Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_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: 4584045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 21
Found at i:708783 original size:20 final size:20
Alignment explanation
Indices: 708758--708798 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
708748 TGTTTGATTT
708758 ATTTTATTATT-TTATTATTA
1 ATTTTATT-TTATTATTATTA
*
708778 ATTTTATTTTATTATTTTTA
1 ATTTTATTTTATTATTATTA
708798 A
1 A
708799 AATTTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTTTATTATTATTA
Found at i:708825 original size:6 final size:7
Alignment explanation
Indices: 708755--708824 Score: 50
Period size: 7 Copynumber: 9.3 Consensus size: 7
708745 AGATGTTTGA
708755 TTTATTT
1 TTTATTT
708762 TATTATTT
1 T-TTATTT
708770 TATTATTAAT
1 T-TTATT--T
708780 TTTATTT
1 TTTATTT
708787 TATTATTT
1 T-TTATTT
* **
708795 TTAAAAT
1 TTTATTT
* *
708802 TTAACTT
1 TTTATTT
708809 TTTATTT
1 TTTATTT
708816 TTTATTT
1 TTTATTT
708823 TT
1 TT
708825 AGAGAAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
7 25 0.48
8 20 0.38
9 5 0.10
10 2 0.04
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTT
Found at i:709029 original size:42 final size:42
Alignment explanation
Indices: 708978--709274 Score: 440
Period size: 41 Copynumber: 7.2 Consensus size: 42
708968 GATTCGCAAC
*
708978 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* * *
709020 GCGATAGTCGAAGTTCGCATTGCGATTCATTTCAAA-TCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
709061 ACGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
709102 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCC-AATTTGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
709143 GCGATAGGCGAAGTTCGCATTGCGATTCATTCC-AATTTGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* * * *
709184 GCGACAGGCGAAGTTCGTGTTACAATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
709226 GCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
709268 GCGATAG
1 GCGATAG
709275 TCCAAATATT
Statistics
Matches: 234, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 2 0.01
41 146 0.62
42 86 0.37
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (42 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
Found at i:709145 original size:20 final size:20
Alignment explanation
Indices: 709120--709187 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
709110 CGAAGTTCGC
709120 GTTGCGATTCATTCCAATTT
1 GTTGCGATTCATTCCAATTT
** * *
709140 GTTGCGA-T-AGGCGAAGTTC
1 GTTGCGATTCATTCCAA-TTT
709159 GCATTGCGATTCATTCCAATTT
1 G--TTGCGATTCATTCCAATTT
709181 GTTGCGA
1 GTTGCGA
709188 CAGGCGAAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 13 0.37
21 6 0.17
22 4 0.11
23 4 0.11
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTCATTCCAATTT
Found at i:709280 original size:19 final size:19
Alignment explanation
Indices: 709214--709281 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 19
709204 TACAATTCAT
*
709214 TCCAAATTCGTTGCGACAG
1 TCCAAATTCGTTGCGATAG
* * * *
709233 GCGAAGTTCGCGTTGCGATTCAT
1 TCCAAATT--CGTTGCGA-T-AG
709256 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
709275 TCCAAAT
1 TCCAAAT
709282 ATTGCATTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 13 0.36
20 1 0.03
21 16 0.44
23 6 0.17
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:709730 original size:47 final size:47
Alignment explanation
Indices: 709661--709755 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
709651 AGTGTTCAAA
709661 TGACTTACTTGCAAAGAGTAGATGATGACCAAACAACTCGATATGTT
1 TGACTTACTTGCAAAGAGTAGATGATGACCAAACAACTCGATATGTT
*
709708 TGACTTACTTGCAAAGAGTAGATGATGACCAAACAACTTGATATGTT
1 TGACTTACTTGCAAAGAGTAGATGATGACCAAACAACTCGATATGTT
709755 T
1 T
709756 CCTTTGTGTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (47 bp):
TGACTTACTTGCAAAGAGTAGATGATGACCAAACAACTCGATATGTT
Found at i:710265 original size:42 final size:42
Alignment explanation
Indices: 710201--710541 Score: 542
Period size: 42 Copynumber: 8.2 Consensus size: 42
710191 AATATTTGGA
710201 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* * *
710243 CTATCACAACGAATTTGAAATGAATCACAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
710285 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* *
710327 CTATCACAACGAATTTGGAATGAATCGCAATGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* * *
710369 CTATCGCAATGAA-TTGGAATGAATCGCAACGCGAACTTTGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
710410 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGT
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* *
710451 CTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGT
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* * *
710493 CTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
710535 CTATCGC
1 CTATCGC
710542 GTTACGAATC
Statistics
Matches: 278, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
40 1 0.00
41 72 0.26
42 205 0.74
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
Found at i:710490 original size:166 final size:168
Alignment explanation
Indices: 710199--710541 Score: 564
Period size: 166 Copynumber: 2.1 Consensus size: 168
710189 GCAATATTTG
*
710199 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTATCACAACGAATTTGAAAT
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCACAACGAATTTGAAAT
*
710264 GAATCACAACGCGAACTTCGCCTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCT
66 GAATCACAACGCGAACTTCGCCTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGCCT
*
710329 ATCACAACGAATTTGGAATGAATCGCAATGCGAACTTC
131 ATCACAACGAATTTGGAATAAATCGCAATGCGAACTTC
