Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_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: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 31
Found at i:2655285 original size:161 final size:161
Alignment explanation
Indices: 2655020--2655470 Score: 595
Period size: 161 Copynumber: 2.8 Consensus size: 161
2655010 AGGCATATAG
* * ** * * * **
2655020 CCTTTCATCTAATTTGCATGAA-TGACATCTTCCTGTCTAATACACAGCTAGGCCATTAA-AATT
1 CCTTTCATCTAA-CTGCAT-AATTGACAACTTTATGTCAAATGCACAGCTAGGCTATTAATCTTT
* * * *
2655083 TACTTAAAGCTATTTAACCTTTCATATAACTTGCATAATTGACACATTTCTGTCAAATGCACAGC
64 TACTAAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCACAGC
* *
2655148 TAGGCTATTAATTTTTTACTCAAAGGTATTTAA
129 TAGGCTATAAATCTTTTACTCAAAGGTATTTAA
* * * * *
2655181 CCTTTCATCTAAGTGGTATAATTGACAAGTTTTTGTCAAATGCATAGCTAGGCTATTAATCTTTT
1 CCTTTCATCTAACT-GCATAATTGACAACTTTATGTCAAATGCACAGCTAGGCTATTAATCTTTT
2655246 A-TAAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCACAGCT
65 ACTAAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCACAGCT
*
2655310 AGGCTATAAATCTTTTACTCAAAGGTATTTCA
130 AGGCTATAAATCTTTTACTCAAAGGTATTTAA
*
2655342 CCTTTCATCTAACTGCATAATTGACATCTTTATGTCAAATGCACAGCTAGGCTATTAATCTTTTA
1 CCTTTCATCTAACTGCATAATTGACAACTTTATGTCAAATGCACAGCTAGGCTATTAATCTTTTA
* * * * *
2655407 CTCAAAGGTATTTAA-GTTGTCATCTAACTGGCATAACTGACACCTTTCTGTCAAATGCACAGCT
66 CTAAAAGGTATTTAACCTT-TCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCACAGCT
2655471 GTCAACACCG
Statistics
Matches: 255, Mismatches: 30, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
160 51 0.20
161 200 0.78
162 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (161 bp):
CCTTTCATCTAACTGCATAATTGACAACTTTATGTCAAATGCACAGCTAGGCTATTAATCTTTTA
CTAAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCACAGCTA
GGCTATAAATCTTTTACTCAAAGGTATTTAA
Found at i:2655461 original size:241 final size:241
Alignment explanation
Indices: 2655020--2655470 Score: 617
Period size: 241 Copynumber: 1.9 Consensus size: 241
2655010 AGGCATATAG
* * *
2655020 CCTTTCATCTAATTTGCATGAATGACATCTTCCTGTCTAATACACAGCTAGGCCATTAAAATTTA
1 CCTTTCATCTAACTAGCATGAATGACATCTTCCTGTCAAATACACAGCTAGGCCATTAAAATTTA
* *
2655085 CTTAAAGCTATTTAACCTTTCATATAACTTGCATAATTGACACATTTCTGTCAAATGCACAGCTA
66 CTCAAAGCTATTTAACCTTTCATATAACTTGCATAATTGACACATTTATGTCAAATGCACAGCTA
* * * * * *
2655150 GGCTATTAATTTTTTACTCAAAGGTATTTAACCTTTCATCTAAGTGGTATAATTGACAAGTTTTT
131 GGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTGACAACTTTCT
*
2655215 GTCAAATGCATAGCTAGGCTATTAATCTTTTATAAAAGGTATTTAA
196 GTCAAATGCACAGCTAGGCTATTAATCTTTTATAAAAGGTATTTAA
* * * *
2655261 CCTTTCATCTAACTAGCAT-AATTGACA-CATTTCTGTCAAATGCACAGCTAGGCTA-TAAATCT
1 CCTTTCATCTAACTAGCATGAA-TGACATC-TTCCTGTCAAATACACAGCTAGGCCATTAAA--A
* * *
2655323 TTTACTCAAAGGTATTTCACCTTTCATCTAAC-TGCATAATTGACATC-TTTATGTCAAATGCAC
62 TTTACTCAAAGCTATTTAACCTTTCATATAACTTGCATAATTGACA-CATTTATGTCAAATGCAC
* *
2655386 AGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAA-GTTGTCATCTAACTGGCATAACTGACAC
126 AGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTT-TCATCTAACTGGCATAACTGACAA
2655450 CTTTCTGTCAAATGCACAGCT
190 CTTTCTGTCAAATGCACAGCT
2655471 GTCAACACCG
Statistics
Matches: 183, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
240 9 0.05
241 145 0.79
242 29 0.16
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (241 bp):
CCTTTCATCTAACTAGCATGAATGACATCTTCCTGTCAAATACACAGCTAGGCCATTAAAATTTA
CTCAAAGCTATTTAACCTTTCATATAACTTGCATAATTGACACATTTATGTCAAATGCACAGCTA
GGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTGACAACTTTCT
GTCAAATGCACAGCTAGGCTATTAATCTTTTATAAAAGGTATTTAA
Found at i:2660197 original size:132 final size:132
Alignment explanation
Indices: 2659955--2660532 Score: 603
Period size: 132 Copynumber: 4.5 Consensus size: 132
2659945 CATTTTATTG
*
2659955 AAATATTGATACACCTCCTTCTGTGATGGAATCGAACGAGATGTC-ATTACTGATCTACCTCATT
1 AAATATTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGA-TACTGATCTACCTCATT
* ** * *
2660019 CTGTAATGGAATCGAGTAAAAAGTTGA-AGCTGATCCAACTCCTTATGTGCTGGATTTGAGTGAA
65 CTGTGATAAAATCGAGCAAAAAGTTGATA-CTGATCCAACTCCTTATGCGCTGGATTTGAGTGAA
2660083 ATGA
129 ATGA
* * * * *
2660087 AAATGTTGATCCACCTCATTTTGTGATGGAATCGAACGAGATATCGATACTGATCTACCTCCTTC
1 AAATATTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATACTGATCTACCTCATTC
* * * *
2660152 TGTGATAAAATCGGGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGCGAAAT
66 TGTGATAAAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGGATTTGAGTGAAAT
*
2660217 AA
131 GA
* * *
2660219 AAATATTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATCCTGATCTATCTCATTC
1 AAATATTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATACTGATCTACCTCATTC
* *
2660284 TATGATAAAATCGAGAAAAAAGTTGATACTGATCCAACTCCTTATGCGCT--A---GA-TGAAA-
66 TGTGATAAAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGGATTTGAGTGAAAT
2660342 G-
131 GA
* * * * * * **
2660343 ---TGTCGATCCACATCCTTCTGTGATGGAATCGAACAAGATGTCGAT-GTCGATCTATCTTTTT
1 AAATATTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATACT-GATCTACCTCATT
* *
2660404 CTGCGATAAAATCGAGCAAAAAGTTGATACTGGTCCAACTCCTTAT--GC--G--TT--G-G--A
65 CTGTGATAAAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGGATTTGAGTGAAA
2660458 TGA
130 TGA
* * * * * ** *
2660461 AAGTGTTGATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGGTGTTGATCTACCTCTTTC
1 AAATATTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATACTGATCTACCTCATTC
2660526 TGTGATA
66 TGTGATA
2660533 GAATTGAGTG
Statistics
Matches: 380, Mismatches: 53, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
116 1 0.00
117 1 0.00
118 1 0.00
119 2 0.01
120 1 0.00
121 150 0.39
122 1 0.00
126 4 0.01
127 2 0.01
130 1 0.00
132 215 0.57
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (132 bp):
AAATATTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATACTGATCTACCTCATTC
TGTGATAAAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGGATTTGAGTGAAAT
GA
Found at i:2660273 original size:44 final size:44
Alignment explanation
Indices: 2659961--2660326 Score: 187
Period size: 44 Copynumber: 8.3 Consensus size: 44
2659951 ATTGAAATAT
* * * *
2659961 TGATACACCTCCTTCTGTGATGGAATCGAACGAGATG-TCATTAC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGA-TAC
* * * ** *
2660005 TGATCTACCTCATTCTGTAATGGAATCGAGTAAAAAGTTGA-AGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATA-C
* * * * * * *** **
2660049 TGATCCAACTCCTTATGTGCTGGATTTGAGTGAAATGAAAATGT
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATAC
* * * * * *
2660093 TGATCCACCTCATTTTGTGATGGAATCGAACGAGATATCGATAC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATAC
* ** * * * *
2660137 TGATCTACCTCCTTCTGTGATAAAATCGGGCAAAAAGTTGATGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATAC
* * * * * **** *
2660181 TGATCCAACTCCTTATGCGATGGATTTGAGCGAAATAAAAATAT
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATAC
* * *
2660225 TGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATCC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATAC
* * * * ** ** *
2660269 TGATCTATCTCATTCTATGATAAAATCGAGAAAAAAGTTGATAC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATAC
*
2660313 TGATCCAACTCCTT
1 TGATCCACCTCCTT
2660327 ATGCGCTAGA
Statistics
Matches: 221, Mismatches: 98, Indels: 6
0.68 0.30 0.02
Matches are distributed among these distances:
43 1 0.00
44 218 0.99
45 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (44 bp):
TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATGTTGATAC
Found at i:2660441 original size:121 final size:121
Alignment explanation
Indices: 2660226--2660532 Score: 445
Period size: 121 Copynumber: 2.5 Consensus size: 121
2660216 TAAAAATATT
* * *
2660226 GATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGAT-CCTGATCTATCTCATTCTATGAT
1 GATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATGTC-GATCTATCTCTTTCTGTGAT
2660290 AAAATCGAGAAAAAAGTTGATACTGATCCAACTCCTTATGCGCTAGATGAAAGTGTC
65 AAAATCGAGAAAAAAGTTGATACTGATCCAACTCCTTATGCGCTAGATGAAAGTGTC
* * * * *
2660347 GATCCACATCCTTCTGTGATGGAATCGAACAAGATGTCGATGTCGATCTATCTTTTTCTGCGATA
1 GATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATGTCGATCTATCTCTTTCTGTGATA
* * * * *
2660412 AAATCGAGCAAAAAGTTGATACTGGTCCAACTCCTTATGCGTTGGATGAAAGTGTT
66 AAATCGAGAAAAAAGTTGATACTGATCCAACTCCTTATGCGCTAGATGAAAGTGTC
* * * *
2660468 GATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGGTGTTGATCTACCTCTTTCTGTGATA
1 GATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATGTCGATCTATCTCTTTCTGTGATA
2660533 GAATTGAGTG
Statistics
Matches: 163, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
121 162 0.99
122 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (121 bp):
GATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATGTCGATCTATCTCTTTCTGTGATA
AAATCGAGAAAAAAGTTGATACTGATCCAACTCCTTATGCGCTAGATGAAAGTGTC
Found at i:2660527 original size:44 final size:44
Alignment explanation
Indices: 2660464--2660626 Score: 161
Period size: 44 Copynumber: 3.7 Consensus size: 44
2660454 TGGATGAAAG
* * *
2660464 TGTTGATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGG
1 TGTTGATCTACCTCCTTCTGTGATAGAATCGAATGAGATGTTGA
* * * * ***
2660508 TGTTGATCTACCTCTTTCTGTGATAGAATTGAGTGAAATGAAAA
1 TGTTGATCTACCTCCTTCTGTGATAGAATCGAATGAGATGTTGA
* * * *
2660552 TGTCGATC-ACTCTCCTTCTGTGATGGGATCGAACGAGATGTTGA
1 TGTTGATCTAC-CTCCTTCTGTGATAGAATCGAATGAGATGTTGA
2660596 TGCTT-ATCTACCT-CTTCTGTGATAGAATCGA
1 TG-TTGATCTACCTCCTTCTGTGATAGAATCGA
2660627 GCAAAAAGTT
Statistics
Matches: 92, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
43 18 0.20
44 71 0.77
45 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (44 bp):
TGTTGATCTACCTCCTTCTGTGATAGAATCGAATGAGATGTTGA
Found at i:2660583 original size:88 final size:87
Alignment explanation
Indices: 2660457--2660623 Score: 248
Period size: 88 Copynumber: 1.9 Consensus size: 87
2660447 TATGCGTTGG
* * * *
2660457 ATGAAAGTGTTGATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGGTG-TTGATCTACCT
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATGCTT-ATCTACCT
2660521 CTTTCTGTGATAGAATTGAGTGAA
65 C-TTCTGTGATAGAATTGAGTGAA
*
2660545 ATGAAAATGTCGAT-CACTCTCCTTCTGTGATGGGATCGAACGAGATGTTGATGCTTATCTACCT
1 ATGAAAATGTCGATCCAC-CTCCTTCTGTGATGGAATCGAACGAGATGTTGATGCTTATCTACCT
2660609 CTTCTGTGATAGAAT
65 CTTCTGTGATAGAAT
2660624 CGAGCAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
87 17 0.24
88 53 0.74
89 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (87 bp):
ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGATGCTTATCTACCTC
TTCTGTGATAGAATTGAGTGAA
Found at i:2661455 original size:13 final size:13
Alignment explanation
Indices: 2661437--2661461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2661427 ATTTTCTTTC
2661437 ATTTTTATTTTTT
1 ATTTTTATTTTTT
2661450 ATTTTTATTTTT
1 ATTTTTATTTTT
2661462 CTTCTCAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:2678744 original size:21 final size:21
Alignment explanation
Indices: 2678720--2678766 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
2678710 TGGGCTAGGA
*
2678720 AATCGGTACCCATTCAATGGG
1 AATCGGTACCCATTCAAGGGG
2678741 AATCGGTACCCATTCAAGGGG
1 AATCGGTACCCATTCAAGGGG
2678762 AATCG
1 AATCG
2678767 ATGCCCCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (21 bp):
AATCGGTACCCATTCAAGGGG
Found at i:2680343 original size:23 final size:23
Alignment explanation
Indices: 2680283--2680346 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
2680273 CAACCTTATA
* *
2680283 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGATGCAATTCTACG
* * ** *
2680306 CGGTACTAAGTTGCAATTCTACG
1 TGGCACTTCGATGCAATTCTACG
2680329 TGGCACTTCGATGCAATT
1 TGGCACTTCGATGCAATT
2680347 TATATGAGCT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGATGCAATTCTACG
Found at i:2683724 original size:21 final size:21
Alignment explanation
Indices: 2683667--2683717 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2683657 TTTCTGGGCT
2683667 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGGTACCCATTCA
* *
2683688 ATGGGAATTGGTACCCATTCA
1 AGGGGAATCGGTACCCATTCA
2683709 AGGGGAATC
1 AGGGGAATC
2683718 AATACCCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (21 bp):
AGGGGAATCGGTACCCATTCA
Found at i:2685298 original size:23 final size:23
Alignment explanation
Indices: 2685257--2685319 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
2685247 AACCTTATAT
* * *
2685257 GGCACTTCGGTGCATTTCTACGC
1 GGCACTACGGTGAAATTCTACGC
* *
2685280 GGTACTACGGTGAAATTCTACGT
1 GGCACTACGGTGAAATTCTACGC
* *
2685303 GGCACTTCGGTGTAATT
1 GGCACTACGGTGAAATT
2685320 TATATGAGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
GGCACTACGGTGAAATTCTACGC
Found at i:2689110 original size:18 final size:18
Alignment explanation
Indices: 2689087--2689121 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2689077 TCTACTTTTA
2689087 TTTTTATGATTATTATTG
1 TTTTTATGATTATTATTG
*
2689105 TTTTTATTATTATTATT
1 TTTTTATGATTATTATT
2689122 AATTCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTATGATTATTATTG
Found at i:2693365 original size:62 final size:62
Alignment explanation
Indices: 2693216--2693559 Score: 379
Period size: 62 Copynumber: 5.6 Consensus size: 62
2693206 CAATCTTTGT
*
2693216 AATCTTTGACATT-CTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACT-CCCAGTAGAGTC
1 AATCCTTGAC-TTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGTC
* * * * ** *
2693277 GATCTTTAATTTCCTAATGAAGAGAAGTCAATCTTTATTAACCCTGACTCCCCAGTAGAGTC
1 AATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGTC
* * * * *
2693339 AATCCTTGACTTCTTTGTAAAGAGAAGTCAATCTTTATTATCCTTGACTCCCTAGTAGAGTC
1 AATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGTC
* * * * ** * *
2693401 AATCATTGACTTCCTCGTGAAGAGAATTCAA-CTTTTTTATTCAGGAATCCCCAGTAGAGTT
1 AATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGTC
* * * * * * * * *
2693462 AATACTTGACTTCCTCGTAAAGAGAAGTCAACCTTTGTTATTCTTGATTTCACAGTAGAGTC
1 AATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGTC
*
2693524 AATCCTTGACTTTCTCGTGAAGAGAAGTCAATCTTT
1 AATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
2693560 TTGATTTGAT
Statistics
Matches: 236, Mismatches: 44, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
60 2 0.01
61 90 0.38
62 144 0.61
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (62 bp):
AATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGTC
Found at i:2693452 original size:123 final size:123
Alignment explanation
Indices: 2693221--2693561 Score: 407
Period size: 123 Copynumber: 2.8 Consensus size: 123
2693211 TTTGTAATCT
* * * * *
2693221 TTGACATT-CTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCAGTAGAGTCGATCTTTA
1 TTGAC-TTCCTCGTAAAGAGAAGTCAATCTTTATTATCCTTGACTCCCAGTAGAGTCAATCATTG
* ** * ** * *
2693285 ATTTCCTAATGAAGAGAAGTCAATCTTTATTAACCCTGACTCCCCAGTAGAGTCAATCC
65 ACTTCCTCGTGAAGAGAAGTCAATCTTTTTTAACCAGGAATCCCCAGTAGAGTCAATAC
* *
2693344 TTGACTTCTTTGTAAAGAGAAGTCAATCTTTATTATCCTTGACTCCCTAGTAGAGTCAATCATTG
1 TTGACTTCCTCGTAAAGAGAAGTCAATCTTTATTATCCTTGACTCCC-AGTAGAGTCAATCATTG
* ** *
2693409 ACTTCCTCGTGAAGAGAATTCAA-CTTTTTTATTCAGGAATCCCCAGTAGAGTTAATAC
65 ACTTCCTCGTGAAGAGAAGTCAATCTTTTTTAACCAGGAATCCCCAGTAGAGTCAATAC
* * * * * *
2693467 TTGACTTCCTCGTAAAGAGAAGTCAACCTTTGTTATTCTTGATTTCACAGTAGAGTCAATCCTTG
1 TTGACTTCCTCGTAAAGAGAAGTCAATCTTTATTATCCTTGA-CTCCCAGTAGAGTCAATCATTG
*
2693532 ACTTTCTCGTGAAGAGAAGTCAATCTTTTT
65 ACTTCCTCGTGAAGAGAAGTCAATCTTTTT
2693562 GATTTGATAT
Statistics
Matches: 185, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
122 2 0.01
123 141 0.76
124 42 0.23
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (123 bp):
TTGACTTCCTCGTAAAGAGAAGTCAATCTTTATTATCCTTGACTCCCAGTAGAGTCAATCATTGA
CTTCCTCGTGAAGAGAAGTCAATCTTTTTTAACCAGGAATCCCCAGTAGAGTCAATAC
Found at i:2693962 original size:137 final size:137
Alignment explanation
Indices: 2693716--2694941 Score: 1114
Period size: 137 Copynumber: 9.1 Consensus size: 137
2693706 GGAGAAGATG
* * * * * *
2693716 CGTGTTATCTCAATTATCCCTAAAGACGGCCAGACAG-CCTCAACATGAAGAAACAATGTCATCC
1 CGTGTTATCTCCATTATCCCTAAAGATGGACAGAC-GTCCTCATCACGAAGGAACAATGTCATCC
* * ** * * * * * *
2693780 ATCGACTAGATCTCAACATCAAGTAGGAGTCGCGTCATCCTTAGATAGCCAAAATTCCTTATTGC
65 ACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGC
2693845 GTAGGAAC
130 GTAGGAAC
* * *
2693853 CGTGTTATCTCCATTATCCCTAAAGATGGACAGACATCCCCATCACGAAGGAATAATGTCATCCA
1 CGTGTTATCTCCATTATCCCTAAAGATGGACAGACGTCCTCATCACGAAGGAACAATGTCATCCA
* * ** * *
2693918 CCAACCAGATCTCCTCATCACATAGGATTCGTGTCATCCTTAGATAGCCAGACTTCCTCATCACG
66 CCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGCG
*
2693983 TAGGAAT
131 TAGGAAC
* * * *
2693990 CGTGTAATCTCTATTATCCCTAAAGAT-GACAAGACATCCTCATCACGAATGAACAATGGT-ATC
1 CGTGTTATCTCCATTATCCCTAAAGATGGAC-AGACGTCCTCATCACGAAGGAACAAT-GTCATC
* * * * * *
2694053 CACCGACCACATCTCCTCATCACATAGGAGCCGCGTCATCCTTAGATTGCCAGAATACCTCATCT
64 CACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCG
** *
2694118 TATA-GAAT
129 CGTAGGAAC
** * * * *
2694126 TATTTTATCTCCATTAACCCTAAAGATGGACAGACGTCTTTATCACGAA-GAACAATGTCATCCA
1 CGTGTTATCTCCATTATCCCTAAAGATGGACAGACGTCCTCATCACGAAGGAACAATGTCATCCA
* * * ** * * * * *
2694190 CGGATCAGATCTCCTCATCATGTAGGATTCGTGTCATCCTTATATATCCAGAATTCCTCATCGCA
66 CCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGCG
2694255 TAGGAAC
131 TAGGAAC
* * ** * * * *
2694262 CATGTTATCACCATTATCCCTAAAGATGG-CTAGATTTCCTCATTATGAAGGGATAATGTCATCC
1 CGTGTTATCTCCATTATCCCTAAAGATGGAC-AGACGTCCTCATCACGAAGGAACAATGTCATCC
** ** * *
2694326 ACCGACCAGATCT-CTCATCTTGTAGGAG-TACGTCATCCTTAGATAGCCAAACTTCCTCATTGC
65 ACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGC
* *
2694389 --ATGAAT
130 GTAGGAAC
* * ** * * * *
2694395 CATATTATCTCCATTATCCCTAAAGATGGTTATACGTCATCATCACAAAGGAACAATATCATCCA
1 CGTGTTATCTCCATTATCCCTAAAGATGGACAGACGTCCTCATCACGAAGGAACAATGTCATCCA
* * **
2694460 CCGACCATATCTCCTCATCATGTAGGAGCCATGTCATCCTTAGATAGCCAGACTTCCTCATCGCG
66 CCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGCG
2694525 TAGGAAC
131 TAGGAAC
** * * * *
2694532 CGTGTTATCTCCATTATCCCTAAAGATGGTTAGACGT-TTCCATCATGATGAAACAATGTCATCC
1 CGTGTTATCTCCATTATCCCTAAAGATGGACAGACGTCCT-CATCACGAAGGAACAATGTCATCC
* * * * * * * *
2694596 ATCGACCAGATCTCCTCATCACTTAGAAGCCACATCATCCTTAGATAGCTATACTTCTTCATCGC
65 ACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGC
2694661 GTAGGAAC
130 GTAGGAAC
* ** **
2694669 CATGTTATCTATATTATCCCTAAAGATGGTTAGACGTCCTCAT----------C-AT-TCATCCA
1 CGTGTTATCTCCATTATCCCTAAAGATGGACAGACGTCCTCATCACGAAGGAACAATGTCATCCA
* * * * * * * * * *
2694722 CCGACTAGATTTCCTCATTACGTAAGAGTCGTGTCATCCTCAGATAGACAGACTTCCTTATCGTG
66 CCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGCG
*
2694787 TAGGAAT
131 TAGGAAC
* * * * *
2694794 CGTGTTATCTTCATTATCCCTAAAGATGG-CTAGATGTCCTCATCACGAAGAAAGAATGGCATCC
1 CGTGTTATCTCCATTATCCCTAAAGATGGAC-AGACGTCCTCATCACGAAGGAACAATGTCATCC
* * * * *
2694858 ACCGACCATATCTCCTCATCACGTAGGAGCCGCGTCACCCATAGATAACCAGATTTCCTCATCGC
65 ACCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGC
2694923 GTAGGAAC
130 GTAGGAAC
*
2694931 CGTGTTGTCTC
1 CGTGTTATCTC
2694942 TATATACCTA
Statistics
Matches: 883, Mismatches: 178, Indels: 56
0.79 0.16 0.05
Matches are distributed among these distances:
125 97 0.11
126 2 0.00
127 1 0.00
133 66 0.07
134 16 0.02
135 124 0.14
136 99 0.11
137 475 0.54
138 3 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (137 bp):
CGTGTTATCTCCATTATCCCTAAAGATGGACAGACGTCCTCATCACGAAGGAACAATGTCATCCA
CCGACCAGATCTCCTCATCACGTAGGAGCCGCGTCATCCTTAGATAGCCAGACTTCCTCATCGCG
TAGGAAC
Found at i:2709352 original size:12 final size:12
Alignment explanation
Indices: 2709335--2709360 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2709325 CCTCTTTGTT
2709335 AAAAAAAGAAAA
1 AAAAAAAGAAAA
2709347 AAAAAAAGAAAA
1 AAAAAAAGAAAA
2709359 AA
1 AA
2709361 TGAAGTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:2713609 original size:18 final size:18
Alignment explanation
Indices: 2713586--2713622 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2713576 ATGGTGGTTT
*
2713586 TGGTAAAATGAAATTAAA
1 TGGTAAAAAGAAATTAAA
*
2713604 TGGTAAAAAGATATTAAA
1 TGGTAAAAAGAAATTAAA
2713622 T
1 T
2713623 AAATAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (18 bp):
TGGTAAAAAGAAATTAAA
Found at i:2717165 original size:36 final size:36
Alignment explanation
Indices: 2717098--2717167 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
2717088 CCTTAGGTCC
* *
2717098 ATAAGGAATTACCAGCTTGATAGATGTTGAACCTAT
1 ATAAGGAATTACCAGCTTGATAGAAGCTGAACCTAT
* *
2717134 ATAAGGAATTACCAGTTTGATCGAAGCTGAACCT
1 ATAAGGAATTACCAGCTTGATAGAAGCTGAACCT
2717168 GCAGAGAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (36 bp):
ATAAGGAATTACCAGCTTGATAGAAGCTGAACCTAT
Found at i:2717894 original size:16 final size:17
Alignment explanation
Indices: 2717873--2717904 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2717863 CAAAAAACAT
2717873 AAAATT-TGACTTTTCA
1 AAAATTATGACTTTTCA
2717889 AAAATTATGACTTTTC
1 AAAATTATGACTTTTC
2717905 GGTCAAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
