATTTGATAAATGTTTTAAAGGGACTCATTAAACATAC
196 GTTTATTTTTGATTTTGTATTTGATAAATGTTTTAAAAGGACTCATTAAACATAC
2246853 CTCGCTCGTG
Statistics
Matches: 467, Mismatches: 20, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
247 220 0.47
248 14 0.03
257 233 0.50
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (257 bp):
ATATATATATATATATATATATATTGATATTTGTTTACTATAGATGACACATTGAGCTTTGTAGC
TCACTCTATTTCTGTCTTTCCTTTTTCAGATTATTCAGTTATAAGATCAGTTTGGCTATTGGAGG
TGTGGTCTCGATTGTATATTGTATGAGTTTAAAATTTATTTTTAACCTCTTTAAAAGTGGCATGA
GTTTATTTTTGATTTTGTATTTGATAAATGTTTTAAAAGGACTCATTAAACATACTTCACTC
Found at i:2257509 original size:30 final size:30
Alignment explanation
Indices: 2257475--2257586 Score: 125
Period size: 30 Copynumber: 3.6 Consensus size: 30
2257465 CTGAATGTAG
2257475 TTATTTATTTATTTATTTATTTTGAATAAT
1 TTATTTATTTATTTATTTATTTTGAATAAT
* * *
2257505 TTATTTATCTGTTTATTCATTTATTTCGAATAAA
1 TTATTTA----TTTATTTATTTATTTTGAATAAT
* *
2257539 TTATTAATTGATTTATTTATTTTGAATAAT
1 TTATTTATTTATTTATTTATTTTGAATAAT
* *
2257569 TTGTTTATTAATTTATTT
1 TTATTTATTTATTTATTT
2257587 CAAATAATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
30 41 0.61
34 26 0.39
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
TTATTTATTTATTTATTTATTTTGAATAAT
Found at i:2257520 original size:34 final size:33
Alignment explanation
Indices: 2257482--2257586 Score: 117
Period size: 34 Copynumber: 3.2 Consensus size: 33
2257472 TAGTTATTTA
2257482 TTTATTTATTTATTTTGAATAATTTATTTATCTG
1 TTTATTTATTTATTTTGAATAATTTATTTAT-TG
* * * *
2257516 TTTATTCATTTATTTCGAATAAATTATTAATTG
1 TTTATTTATTTATTTTGAATAATTTATTTATTG
* *
2257549 ---ATTTATTTATTTTGAATAATTTGTTTATTAA
1 TTTATTTATTTATTTTGAATAATTTATTTATT-G
2257580 TTTATTT
1 TTTATTT
2257587 CAAATAATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
30 24 0.42
33 2 0.04
34 31 0.54
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.62
Consensus pattern (33 bp):
TTTATTTATTTATTTTGAATAATTTATTTATTG
Found at i:2257603 original size:26 final size:27
Alignment explanation
Indices: 2257549--2257608 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
2257539 TTATTAATTG
** * *
2257549 ATTT-ATTTATTTTGAATAATTTGTTT
1 ATTTAATTTATTTCAAATAATTTATCT
2257575 A-TTAATTTATTTCAAATAATTTATCT
1 ATTTAATTTATTTCAAATAATTTATCT
2257601 ATTTAATT
1 ATTTAATT
2257609 AAAGATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.07
26 20 0.71
27 6 0.21
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (27 bp):
ATTTAATTTATTTCAAATAATTTATCT
Found at i:2258070 original size:17 final size:19
Alignment explanation
Indices: 2258048--2258087 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2258038 GAAATCTATG
2258048 TTTATTTAT-T-TTAATTT
1 TTTATTTATATATTAATTT
2258065 TTTATTTATAATATTAATTT
1 TTTATTTAT-ATATTAATTT
2258085 TTT
1 TTT
2258088 TTAGTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTATATATTAATTT
Found at i:2259332 original size:15 final size:15
Alignment explanation
Indices: 2259312--2259363 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
2259302 CCAGTAACCG
2259312 AGTCAACTTGGTCCA
1 AGTCAACTTGGTCCA
* *
2259327 AGTCAACCT-GTCCG
1 AGTCAACTTGGTCCA
* *
2259341 AGTCAACTCGGTCTA
1 AGTCAACTTGGTCCA
*
2259356 AGTTAACT
1 AGTCAACT
2259364 CGTTGACTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (15 bp):
AGTCAACTTGGTCCA
Found at i:2259344 original size:14 final size:15
Alignment explanation
Indices: 2259309--2259347 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
2259299 GGTCCAGTAA
*
2259309 CCGAGTCAACTTGGT
1 CCGAGTCAACCTGGT
*
2259324 CCAAGTCAACCT-GT
1 CCGAGTCAACCTGGT
2259338 CCGAGTCAAC
1 CCGAGTCAAC
2259348 TCGGTCTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (15 bp):
CCGAGTCAACCTGGT
Found at i:2263407 original size:15 final size:15
Alignment explanation
Indices: 2263387--2263421 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2263377 GTGGTGGTGG
*
2263387 TGATGATGTTGATGT
1 TGATGATGGTGATGT
2263402 TGATGATGGTGATGT
1 TGATGATGGTGATGT
2263417 TGATG
1 TGATG
2263422 CTGATGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
TGATGATGGTGATGT
Found at i:2270735 original size:13 final size:13
Alignment explanation
Indices: 2270717--2270746 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2270707 GACTCGACCC
*
2270717 GACCCGACCTGTT
1 GACCCGACCCGTT
2270730 GACCCGACCCGTT
1 GACCCGACCCGTT
2270743 GACC
1 GACC
2270747 GTTGACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:2272472 original size:48 final size:47
Alignment explanation
Indices: 2272418--2272536 Score: 141
Period size: 48 Copynumber: 2.5 Consensus size: 47
2272408 TTTGATTTGA
* * *
2272418 ATTCTGATCTGATATTTTACCTGGATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACTTGACCTGGATTCTGATATGATACT-TGACAT-G
* * *
2272466 ATTCTGATCTGATACTTGACTTAGATTCTGATATGTTACTTGACATG
1 ATTCTGATCTGATACTTGACCTGGATTCTGATATGATACTTGACATG
*
2272513 ATTTCTGATATGATACTTGACCTG
1 A-TTCTGATCTGATACTTGACCTG
2272537 ATTTATGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
47 2 0.03
48 57 0.95
49 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (47 bp):