* * * * *
710367 GCCTATCGCAATGAA-TTGGAATGAATCGCAACGCGAACTTTGACTATCGCAACG-ATTTGGAAT
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCACAACGAATTTGAAAT
* * *
710430 GAATCGCAACGCGAACTTCGTCTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGTCT
66 GAATCACAACGCGAACTTCGCCTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGCCT
*
710495 ATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTC
131 ATCACAACGAATTTGGAATAAATCGCAATGCGAACTTC
710533 GACTATCGC
1 GACTATCGC
710542 GTTACGAATC
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 113 0.70
167 36 0.22
168 13 0.08
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (168 bp):
GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGACTATCACAACGAATTTGAAAT
GAATCACAACGCGAACTTCGCCTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGCCT
ATCACAACGAATTTGGAATAAATCGCAATGCGAACTTC
Found at i:710540 original size:21 final size:20
Alignment explanation
Indices: 710274--710541 Score: 93
Period size: 21 Copynumber: 12.9 Consensus size: 20
710264 GAATCACAAC
*
710274 GCGAACTTCGCCTATCGCAA
1 GCGAACTTCGACTATCGCAA
* * *
710294 -CGAATTTGGAATGAATCGCAA
1 GCGAACTTCGACT--ATCGCAA
* *
710315 CGCGAACTTCGCCTATCACAA
1 -GCGAACTTCGACTATCGCAA
* * *
710336 -CGAATTTGGAATGAATCGCAA
1 GCGAACTTCGACT--ATCGCAA
*
710357 TGCGAACTTCGCCTATCGCAA
1 -GCGAACTTCGACTATCGCAA
* * *
710378 -TGAA-TTGGAATGAATCGCAA
1 GCGAACTTCGACT--ATCGCAA
*
710398 CGCGAACTTTGACTATCGCAA
1 -GCGAACTTCGACTATCGCAA
* * *
710419 -CG-ATTTGGAATGAATCGCAA
1 GCGAACTTCGACT--ATCGCAA
*
710439 CGCGAACTTCGTCTATCGCAA
1 -GCGAACTTCGACTATCGCAA
* * *
710460 -CGAATTTGGAATAAATCGCAA
1 GCGAACTTCGACT--ATCGCAA
*
710481 CGCGAACTTCGTCTATCGCAA
1 -GCGAACTTCGACTATCGCAA
* * *
710502 -CGAATTTGGAATAAATCGCAA
1 GCGAACTTCGACT--ATCGCAA
710523 TGCGAACTTCGACTATCGC
1 -GCGAACTTCGACTATCGC
710542 GTTACGAATC
Statistics
Matches: 175, Mismatches: 47, Indels: 51
0.64 0.17 0.19
Matches are distributed among these distances:
18 10 0.06
19 37 0.21
20 14 0.08
21 66 0.38
22 5 0.03
23 43 0.25
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
GCGAACTTCGACTATCGCAA
Found at i:710726 original size:4 final size:4
Alignment explanation
Indices: 710699--710831 Score: 52
Period size: 4 Copynumber: 34.8 Consensus size: 4
710689 TTCTCTTATT
* * ** *
710699 TTTA TCTA TTTA -ATA TTT- TTTA TTTA TTTA TTT- TTCC TTT- TTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
710743 TTTA TTTT TTTAAA TTTA TTTA TTTA TTTA ATT- TTTC TTT- TTCTT TTTA
1 TTTA TTTA TTT--A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
* * *
710792 TTTA TTT- TTCT- TTGA TTTA TTTA -ATA CTTA TTTA -TTA TTT
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
710832 CTCGGTTAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
3 20 0.20
4 73 0.74
5 2 0.02
6 3 0.03
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:710730 original size:22 final size:21
Alignment explanation
Indices: 710699--710814 Score: 74
Period size: 22 Copynumber: 5.4 Consensus size: 21
710689 TTCTCTTATT
*
710699 TTTATCTATTTAATATTTTTTA
1 TTTATTTATTT-ATATTTTTTA
* * *
710721 TTTATTTATTTTTCCTTTTTCA
1 TTTATTTATTTAT-ATTTTTTA
* *
710743 TTTATTTTTTTAAATTTATTTA
1 TTTATTTATTTATATTT-TTTA
* * *
710765 TTTATTTAATTTTTCTTTTTCTT
1 TTTATTT-ATTTATATTTTT-TA
* *
710788 TTTATTTATTT-T-TCTTTGA
1 TTTATTTATTTATATTTTTTA
710807 TTTATTTA
1 TTTATTTA
710815 ATACTTATTT
Statistics
Matches: 73, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
19 8 0.11
20 4 0.05
21 5 0.07
22 42 0.58
23 14 0.19
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (21 bp):
TTTATTTATTTATATTTTTTA
Found at i:710755 original size:44 final size:46
Alignment explanation
Indices: 710699--710799 Score: 131
Period size: 44 Copynumber: 2.3 Consensus size: 46
710689 TTCTCTTATT
*
710699 TTTATCTA-TTTAATATTT-TTTATTTATTT-ATTTTTCCTTTTTC-A
1 TTTATTTATTTTAA-ATTTATTTATTTATTTAATTTTT-CTTTTTCTA
*
710743 TTTATTT-TTTTAAATTTATTTATTTATTTAATTTTTCTTTTTCTT
1 TTTATTTATTTTAAATTTATTTATTTATTTAATTTTTCTTTTTCTA
710788 TTTATTTATTTT
1 TTTATTTATTTT
710800 TCTTTGATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
43 4 0.08
44 29 0.58
45 13 0.26
46 4 0.08
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (46 bp):
TTTATTTATTTTAAATTTATTTATTTATTTAATTTTTCTTTTTCTA
Found at i:715850 original size:19 final size:21
Alignment explanation
Indices: 715828--715869 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
715818 TTATTATTAT
715828 TTTTAATTT-TGA-ATTAAAA
1 TTTTAATTTCTGATATTAAAA
* *
715847 TTTTCATTTCTGATTTTAAAA
1 TTTTAATTTCTGATATTAAAA
715868 TT
1 TT
715870 ATTTTACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 8 0.42
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTAATTTCTGATATTAAAA
Found at i:716010 original size:14 final size:15
Alignment explanation
Indices: 715974--716017 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
715964 TTAAATTTAC
715974 TTATAA-TTTA-ATT
1 TTATAATTTTATATT
*
715987 TTATAGTTTTATATT
1 TTATAATTTTATATT
716002 TTA-AATTTTAT-TT
1 TTATAATTTTATATT
716015 TTA
1 TTA
716018 CATCATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.37
14 11 0.41
15 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTATAATTTTATATT
Found at i:725208 original size:24 final size:24
Alignment explanation
Indices: 725176--725231 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
725166 AGTAAACCTG
* *
725176 TAAAATCAATATCTCATGATTTTA
1 TAAAATCAAGAACTCATGATTTTA
725200 TAAAATCAAGAACTCATGATTTTA
1 TAAAATCAAGAACTCATGATTTTA
725224 TAAAATCA
1 TAAAATCA
725232 TGTCAACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.36
Consensus pattern (24 bp):