AAAATTATGACTTTTCA
Found at i:2727292 original size:18 final size:18
Alignment explanation
Indices: 2727269--2727308 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
2727259 CCAGCAGCCA
2727269 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
2727287 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
2727305 CCGC
1 CCGC
2727309 CATCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:2728369 original size:50 final size:51
Alignment explanation
Indices: 2728315--2728442 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
2728305 CCCTACGTGG
* * * **
2728315 CGTATAGCGCGTTTCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
* * *
2728365 CGTATAGCGCGGTGCAGGGGGCGCGTTATACCCCACGTGGCGCCAAATCAT
1 CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
2728416 CGTATAGCGCGATGCAGGGGGCGCGCT
1 CGTATAGCGCGATGCAGGGGGCGCGCT
2728443 TTACTGCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 26 0.38
51 42 0.62
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (51 bp):
CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
Found at i:2732650 original size:29 final size:29
Alignment explanation
Indices: 2732615--2732744 Score: 131
Period size: 29 Copynumber: 4.4 Consensus size: 29
2732605 AACTTATTAG
2732615 ATATATTTTATTTTTATTTTAACTTAAAA
1 ATATATTTTATTTTTATTTTAACTTAAAA
*
2732644 ATATATTTTA-TTTTATCTTAACATTAAAA
1 ATATATTTTATTTTTATTTTAAC-TTAAAA
* * *
2732673 GTATATTTTATTATTT-TATTAATTTAAAA
1 ATATATTTTATT-TTTATTTTAACTTAAAA
* * *
2732702 ATATATTTTGTTATTAATTTATA-TTCAAATA
1 ATATATTTTATTTTTATTTTA-ACTT-AAA-A
2732733 ATATATTTTATT
1 ATATATTTTATT
2732745 CAAACAATGT
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
28 13 0.15
29 46 0.55
30 10 0.12
31 15 0.18
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (29 bp):
ATATATTTTATTTTTATTTTAACTTAAAA
Found at i:2732904 original size:40 final size:40
Alignment explanation
Indices: 2732829--2732905 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
2732819 CCGGCCCTAT
* * * *
2732829 ATATATATATTTATTTTATTATTTTTATTATTATGGTATA
1 ATATATATATGTATTATATTATATTTATTACTATGGTATA
*
2732869 ATATATATATGTATATATGTTATATTTATT-CTATGGT
1 ATATATATATGTAT-TATATTATATTTATTACTATGGT
2732906 TTTATTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 19 0.61
41 12 0.39
ACGTcount: A:0.32, C:0.01, G:0.08, T:0.58
Consensus pattern (40 bp):
ATATATATATGTATTATATTATATTTATTACTATGGTATA
Found at i:2734113 original size:26 final size:26
Alignment explanation
Indices: 2734062--2734188 Score: 213
Period size: 26 Copynumber: 5.0 Consensus size: 26
2734052 GTTTGATTTA
*
2734062 ATTATTTTAATA-G-GTAGTGGTATG
1 ATTATTTTAATAGGTGTAGTGGTTTG
2734086 ATTATTTTAATAGGTGTAGTGGTTTG
1 ATTATTTTAATAGGTGTAGTGGTTTG
*
2734112 ATTATTTTAATAGGTGTAGTGGGTTG
1 ATTATTTTAATAGGTGTAGTGGTTTG
*
2734138 ATTATTTTAATATGTGTAGTGGTTTG
1 ATTATTTTAATAGGTGTAGTGGTTTG
2734164 ATTATTTTAATAGGTGTAGTGGTTT
1 ATTATTTTAATAGGTGTAGTGGTTT
2734189 AGGGGTTGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 12 0.12
25 1 0.01
26 83 0.86
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (26 bp):
ATTATTTTAATAGGTGTAGTGGTTTG
Found at i:2734249 original size:42 final size:41
Alignment explanation
Indices: 2734164--2734252 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
2734154 TAGTGGTTTG
* * *
2734164 ATTATTTTAATAGGTGTAGTGGTTTAGGGGTTGTTCGATTTA
1 ATTATTTTAATAGGTATAGTAGTTTA-GGGTTGTTCGAGTTA
* *
2734206 ATTATTTTAATATGTATAGTAGTTTA-GGTTGAATTTGAGTTA
1 ATTATTTTAATAGGTATAGTAGTTTAGGGTTG--TTCGAGTTA
2734248 ATTAT
1 ATTAT
2734253 GATTTTTGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 5 0.12
42 35 0.88
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.49
Consensus pattern (41 bp):
ATTATTTTAATAGGTATAGTAGTTTAGGGTTGTTCGAGTTA
Found at i:2734408 original size:27 final size:27
Alignment explanation
Indices: 2734378--2734444 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
2734368 TTAGATAATC
2734378 TTTTTTAGTTTTTC--TTTTTATTTCAT
1 TTTTTTAGTTTTTCTATTTTTA-TTCAT
* **
2734404 GTTTTTTAATTTAACTATTTTTATTCAT
1 -TTTTTTAGTTTTTCTATTTTTATTCAT
2734432 TTTTTTAGTTTTT
1 TTTTTTAGTTTTT
2734445 TTTAGTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 21 0.66
28 5 0.16
29 6 0.19
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (27 bp):
TTTTTTAGTTTTTCTATTTTTATTCAT
Found at i:2734443 original size:9 final size:10
Alignment explanation
Indices: 2734431--2734485 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
2734421 TTTTTATTCA
2734431 TTTTTTTAGT
1 TTTTTTTAGT
2734441 TTTTTTTAGT
1 TTTTTTTAGT
2734451 TTTTTTTA-T
1 TTTTTTTAGT
* *
2734460 TTCTTTTACT
1 TTTTTTTAGT
2734470 TTTACTTTTA-T
1 TTT--TTTTAGT
2734481 TTTTT
1 TTTTT
2734486 ATTCATTACT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 10 0.25
10 21 0.52
11 4 0.10
12 5 0.12
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.80
Consensus pattern (10 bp):
TTTTTTTAGT
Found at i:2734453 original size:28 final size:31
Alignment explanation
Indices: 2734422--2734498 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
2734412 ATTTAACTAT
*
2734422 TTTTATTCATTT-TTTTAGTTTT-TTTTA-G
1 TTTTATTCATTTCTTTTACTTTTATTTTATG
* * *
2734450 TTTTTTTTATTTCTTTTACTTTTACTTTTATT
1 TTTTATTCATTTCTTTTACTTTTA-TTTTATG
*
2734482 TTTTATTCATTACTTTT
1 TTTTATTCATTTCTTTT
2734499 TTTCATTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 10 0.26
29 9 0.24
31 5 0.13
32 14 0.37
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (31 bp):
TTTTATTCATTTCTTTTACTTTTATTTTATG
Found at i:2735614 original size:18 final size:18
Alignment explanation
Indices: 2735591--2735631 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2735581 CTCACTAACA
2735591 CTTTTCATTTT-TTGTTC-T
1 CTTTTC-TTTTATT-TTCAT
2735609 CTTTTCTTTTATTTTCAT
1 CTTTTCTTTTATTTTCAT
2735627 CTTTT
1 CTTTT
2735632 GCATCATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.73
Consensus pattern (18 bp):
CTTTTCTTTTATTTTCAT
Found at i:2738636 original size:84 final size:84
Alignment explanation
Indices: 2738430--2739429 Score: 1179
Period size: 84 Copynumber: 11.9 Consensus size: 84
2738420 AACTATTGGT
* * * *
2738430 AGCATAACTCAAGGCGAGAAGGGTTATTTGTCATC-AAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
2738494 TCCAAGGTACA-CAATTGC
66 TCCAAGGCACATCATTTGC
* * * * *
2738512 AACATATA-TCAAGGCAAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGTTTGACTACGCTCAG
1 AGCATA-ACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
2738576 CTCCAAGGCACATCATTTGC
65 CTCCAAGGCACATCATTTGC
* * *
2738596 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
*
2738661 TCAAAGGCACATCATTTGC
66 TCCAAGGCACATCATTTGC
* * * * * * *
2738680 AGCATAACTTAAGTCGAGAAGGGCTATCTACCAACCAAAGACCCTT-GAGTTTGACTACGCTCAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGA-CCTTCGAGTTCGACTACGCTCAG
** *
2738744 CTTTAAGGCACATCATTTGT
65 CTCCAAGGCACATCATTTGC
* * * * * *
2738764 AGCATAACTTAAGGCTTGAAGAGTTATCTTCCAATC-AAATACCTTCGAGTTCGACTACGCTTAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAAGACCTTCGAGTTCGACTACGCTCAG
* *
2738828 CTCTAAGACACATCATTTGC
65 CTCCAAGGCACATCATTTGC
* * ** * * * * *
2738848 AACATGACTCAAGGAAAGAATGGTTATTTACC-ACTAAAAGACCTTCTAGTTTGACTACGCTCAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAAGACCTTCGAGTTCGACTACGCTCAG
2738912 CTCCAAGGCACATCATTTGC
65 CTCCAAGGCACATCATTTGC
* * * * *
2738932 AACATAGCTTAAGGCTAGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
2738997 TCAAAGGTACATCATTTGC
66 TCCAAGGCACATCATTTGC
* * * * *
2739016 AGCATAACTCAAGGCTATAAGAGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
2739081 TCCAAGGCACATCATTTGC
66 TCCAAGGCACATCATTTGC
* * * * *
2739100 AGCATAGCTCAAGGCAAGAAGGGCTATCTGCC-ACTAAAAGAGCTTCGAGTTCGATTACGCTCAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAAGACCTTCGAGTTCGACTACGCTCAG
2739164 CTCCAAGGCACATCATTTGC
65 CTCCAAGGCACATCATTTGC
* * * *
2739184 AGCATAACTCAAGGCTAGAAGGATTATCTGCCAACCAAAGACCTTCGAGTTCTATTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
2739249 TCCAAGGCACATCATTTGC
66 TCCAAGGCACATCATTTGC
* * * *
2739268 AGCATAACTCAAGGCTAGAAGGATTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* * **
2739333 TCAAAGGCATATCAAATTTAT
66 TCCAAGGCACATC--ATTTGC
** * * *
2739354 AGCATAACTCAAGGCTAGAAGGGTTATCTGTAAACAAAAGACCTGT-GAGTTTGATTACACTCAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT-TCGAGTTCGACTACGCTCAG
*
2739418 CTCAAAGGCACA
65 CTCCAAGGCACA
2739430 CTCAAGGCGA
Statistics
Matches: 793, Mismatches: 110, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
82 27 0.03
83 47 0.06
84 638 0.80
85 8 0.01
86 72 0.09
87 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (84 bp):
AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGC
Found at i:2741221 original size:26 final size:26
Alignment explanation
Indices: 2741166--2741296 Score: 223
Period size: 26 Copynumber: 5.1 Consensus size: 26
2741156 GGAGGTTTGA
2741166 TTTGATTATTTTAATA-G-GTAGT-G
1 TTTGATTATTTTAATAGGTGTAGTGG
2741189 TTATGATTATTTTAATAGGTGTAGTGG
1 TT-TGATTATTTTAATAGGTGTAGTGG
2741216 TTTGATTATTTTAATAGGTGTAGTGG
1 TTTGATTATTTTAATAGGTGTAGTGG
*
2741242 GTTGATTATTTTAATAGGTGTAGTGG
1 TTTGATTATTTTAATAGGTGTAGTGG
2741268 TTTGATTATTTTAATAGGTGTAGTGG
1 TTTGATTATTTTAATAGGTGTAGTGG
2741294 TTT
1 TTT
2741297 AGGGAGTGTT
Statistics
Matches: 102, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
23 2 0.02
24 14 0.14
25 1 0.01
26 82 0.80
27 3 0.03
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (26 bp):
TTTGATTATTTTAATAGGTGTAGTGG
Found at i:2741532 original size:8 final size:8
Alignment explanation
Indices: 2741521--2741633 Score: 57
Period size: 9 Copynumber: 12.8 Consensus size: 8
2741511 TTTTTATTCA
*
2741521 TTTTTTAG
1 TTTTTTAT
2741529 TTTTTTAT
1 TTTTTTAT
2741537 TTTTTTAT
1 TTTTTTAT
2741545 TTCTTTTACT
1 TT-TTTTA-T
*
2741555 TTTTCTTTT
1 TTTT-TTAT
2741564 ATTTTTTA-
1 -TTTTTTAT
**
2741572 TTCATTAT
1 TTTTTTAT
2741580 TTTTATTCAT
1 TTTT-TT-AT
2741590 TTATTTTAT
1 TT-TTTTAT
*
2741599 TGTTATTAT
1 T-TTTTTAT
*
2741608 TATATTAATAT
1 T-T-TT-TTAT
2741619 TTTTTTAT
1 TTTTTTAT
2741627 TCTTTTT
1 T-TTTTT
2741634 TCATATTTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
7 5 0.06
8 23 0.28
9 29 0.36
10 18 0.22
11 6 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2741542 original size:16 final size:18
Alignment explanation
Indices: 2741521--2741558 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
2741511 TTTTTATTCA
2741521 TTTTTTAGTT-TTTTA-T
1 TTTTTTAGTTCTTTTACT
*
2741537 TTTTTTATTTCTTTTACT
1 TTTTTTAGTTCTTTTACT
2741555 TTTT
1 TTTT