ATTCTGATCTGATACTTGACCTGGATTCTGATATGATACTTGACATG
Found at i:2272540 original size:24 final size:24
Alignment explanation
Indices: 2272418--2272533 Score: 128
Period size: 24 Copynumber: 4.8 Consensus size: 24
2272408 TTTGATTTGA
* * *
2272418 ATTCTGATCTGATATTTTACCTGG
1 ATTCTGATCTGATACTTGACATGG
2272442 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
2272466 ATTCTGATCTGATACTTGACTTAG
1 ATTCTGATCTGATACTTGACATGG
* *
2272490 ATTCTGATATGTTACTTGACAT-G
1 ATTCTGATCTGATACTTGACATGG
*
2272513 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
2272534 CTGATTTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.95
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:2272550 original size:24 final size:24
Alignment explanation
Indices: 2272470--2272543 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
2272460 ACATGGATTC
* * *
2272470 TGATCTGATACTTGACTTAGA-TTC
1 TGATATGATACTTGACAT-GATTTA
* *
2272494 TGATATGTTACTTGACATGATTTC
1 TGATATGATACTTGACATGATTTA
*
2272518 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACATGATTTA
2272542 TG
1 TG
2272544 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACATGATTTA
Found at i:2274626 original size:18 final size:18
Alignment explanation
Indices: 2274602--2274648 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2274592 GTCATAACTC
2274602 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
* *
2274620 TACCCGACCCGACCTGTT
1 GACCCGACCCGACCCGTT
2274638 GACCCGACCCG
1 GACCCGACCCG
2274649 TTGACCGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.49, G:0.21, T:0.13
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:2274641 original size:13 final size:13
Alignment explanation
Indices: 2274625--2274654 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2274615 CCGTTTACCC
*
2274625 GACCCGACCTGTT
1 GACCCGACCCGTT
2274638 GACCCGACCCGTT
1 GACCCGACCCGTT
2274651 GACC
1 GACC
2274655 GTTGACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:2275367 original size:18 final size:18
Alignment explanation
Indices: 2275344--2275379 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2275334 ATCAGCCCTG
*
2275344 TATTTGCAACTTATAATT
1 TATTTGCAACTTACAATT
2275362 TATTTGCAACTTACAATT
1 TATTTGCAACTTACAATT
2275380 AAGCTCCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (18 bp):
TATTTGCAACTTACAATT
Found at i:2275698 original size:382 final size:382
Alignment explanation
Indices: 2274992--2275748 Score: 1496
Period size: 382 Copynumber: 2.0 Consensus size: 382
2274982 TCCGTTTATC
2274992 ACAATTAAGCTCCGTTTCTGATATAATTTATGTTGATATGTATCTGAGGAATTATTGGAAGTTGA
1 ACAATTAAGCTCCGTTTCTGATATAATTTATGTTGATATGTATCTGAGGAATTATTGGAAGTTGA
2275057 ATTGAAGATCAAATGCGTGCGAATGGAATTTTTATGGTCGATCAGTATTGCACAAAAATCGAGGT
66 ATTGAAGATCAAATGCGTGCGAATGGAATTTTTATGGTCGATCAGTATTGCACAAAAATCGAGGT
2275122 AATACTTTACTGCCTCTTTATGCTTTATGAAACATGTTTATATTGATAAATGCATGAACAAGATA
131 AATACTTTACTGCCTCTTTATGCTTTATGAAACATGTTTATATTGATAAATGCATGAACAAGATA
*
2275187 ATGTTGGTCACTTTGGTGGAGTTGAATAATTTATACACTCGATATGATGTGGTAGAAATTCTGTA
196 ATGTTGGTCACTTTGGTGGAGTTGAATAATTTATACACTCGATATAATGTGGTAGAAATTCTGTA
2275252 AATAATTACGGATCGAATGACTAATATAAGAGATTGAGGAATTGTTAGATTAAATTACAAGTTTG
261 AATAATTACGGATCGAATGACTAATATAAGAGATTGAGGAATTGTTAGATTAAATTACAAGTTTG
2275317 TGATTAGTGATAAAGAAATCAGCCCTGTATTTGCAACTTATAATTTATTTGCAACTT
326 TGATTAGTGATAAAGAAATCAGCCCTGTATTTGCAACTTATAATTTATTTGCAACTT
2275374 ACAATTAAGCTCCGTTTCTGATATAATTTATGTTGATATGTATCTGAGGAATTATTGGAAGTTGA
1 ACAATTAAGCTCCGTTTCTGATATAATTTATGTTGATATGTATCTGAGGAATTATTGGAAGTTGA
2275439 ATTGAAGATCAAATGCGTGCGAATGGAATTTTTATGGTCGATCAGTATTGCACAAAAATCGAGGT
66 ATTGAAGATCAAATGCGTGCGAATGGAATTTTTATGGTCGATCAGTATTGCACAAAAATCGAGGT
*
2275504 AATACTTTACTGCCTCTTTATGCTTTATGAAACATGTTTATATTGATAAATGTATGAACAAGATA
131 AATACTTTACTGCCTCTTTATGCTTTATGAAACATGTTTATATTGATAAATGCATGAACAAGATA
2275569 ATGTTGGTCACTTTGGTGGAGTTGAATAATTTATACACTCGATATAATGTGGTAGAAATTCTGTA
196 ATGTTGGTCACTTTGGTGGAGTTGAATAATTTATACACTCGATATAATGTGGTAGAAATTCTGTA
2275634 AATAATTACGGATCGAATGACTAATATAAGAGATTGAGGAATTGTTAGATTAAATTACAAGTTTG
261 AATAATTACGGATCGAATGACTAATATAAGAGATTGAGGAATTGTTAGATTAAATTACAAGTTTG
2275699 TGATTAGTGATAAAGAAATCAGCCCTGTATTTGCAACTTATAATTTATTT
326 TGATTAGTGATAAAGAAATCAGCCCTGTATTTGCAACTTATAATTTATTT
2275749 CATCAAAGGT
Statistics
Matches: 373, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
382 373 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (382 bp):
ACAATTAAGCTCCGTTTCTGATATAATTTATGTTGATATGTATCTGAGGAATTATTGGAAGTTGA
ATTGAAGATCAAATGCGTGCGAATGGAATTTTTATGGTCGATCAGTATTGCACAAAAATCGAGGT
AATACTTTACTGCCTCTTTATGCTTTATGAAACATGTTTATATTGATAAATGCATGAACAAGATA
ATGTTGGTCACTTTGGTGGAGTTGAATAATTTATACACTCGATATAATGTGGTAGAAATTCTGTA
AATAATTACGGATCGAATGACTAATATAAGAGATTGAGGAATTGTTAGATTAAATTACAAGTTTG
TGATTAGTGATAAAGAAATCAGCCCTGTATTTGCAACTTATAATTTATTTGCAACTT
Found at i:2277593 original size:24 final size:24
Alignment explanation
Indices: 2277566--2277677 Score: 120
Period size: 24 Copynumber: 4.7 Consensus size: 24
2277556 ATTTGAATTC
2277566 TGATCTGATACTTGACATGGATTA
1 TGATCTGATACTTGACATGGATTA
*
2277590 TGATCTGATA-TCTGATATGGATTA