TAAAATCAAGAACTCATGATTTTA
Found at i:728271 original size:140 final size:141
Alignment explanation
Indices: 728019--728276 Score: 455
Period size: 140 Copynumber: 1.8 Consensus size: 141
728009 AAAAGGTCAC
728019 TATTCATGCATCTACTCTTTATTATACTTAGTAGTGTCCATTTTCAGTCTGTATATTCAATAGTT
1 TATTCATGCATCTACTCTTTATTATACTTAGTAGTGTCCATTTTCAGTCTGTATATTCAATAGTT
728084 TACGATCAAATTTATATTATCATATCAAAGTAGCATACTCATACAATA-ACATTTAAAACATAAG
66 TACGATCAAATTTATATTATCATATCAAAGTAGCATACTCATACAATATACATTTAAAACATAAG
728148 TAGTTGACTAA
131 TAGTTGACTAA
* * *
728159 TATTCATGCCTCTACTCTTTATTATACTTAGTAGTGTCCATTTTTAGTCTGTATATTCAGTAGTT
1 TATTCATGCATCTACTCTTTATTATACTTAGTAGTGTCCATTTTCAGTCTGTATATTCAATAGTT
* * *
728224 TATGATCTAATTTATATTATCATATCAAAGTAGCATACTCTTACAATATACAT
66 TACGATCAAATTTATATTATCATATCAAAGTAGCATACTCATACAATATACAT
728277 GCTAATTAGA
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
140 107 0.96
141 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (141 bp):
TATTCATGCATCTACTCTTTATTATACTTAGTAGTGTCCATTTTCAGTCTGTATATTCAATAGTT
TACGATCAAATTTATATTATCATATCAAAGTAGCATACTCATACAATATACATTTAAAACATAAG
TAGTTGACTAA
Found at i:728494 original size:116 final size:115
Alignment explanation
Indices: 728290--728636 Score: 541
Period size: 116 Copynumber: 3.0 Consensus size: 115
728280 AATTAGAATT
728290 GATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAAGCTTTAAATAT
1 GATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCC-GAAGCTTTAAATAT
* *
728355 CAAAAAGCTTCTGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATG
65 CAAAAAGCTACCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATG
* *
728406 GATGGCCCTGATGTCTGATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGACTTTAAATAT
1 GATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAG-CTTTAAATAT
728471 CAAAAAGCTACCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATG
65 CAAAAAGCTACCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATG
* * * * *
728522 GATGGCCTTGAGGTCTTATCATCATGGATTGTAGGTCTTACAGATGACCCAGAGGCTTTAAATAT
1 GATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCC-GAAGCTTTAAATAT
* * ** *
728587 CAAAAAGTTCCCGAAGGAGTTTTGAAAACATCCTTCACTGTAGGTCTTAT
65 CAAAAAGCTACCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTAT
728637 CATCTTGCAC
Statistics
Matches: 213, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
115 4 0.02
116 206 0.97
117 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (115 bp):
GATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGCTTTAAATATC
AAAAAGCTACCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATG
Found at i:728679 original size:212 final size:212
Alignment explanation
Indices: 728418--728848 Score: 693
Period size: 212 Copynumber: 2.0 Consensus size: 212
728408 TGGCCCTGAT
*
728418 GTCTGATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGACTTTAAATATCAAAAAGCTACC
1 GTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGACTTTAAATATCAAAAAGCTACC
* * * *
728483 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCTTGAGGTCTTATCATCATG
66 AAAGGATTTTTGAAAACATCCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCATG
* *
728548 GATTGTAGGTCTTACAGATGACCC-AGAGGCTTTAAATATCAAAAAGTTCCCGAAGGAGTTTTGA
131 CATTGTAGGTCTTACAGATGACCCGA-AGGCTTTAAATATCAAAAAGCTCCCGAAGGAGTTTTGA
* *
728612 AAACATCCTTCACTGTAG
195 AAACATCCTGCACTGTAA
* * *
728630 GTCTTATCATCTTGCACTTTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCC
1 GTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGACTTTAAATATCAAAAAGCTACC
* *
728695 AAAGGATTTTTGAAAACATCCTGCACTGTTGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTG
66 AAAGGATTTTTGAAAACATCCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCATG
**
728760 CATTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAA
131 CATTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGAGTTTTGAA
*
728825 AACATCCTGGACTGTAA
196 AACATCCTGCACTGTAA
728842 GTCTTAT
1 GTCTTAT
728849 GAATGGCCCT
Statistics
Matches: 201, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
212 200 1.00
213 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (212 bp):
GTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGACTTTAAATATCAAAAAGCTACC
AAAGGATTTTTGAAAACATCCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCATG
CATTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGAGTTTTGAA
AACATCCTGCACTGTAA
Found at i:728700 original size:96 final size:96
Alignment explanation
Indices: 728532--728732 Score: 307
Period size: 96 Copynumber: 2.1 Consensus size: 96
728522 GATGGCCTTG
* *
728532 AGGTCTTATCATCATGGATTGTAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGTTC
1 AGGTCTTATCATCATGCATTGTAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTC
* *
728597 CCGAAGGAGTTTTGAAAACATCCTTCACTGT
66 CCAAAGGAGTTTTGAAAACATCCTGCACTGT
*
728628 AGGTCTTATCATCTTGCACTT-TAGGTCTTACAGATGACCC-GAAGGCTTTAAATATCAAAAAGC
1 AGGTCTTATCATCATGCA-TTGTAGGTCTTACAGATGACCCAG-AGGCTTTAAATATCAAAAAGC
*
728691 TCCCAAAGGATTTTTGAAAACATCCTGCACTGT
64 TCCCAAAGGAGTTTTGAAAACATCCTGCACTGT
*
728724 TGGTCTTAT
1 AGGTCTTAT
728733 AGATGGCCCT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 93 0.97
97 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (96 bp):
AGGTCTTATCATCATGCATTGTAGGTCTTACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTC
CCAAAGGAGTTTTGAAAACATCCTGCACTGT
Found at i:728832 original size:116 final size:116
Alignment explanation
Indices: 728628--730744 Score: 3117
Period size: 116 Copynumber: 18.3 Consensus size: 116
728618 CCTTCACTGT
*
728628 AGGTCTTATCATCTTGCACTTTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * * *
728693 CCAAAGGATTTTTGAAAACATCCTGCACTGTTGGTCTTATAGATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
*
728744 AGGTCTTATCATCTTGCATTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * *
728809 CCGAAGGCTTTTTGAAAACATCCTGGACTGTAAGTCTTATGAATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
*
728860 AGGTCTTATCATCTTACACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * * ** *
728925 CCGAAGGCTTTTTGAAAACATCCTGCATTATATGTCTTATTAATGACCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * * *
728976 AGGTCTTATCATCTTGCACTGTAGGTCTTATAGATGACCCGTAGGCTTTAAATATAAAAAATCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
*
729041 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * *
729092 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAATATCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * * * * * * *
729157 TCGAAGGGTTTTTGAAATCATCATGCATTATAGGTCTTATGGATGACCATG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * *
729208 AGGTCTCATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATGAAAAATCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * * *
729273 CCGAGGGCTTTTTCAAAACATCCTGCACTATAGGTCTTATAGAT-GCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* *
729323 AGGTTTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
*
729388 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATAGATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * * * *
729439 AGGTCTTATCATC-TGTATTGTAGGTCTTACAGATGTCACGGAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * *
729503 CCGAAGGCTTTTTGAAAACATCTTGCACTGTAAGTCTTATGGATGGCCCTC
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * * *
729554 AAGTCTTATCATCTTGTACTGTAGGTCTTATAGATGACCC-AGATGCTTTAAATATC-AAAA---
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGA-AGGCTTTAAATATCAAAAAGCT
* * * **
729614 --CGAAGGCTTTTTGAAAACATCATGCACTATATGTCTTATTAATGGCCCTG
65 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* *
729664 AGGTCTTATCATCTTGCACTATAGGTCTTATAGATGACCC-AGAGGCTTTAAATATCAAAAAGCT
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGA-AGGCTTTAAATATCAAAAAGCT
* * *
729728 CCCGAATGCTTTTTGAAAACATCCTGTACTGTAGGTCTTATGGATGACCCTG
65 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
729780 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAA-GCTTTAAATATCAAAAAGCT
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCC-GAAGGCTTTAAATATCAAAAAGCT
* * * * * * *
729844 CCCGAAGGGTTTTTGAAATCATCATGCATTATAGGTCTTATGGATGACCATG
65 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* *
729896 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATGAAAAATCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* *
729961 CCGAAGGCTTTTTTGAAAACATCCTGCACTATAGGTCTTATAGATGGCCCTG
66 CCGAAGGC-TTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * * *
730013 AGGTCTTATCATCTTGCACTGTATGTCTTACAGATAACCCGGAGGCTTTAAATATCAAAAACCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
730078 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * * *
730129 AGGTTTTATCAACTTGCACTGTAGGTCTTACAGATGTCCCGGAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* *
730194 CTGAAGGCTTTTTGAAAACATCCTGCACTAG-AGGTCTTATGGATGGCCCCG
66 CCGAAGGCTTTTTGAAAACATCCTGCACT-GTAGGTCTTATGGATGGCCCTG
* *
730245 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * *
730310 CCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCATATAGATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* *
730361 AGGTATTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATTAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* *
730426 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTA
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* *
730477 AGGTCTTATCATCTTGCACTGTAGGTCTTATAGATGACTC-AGAGGCTTTAAATATCAAAAAGCT
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGA-AGGCTTTAAATATCAAAAAGCT
* *
730541 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTTTTATGGATGGCCCTG
65 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* * * * * *
730593 AGGTATTATAATCTTGCACTATAGGTCTTACAAAAGACCCGAAGGCTTTAAATATAAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * **
730658 CCGAAAGCTTTTTGAAAACCTCCTGCACTGTAGGTCTTATATATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
730709 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATG
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATG
730745 TGGGAAATAG
Statistics
Matches: 1811, Mismatches: 173, Indels: 34
0.90 0.09 0.02
Matches are distributed among these distances:
110 96 0.05
111 4 0.00
115 220 0.12
116 1382 0.76
117 108 0.06
118 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (116 bp):
AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
Found at i:729358 original size:41 final size:42
Alignment explanation
Indices: 729291--729372 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
729281 TTTTTCAAAA
* * *
729291 CATCCTGCACTATAGGTCTTATAGATG-CCCTGAGGTTTTAT
1 CATCCTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTAT
* *
729332 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTA
1 CATCCTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTA
729373 AATATCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 24 0.69
42 11 0.31
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (42 bp):
CATCCTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTAT
Found at i:730737 original size:22 final size:21
Alignment explanation
Indices: 730681--730738 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
730671 GAAAACCTCC
730681 TGCACTGTAGGTCTTATATAT
1 TGCACTGTAGGTCTTATATAT
* * *
730702 GGCCCTG-AGGTCTTATCATCT