2741559 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 5 0.26
18 5 0.26
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTTAGTTCTTTTACT
Found at i:2741570 original size:12 final size:12
Alignment explanation
Indices: 2741523--2741570 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
2741513 TTTATTCATT
*
2741523 TTTTAGTTTTTTA
1 TTTTA-TTTTTTC
2741536 TTTT-TTTATTTC
1 TTTTATTT-TTTC
*
2741548 TTTTACTTTTTC
1 TTTTATTTTTTC
2741560 TTTTATTTTTT
1 TTTTATTTTTT
2741571 ATTCATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 3 0.10
12 21 0.70
13 6 0.20
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTATTTTTTC
Found at i:2741581 original size:14 final size:15
Alignment explanation
Indices: 2741561--2741596 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
2741551 TACTTTTTCT
2741561 TTTATTTTTTATTCA
1 TTTATTTTTTATTCA
2741576 -TTA-TTTTTATTCA
1 TTTATTTTTTATTCA
2741589 TTTATTTT
1 TTTATTTT
2741597 ATTGTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.53
14 6 0.32
15 3 0.16
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTATTCA
Found at i:2742125 original size:23 final size:23
Alignment explanation
Indices: 2742064--2742136 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
2742054 CAAATAATAT
* **
2742064 ATATTTTTATTTAAAAT-AAACT
1 ATATTTTTAATTAAAATAAAAAA
*
2742086 ATATTTTAAAGTTAAAATAAAAAA
1 ATATTTTTAA-TTAAAATAAAAAA
* * *
2742110 ATATTTTTAATAAAAAGAATAAA
1 ATATTTTTAATTAAAATAAAAAA
2742133 ATAT
1 ATAT
2742137 ATATTTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 8 0.20
23 21 0.51
24 12 0.29
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (23 bp):
ATATTTTTAATTAAAATAAAAAA
Found at i:2742191 original size:29 final size:28
Alignment explanation
Indices: 2742130--2742248 Score: 99
Period size: 29 Copynumber: 4.3 Consensus size: 28
2742120 TAAAAAGAAT
*
2742130 AAAATATATATT-TTTTTATTCAACTTA
1 AAAATATATTTTATTTTTATTCAACTTA
*
2742157 ATAAATATATTTTATTTTTATTTTAACTTA
1 A-AAATATATTTTATTTTTA-TTCAACTTA
* *
2742187 AAAATATGTTTTA-TTTTA---AA-TAA
1 AAAATATATTTTATTTTTATTCAACTTA
*
2742210 AAATATATATTTTATTATTTATT-AATTTAA
1 AAA-ATATATTTTATT-TTTATTCAACTT-A
2742240 AAAATATAT
1 AAAATATAT
2742249 ATTTTGTTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
23 5 0.07
24 11 0.14
25 1 0.01
26 4 0.05
27 1 0.01
28 17 0.22
29 24 0.32
30 13 0.17
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (28 bp):
AAAATATATTTTATTTTTATTCAACTTA
Found at i:2742198 original size:23 final size:24
Alignment explanation
Indices: 2742172--2742225 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
2742162 TATATTTTAT
* * *
2742172 TTTTATTTTAACTTAAAA-ATATG
1 TTTTATTTTAAATAAAAATATATA
2742195 TTTTATTTTAAATAAAAATATATA
1 TTTTATTTTAAATAAAAATATATA
2742219 TTTTATT
1 TTTTATT
2742226 ATTTATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTATTTTAAATAAAAATATATA
Found at i:2742393 original size:18 final size:19
Alignment explanation
Indices: 2742370--2742407 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
2742360 TATTTTTAAT
2742370 TATATTATTTGAATA-AAA
1 TATATTATTTGAATATAAA
2742388 TATATTATTTGAATATAAA
1 TATATTATTTGAATATAAA
2742407 T
1 T
2742408 TTTAAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
TATATTATTTGAATATAAA
Found at i:2742607 original size:21 final size:22
Alignment explanation
Indices: 2742578--2742619 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2742568 GGTGACAGTG
2742578 TAAATAATTTATAAAT-AAATTT
1 TAAATAATTT-TAAATGAAATTT
2742600 TAAA-AATTTTAAATGAAATT
1 TAAATAATTTTAAATGAAATT
2742620 CGATGATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAATAATTTTAAATGAAATTT
Found at i:2746541 original size:27 final size:27
Alignment explanation
Indices: 2746503--2746566 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
2746493 TGGTACTGTT
2746503 GTTGTTGAGGTGGTCTCAGTTGATATG
1 GTTGTTGAGGTGGTCTCAGTTGATATG
* *
2746530 GTTGTTGAGGTGGTCTTAGTTTATATG
1 GTTGTTGAGGTGGTCTCAGTTGATATG
2746557 GTTGTTGAGG
1 GTTGTTGAGG
2746567 AGGCTTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.14, C:0.05, G:0.38, T:0.44
Consensus pattern (27 bp):
GTTGTTGAGGTGGTCTCAGTTGATATG
Found at i:2748822 original size:23 final size:22
Alignment explanation
Indices: 2748796--2748838 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
2748786 TCTAACAAAC
*
2748796 TAAAAATCCTAATTAATAAATAT
1 TAAAAATCCTAAATAA-AAATAT
2748819 TAAAAATCCTAAATAAAAAT
1 TAAAAATCCTAAATAAAAAT
2748839 TCTATACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAATCCTAAATAAAAATAT
Found at i:2757497 original size:16 final size:16
Alignment explanation
Indices: 2757466--2757496 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2757456 GAGGCAACCC
2757466 ATTCTATGTTATTTTT
1 ATTCTATGTTATTTTT
2757482 ATTCTA-GTTATTTTT
1 ATTCTATGTTATTTTT
2757497 TTTATGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTCTATGTTATTTTT
Found at i:2757646 original size:2 final size:2
Alignment explanation
Indices: 2757639--2757674 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2757629 GGTTAACATT
2757639 TA TA TA TA TA 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
2757675 AACAAAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2758016 original size:19 final size:19
Alignment explanation
Indices: 2757992--2758045 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
2757982 AAATTTACTA
2757992 AAATAAAATAGATAATAAT
1 AAATAAAATAGATAATAAT
** *
2758011 AAATAAAAGGGAAAATAAT
1 AAATAAAATAGATAATAAT
* *
2758030 AAA-ATAATAAATAATA
1 AAATAAAATAGATAATA
2758046 GTAGTAAAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAATAGATAATAAT
Found at i:2758060 original size:27 final size:26
Alignment explanation
Indices: 2757995--2758060 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
2757985 TTTACTAAAA
*
2757995 TAAAATAGATAATAATAAATAAAAGG
1 TAAAATAGAAAATAATAAATAAAAGG
* * *
2758021 GAAAATAATAAAATAATAAATAATAGTAG
1 TAAAAT-AGAAAATAATAAATAAAAG--G
2758050 TAAAATA-AAAA
1 TAAAATAGAAAA
2758061 GGGGTTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 5 0.16
27 20 0.62
28 1 0.03
29 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (26 bp):
TAAAATAGAAAATAATAAATAAAAGG
Found at i:2758844 original size:76 final size:76
Alignment explanation
Indices: 2758763--2758917 Score: 265
Period size: 76 Copynumber: 2.0 Consensus size: 76
2758753 AAACTAAACC
* ** *
2758763 TAAAAATAATATTCTAAGTCCTAATTAAAATGCTAAAACCTATTTAAACTAAAATACCTAAAACA
1 TAAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACA
2758828 AAGATAAAATA
66 AAGATAAAATA
*
2758839 TAAAAATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACA
1 TAAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACA
2758904 AAGATAAAATA
66 AAGATAAAATA
2758915 TAA
1 TAA
2758918 TATTAAAATA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (76 bp):
TAAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACA
AAGATAAAATA
Found at i:2764984 original size:20 final size:19
Alignment explanation
Indices: 2764959--2765008 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2764949 TGAAAAGATT
* *
2764959 TAATAAAATAAATTAGATAA
1 TAATAAAATAAAGT-GAAAA
2764979 TAAT-AAATAAAAGTGAAAA
1 TAATAAAAT-AAAGTGAAAA
2764998 TAATAAAATAA
1 TAATAAAATAA
2765009 TAAATAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (19 bp):
TAATAAAATAAAGTGAAAA
Found at i:2765007 original size:27 final size:28
Alignment explanation
Indices: 2764977--2765032 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
2764967 TAAATTAGAT
2764977 AATAATAAATAAAAGT-G-AAAATAATAA
1 AATAATAAATAAAAGTAGTAAAAT-ATAA
*
2765004 AATAATAAATAATAGTAGTAAAATATAA
1 AATAATAAATAAAAGTAGTAAAATATAA
2765032 A
1 A
2765033 GGGGGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 15 0.58
28 6 0.23
29 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (28 bp):
AATAATAAATAAAAGTAGTAAAATATAA
Found at i:2765092 original size:17 final size:18
Alignment explanation
Indices: 2765056--2765097 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
2765046 GTTGTTTTTA
2765056 AAATAAAACATAAGAATT
1 AAATAAAACATAAGAATT
* *
2765074 AAATAAAAGA-AATAATT
1 AAATAAAACATAAGAATT
2765091 AAATAAA
1 AAATAAA
2765098 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAACATAAGAATT
Found at i:2765737 original size:63 final size:63
Alignment explanation
Indices: 2765668--2765788 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
2765658 TAAAACATCT
2765668 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAACTAAAACAAAAATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATAACTAAAACAAAAATAATATTC
* * *
2765731 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAA
1 TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATAACTAAAACAAAAATAA
2765789 AATATAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 5 0.09
63 49 0.91
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.27
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATAACTAAAACAAAAATAATATTC
Found at i:2765769 original size:24 final size:24
Alignment explanation
Indices: 2765742--2765856 Score: 72
Period size: 25 Copynumber: 4.6 Consensus size: 24
2765732 AAATCCTAAT
2765742 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
** ** *
2765766 TAAAATACCTAAAACAAAGATAAAA
1 TAAAATA-CTAAAACCTATTTAAAC
* * * *
2765791 TATAAA-AATAATATCCTAAAACTT-AAT
1 TA-AAATACTAA-AACCT---ATTTAAAC
2765818 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
2765842 TAAAATACCTAAAAC
1 TAAAATA-CTAAAAC
2765857 AAAGATAAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
23 3 0.05
24 19 0.29
25 24 0.36
26 10 0.15
27 8 0.12
28 2 0.03
ACGTcount: A:0.58, C:0.15, G:0.01, T:0.26
Consensus pattern (24 bp):
TAAAATACTAAAACCTATTTAAAC
Found at i:2765810 original size:76 final size:76
Alignment explanation
Indices: 2765718--2765869 Score: 277
Period size: 76 Copynumber: 2.0 Consensus size: 76
2765708 TAACTAAAAC
* *
2765718 AAAAATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAA
1 AAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAA
2765783 AGATAAAATAT
66 AGATAAAATAT
*
2765794 AAAAATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAA
1 AAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAA
2765859 AGATAAAATAT
66 AGATAAAATAT
2765870 TTTAAACATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.59, C:0.13, G:0.01, T:0.27
Consensus pattern (76 bp):
AAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAA
AGATAAAATAT
Found at i:2767871 original size:11 final size:11
Alignment explanation
Indices: 2767831--2767892 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
2767821 AAGTTTGTTA