1 TGATCTGATACT-TGACATGGATTA
* *
2277614 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACATGGATTA
* * * *
2277638 TGATTTGTTACTTGACCT-GATTTC
1 TGATCTGATACTTGACATGGA-TTA
*
2277662 TGATATGATACTTGAC
1 TGATCTGATACTTGAC
2277678 CTGATTTATG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
23 3 0.04
24 72 0.95
25 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTA
Found at i:2277694 original size:24 final size:24
Alignment explanation
Indices: 2277614--2277694 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
2277604 ATATGGATTA
* *
2277614 TGATCTGATACTTGACTTGGA-TTC
1 TGATTTGATACTTGACCT-GATTTC
*
2277638 TGATTTGTTACTTGACCTGATTTC
1 TGATTTGATACTTGACCTGATTTC
* *
2277662 TGATATGATACTTGACCTGATTTA
1 TGATTTGATACTTGACCTGATTTC
*
2277686 TGTTTTGAT
1 TGATTTGAT
2277695 TTTTGATATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 2 0.04
24 46 0.96
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.47
Consensus pattern (24 bp):
TGATTTGATACTTGACCTGATTTC
Found at i:2279048 original size:23 final size:24
Alignment explanation
Indices: 2279004--2279048 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2278994 ATCTTATATG
*
2279004 GCACTACGGTGCAAATTCTACGCA
1 GCACTACGGTGCAAATTATACGCA
*
2279028 GCACTTCGGTGC-AATTATACG
1 GCACTACGGTGCAAATTATACG
2279049 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (24 bp):
GCACTACGGTGCAAATTATACGCA
Found at i:2284561 original size:16 final size:16
Alignment explanation
Indices: 2284540--2284579 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
2284530 GATATGATTT
2284540 ATGTGACAATAGGAGA
1 ATGTGACAATAGGAGA
2284556 ATGTGACAATAGGAGA
1 ATGTGACAATAGGAGA
2284572 ATGTGACA
1 ATGTGACA
2284580 TAAACTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (16 bp):
ATGTGACAATAGGAGA
Found at i:2287342 original size:21 final size:19
Alignment explanation
Indices: 2287318--2287365 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
2287308 TTATGTGCAT
2287318 CGATGCACATTCAATGTGTAC
1 CGATGCACA-TCAA-GTGTAC
* *
2287339 CGATGCACATGAAGTGTAT
1 CGATGCACATCAAGTGTAC
2287358 CGATGCAC
1 CGATGCAC
2287366 TCCTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.52
20 3 0.12
21 9 0.36
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (19 bp):
CGATGCACATCAAGTGTAC
Found at i:2287361 original size:19 final size:21
Alignment explanation
Indices: 2287310--2287365 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2287300 TTTCTGGGTT
*
2287310 ATGTGCATCGATGCACATTCA
1 ATGTGTATCGATGCACATTCA
* *
2287331 ATGTGTACCGATGCACA-TGA
1 ATGTGTATCGATGCACATTCA
2287351 A-GTGTATCGATGCAC
1 ATGTGTATCGATGCAC
2287366 TCCTTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 13 0.42
20 3 0.10
21 15 0.48
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (21 bp):
ATGTGTATCGATGCACATTCA
Found at i:2287473 original size:64 final size:64
Alignment explanation
Indices: 2287333--2287453 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
2287323 CACATTCAAT
* * * * * *
2287333 GTGTACCGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATTGAATGCCATCA
1 GTGTACCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
** *
2287397 GTGTATTGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAAT
1 GTGTACCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAAT
2287454 AGGATTTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (64 bp):
GTGTACCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
Found at i:2289323 original size:23 final size:22
Alignment explanation
Indices: 2289281--2289323 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2289271 GTACATGATT
*
2289281 GTATAATAATTTATAGGAATTG
1 GTATAATAAATTATAGGAATTG
*
2289303 GTATAATGAAATTATATGAAT
1 GTATAAT-AAATTATAGGAAT
2289324 AAGTGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (22 bp):
GTATAATAAATTATAGGAATTG
Found at i:2291859 original size:16 final size:16
Alignment explanation
Indices: 2291838--2291868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2291828 ATTTTAATTA
*
2291838 TGTGACTAGGATTTAC
1 TGTGACGAGGATTTAC
2291854 TGTGACGAGGATTTA
1 TGTGACGAGGATTTA
2291869 GTCGATCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35
Consensus pattern (16 bp):
TGTGACGAGGATTTAC
Found at i:2297728 original size:20 final size:21
Alignment explanation
Indices: 2297686--2297737 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2297676 TTTTTAATAA
* *
2297686 TTTTATCGTTATGACATGATT
1 TTTTATCGTTTTAACATGATT
*
2297707 TTTTATCGTTTTAATATG-TT
1 TTTTATCGTTTTAACATGATT
*
2297727 TTTGATCGTTT
1 TTTTATCGTTT
2297738 GATTTTTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.19, C:0.08, G:0.13, T:0.60
Consensus pattern (21 bp):
TTTTATCGTTTTAACATGATT
Found at i:2302853 original size:15 final size:16
Alignment explanation
Indices: 2302833--2302873 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
2302823 TATTAATTAT
2302833 TATTATATTTTTCATA
1 TATTATATTTTTCATA
*
2302849 T-TTAT-TTTTTTATA
1 TATTATATTTTTCATA
2302863 TATT-TATTTTT
1 TATTATATTTTT
2302874 TATCATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 10 0.45
15 11 0.50