1 TGCACTGTAGGTCTTAT-ATAT
730723 TGCACTGTAGGTCTTA
1 TGCACTGTAGGTCTTA
730739 CAGATGTGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 9 0.30
21 13 0.43
22 8 0.27
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (21 bp):
TGCACTGTAGGTCTTATATAT
Found at i:731908 original size:54 final size:54
Alignment explanation
Indices: 731805--732074 Score: 423
Period size: 54 Copynumber: 5.0 Consensus size: 54
731795 ATAATCACTG
* * * * * * * *
731805 GTTCATAAAACACTTAACAATACATGCATCATTTCCTGTGGCCTATGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
*
731859 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
731913 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* * *
731967 GTTCGTAAAACATTTGAAAACACATTCATCCTTTCTTGTGGCTTCTGCCTAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
*
732021 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTTCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
732075 TTCTCAATCA
Statistics
Matches: 199, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 199 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
Found at i:733042 original size:74 final size:75
Alignment explanation
Indices: 732939--733117 Score: 263
Period size: 74 Copynumber: 2.4 Consensus size: 75
732929 ATAAGATGAT
* * * *
732939 ATGGGCCTTCAGCATGCCCCAACATTTGCTGATACAAATGTTCAAAACGCATCAACATTCCTGAT
1 ATGGGCTTTCAACATGCCCCAACATTTGCTGATACAAACGTTCAAAACACATCAACATTCCT-AT
733004 TT-TGATTAAA
65 TTCTGATTAAA
*
733014 ATGGGCTTTTAACATG-CCCAACATTTGCTGATACAAACGTTCAAAACACATCAACATTCCTATT
1 ATGGGCTTTCAACATGCCCCAACATTTGCTGATACAAACGTTCAAAACACATCAACATTCCTATT
*
733078 TCTGATTGAA
66 TCTGATTAAA
* *
733088 ATGGGCTTTCAGCATGCCCCATCATTTGCT
1 ATGGGCTTTCAACATGCCCCAACATTTGCT
733118 TCTTATTGAT
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
73 4 0.04
74 64 0.69
75 25 0.27
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (75 bp):
ATGGGCTTTCAACATGCCCCAACATTTGCTGATACAAACGTTCAAAACACATCAACATTCCTATT
TCTGATTAAA
Found at i:733181 original size:39 final size:40
Alignment explanation
Indices: 733092--733183 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
733082 ATTGAAATGG
** * *
733092 GCTTTCAGCATGCCCCATCATTTGCTTCTTATTGATGTGA
1 GCTTTCAAAATGCCCCAACATTTGCTTCATATTGATGTGA
*
733132 GCTTTCAAAATGCCCCAACATTT-TTTCATATTGATGTGA
1 GCTTTCAAAATGCCCCAACATTTGCTTCATATTGATGTGA
733171 GCCTTT-AAAATGC
1 G-CTTTCAAAATGC
733184 TCCACATGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 22 0.48
40 24 0.52
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (40 bp):
GCTTTCAAAATGCCCCAACATTTGCTTCATATTGATGTGA
Found at i:739206 original size:127 final size:127
Alignment explanation
Indices: 739055--739307 Score: 488
Period size: 127 Copynumber: 2.0 Consensus size: 127
739045 AGTTAGTATC
*
739055 AATTAATGGAAAGAAAAGATTCTATTTATCATGGTATCTAAATCCTAACCTCATGCATTTTAGTT
1 AATTAATGGAAAGAAAAGATTCTATTTATCATGGTATCTAAATCCTAACCTCATGCATTATAGTT
739120 ACATGCTTTATTTGGAAAAATAAACCTAACCGCATGATTTCTAGTTCACATGCATAGAAAAG
66 ACATGCTTTATTTGGAAAAATAAACCTAACCGCATGATTTCTAGTTCACATGCATAGAAAAG
739182 AATTAATGGAAAGAAAAGATTCTATTTATCATGGTATCTAAATCCTAACCTCATGCATTATAGTT
1 AATTAATGGAAAGAAAAGATTCTATTTATCATGGTATCTAAATCCTAACCTCATGCATTATAGTT
*
739247 CCATGCTTTATTTGGAAAAATAAACCTAACCGCATGATTTCTAGTTCACATGCATAGAAAA
66 ACATGCTTTATTTGGAAAAATAAACCTAACCGCATGATTTCTAGTTCACATGCATAGAAAA
739308 AAAATCAAAT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 124 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (127 bp):
AATTAATGGAAAGAAAAGATTCTATTTATCATGGTATCTAAATCCTAACCTCATGCATTATAGTT
ACATGCTTTATTTGGAAAAATAAACCTAACCGCATGATTTCTAGTTCACATGCATAGAAAAG
Found at i:741387 original size:20 final size:20
Alignment explanation
Indices: 741362--741405 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
741352 AAGGTGGCTG
*
741362 GAATTTCTAAAATTACCCTA
1 GAATTTCCAAAATTACCCTA
741382 GAATTTCCAAAATTACCCTA
1 GAATTTCCAAAATTACCCTA
741402 GAAT
1 GAAT
741406 ATAGATCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (20 bp):
GAATTTCCAAAATTACCCTA
Found at i:742071 original size:3 final size:3
Alignment explanation
Indices: 742063--742192 Score: 212
Period size: 3 Copynumber: 44.3 Consensus size: 3
742053 ATTTATAATT
*
742063 TAA TAA TAA TAA TAA -AA TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
742110 TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
742157 TAT TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
742193 TTTAAAATGG
Statistics
Matches: 118, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
2 6 0.05
3 112 0.95
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:743365 original size:20 final size:20
Alignment explanation
Indices: 743340--743391 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
743330 ATCAATTGGT
*
743340 AGTATCGATTCTACTTAGAG
1 AGTATCGATACTACTTAGAG
743360 AGTATCGATACTACTTAGAG
1 AGTATCGATACTACTTAGAG
743380 AGTATCGATACT
1 AGTATCGATACT
743392 TCTATTACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTACTTAGAG
Found at i:744283 original size:10 final size:10
Alignment explanation
Indices: 744265--744295 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
744255 ACAAATATTG
*
744265 AAAATAAAAA
1 AAAAGAAAAA
744275 AAAAGAAAAA
1 AAAAGAAAAA
744285 AAAAGAAAAA
1 AAAAGAAAAA
744295 A
1 A
744296 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:745986 original size:134 final size:134
Alignment explanation
Indices: 745624--746219 Score: 725
Period size: 134 Copynumber: 4.5 Consensus size: 134
745614 ATAGTGGTGC
* ** * ** * *
745624 AGTGAATC-AAATTTTCTCCAGTCTGGTCTCCTCTAAAGAGTAGCAGATCAGATTCTTCTTTTTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTT
* *
745688 CAGATTTGGTATTCCTGAAGAGCA-CTGAAGCAAATCAATTTCGGTTCAATCA-TCCCTAAAGAG
66 CAGATTTGGTATTCCTGAAGAGCAGC-GAAGCAAATCAAGTTCGGTTCAAT-ATTCCCTGAAGA-
*
745751 GCA-CGA
128 GAAGCGA
* *
745757 AGTGAATCTAAA-TTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGAAGCAGATTCTTCTTCTTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTT
** * * *
745821 CAGATTTGGTATTCCTGAAGAGCAGTAAAGCAAATCAAGTTTGGTTCAATATTCCTTGAAGAGCA
66 CAGATTTGGTATTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGGTTCAATATTCCCTGAAGAGAA
745886 GCGA
131 GCGA
* * * *
745890 AGTAAATCAAAATTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCATATTTTTCTTCTTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTT
* * * *
745955 CAGATTTGTTCTTCCTGAAGAGTAGCGAAGCAAATCAAGTTCGGTTCAATCTTCCCTGAAGAGAA
66 CAGATTTGGTATTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGGTTCAATATTCCCTGAAGAGAA
*
746020 ACGA
131 GCGA
*
746024 AGTGAATCAAAATTTTCTAGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTT
1 AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTT
* * * * * * *
746089 CATATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAACTCCGATTCAATCTTCCCTGAAGAGAA
66 CAGATTTGGTATTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGGTTCAATATTCCCTGAAGAGAA
*
746154 GAGA
131 GCGA
* ** * * * * *
746158 AGTGGATCAATGTTTTTCTCAAGTCTAATCTCCCCTAAAGAGTAGTAGAGCATATTCTTCTT
1 AGTGAATCAA-AATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTT
746220 TCAGACTAGG
Statistics
Matches: 405, Mismatches: 52, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
132 4 0.01
133 117 0.29
134 241 0.60
135 43 0.11
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (134 bp):
AGTGAATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTT
CAGATTTGGTATTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGGTTCAATATTCCCTGAAGAGAA
GCGA
Found at i:746151 original size:268 final size:267
Alignment explanation
Indices: 745628--746219 Score: 774
Period size: 267 Copynumber: 2.2 Consensus size: 267
745618 TGGTGCAGTG
* * * * * * *
745628 AATC-AAATTTTCTCCAGTCTGGTCTCCTCTAAAGAGTAGCAGATCAGATTCTTCTTTTTTCAGA
1 AATCAAAATTTTCTCAAGTCTGATCTCCCCTAAAGAGTAGTAGAGCATATTCTTCTTCTTTCAGA
* **
745692 TTTGGTATTCCTGAAGAGCACTGAAGCAAATCAATTTCGGTTCAATCATCCCTAAAGAGGCACGA
66 TTTGGTATTCCTGAAGAGCACTGAAGCAAATCAAGTTCGGTTCAATCATCCCTAAAGAGAAACGA
* *
745757 AGTGAATCTAAATTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGAAGCAGATTCTTCTTCTTTC
131 AGTGAATCAAAATTTCTAGAGTCTGACCTCCCCTAAAGAGTAGTGAAGCAGATTCTTCTTCTTTC
* * ** * * *
745822 AGATTTGGTATTCCTGAAGAGCAGTAAAGCAAATCAAGTTTGGTTCAATATTCCTTGAAGAGCAG
196 AGATTTGGTATTCCTGAAGAGCAGCAAAGCAAATCAACTCCGATTCAATATTCCCTGAAGAGAAG
*
745887 CGAAGTA
261 AGAAGTA
* * * * *
745894 AATCAAAATTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCATATTTTTCTTCTTTCAGA
1 AATCAAAATTTTCTCAAGTCTGATCTCCCCTAAAGAGTAGTAGAGCATATTCTTCTTCTTTCAGA
* * * * *
745959 TTTGTTCTTCCTGAAGAGTAGC-GAAGCAAATCAAGTTCGGTTCAATCTTCCCTGAAGAGAAACG
66 TTTGGTATTCCTGAAGAGCA-CTGAAGCAAATCAAGTTCGGTTCAATCATCCCTAAAGAGAAACG
*
746023 AAGTGAATCAAAATTTTCTAGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTT
130 AAGTGAATCAAAA-TTTCTAGAGTCTGACCTCCCCTAAAGAGTAGTGAAGCAGATTCTTCTTCTT
* * * * *
746088 TCATATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCAACTCCGATTCAATCTTCCCTGAAGAGA
194 TCAGATTTGGTATTCCTGAAGAGCAGCAAAGCAAATCAACTCCGATTCAATATTCCCTGAAGAGA
*
746153 AGAGAAGTG
259 AGAGAAGTA
* ** *
746162 GATCAATGTTTTTCTCAAGTCTAATCTCCCCTAAAGAGTAGTAGAGCATATTCTTCTT
1 AATCAA-AATTTTCTCAAGTCTGATCTCCCCTAAAGAGTAGTAGAGCATATTCTTCTT
746220 TCAGACTAGG
Statistics
Matches: 277, Mismatches: 45, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
266 4 0.01
267 115 0.42
268 115 0.42
269 43 0.16
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (267 bp):
AATCAAAATTTTCTCAAGTCTGATCTCCCCTAAAGAGTAGTAGAGCATATTCTTCTTCTTTCAGA
TTTGGTATTCCTGAAGAGCACTGAAGCAAATCAAGTTCGGTTCAATCATCCCTAAAGAGAAACGA
AGTGAATCAAAATTTCTAGAGTCTGACCTCCCCTAAAGAGTAGTGAAGCAGATTCTTCTTCTTTC
AGATTTGGTATTCCTGAAGAGCAGCAAAGCAAATCAACTCCGATTCAATATTCCCTGAAGAGAAG
AGAAGTA
Found at i:746585 original size:24 final size:25
Alignment explanation
Indices: 746511--746598 Score: 98
Period size: 24 Copynumber: 3.7 Consensus size: 25
746501 TAGCATAAAT
746511 AAAATAATATA-TATATAGGTTTT-
1 AAAATAATATATTATATAGGTTTTG
*
746534 ---ATAGTATATTATATAGGTTTTG
1 AAAATAATATATTATATAGGTTTTG
746556 AAAAATAATATATTATATA-GTTTTG
1 -AAAATAATATATTATATAGGTTTTG
* *
746581 AAAATAAAATAGTATATA
1 AAAATAATATATTATATA
746599 TATATATATT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
20 7 0.13
21 12 0.22
24 16 0.29
25 6 0.11
26 14 0.25
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (25 bp):
AAAATAATATATTATATAGGTTTTG
Found at i:746586 original size:21 final size:22
Alignment explanation
Indices: 746516--746586 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 22
746506 TAAATAAAAT
*
746516 AATATA-TATATAGGTTTT-AT
1 AATATATTATATAGGTTTTGAA
*
746536 AGTATATTATATAGGTTTTGAAAAA
1 AATATATTATATAGGTTTTG---AA
746561 TAATATATTATATA-GTTTTGAA
1 -AATATATTATATAGGTTTTGAA
746583 AATA
1 AATA
746587 AAATAGTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
20 5 0.12
21 16 0.38
22 2 0.05
25 7 0.17
26 12 0.29
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (22 bp):
AATATATTATATAGGTTTTGAA
Found at i:746599 original size:26 final size:26
Alignment explanation
Indices: 746538--746602 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 26
746528 GGTTTTATAG
*
746538 TATATTATATAGGTTTTGAAAAATAA
1 TATATTATATAGGTTTTGAAAAAAAA
746564 TATATTATATA-GTTTTGAAAATAAAA
1 TATATTATATAGGTTTTGAAAA-AAAA