*
2767831 AAAATGAAATG
1 AAAATAAAATG
* *
2767842 AAATTAAAACG
1 AAAATAAAATG
*
2767853 -GAATAAAATG
1 AAAATAAAATG
*
2767863 AATATAAAATG
1 AAAATAAAATG
2767874 AAAATAAAAT-
1 AAAATAAAATG
*
2767884 AAAACAAAA
1 AAAATAAAA
2767893 CAAAAAATAT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
10 15 0.38
11 25 0.62
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:2770383 original size:26 final size:26
Alignment explanation
Indices: 2770338--2770388 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
2770328 ATGTAAATAT
2770338 GAAAATTTAGTGGCCAAAGT-ATAAA
1 GAAAATTTAGTGGCCAAAGTCATAAA
*
2770363 GAAAAGTTTAG-GGACCTAAGTCATAA
1 GAAAA-TTTAGTGG-CCAAAGTCATAA
2770389 TTTTTCCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.24
Consensus pattern (26 bp):
GAAAATTTAGTGGCCAAAGTCATAAA
Found at i:2772820 original size:39 final size:40
Alignment explanation
Indices: 2772761--2772935 Score: 203
Period size: 41 Copynumber: 4.4 Consensus size: 40
2772751 GCATATTGGA
* *
2772761 TAAGCACTTCGGTGC-TAAGGATCGACGCAACCTTATGCG
1 TAAGCACTTCAGTGCAAAAGGATCGACGCAACCTTATGCG
* *
2772800 TAAGCACTTTAGTGC-AAAGGATCGACGCAACCTTATGTG
1 TAAGCACTTCAGTGCAAAAGGATCGACGCAACCTTATGCG
* **
2772839 TAAGCACTTCAGTGCAAAAAGGATCGATGCAACCTTATATG
1 TAAGCACTTCAGTGC-AAAAGGATCGACGCAACCTTATGCG
* * *
2772880 TAAGCACTTC-GACGCAAAAAGGGTCGACACAACCTTATGCG
1 TAAGCACTTCAG-TGC-AAAAGGATCGACGCAACCTTATGCG
*
2772921 TAAGCACTTCGGTGC
1 TAAGCACTTCAGTGC
2772936 GACTTGAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 49 0.42
40 1 0.01
41 67 0.57
42 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (40 bp):
TAAGCACTTCAGTGCAAAAGGATCGACGCAACCTTATGCG
Found at i:2777508 original size:17 final size:17
Alignment explanation
Indices: 2777482--2777518 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2777472 CAAAACACCG
* *
2777482 CAAAATTCATAAACCCC
1 CAAAAATCATAAAACCC
2777499 CAAAAATCATAAAACCC
1 CAAAAATCATAAAACCC
2777516 CAA
1 CAA
2777519 TACCTCCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAAATCATAAAACCC
Found at i:2781983 original size:19 final size:19
Alignment explanation
Indices: 2781959--2782002 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2781949 GACTATGCTG
*
2781959 GAAATTAATGTTAGAGTGT
1 GAAATTAATGTTAGAATGT
*
2781978 GAAATTGATGTTAGAATGT
1 GAAATTAATGTTAGAATGT
2781997 GAAATT
1 GAAATT
2782003 TGCCATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (19 bp):
GAAATTAATGTTAGAATGT
Found at i:2783027 original size:69 final size:69
Alignment explanation
Indices: 2782839--2783178 Score: 388
Period size: 67 Copynumber: 5.1 Consensus size: 69
2782829 TGCATACCCA
* *
2782839 GTTTAGCACTAGAGTGTATACCCAAGACACTTA--GTACAAGTGGTGGCACGACCTTATGT-TCA
1 GTTTAGCACTAGAGTGTATACCCAAGACACTTAGTGTGC-A-TGGTGGCACAACCTTATGTGTCA
2782901 TATTC-
64 TATTCG
* *
2782906 GTTTAGCAATAGAGTGTATACCC-A-ACACTT-G-GTGCAGGTGGTGGCACGACCTTATGTGTCA
1 GTTTAGCACTAGAGTGTATACCCAAGACACTTAGTGTGCA--TGGTGGCACAACCTTATGTGTCA
2782967 TATTCG
64 TATTCG
* * * * *
2782973 GTTTAGCACTAGATTGTATAACCAATACACTTAGTGTGTATGGGGGCACAACCTTATGTGTCATA
1 GTTTAGCACTAGAGTGTATACCCAAGACACTTAGTGTGCATGGTGGCACAACCTTATGTGTCATA
*
2783038 TTCA
66 TTCG
* *
2783042 GTTTAGCAATAGAGTGTATACCCAAGACTCTT-G-GTGCA-GGTGGCACAACCTTA--TGTCATA
1 GTTTAGCACTAGAGTGTATACCCAAGACACTTAGTGTGCATGGTGGCACAACCTTATGTGTCATA
2783102 TTCG
66 TTCG
* * *
2783106 G-TTAGCACTAGATTGTATACCCAATACACTTAGTGTGTATGGTGGGCACAA-CTTATGT-TCAT
1 GTTTAGCACTAGAGTGTATACCCAAGACACTTAGTGTGCATGGT-GGCACAACCTTATGTGTCAT
2783168 ATTCG
65 ATTCG
2783173 GTTTAG
1 GTTTAG
2783179 AACTTTGGTG
Statistics
Matches: 236, Mismatches: 22, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
63 26 0.11
64 13 0.06
65 33 0.14
66 30 0.13
67 63 0.27
68 7 0.03
69 59 0.25
70 1 0.00
71 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (69 bp):
GTTTAGCACTAGAGTGTATACCCAAGACACTTAGTGTGCATGGTGGCACAACCTTATGTGTCATA
TTCG
Found at i:2787835 original size:20 final size:20
Alignment explanation
Indices: 2787810--2787854 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2787800 GACTATGCTG
*
2787810 GAAATTAATGTTAGAGTGTT
1 GAAATTAATGTTAGAATGTT
*
2787830 GAAATTGATGTTAGAATGTT
1 GAAATTAATGTTAGAATGTT
2787850 -AAATT
1 GAAATT
2787855 TGGTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (20 bp):
GAAATTAATGTTAGAATGTT
Found at i:2788822 original size:70 final size:69
Alignment explanation
Indices: 2788704--2788921 Score: 267
Period size: 70 Copynumber: 3.1 Consensus size: 69
2788694 GTTGCATACC
* * ** *
2788704 CGGTTTAGCACTAGAGTGCATACCCAAGACACTTAGTACAAGTAGTGGGCACGACCTTATGTGTC
1 CGGTTTAGCACTAGAGTGTATACCCAAGACACTTGGT-GTAGTGGTGGGCACGACCTTATGTGTC
2788769 ATATT
65 ATATT
* * * *
2788774 CAGTTTAACAATAGAGTGTATACCCAAGACAGTTGGTGTAGGTGGTGGGCACGACCTTATGTGTC
1 CGGTTTAGCACTAGAGTGTATACCCAAGACACTTGGTGTA-GTGGTGGGCACGACCTTATGTGTC
2788839 ATATT
65 ATATT
* * * *
2788844 CGGTTTAGCACTAGATTGTAAACCCAATACACTTAGTGTGTA-TGGTGGGCACAACCTTATGTGT
1 CGGTTTAGCACTAGAGTGTATACCCAAGACACTT-G-GTGTAGTGGTGGGCACGACCTTATGTGT
*
2788908 CATTTT
64 CATATT
2788914 CGGTTTAG
1 CGGTTTAG
2788922 AACTTTGGTG
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
69 1 0.01
70 120 0.94
71 1 0.01
72 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (69 bp):
CGGTTTAGCACTAGAGTGTATACCCAAGACACTTGGTGTAGTGGTGGGCACGACCTTATGTGTCA
TATT
Found at i:2792784 original size:19 final size:20
Alignment explanation
Indices: 2792741--2792785 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2792731 GACTATGCTG
* *
2792741 GAAATTAATGTTGGAGTGTT
1 GAAATTAATGTTAGAATGTT
*
2792761 GAAATTGATGTTAGAATG-T
1 GAAATTAATGTTAGAATGTT
2792780 GAAATT
1 GAAATT
2792786 TGGCCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.38
Consensus pattern (20 bp):
GAAATTAATGTTAGAATGTT
Found at i:2793744 original size:70 final size:70
Alignment explanation
Indices: 2793631--2793852 Score: 252
Period size: 70 Copynumber: 3.2 Consensus size: 70
2793621 GTTGCATACC
* * * *
2793631 CGGTTTAGCACTAGAGTGTATACCCAAGACTCTTAGTACAGGTGGTGGGCACGACCTTATGTGTC
1 CGGTTTAGCACTAGAATGTATACCCAAGACACTTGGTGCAGGTGGTGGGCACGACCTTATGTGTC
*
2793696 TTATT
66 ATATT
* * * * *
2793701 CGGTTTAGCAATAGAATGTATACACAAGACACTTGGTGCAGGTGGTGGGCATGACCTTATTTCTC
1 CGGTTTAGCACTAGAATGTATACCCAAGACACTTGGTGCAGGTGGTGGGCACGACCTTATGTGTC
2793766 ATATT
66 ATATT
* * * * *
2793771 CGGTTTAGCACTAGATTGTATACCCAATACACTTAGTGTGTA--TAGTGGGCACAACCTTATGTG
1 CGGTTTAGCACTAGAATGTATACCCAAGACACTT-G-GTGCAGGTGGTGGGCACGACCTTATGTG
2793834 TCATACTT
64 TCATA-TT
*
2793842 -GATTTAGCACT
1 CGGTTTAGCACT
2793853 TTGGTGCATA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
70 121 0.95
71 3 0.02
72 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (70 bp):
CGGTTTAGCACTAGAATGTATACCCAAGACACTTGGTGCAGGTGGTGGGCACGACCTTATGTGTC
ATATT
Found at i:2798593 original size:19 final size:20
Alignment explanation
Indices: 2798549--2798594 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2798539 GACTATGCTG
* *
2798549 GAAATTAATGTTAGAGTGTA
1 GAAATTTATGTTAGAATGTA
2798569 GAAATTTATGTTAGAATGT-
1 GAAATTTATGTTAGAATGTA
2798588 GAAATTT
1 GAAATTT
2798595 GTATATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (20 bp):
GAAATTTATGTTAGAATGTA
Found at i:2803217 original size:18 final size:18
Alignment explanation
Indices: 2803185--2803225 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2803175 ATAAAGAGCT
*
2803185 AGTTT-AATTAATGAACC
1 AGTTTAAATGAATGAACC
*
2803202 AGTTTAAATGAATGAACT
1 AGTTTAAATGAATGAACC
2803220 AGTTTA
1 AGTTTA
2803226 GTTAGAGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (18 bp):
AGTTTAAATGAATGAACC
Found at i:2803404 original size:20 final size:20
Alignment explanation
Indices: 2803366--2803404 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2803356 CAACTTAATG
* *
2803366 TCATGCAAATTTATTAACAC
1 TCATGCAAATTCATGAACAC
2803386 TCATGCAAATTCATGAACA
1 TCATGCAAATTCATGAACA
2803405 AGTAAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGCAAATTCATGAACAC
Found at i:2804648 original size:23 final size:24
Alignment explanation
Indices: 2804622--2804666 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2804612 ATAATTACAA
*
2804622 AAAT-ATTTTTTCATGAAAAAACT
1 AAATCATTTTTTAATGAAAAAACT
*
2804645 AAATCATTTTTTAATTAAAAAA
1 AAATCATTTTTTAATGAAAAAA
2804667 TAATTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (24 bp):
AAATCATTTTTTAATGAAAAAACT
Found at i:2806473 original size:10 final size:10
Alignment explanation
Indices: 2806455--2806487 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
2806445 TCTCGCCCTC
*
2806455 TTTAATTTTT
1 TTTATTTTTT
2806465 TTTATTTTTT
1 TTTATTTTTT
2806475 TTTATTTTTT
1 TTTATTTTTT
2806485 TTT
1 TTT
2806488 CTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:2806476 original size:11 final size:11
Alignment explanation
Indices: 2806460--2806507 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
2806450 CCCTCTTTAA
2806460 TTTTTTTTA-T
1 TTTTTTTTATT
2806470 TTTTTTTTATT
1 TTTTTTTTATT
*
2806481 TTTTTTTCTAAT
1 TTTTTTT-TATT
* *
2806493 TTTTTGTGATT
1 TTTTTTTTATT
2806504 TTTT
1 TTTT
2806508 CACTACCCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 9 0.28
11 14 0.44
12 9 0.28
ACGTcount: A:0.10, C:0.02, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:2807590 original size:26 final size:26
Alignment explanation
Indices: 2807551--2807601 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2807541 CCCTTGCTTG
2807551 AACCTGAATGGCCTTCAATGGGTGAT
1 AACCTGAATGGCCTTCAATGGGTGAT
* *
2807577 AACCTTGAAT-GCCTTGAATTGGTGA
1 AACC-TGAATGGCCTTCAATGGGTGA
2807602 ATTAAGATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (26 bp):
AACCTGAATGGCCTTCAATGGGTGAT
Found at i:2808015 original size:17 final size:17
Alignment explanation
Indices: 2807993--2808043 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
2807983 TATAAAAACT
2807993 AGTTTAATTAATGAACC
1 AGTTTAATTAATGAACC
* *
2808010 AGTTTAAATAAATGAACT
1 AGTTT-AATTAATGAACC
*
2808028 AGTTTAATTAGTGAAC
1 AGTTTAATTAATGAAC
2808044 TAGCTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (17 bp):
AGTTTAATTAATGAACC
Found at i:2808051 original size:18 final size:17
Alignment explanation
Indices: 2807989--2808060 Score: 83
Period size: 17 Copynumber: 4.1 Consensus size: 17
2807979 AACATATAAA
2807989 AACTAGTTTAATTAATG
1 AACTAGTTTAATTAATG
* *
2808006 AACCAGTTTAAATAAATG
1 AACTAGTTT-AATTAATG
*
2808024 AACTAGTTTAATTAGTG
1 AACTAGTTTAATTAATG
2808041 AACTAGCTTT-ATTGAATG
1 AACTAG-TTTAATT-AATG
2808059 AA
1 AA
2808061 ATATGATACT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
17 23 0.50
18 23 0.50