16 1 0.05
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTATATTTTTCATA
Found at i:2303067 original size:2 final size:2
Alignment explanation
Indices: 2303056--2303122 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
2303046 AGTTGTTTAA
*
2303056 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2303097 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2303123 TTTGTTTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2303380 original size:20 final size:19
Alignment explanation
Indices: 2303336--2303382 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2303326 TTTGCTTGGG
2303336 TTTTATTATTTATTTATAT
1 TTTTATTATTTATTTATAT
* *
2303355 TATTTATTATTTCTTTGTTAT
1 T-TTTATTATTTATTT-ATAT
2303376 TTTTATT
1 TTTTATT
2303383 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 19 0.79
21 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATTATTTATTTATAT
Found at i:2303398 original size:7 final size:7
Alignment explanation
Indices: 2303386--2303410 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2303376 TTTTATTTTA
2303386 TTTTAAT
1 TTTTAAT
2303393 TTTTAAT
1 TTTTAAT
2303400 TTTTAAT
1 TTTTAAT
2303407 TTTT
1 TTTT
2303411 TCTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:2303401 original size:24 final size:23
Alignment explanation
Indices: 2303374--2303429 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
2303364 TTTCTTTGTT
*
2303374 ATTTTTATTTTATTTTAATTTTTA
1 ATTTTTATTTT-TTCTAATTTTTA
* *
2303398 ATTTTTAATTTTTTCTATTTTTTT
1 ATTTTT-ATTTTTTCTAATTTTTA
2303422 ATTTTTAT
1 ATTTTTAT
2303430 ACGTTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 21 0.75
25 5 0.18
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (23 bp):
ATTTTTATTTTTTCTAATTTTTA
Found at i:2303417 original size:9 final size:8
Alignment explanation
Indices: 2303336--2303427 Score: 51
Period size: 8 Copynumber: 10.6 Consensus size: 8
2303326 TTTGCTTGGG
*
2303336 TTTTATTA
1 TTTTTTTA
2303344 TTTATTTATA
1 TTT-TTT-TA
2303354 TTATTTATTA
1 TT-TTT-TTA
* *
2303364 TTTCTTTG
1 TTTTTTTA
2303372 TTATTTTTA
1 TT-TTTTTA
2303381 TTTTATTT-
1 TTTT-TTTA
*
2303389 TAATTTTTA
1 T-TTTTTTA
* *
2303398 ATTTTTAA
1 TTTTTTTA
2303406 TTTTTTCTA
1 TTTTTT-TA
2303415 TTTTTTTA
1 TTTTTTTA
2303423 TTTTT
1 TTTTT
2303428 ATACGTTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
8 30 0.47
9 22 0.34
10 10 0.16
11 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTTTTA
Found at i:2314112 original size:8 final size:7
Alignment explanation
Indices: 2314092--2314152 Score: 54
Period size: 8 Copynumber: 8.6 Consensus size: 7
2314082 TCCTAAATTG
2314092 AAAAAG-
1 AAAAAGA
2314098 AAAAAGA
1 AAAAAGA
2314105 ACAAAAGA
1 A-AAAAGA
* *
2314113 GAAAA-T
1 AAAAAGA
2314119 AAAAAGA
1 AAAAAGA
2314126 GAAAAAGA
1 -AAAAAGA
2314134 ACAAAAGA
1 A-AAAAGA
*
2314142 GAAAAGA
1 AAAAAGA
2314149 AAAA
1 AAAA
2314153 TAAAAATAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
6 10 0.23
7 15 0.34
8 19 0.43
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:2314117 original size:16 final size:16
Alignment explanation
Indices: 2314092--2314146 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
2314082 TCCTAAATTG
2314092 AAAA-AGAAAAAGAAC
1 AAAAGAGAAAAAGAAC
*
2314107 AAAAGAG-AAAA-TA-
1 AAAAGAGAAAAAGAAC
2314120 AAAAGAGAAAAAGAAC
1 AAAAGAGAAAAAGAAC
2314136 AAAAGAGAAAA
1 AAAAGAGAAAA
2314147 GAAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 7 0.21
14 5 0.15
15 9 0.26
16 13 0.38
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAAGAGAAAAAGAAC
Found at i:2314117 original size:21 final size:21
Alignment explanation
Indices: 2314093--2314152 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
2314083 CCTAAATTGA
*
2314093 AAAAGAAAAAGAACAAAAG-AG
1 AAAAGAAAAAGAA-AAAAGAAC
*
2314114 AAAATAAAAAGAGAAAAAGAAC
1 AAAAGAAAAAGA-AAAAAGAAC
2314136 AAAAGAGAAAAGAAAAA
1 AAAAGA-AAAAGAAAAA
2314153 TAAAAATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 16 0.48
22 11 0.33
23 6 0.18
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAGAAC
Found at i:2314128 original size:29 final size:28
Alignment explanation
Indices: 2314092--2314152 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
2314082 TCCTAAATTG
*
2314092 AAAAAGAAAAAGAACAAAAGAGAAAATA
1 AAAAAGAAAAAGAACAAAAGAGAAAAGA
2314120 AAAAGAGAAAAAGAACAAAAGAGAAAAGA
1 AAAA-AGAAAAAGAACAAAAGAGAAAAGA
2314149 AAAA
1 AAAA
2314153 TAAAAATAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (28 bp):
AAAAAGAAAAAGAACAAAAGAGAAAAGA
Found at i:2314130 original size:35 final size:35
Alignment explanation
Indices: 2314091--2314158 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
2314081 ATCCTAAATT
2314091 GAAAAAG-A-AAAAGAACAAAAGAGAAAATAAAAAGA
1 GAAAAAGAACAAAAG-ACAAAAGA-AAAATAAAAAGA
*
2314126 GAAAAAGAACAAAAGAGAAAAGAAAAATAAAAA
1 GAAAAAGAACAAAAGACAAAAGAAAAATAAAAA
2314159 TAAGGTGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 17 0.57
36 8 0.27
37 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (35 bp):
GAAAAAGAACAAAAGACAAAAGAAAAATAAAAAGA
Found at i:2315771 original size:21 final size:21
Alignment explanation
Indices: 2315746--2315785 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2315736 TCCATCAATA
2315746 TTATATTAT-ATAATATATATT
1 TTATATTATAAT-ATATATATT
2315767 TTATATTATAATATATATA
1 TTATATTATAATATATATA
2315786 ATTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATTATAATATATATATT
Found at i:2315794 original size:19 final size:18
Alignment explanation
Indices: 2315742--2315794 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
2315732 TTCGTCCATC
2315742 AATAT-TATATTA--TAT
1 AATATATATATTATTTAT
*
2315757 AATATATATTTTATATTAT
1 AATATATATATTAT-TTAT
2315776 AATATATATAATTATTTAT
1 AATATATAT-ATTATTTAT
2315795 TTATTTGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 5 0.16
16 6 0.19
19 16 0.52
20 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATATATATTATTTAT
Found at i:2316877 original size:17 final size:17
Alignment explanation
Indices: 2316835--2316878 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
2316825 TTTTATTAAT
2316835 TATTATTATATTTTTTCA
1 TATTATT-TATTTTTTCA
2316853 TATATATTTATTTTTT-A
1 TAT-TATTTATTTTTTCA
2316870 TCATTATTT
1 T-ATTATTT
2316879 TTTAAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.29
18 13 0.54
19 4 0.17
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTATTTATTTTTTCA
Found at i:2324678 original size:27 final size:27
Alignment explanation
Indices: 2324634--2324690 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
2324624 ATTATCGATA
*
2324634 TTTATTATTATTTGTATTATTAT-TAAT
1 TTTATTATTATTTATATTATT-TCTAAT
2324661 TTTATTAATTA-TTATATTATTTCTAAT
1 TTTATT-ATTATTTATATTATTTCTAAT
2324688 TTT
1 TTT
2324691 TTTACAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 22 0.81
28 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTATTATTATTTATATTATTTCTAAT
Found at i:2324680 original size:15 final size:14
Alignment explanation
Indices: 2324635--2324681 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
2324625 TTATCGATAT
2324635 TTATTATTATTTGTA
1 TTATTATTATTT-TA
2324650 TTATTATTAATTTTA
1 TTATTATT-ATTTTA
*
2324665 TTAATTATTATATTA
1 TT-ATTATTATTTTA
2324680 TT
1 TT
2324682 TCTAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTATTATTTTA
Found at i:2326223 original size:21 final size:19
Alignment explanation
Indices: 2326186--2326224 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
2326176 TTTATATTTT
*
2326186 AATATATATATTAATTATG
1 AATATATATATAAATTATG
2326205 AATATATAATATAATATTAT
1 AATATAT-ATATAA-ATTAT
2326225 ATGTAGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AATATATATATAAATTATG
Found at i:2326918 original size:14 final size:14
Alignment explanation
Indices: 2326899--2326925 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2326889 AAATTTTGTC
2326899 TTTAAATTGATTTT
1 TTTAAATTGATTTT
2326913 TTTAAATTGATTT
1 TTTAAATTGATTT
2326926 AAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTAAATTGATTTT
Found at i:2331544 original size:2 final size:2
Alignment explanation
Indices: 2331539--2331578 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2331529 TATATATATC
2331539 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2331579 AGAAAGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2339066 original size:44 final size:44
Alignment explanation
Indices: 2339016--2339105 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
2339006 TAACTTATAC
2339016 AACTTTCGAACTTTCGAATAATGATGATGTTGAAATGATGGTTG
1 AACTTTCGAACTTTCGAATAATGATGATGTTGAAATGATGGTTG
2339060 AACTTTCGAACTTTCGAATAATGATGATGTTGAAATGATGGTTG
1 AACTTTCGAACTTTCGAATAATGATGATGTTGAAATGATGGTTG
2339104 AA
1 AA
2339106 GCTCAAAGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (44 bp):
AACTTTCGAACTTTCGAATAATGATGATGTTGAAATGATGGTTG
Found at i:2350086 original size:21 final size:21
Alignment explanation
Indices: 2350043--2350087 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2350033 TGAATATTTT
*
2350043 TTAATTCAAAAAAATTTACAA
1 TTAATTCAAAAAAATATACAA
* * *
2350064 TTAATTTAAAATAATATATAA
1 TTAATTCAAAAAAATATACAA
2350085 TTA
1 TTA
2350088 TAAAGTAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAATTCAAAAAAATATACAA
Found at i:2355258 original size:128 final size:128
Alignment explanation
Indices: 2355030--2355786 Score: 1410
Period size: 128 Copynumber: 5.9 Consensus size: 128
2355020 CTATAATCGG
*
2355030 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
2355095 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACTTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* * *
2355158 TTCACTATTCATATAAAGGCGCGTTCCCGGGGGGGTGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
2355223 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* *
2355286 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAAAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
2355351 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
2355414 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
2355479 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
2355542 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