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (17 bp):
AACTAGTTTAATTAATG
Found at i:2808560 original size:70 final size:70
Alignment explanation
Indices: 2808444--2808574 Score: 226
Period size: 70 Copynumber: 1.9 Consensus size: 70
2808434 GGATTGCATC
* *
2808444 ACTTAGTGCAGGTGGTGGGCATGACCTTATGTGTCATATTCTGTTTAGCACTAGAGTGTATACCC
1 ACTTAGTGCAGGTGGTGGGCACGACCTTATGTGTCATATTCGGTTTAGCACTAGAGTGTATACCC
2808509 ACGAA
66 ACGAA
* *
2808514 ACTTAGTGCAGGTGGTGGGCACGACCTTATGTGTCGTATTCGGTTTAGTACTAGAGTGTAT
1 ACTTAGTGCAGGTGGTGGGCACGACCTTATGTGTCATATTCGGTTTAGCACTAGAGTGTAT
2808575 GGTGGGTACG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (70 bp):
ACTTAGTGCAGGTGGTGGGCACGACCTTATGTGTCATATTCGGTTTAGCACTAGAGTGTATACCC
ACGAA
Found at i:2809404 original size:9 final size:9
Alignment explanation
Indices: 2809390--2809417 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2809380 TCCATTAATC
2809390 ACATAACCT
1 ACATAACCT
2809399 ACATAACCT
1 ACATAACCT
2809408 ACATAACCT
1 ACATAACCT
2809417 A
1 A
2809418 ACAACAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (9 bp):
ACATAACCT
Found at i:2816196 original size:16 final size:13
Alignment explanation
Indices: 2816163--2816188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2816153 ATTTTTTCAT
2816163 CATCATTTTCACC
1 CATCATTTTCACC
2816176 CATCATTTTCACC
1 CATCATTTTCACC
2816189 TTACATCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
CATCATTTTCACC
Found at i:2820323 original size:46 final size:46
Alignment explanation
Indices: 2820273--2820364 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
2820263 TCAACAATTT
2820273 GAGTTTATAATATTATATAAGTGCAAAAGAGTTAAATTTAAAGAAA
1 GAGTTTATAATATTATATAAGTGCAAAAGAGTTAAATTTAAAGAAA
2820319 GAGTTTATAATATTATATAAGTGCAAAAGAGTTAAATTTAAAGAAA
1 GAGTTTATAATATTATATAAGTGCAAAAGAGTTAAATTTAAAGAAA
2820365 ATAATTAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.15, T:0.33
Consensus pattern (46 bp):
GAGTTTATAATATTATATAAGTGCAAAAGAGTTAAATTTAAAGAAA
Found at i:2822666 original size:24 final size:24
Alignment explanation
Indices: 2822639--2822688 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
2822629 GTCAACTTAG
2822639 AATAAATTATATAAAATTAAAATT
1 AATAAATTATATAAAATTAAAATT
*
2822663 AATAAATTATATAGAATTAAAATT
1 AATAAATTATATAAAATTAAAATT
2822687 AA
1 AA
2822689 ACTTTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
AATAAATTATATAAAATTAAAATT
Found at i:2822842 original size:36 final size:36
Alignment explanation
Indices: 2822790--2822858 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
2822780 AACCAAAAAA
* *
2822790 TGTCGTGGCTTATATCATAAATTAATATTTGTGCTG
1 TGTCATGGCTTATATCATAAACTAATATTTGTGCTG
2822826 TGTCATGGCTTATATCATAAACTAATATTTGTG
1 TGTCATGGCTTATATCATAAACTAATATTTGTG
2822859 GTACGTTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (36 bp):
TGTCATGGCTTATATCATAAACTAATATTTGTGCTG
Found at i:2823666 original size:53 final size:53
Alignment explanation
Indices: 2823572--2823676 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
2823562 ACAATACAAT
** *
2823572 AAATCAACACAAGATGTGCAAAATAAAAATATTACATAAGAG-TATCAAGTCTC
1 AAATCAACACAAGATGTGCAAAATAAAAATACCACACAAGAGAT-TCAAGTCTC
* * *
2823625 AAATCAATACAAGATGTTCAAACTAAAAATACCACACAAGAGATTCAAGTCT
1 AAATCAACACAAGATGTGCAAAATAAAAATACCACACAAGAGATTCAAGTCT
2823677 TAACAACATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 44 0.98
54 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.22
Consensus pattern (53 bp):
AAATCAACACAAGATGTGCAAAATAAAAATACCACACAAGAGATTCAAGTCTC
Found at i:2826489 original size:17 final size:18
Alignment explanation
Indices: 2826469--2826502 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2826459 TTTATAAGGT
2826469 ATATTTTGTTA-TATTTA
1 ATATTTTGTTAGTATTTA
2826486 ATATTTTGTTAGTATTT
1 ATATTTTGTTAGTATTT
2826503 TATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (18 bp):
ATATTTTGTTAGTATTTA
Found at i:2826519 original size:13 final size:13
Alignment explanation
Indices: 2826498--2826557 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
2826488 ATTTTGTTAG
2826498 TATTTTATTTAAT
1 TATTTTATTTAAT
* *
2826511 TATTGTA-TTATT
1 TATTTTATTTAAT
2826523 TAATTTT-TTT-AT
1 T-ATTTTATTTAAT
*
2826535 TATTTTATTTAAA
1 TATTTTATTTAAT
2826548 TATTTTATTT
1 TATTTTATTT
2826558 TTTTTGCAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 5 0.13
12 10 0.26
13 23 0.61
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TATTTTATTTAAT
Found at i:2826528 original size:21 final size:21
Alignment explanation
Indices: 2826498--2826546 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2826488 ATTTTGTTAG
* *
2826498 TATTTTATTTAATTATTGTAT
1 TATTTAATTTAATTATTATAT
** *
2826519 TATTTAATTTTTTTATTATTT
1 TATTTAATTTAATTATTATAT
2826540 TATTTAA
1 TATTTAA
2826547 ATATTTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTAATTTAATTATTATAT
Found at i:2826539 original size:37 final size:39
Alignment explanation
Indices: 2826480--2826556 Score: 113
Period size: 37 Copynumber: 2.0 Consensus size: 39
2826470 TATTTTGTTA
*
2826480 TATTTAATATTTTGTTAGTATTTTATTTAATTATTGTAT
1 TATTTAATATTTTGTTAGTATTTTATTTAAATATTGTAT
* *
2826519 TATTTAAT-TTTT-TTATTATTTTATTTAAATATTTTAT
1 TATTTAATATTTTGTTAGTATTTTATTTAAATATTGTAT
2826556 T
1 T
2826557 TTTTTTGCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 23 0.66
38 4 0.11
39 8 0.23
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (39 bp):
TATTTAATATTTTGTTAGTATTTTATTTAAATATTGTAT
Found at i:2826540 original size:8 final size:8
Alignment explanation
Indices: 2826470--2826543 Score: 51
Period size: 8 Copynumber: 9.1 Consensus size: 8
2826460 TTATAAGGTA
*
2826470 TATTTTGT
1 TATTTTAT
*
2826478 TATATTTAA
1 TAT-TTTAT
*
2826487 TATTTTGT
1 TATTTTAT
*
2826495 TAGTATT-T
1 TA-TTTTAT
*
2826503 TATTTAAT
1 TATTTTAT
*
2826511 TATTGTAT
1 TATTTTAT
*
2826519 TATTTAAT
1 TATTTTAT
*
2826527 TTTTTTAT
1 TATTTTAT
2826535 TATTTTAT
1 TATTTTAT
2826543 T
1 T
2826544 TAAATATTTT
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
7 2 0.04
8 38 0.78
9 9 0.18
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (8 bp):
TATTTTAT
Found at i:2826544 original size:16 final size:16
Alignment explanation
Indices: 2826502--2826544 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2826492 TGTTAGTATT
*
2826502 TTATTTAATTATTGTA
1 TTATTTAATTTTTGTA
*
2826518 TTATTTAATTTTTTTA
1 TTATTTAATTTTTGTA
*
2826534 TTATTTTATTT
1 TTATTTAATTT
2826545 AAATATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTAATTTTTGTA
Found at i:2826553 original size:21 final size:21
Alignment explanation
Indices: 2826518--2826561 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2826508 AATTATTGTA
* *
2826518 TTATTTAATTTTTTTATTATT
1 TTATTTAAATATTTTATTATT
*
2826539 TTATTTAAATATTTTATTTTT
1 TTATTTAAATATTTTATTATT
2826560 TT
1 TT
2826562 TGCAGTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTTAAATATTTTATTATT
Found at i:2835118 original size:43 final size:43
Alignment explanation
Indices: 2835060--2835147 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
2835050 AATTTCTTTC
*
2835060 AAATTGTTTGTAAAACATCAATAAATCATTCACGATAGTATAA
1 AAATCGTTTGTAAAACATCAATAAATCATTCACGATAGTATAA
* *
2835103 AAATCGTTTTTAAAACATCAATAAATCATTCATGATAGTATAA
1 AAATCGTTTGTAAAACATCAATAAATCATTCACGATAGTATAA
2835146 AA
1 AA
2835148 TAAAACATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (43 bp):
AAATCGTTTGTAAAACATCAATAAATCATTCACGATAGTATAA
Found at i:2843624 original size:12 final size:12
Alignment explanation
Indices: 2843603--2843636 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
2843593 ACTTTTCATC
*
2843603 AAAATGAAAAGA
1 AAAATAAAAAGA
2843615 AAAATAAAAAAGA
1 AAAAT-AAAAAGA
2843628 AAAATAAAA
1 AAAATAAAA
2843637 TAAAATAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAATAAAAAGA
Found at i:2843627 original size:13 final size:13
Alignment explanation
Indices: 2843609--2843636 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2843599 CATCAAAATG
2843609 AAAAGAAAAATAA
1 AAAAGAAAAATAA
2843622 AAAAGAAAAATAA
1 AAAAGAAAAATAA
2843635 AA
1 AA
2843637 TAAAATAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAGAAAAATAA
Found at i:2843664 original size:13 final size:13
Alignment explanation
Indices: 2843609--2843666 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
2843599 CATCAAAATG
*
2843609 AAAAGAAAAATAA
1 AAAAAAAAAATAA
*
2843622 AAAAGAAAAATAA
1 AAAAAAAAAATAA
* ***
2843635 AATAAAATAAGGCA
1 AA-AAAAAAAATAA
2843649 AAAAAAAAAATAA
1 AAAAAAAAAATAA
2843662 AAAAA
1 AAAAA
2843667 TAATAAAGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 27 0.77
14 8 0.23
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAATAA
Found at i:2867655 original size:22 final size:22
Alignment explanation
Indices: 2867627--2867671 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2867617 TTGAAAAACC
2867627 TTGCTAGAGATCTGATTAGATG
1 TTGCTAGAGATCTGATTAGATG
2867649 TTGCTAGAGATCTGATTAGATG
1 TTGCTAGAGATCTGATTAGATG
2867671 T
1 T
2867672 GGAGACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.38
Consensus pattern (22 bp):
TTGCTAGAGATCTGATTAGATG
Found at i:2868570 original size:82 final size:80
Alignment explanation
Indices: 2868463--2868627 Score: 244
Period size: 82 Copynumber: 2.0 Consensus size: 80
2868453 TTATTTTAAA
2868463 TTCACAGAAGAGTAGCGAAGCAAAGCAAGTCTGAACTCCACGAAAGAGTAGTGGAATGGATTTTT
1 TTCACAGAAGAGTAGCGAAGCAAAGCAAGTCTGAACT-CAC-AAAGAGTAGTGGAATGGA-TTTT
*
2868528 TCAGCAAAGTATGAAAAC
63 TCAGCAAAGCATGAAAAC
* *
2868546 TTCACAG-AGAGTAG-TACAGCAAAGCAAGTCTGAACTCACAGAGAGTAGTGGAATGGATTTTTC
1 TTCACAGAAGAGTAGCGA-AGCAAAGCAAGTCTGAACTCACAAAGAGTAGTGGAATGGATTTTTC
*
2868609 AGCAAAGCATGAAACC
65 AGCAAAGCATGAAAAC
2868625 TTC
1 TTC
2868628 GTGAAAAAGT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
79 23 0.30
80 17 0.22
81 4 0.05
82 26 0.34
83 7 0.09
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (80 bp):
TTCACAGAAGAGTAGCGAAGCAAAGCAAGTCTGAACTCACAAAGAGTAGTGGAATGGATTTTTCA
GCAAAGCATGAAAAC
Found at i:2872825 original size:55 final size:56
Alignment explanation
Indices: 2872701--2873360 Score: 1005
Period size: 55 Copynumber: 11.9 Consensus size: 56
2872691 ATTACCGAAT
* *
2872701 GGCACTATATGTGTGCAAAAGCTAAGAAATTCAAAATGAGTTTATGAATTTCCATATG
1 GGCACT-T-TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
*
2872759 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGA-TTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * *
2872814 GGCACTTTGTGTG-AAAAACTAAGAAAATCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
*