2355607 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAG--ATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
2355668 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTACATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
* *
2355733 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGATACTAGATATATCAGT
66 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGT
2355787 TTGAATAACT
Statistics
Matches: 614, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
126 123 0.20
128 491 0.80
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (128 bp):
TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:2356247 original size:33 final size:34
Alignment explanation
Indices: 2356177--2356276 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 34
2356167 AAATTTAATG
* *
2356177 TTAAATTTCAAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
2356211 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
2356244 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
2356277 AACATTTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.49
34 28 0.51
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:2356826 original size:21 final size:20
Alignment explanation
Indices: 2356799--2356868 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
2356789 GGTATAAAAC
*
2356799 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
2356819 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
2356840 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
2356861 CCCTGCGG
1 -CCTGCGG
2356869 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:2358686 original size:34 final size:31
Alignment explanation
Indices: 2358641--2358728 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
2358631 TTAATAATTC
*
2358641 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
2358675 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
2358706 TATAAAAATAATAACTATTTAAA
1 TAAAAAAATAATAATTATATAAA
2358729 AAAATACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 22 0.48
33 2 0.04
34 22 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:2358718 original size:31 final size:33
Alignment explanation
Indices: 2358641--2358719 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
2358631 TTAATAATTC
* *
2358641 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
2358675 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
2358706 TATAAAAATAATAA
1 TAAAAAAATAATAA
2358720 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 16 0.40
33 2 0.05
34 22 0.55
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:2358744 original size:33 final size:34
Alignment explanation
Indices: 2358674--2358749 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
2358664 TATTATTTTA
* * *
2358674 ATAAAAA-AATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAAAATACTAAC
2358707 ATAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAATAATAA-TATTTACATAAAAATACTAAC
2358740 ATAAAAATAA
1 ATAAAAATAA
2358750 ATTTCTTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 26 0.68
34 6 0.16
35 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAAAATACTAAC
Found at i:2361069 original size:2 final size:2
Alignment explanation
Indices: 2361062--2361090 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2361052 TGTAATATTG
2361062 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2361091 GTGAAGATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2361166 original size:3 final size:3
Alignment explanation
Indices: 2361120--2361155 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2361110 TTTACTCATT
*
2361120 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2361156 AAAAATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2374766 original size:7 final size:7
Alignment explanation
Indices: 2374754--2374789 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
2374744 TAACCCATTC
2374754 TTCTTCT
1 TTCTTCT
2374761 TTCTTCT
1 TTCTTCT
2374768 TTCTTCT
1 TTCTTCT
2374775 TTCTTCT
1 TTCTTCT
2374782 TTCTTCT
1 TTCTTCT
2374789 T
1 T
2374790 CTAAGCTATC
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTCT
Found at i:2375216 original size:18 final size:18
Alignment explanation
Indices: 2375189--2375252 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
2375179 TTTATAAGAT
*
2375189 AATTGGAATCTATGAAGG
1 AATTGAAATCTATGAAGG
*
2375207 AATTGAAATCTGTGAAGG
1 AATTGAAATCTATGAAGG
* *
2375225 AATTGGAATC--TGTAGG
1 AATTGAAATCTATGAAGG
2375241 AATTGAAATCTA
1 AATTGAAATCTA
2375253 ATTTCATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
16 14 0.36
18 25 0.64
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (18 bp):
AATTGAAATCTATGAAGG
Found at i:2375877 original size:38 final size:37
Alignment explanation
Indices: 2375819--2375912 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 37
2375809 TTTTCACCCT
2375819 AAACCCGAACCCGACCCGACCCGAATATCACACTTAAAA
1 AAACCCG-ACCCGACCCGACCCGAATATCACACTT-AAA
*
2375858 AAACCCGACCCGACTCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
* *
2375895 AAACCTGACCCAACCCGA
1 AAACCCGACCCGACCCGA