2872869 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2872925 GGAACTTTGTGTACAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * * *
2872981 GGCACTTTATGTGCAAAA-CTAAGAAATTCATAATAAG-TTATGAATCTCCATATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2873035 GGCACTTTGTGTGAAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2873091 GGCACTTTGTGTGC-AAACCTACGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
2873146 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * **
2873201 GGCACTTTGTGTGCAAAAAC-AAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2873256 GGCACTTTGTGTGTAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * *
2873311 GGAACTTTGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATAAATTTCC
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCC
2873361 ATATTGGTAG
Statistics
Matches: 555, Mismatches: 40, Indels: 17
0.91 0.07 0.03
Matches are distributed among these distances:
54 52 0.09
55 330 0.59
56 166 0.30
57 1 0.00
58 6 0.01
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (56 bp):
GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
Found at i:2873378 original size:55 final size:55
Alignment explanation
Indices: 2872701--2873434 Score: 1003
Period size: 55 Copynumber: 13.3 Consensus size: 55
2872691 ATTACCGAAT
* *
2872701 GGCACTATATGTGTGCAAAAGCTAAGAAATTCAAAATGAGTTTATGAATTTCCATATG
1 GGCACT-T-TGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
*
2872759 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGA-TTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * *
2872814 GGCACTTTGTGTGAAAAACTAAGAAAATCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
*
2872869 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2872925 GGAACTTTGTGTACAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * * *
2872981 GGCACTTTATGTGCAAAACTAAGAAATTCATAATAAG-TTATGAATCTCCATATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2873035 GGCACTTTGTGTGAAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2873091 GGCACTTTGTGTGCAAACCTACGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
2873146 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* **
2873201 GGCACTTTGTGTGCAAAAAC-AAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTTTGTGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2873256 GGCACTTTGTGTGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * * * *
2873311 GGAACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATAAATTTCCATATT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * ** * * * * *
2873366 GGTAGTGGGTGTGC-AACCTACGTAAATT-ATAAT-AGTTTGTGAATTACCGTATT
1 GGCACTTTGTGTGCAAAACTAAG-AAATTCATAATGAGTTTATGAATTTCCGTATG
* *
2873419 GGAACTATGTGTGCAA
1 GGCACTTTGTGTGCAA
2873435 CTATAGAGTT
Statistics
Matches: 611, Mismatches: 57, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
53 26 0.04
54 64 0.10
55 348 0.57
56 166 0.27
57 1 0.00
58 6 0.01
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
Found at i:2878308 original size:3 final size:3
Alignment explanation
Indices: 2878300--2878405 Score: 157
Period size: 3 Copynumber: 36.7 Consensus size: 3
2878290 TTTTTTATCC
* *
2878300 ATT ATT ATT ATT AAT ATT ATT -TT ATT ATT ATT A-T ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
2878346 A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2878393 ATT ATT A-T ATT AT
1 ATT ATT ATT ATT AT
2878406 AAATATATTA
Statistics
Matches: 93, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
2 8 0.09
3 85 0.91
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:2880498 original size:6 final size:7
Alignment explanation
Indices: 2880477--2880502 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2880467 TGTCTCTATT
2880477 AATTAAA
1 AATTAAA
2880484 AATTAAA
1 AATTAAA
2880491 AATTAAA
1 AATTAAA
2880498 AATTA
1 AATTA
2880503 TATATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATTAAA
Found at i:2891307 original size:16 final size:17
Alignment explanation
Indices: 2891286--2891362 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 17
2891276 ATTATGCTTG
2891286 AAGAAA-AAAAAAAAAA
1 AAGAAAGAAAAAAAAAA
*
2891302 AAGAAAG-AAAAGAAAA
1 AAGAAAGAAAAAAAAAA
2891318 AAGAAAGAAAAGAAAAAA
1 AAGAAAGAAAA-AAAAAA
2891336 ATAGAAATGAAAAAAAGAAA
1 A-AGAAA-GAAAAAAA-AAA
2891356 AAGAAAG
1 AAGAAAG
2891363 GGGTCAAGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
16 21 0.40
17 3 0.06
18 7 0.13
19 13 0.25
20 9 0.17
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAGAAAGAAAAAAAAAA
Found at i:2891317 original size:15 final size:14
Alignment explanation
Indices: 2891289--2891361 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 14
2891279 ATGCTTGAAG
2891289 AAAAAAA-AAAA-A
1 AAAAAAAGAAAAGA
*
2891301 AAAGAAAGAAAAGAA
1 AAAAAAAGAAAAG-A
2891316 AAAAGAAAGAAAAGA
1 AAAA-AAAGAAAAGA
*
2891331 AAAAAATAGAAATG-
1 AAAAAA-AGAAAAGA
2891345 AAAAAAAGAAAAAGA
1 AAAAAAAG-AAAAGA
2891360 AA
1 AA
2891362 GGGGTCAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
12 6 0.12
13 6 0.12
14 12 0.24
15 17 0.34
16 9 0.18
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (14 bp):
AAAAAAAGAAAAGA
Found at i:2891356 original size:5 final size:5
Alignment explanation
Indices: 2891290--2891361 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
2891280 TGCTTGAAGA
* * *
2891290 AAAAA AAAAA AAAAG -AAAG AAAAG AAAAA AGAAAG AAAAG AAAA- AAATAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAA-AG
*
2891340 AAATG -AAA- AAAAG AAAAAG AAA
1 AAAAG AAAAG AAAAG -AAAAG AAA
2891362 GGGGTCAAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
4 12 0.22
5 31 0.56
6 12 0.22
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:2891698 original size:14 final size:14
Alignment explanation
Indices: 2891681--2891707 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2891671 TATTATTTCA
2891681 ATTCAATTTATTTG
1 ATTCAATTTATTTG
2891695 ATTCAATTTATTT
1 ATTCAATTTATTT
2891708 TTGGAAATTC
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:0.07, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTCAATTTATTTG
Found at i:2892552 original size:81 final size:80
Alignment explanation
Indices: 2892370--2892657 Score: 433
Period size: 82 Copynumber: 3.6 Consensus size: 80
2892360 TAAATGAACA
2892370 ATGAATTTG-CAAGCATCTTCTGG-AGTGTTCTTTGAGTTATCTGATCTGGTTTTGGACAGAATC
1 ATGAATTTGCCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG--TTGGACAGAATC
2892433 AAGCATTG-TTTAGAAG
64 AAGCATTGATTTAGAAG
*
2892449 ATGAATTTTGCCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GTTGAACAGAATCA
1 ATGAA-TTTGCCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCA
* *
2892513 AGCATTGAATTGGAAG
65 AGCATTGATTTAGAAG
2892529 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-C
1 ATGAATTTGCC-A-AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATC
*
2892593 AATCATTGAGTTTAGAAG
64 AAGCATTGA-TTTAGAAG
2892611 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGAATTTGCC-A-AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
2892658 GTTTGGTATG
Statistics
Matches: 194, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
79 30 0.15
80 16 0.08
81 61 0.31
82 87 0.45
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (80 bp):
ATGAATTTGCCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAA
GCATTGATTTAGAAG
Found at i:2893706 original size:106 final size:111
Alignment explanation
Indices: 2893371--2893774 Score: 593
Period size: 109 Copynumber: 3.7 Consensus size: 111
2893361 AAAGATTAGC
2893371 TTTCCAGAGAAAGTTCAT-ATGAGAAGAACTCATCTGAAGAAGGAAGAGAAGTTCATAATGAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAGTTCATAATGAGAA
* * *
2893435 GAATTTGTTCAACC-TTTACCTGAATCCATCATTTGAGGATCAGCT
66 GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGAGGATCATCT
2893480 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAG-TCATAATGAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAGTTCATAATGAGAA
*
2893544 GAATTTGTTCAACCTTTTACCTGAA-TCCTC-ATTG-GGATCATC-
66 GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGAGGATCATCT
*
2893586 TTTCCAGAGAAAGTTCATAATGAG-A-AA-TCATCTGAAGAAGG-A-AGAAGTTCATAATTAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAGTTCATAATGAGAA
*
2893646 GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATTATCT
66 GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGA-GGATCATCT
* * *
2893693 TTTCCGGAG-AAGTTCATAATGAGAA-AACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAGTTCATAATGAGA
* *
2893756 AGAACTTGTTCAACTTTTT
65 AGAATTTGTTCAACCTTTT
2893775 GCATAATTCT
Statistics
Matches: 270, Mismatches: 12, Indels: 24
0.88 0.04 0.08
Matches are distributed among these distances:
101 5 0.02
102 37 0.14
103 18 0.07
104 6 0.02
105 1 0.00
106 45 0.17
107 18 0.07
108 16 0.06
109 48 0.18
110 43 0.16
111 33 0.12
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (111 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAGTTCATAATGAGAA
GAATTTGTTCAACCTTTTACCTGAATTCATCAATTGAGGATCATCT
Found at i:2894101 original size:3 final size:3
Alignment explanation
Indices: 2894093--2894180 Score: 130
Period size: 3 Copynumber: 30.7 Consensus size: 3
2894083 TATTTTATAA
2894093 TAT TAT TAT T-T TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2894139 TAT TAT TAT TAT TAT CAT T-T TAT TAT CA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2894181 AATATATATT
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
2 7 0.09
3 70 0.91
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2895339 original size:17 final size:18
Alignment explanation
Indices: 2895301--2895340 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
2895291 TTAATAAATA
2895301 ATATTTTAATCCTTAGTTT
1 ATATTTTAAT-CTTAGTTT
*
2895320 ATATTTTAAT-TTATTTT
1 ATATTTTAATCTTAGTTT
2895337 ATAT
1 ATAT
2895341 ATCCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
ATATTTTAATCTTAGTTT
Found at i:2896249 original size:2 final size:2
Alignment explanation
Indices: 2896244--2896278 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
2896234 TTTATGTGTG
* *
2896244 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2896279 GTCTGTGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2898499 original size:14 final size:14
Alignment explanation
Indices: 2898480--2898506 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2898470 TTTTATTAAC
2898480 AAAAGTGATAGTTG
1 AAAAGTGATAGTTG
2898494 AAAAGTGATAGTT
1 AAAAGTGATAGTT
2898507 TTTGCATATA
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:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AAAAGTGATAGTTG