2375913 ACAAAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 18 0.35
38 26 0.51
39 7 0.14
ACGTcount: A:0.39, C:0.39, G:0.11, T:0.11
Consensus pattern (37 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
Found at i:2376386 original size:23 final size:23
Alignment explanation
Indices: 2376356--2376401 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2376346 ACCAAACGCC
2376356 ACCTAAGCCACTAGAAATTTGTT
1 ACCTAAGCCACTAGAAATTTGTT
2376379 ACCTAAGCCACTAGAAATTTGTT
1 ACCTAAGCCACTAGAAATTTGTT
2376402 GGTGCAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (23 bp):
ACCTAAGCCACTAGAAATTTGTT
Found at i:2379579 original size:2 final size:2
Alignment explanation
Indices: 2379572--2379609 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2379562 TTTTCAAATG
2379572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2379610 TAGAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2379616 original size:2 final size:2
Alignment explanation
Indices: 2379611--2379636 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2379601 TATATATATT
2379611 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2379637 CATACAGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2380068 original size:93 final size:94
Alignment explanation
Indices: 2379891--2380070 Score: 231
Period size: 93 Copynumber: 1.9 Consensus size: 94
2379881 AGACCCAGAT
*
2379891 TTATTTTTAAATCATTTATAAGTAAAAACTATTATATTATGAATTCTTTAAATTTTATAAATTTT
1 TTATTTTTAAATCATTTATAAG-AAAAACTATTATATTATGAATTCTTCAAATTTTATAAATTTT
*** *
2379956 AAATGCTTAATTTATTATTTTATTCCATAA
65 AAATAAGTAATATATTATTTTATTCCATAA
* * *
2379986 TTATTTTTAAATCATTTCTTA-AAAAACTATTATATTATGAATTCTTCAAATTTTATCAATTTTT
1 TTATTTTTAAATCATTTATAAGAAAAACTATTATATTATGAATTCTTCAAATTTTAT-AAATTTT
*
2380050 TAATAAGT-ATGATA-TATTTTA
65 AAATAAGTAAT-ATATTATTTTA
2380071 ATAATTAGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
93 43 0.58
94 12 0.16
95 19 0.26
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (94 bp):
TTATTTTTAAATCATTTATAAGAAAAACTATTATATTATGAATTCTTCAAATTTTATAAATTTTA
AATAAGTAATATATTATTTTATTCCATAA
Found at i:2380362 original size:22 final size:23
Alignment explanation
Indices: 2380336--2380384 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2380326 CGTTTAATTT
2380336 AATAAACATTT-AATTTAA-AGAA
1 AATAAACATTTAAATTTAATA-AA
2380358 AATAAACATTTAAATTTAATAAA
1 AATAAACATTTAAATTTAATAAA
2380381 AATA
1 AATA
2380385 TAATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 11 0.44
23 13 0.52
24 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAAACATTTAAATTTAATAAA
Found at i:2381477 original size:190 final size:191
Alignment explanation
Indices: 2381150--2381533 Score: 578
Period size: 190 Copynumber: 2.0 Consensus size: 191
2381140 AACAATATCT
* * *
2381150 TTTAATTTGAAATATTCAAAAGGTAAAACTCATTTTACCATTTAAACTTAAATATGTATTATTTT
1 TTTAATTTGAAATATTCAAAAGGTAAAACTCATTTTACCATTCAAACTTAAACATATATTATTTT
* * *
2381215 AAATTTGAAATATACAAAAATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTAATAAATAC
66 AAATTTGAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATAC
* *
2381280 CTTTTTAAATTAACATATTCAAAGAGTAATTATCTTACTAATATTCAAATTAAATAA-TATA
131 CTTTTTAAATTAACATATTAAAAGAGTAATTATCATACTAATATTCAAATTAAA-AATTATA
* * *
2381341 TTTAATTTGAAATGATT-GAAAGGT-AAACTCTTTTTACTATTCAAACTTAAACATATATTATTT
1 TTTAATTTGAAAT-ATTCAAAAGGTAAAACTCATTTTACCATTCAAACTTAAACATATATTATTT
*
2381404 T-AATTTGAAATATACAAAAATATATAATTATATTTTAATATTCAAAATTAAAAAGATAACAAAT
65 TAAATTTGAAATATACAAAAATATATAATTAT-CTTTAATATTCAAAATTAAAAAGATAACAAAT
* * *
2381468 ACTTTTTTAAATTGACTTATTAAAAGAGTAATTATCATACTAATATTCAAATTAAAAATTATA
129 ACCTTTTTAAATTAACATATTAAAAGAGTAATTATCATACTAATATTCAAATTAAAAATTATA
2381531 TTT
1 TTT
2381534 TCATTTGCAA
Statistics
Matches: 175, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
189 32 0.18
190 121 0.69
191 19 0.11
192 3 0.02
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (191 bp):
TTTAATTTGAAATATTCAAAAGGTAAAACTCATTTTACCATTCAAACTTAAACATATATTATTTT
AAATTTGAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATAC
CTTTTTAAATTAACATATTAAAAGAGTAATTATCATACTAATATTCAAATTAAAAATTATA
Found at i:2384953 original size:27 final size:27
Alignment explanation
Indices: 2384915--2384971 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
2384905 TGATCACTAA
2384915 CCCGGTATTGAGGATGTTACAAATCTC
1 CCCGGTATTGAGGATGTTACAAATCTC
2384942 CCCGGTATTGAGGATGTTACAAATCTC
1 CCCGGTATTGAGGATGTTACAAATCTC
2384969 CCC
1 CCC
2384972 TCCTTTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
CCCGGTATTGAGGATGTTACAAATCTC
Found at i:2387533 original size:23 final size:23
Alignment explanation
Indices: 2387515--2387575 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
2387505 CTCGTATAAA
2387515 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
2387538 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
2387561 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
2387576 TATAAAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2389159 original size:20 final size:20
Alignment explanation