Found at i:2899766 original size:2 final size:2
Alignment explanation
Indices: 2899761--2899839 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
2899751 GTTCCGTGTG
2899761 TA TA TA TA TA TA TA TA 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
2899803 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2899840 GGATTCTGTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2901981 original size:16 final size:16
Alignment explanation
Indices: 2901940--2901982 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
2901930 TATACTGCTA
* *
2901940 AAATGAACTAAAATAT
1 AAATAAACTGAAATAT
2901956 AAATAAACTGAAATAT
1 AAATAAACTGAAATAT
2901972 AAATAAACTGA
1 AAATAAACTGA
2901983 TTTTTTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (16 bp):
AAATAAACTGAAATAT
Found at i:2902036 original size:31 final size:31
Alignment explanation
Indices: 2902000--2902058 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2901990 AACTTAAAAG
* *
2902000 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2902031 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
2902059 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2902109 original size:22 final size:22
Alignment explanation
Indices: 2902083--2902125 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2902073 TAATAAATTA
2902083 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2902105 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2902126 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2902134 original size:22 final size:22
Alignment explanation
Indices: 2902085--2902133 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2902075 ATAAATTATT
**
2902085 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2902107 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2902130 TAAA
1 TAAA
2902134 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2902137 original size:54 final size:54
Alignment explanation
Indices: 2902073--2902903 Score: 433
Period size: 54 Copynumber: 15.8 Consensus size: 54
2902063 ACAACTACAA
2902073 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
2902127 TAATAAATTATTTAAAATAAATCAATCCATAGAACTACAATAATAAATCAATTCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
2902184 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
2902239 -AACTACA--A--T--AATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** * ** * **
2902287 AAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** *
2902342 -AATCCA-TATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2902395 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * * * **
2902448 TTTTAAA--A--T-AAATCAAT-ACATACA-ACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCA-ATCCATATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
2902496 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
2902551 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
2902605 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** **
2902658 TTTTAAA--A-TCAATCAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAA--AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * ** ** *
2902712 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCACAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
2902767 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * **
2902815 TAATAAATTATTTAAAATAAATCAATTCATA--CT--AATAAAT-TAT-TTTA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2902862 -AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAA
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAA
2902904 TTTATTTTAA
Statistics
Matches: 614, Mismatches: 103, Indels: 123
0.73 0.12 0.15
Matches are distributed among these distances:
46 9 0.01
47 25 0.04
48 95 0.15
49 12 0.02
50 23 0.04
51 9 0.01
52 20 0.03
53 25 0.04
54 313 0.51
55 34 0.06
56 16 0.03
57 13 0.02
58 20 0.03
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:2902143 original size:32 final size:32
Alignment explanation
Indices: 2902105--2902868 Score: 253
Period size: 32 Copynumber: 27.4 Consensus size: 32
2902095 CAATCCATAT
2902105 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
2902137 TTTAAAATAAATCAATCCATA-GAACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
2902167 --T--AATAAATCAATTCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902192 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2902217 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
2902247 --T--AATAAATCAATTCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2902272 --T---A--AATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2902297 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902329 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* ** *
2902351 TTTAAAATAAATCAATTCATA-TTTTAAAA--
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902380 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902405 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** *
2902427 TTTAAAATAAATCAATCCATA-TTTTAAAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** * * * * *
2902458 AAT-CAATACATACAACTACAATAATAAATCAATCCATA
1 TTTAAAATAAAT-CAA-T-CCATACT-AATAAAT---TA
*
2902496 TTTTAAAATAAATCAATCCATACAAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
2902529 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902561 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902583 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902615 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* ** *
2902637 TTTAAAATAAATCAATTCATA-TTTTAAAA--
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2902666 -------TCAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902691 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902713 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
2902745 TTTAAAATAAATCAATCCACAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
2902775 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2902793 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2902825 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2902857 TTTTAAATAAAT
1 TTTAAAATAAAT
2902869 TATTTTAAAA
Statistics
Matches: 558, Mismatches: 57, Indels: 234
0.66 0.07 0.28
Matches are distributed among these distances:
20 1 0.00
22 143 0.26
23 28 0.05
24 8 0.01
25 14 0.03
26 57 0.10
27 4 0.01
28 12 0.02
29 5 0.01
30 13 0.02
31 14 0.03
32 226 0.41
33 6 0.01
34 1 0.00
35 3 0.01
36 6 0.01
37 4 0.01
38 3 0.01
39 4 0.01
40 6 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:2902214 original size:22 final size:22
Alignment explanation
Indices: 2902141--2902214 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
2902131 AAATTATTTA
2902141 AAATAAATCAATCCATAGAACTACA-
1 AAATAAATCAATCCAT---ACTA-AT
* **
2902166 ATAATAAATCAATTCATA-TTTT
1 A-AATAAATCAATCCATACTAAT
2902188 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
2902211 AAAT
1 AAAT
2902215 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
22 20 0.51
23 4 0.10
25 1 0.03
26 14 0.36
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:2902304 original size:14 final size:14
Alignment explanation
Indices: 2902287--2902340 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2902277 CAATCCATAC
2902287 AAATAAATTATTTA
1 AAATAAATTATTTA
*
2902301 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
2902318 CTAATAAATTATTTA
1 -AAATAAATTATTTA
2902333 AAATAAAT
1 AAATAAAT
2902341 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:2902363 original size:18 final size:19
Alignment explanation
Indices: 2902329--2902462 Score: 68
Period size: 22 Copynumber: 6.7 Consensus size: 19
2902319 TAATAAATTA
2902329 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATC-A--CATAT
2902351 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATC-A--CATAT
2902373 TTTAAAATAAATCA-ATCCAT
1 TTTAAAATAAATCACAT--AT
**
2902393 ACT--AATAAAT----TA-
1 TTTAAAATAAATCACATAT
2902405 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATC-A--CATAT
2902427 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATC-A--CATAT
2902449 TTTAAAATAAATCA
1 TTTAAAATAAATCA
2902463 ATACATACAA
Statistics
Matches: 94, Mismatches: 6, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 7 0.07
15 1 0.01
18 9 0.10
20 3 0.03
21 4 0.04
22 68 0.72
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTAAAATAAATCACATAT
Found at i:2902395 original size:76 final size:76
Alignment explanation
Indices: 2902297--2902603 Score: 421
Period size: 76 Copynumber: 4.0 Consensus size: 76
2902287 AAATAAATTA
*
2902297 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
2902362 TCAATTCATAT
66 TCAATCCATAT
*
2902373 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
2902438 TCAATCCATAT
66 TCAATCCATAT
* *
2902449 TTTAAAATAAATCAATACATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
2902507 ATCAATCCATACAAATAAATT
65 ATCAAT-C---C--AT--A-T
2902528 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
2902593 ATCAATCCATA
65 ATCAATCCATA
2902604 CTAATAAATT
Statistics
Matches: 205, Mismatches: 8, Indels: 34
0.83 0.03 0.14
Matches are distributed among these distances:
70 32 0.16
71 1 0.00
72 1 0.00
74 2 0.01
75 2 0.01
76 99 0.48
78 2 0.01
79 1 0.00
80 26 0.13
81 2 0.01
82 2 0.01
84 1 0.00
85 1 0.00
86 33 0.16
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (76 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATAT
Found at i:2902402 original size:22 final size:22
Alignment explanation
Indices: 2902329--2902393 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
2902319 TAATAAATTA
2902329 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2902351 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
2902373 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2902394 CTAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2902431 original size:22 final size:22
Alignment explanation
Indices: 2902405--2902517 Score: 145
Period size: 22 Copynumber: 5.0 Consensus size: 22
2902395 TAATAAATTA
*
2902405 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
2902427 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
2902449 TTTAAAATAAATCAATACATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
2902474 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
2902497 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2902518 CAAATAAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
22 56 0.72
23 4 0.05
25 4 0.05
26 14 0.18
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Done.