Indices: 2389131--2389168 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2389121 TCCCCTTTGA
*
2389131 AGTGTATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
*
2389151 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
2389169 TTAACATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:2390118 original size:21 final size:20
Alignment explanation
Indices: 2390081--2390119 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2390071 GTTATAGTGA
*
2390081 ATTTTCGGGCATGAACAATG
1 ATTTTCGGGCATAAACAATG
*
2390101 ATTTTCTGGGCTTAAACAA
1 ATTTTC-GGGCATAAACAA
2390120 AATTTCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
ATTTTCGGGCATAAACAATG
Found at i:2396431 original size:190 final size:190
Alignment explanation
Indices: 2396100--2396508 Score: 536
Period size: 190 Copynumber: 2.1 Consensus size: 190
2396090 CAGATAACAA
* ** * * * * * *
2396100 TATCTTTTAATTTAAAATATTCAAAAGATAAAACACATTTTACTATTCAAACTTAAATAAGTATT
1 TATCATTTAATTTGCAATAGTCAAAAGGT-AAACTCGTTTTACTATTCAAACTTAAACAAATATT
* * * *
2396165 ATTTTAATTTGAAATATACAAAAATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTAATAA
65 ATCTTAATTTGAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAA
* * * *
2396230 ATACCTTTTTAAGTTGACATATTTAAAGAGTAATTATCCTACTAATATTCGAATTAAATAA-
130 ATACATTTTTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAA-AAT
*
2396291 TAT-ATTTAATTTGCAATGGTCAAAAGGTAAACTCGTTTTACTATTCAAACTTAAACAAATATTA
1 TATCATTTAATTTGCAATAGTCAAAAGGTAAACTCGTTTTACTATTCAAACTTAAACAAATATTA
*
2396355 -CTTATTTTGAAATATACAAAAAGTATATAATTATCTTTTAATATTCAAAATTAAAAAGATAACA
66 TCTTAATTTGAAATATACAAAAA-TATATAATTATC-TTTAATATTCAAAATTAAAAAGATAACA
* * *
2396419 AATACATTTTTAAATTGACTTATTAAAAGTGTAATTATCTTACTAATATTCAAATTAAAAAT
129 AATACATTTTTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAAT
* * *
2396481 TATCTTTTAATTTGTAATAGTTAAAAGG
1 TATCATTTAATTTGCAATAGTCAAAAGG
2396509 ACTATGAATT
Statistics
Matches: 188, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
188 20 0.11
189 46 0.24
190 99 0.53
191 23 0.12
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (190 bp):
TATCATTTAATTTGCAATAGTCAAAAGGTAAACTCGTTTTACTATTCAAACTTAAACAAATATTA
TCTTAATTTGAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAA
TACATTTTTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAAT
Found at i:2400962 original size:2 final size:2
Alignment explanation
Indices: 2400955--2400998 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2400945 TAAAAATGAA
2400955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2400997 AT
1 AT
2400999 GATTAGTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2411898 original size:16 final size:16
Alignment explanation
Indices: 2411867--2411910 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
2411857 CCTCAGTTTC
*
2411867 TTTTTAAAAATCCATAA
1 TTTTTAAAGATCCAT-A
2411884 TTTTTAAAGAT-CATA
1 TTTTTAAAGATCCATA
2411899 TGTTTTAAAGAT
1 T-TTTTAAAGAT
2411911 GTATTTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 2 0.08
16 13 0.52
17 10 0.40
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (16 bp):
TTTTTAAAGATCCATA
Found at i:2417458 original size:18 final size:18
Alignment explanation
Indices: 2417437--2417500 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
2417427 TCAACGAGTT
2417437 GGGTCGGGTTAACGGGTC
1 GGGTCGGGTTAACGGGTC
* *
2417455 GGGTCGGATGAACGGGTC
1 GGGTCGGGTTAACGGGTC
* *
2417473 GGGTCAGGTAAACGGGTC
1 GGGTCGGGTTAACGGGTC
2417491 GGGTCGGGTT
1 GGGTCGGGTT
2417501 GTAACCGATC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.14, C:0.16, G:0.50, T:0.20
Consensus pattern (18 bp):
GGGTCGGGTTAACGGGTC
Found at i:2422916 original size:14 final size:14
Alignment explanation
Indices: 2422897--2422928 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2422887 TTAAATGATA
*
2422897 AACGAACATAAATG
1 AACGAACATAAACG
2422911 AACGAACATAAACG
1 AACGAACATAAACG
2422925 AACG
1 AACG
2422929 GATGTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:2422926 original size:24 final size:24
Alignment explanation
Indices: 2422894--2423002 Score: 94
Period size: 24 Copynumber: 4.6 Consensus size: 24
2422884 CATTTAAATG
*
2422894 ATAAACGAACATAAATGAACGAAC
1 ATAAACGAACATAAATAAACGAAC
** ** *
2422918 ATAAACGAACGGATGTAAATGAAC
1 ATAAACGAACATAAATAAACGAAC
* * *
2422942 ATAAACAAACA-CAATAAATGAAC
1 ATAAACGAACATAAATAAACGAAC
* * **
2422965 GTAAACGAACACAAACGAACGAAC
1 ATAAACGAACATAAATAAACGAAC
2422989 ATAAACGAACATAA
1 ATAAACGAACATAA
2423003 CTGGAAATAG
Statistics
Matches: 65, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
23 18 0.28
24 47 0.72
ACGTcount: A:0.58, C:0.17, G:0.13, T:0.12
Consensus pattern (24 bp):
ATAAACGAACATAAATAAACGAAC
Found at i:2422963 original size:23 final size:23
Alignment explanation
Indices: 2422933--2422978 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2422923 CGAACGGATG
2422933 TAAATGAACATAAACAAACACAA
1 TAAATGAACATAAACAAACACAA
* *
2422956 TAAATGAACGTAAACGAACACAA
1 TAAATGAACATAAACAAACACAA
2422979 ACGAACGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.17, G:0.09, T:0.13
Consensus pattern (23 bp):
TAAATGAACATAAACAAACACAA
Done.