746590 TAGTATATATATA
1 TA-TAT-TATATA
746603 TATATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
25 10 0.29
26 16 0.46
27 3 0.09
28 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (26 bp):
TATATTATATAGGTTTTGAAAAAAAA
Found at i:746613 original size:29 final size:29
Alignment explanation
Indices: 746557--746614 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
746547 TAGGTTTTGA
* *
746557 AAAATAATATATTATATAGTTTTGAAAAT
1 AAAATAATATATTATATAGTATTAAAAAT
*
746586 AAAATAGTATATATATATA-TATTAAAAAT
1 AAAATAATATAT-TATATAGTATTAAAAAT
746615 GGTTTTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAATAATATATTATATAGTATTAAAAAT
Found at i:746625 original size:66 final size:66
Alignment explanation
Indices: 746549--746673 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
746539 ATATTATATA
* *
746549 GGTTTTGAAAAATAATATATTATATAGTTTTGAAAATAAAATAGTATATATATATATATTAAAAA
1 GGTTTTGAAAAATAATATATTATATAATTTTGAAAATAAAATAATATATATATATATATTAAAAA
746614 T
66 T
* * *
746615 GGTTTTGAAAAATAGTTTATTATATAATTTTGAAAATAATATAATATATATATATATAT
1 GGTTTTGAAAAATAATATATTATATAATTTTGAAAATAAAATAATATATATATATATAT
746674 ATATATATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (66 bp):
GGTTTTGAAAAATAATATATTATATAATTTTGAAAATAAAATAATATATATATATATATTAAAAA
T
Found at i:746662 original size:24 final size:25
Alignment explanation
Indices: 746617--746664 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
746607 TTAAAAATGG
* * *
746617 TTTTGAAAAATAGTTTATTATATAA
1 TTTTGAAAAATAATATAATATATAA
746642 TTTTG-AAAATAATATAATATATA
1 TTTTGAAAAATAATATAATATATA
746665 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (25 bp):
TTTTGAAAAATAATATAATATATAA
Found at i:746665 original size:2 final size:2
Alignment explanation
Indices: 746653--746688 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
746643 TTTGAAAATA
746653 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
746689 GTTATGGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:763224 original size:22 final size:22
Alignment explanation
Indices: 763196--763295 Score: 155
Period size: 22 Copynumber: 4.5 Consensus size: 22
763186 ATATCAGTGA
* * *
763196 TAATGCACTTCCGTATTAGTGC
1 TAATGCACTTCTGCATTAGTAC
* *
763218 TAGTGCACTTCTGCTTTAGTAC
1 TAATGCACTTCTGCATTAGTAC
763240 TAATGCACTTCTGCATTAGTAC
1 TAATGCACTTCTGCATTAGTAC
763262 TAATGCACTTCTGCATTAGTAC
1 TAATGCACTTCTGCATTAGTAC
763284 TAATGCACTTCT
1 TAATGCACTTCT
763296 ATATCAATGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (22 bp):
TAATGCACTTCTGCATTAGTAC
Found at i:769385 original size:15 final size:17
Alignment explanation
Indices: 769351--769388 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
769341 AAAATGTTTG
*
769351 TTTCTCGAACATGAGTT
1 TTTCTCGAACATGAGAT
769368 TTTCTCGAA-A-GAGAT
1 TTTCTCGAACATGAGAT
769383 TTTCTC
1 TTTCTC
769389 ACAAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (17 bp):
TTTCTCGAACATGAGAT
Found at i:786980 original size:327 final size:327
Alignment explanation
Indices: 786386--787693 Score: 2505
Period size: 327 Copynumber: 4.0 Consensus size: 327
786376 TATATTATAA
786386 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
1 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
786451 TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
66 TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
*
786516 GAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATAGGT
131 GAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGGGT
786581 GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
196 GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
* *
786646 GTCTGGAAATTGGTGTGGGCAATCATTGCTCCTCCAAAGGTAGTAGCGTTCATTTGGAAGGTCAT
261 GTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCAT
786711 AT
326 AT
786713 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
1 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
*
786778 TTTAATATTTATAAAATTATATTGTTTTATATAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
66 TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
786843 GAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGGGT
131 GAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGGGT
786908 GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
196 GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
786973 GTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCAT
261 GTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCAT
787038 AT
326 AT
787040 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTTACATA-TAGTAGTTAATGGA-TA
1 TTGAACTTAAACTACTATATGATGGACTTAAACGCTA-TTTTACATATTAGTAGTTAATGGATTA
787103 TTTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTA
65 TTTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTA
* *
787168 TGAATATATTTTAAAAGTTATGTGACATCTACGAGTCATATACGGGGACATATACGGGAAATGGG
130 TGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGGG
787233 TG-TACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCA
195 TGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCA
787297 TGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCA
260 TGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCA
787362 TAT
325 TAT
787365 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
1 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
*
787430 TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTTACTGATATTTAAGTA
66 TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAA-TTTTTTTACTGATTTTTAAGTA
*
787495 TGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGATATATACGGGAAATGGG
130 TGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGGG
787560 TGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCA
195 TGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCA
787625 TGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCA
260 TGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCA
787690 TAT
325 TAT
787693 T
1 T
787694 GTAGAGAATT
Statistics
Matches: 965, Mismatches: 11, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
324 9 0.01
325 181 0.19
326 176 0.18
327 459 0.48
328 140 0.15
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (327 bp):
TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
GAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGGGT
GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
GTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCAT
AT
Found at i:787693 original size:653 final size:654
Alignment explanation
Indices: 786386--787693 Score: 2505
Period size: 653 Copynumber: 2.0 Consensus size: 654
786376 TATATTATAA
786386 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
1 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
786451 TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
66 TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
*
786516 GAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATAGGT
131 GAATATATTTTAAAAGTTATGTGACATCTACGAGTCATATACGAGGACATATACGGGAAATAGGT
786581 GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
196 GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
* *
786646 GTCTGGAAATTGGTGTGGGCAATCATTGCTCCTCCAAAGGTAGTAGCGTTCATTTGGAAGGTCAT
261 GTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCAT
786711 ATTTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATT
326 ATTTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATT
*
786776 ATTTTAATATTTATAAAATTATATTGTTTTATATAAAGAAATAATTTTTTTACTGATTTTTAAGT
391 ATTTTAATATTTATAAAATTATATTGTTTTATATAAAGAAATAATTTTTTTACTGATATTTAAGT
786841 ATGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGG
456 ATGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGG
786906 GTGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATC
521 GTGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATC
786971 ATGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTC
586 ATGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTC
787036 ATAT
651 ATAT
787040 TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTTACATA-TAGTAGTTAATGGA-TA
1 TTGAACTTAAACTACTATATGATGGACTTAAACGCTA-TTTTACATATTAGTAGTTAATGGATTA
787103 TTTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTA
65 TTTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTA
* *
787168 TGAATATATTTTAAAAGTTATGTGACATCTACGAGTCATATACGGGGACATATACGGGAAATGGG
130 TGAATATATTTTAAAAGTTATGTGACATCTACGAGTCATATACGAGGACATATACGGGAAATAGG
787233 TG-TACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCA
195 TGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCA
787297 TGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCA
260 TGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCA
787362 TATTTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGAT
325 TATTTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGAT
*
787427 TATTTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTTACTGATATTTAA
390 TATTTTAATATTTATAAAATTATATTGTTTTATATAAAGAAATAA-TTTTTTTACTGATATTTAA
*
787492 GTATGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGATATATACGGGAAAT
454 GTATGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAAT
787557 GGGTGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGA
519 GGGTGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGA
787622 TCATGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGG
584 TCATGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGG
787687 TCATAT
649 TCATAT
787693 T
1 T
787694 GTAGAGAATT
Statistics
Matches: 644, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
652 234 0.36
653 350 0.54
654 51 0.08
655 9 0.01
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (654 bp):
TTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATTAT
TTTAATATTTATAAAATTATATTGTTTTATTTAAAGAAATAATTTTTTTACTGATTTTTAAGTAT
GAATATATTTTAAAAGTTATGTGACATCTACGAGTCATATACGAGGACATATACGGGAAATAGGT
GTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATCAT
GTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTCAT
ATTTGAACTTAAACTACTATATGATGGACTTAAACGCTATTTTACATATTAGTAGTTAATGGATT
ATTTTAATATTTATAAAATTATATTGTTTTATATAAAGAAATAATTTTTTTACTGATATTTAAGT
ATGAATATATTTTAAAAGTTATGTGACATCTACGAGTCGTATACGAGGACATATACGGGAAATGG
GTGTTACAGCTATGAACCTAAAAATTTCTACGCCATAACAACATGTGAGGGTATGGAAAAGGATC
ATGTCTGGAAATTGGTGTGGGCAAACATTGCTCCTCCAAAGGTAGAAGCGTTCATTTGGAAGGTC
ATAT
Found at i:787955 original size:48 final size:48
Alignment explanation
Indices: 787884--787981 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
787874 TGGTGACATG
787884 AGAAGTTTTATTTTAACCTAGGATAACCAACCAGTTAAACGTGTGCTC
1 AGAAGTTTTATTTTAACCTAGGATAACCAACCAGTTAAACGTGTGCTC
787932 AGAAGTTTTATTTTAACCTAGGATAACCAACCAGTTAAACGTGTGCTC
1 AGAAGTTTTATTTTAACCTAGGATAACCAACCAGTTAAACGTGTGCTC
787980 AG
1 AG
787982 GCCCATTAGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (48 bp):
AGAAGTTTTATTTTAACCTAGGATAACCAACCAGTTAAACGTGTGCTC
Found at i:794970 original size:41 final size:41
Alignment explanation
Indices: 794925--795019 Score: 190
Period size: 41 Copynumber: 2.3 Consensus size: 41
794915 CCCCTCCTTT
794925 TGGTTTGAAAACCAATCTGGCAATATGTTTTCTCCAGCTAA
1 TGGTTTGAAAACCAATCTGGCAATATGTTTTCTCCAGCTAA
794966 TGGTTTGAAAACCAATCTGGCAATATGTTTTCTCCAGCTAA
1 TGGTTTGAAAACCAATCTGGCAATATGTTTTCTCCAGCTAA
795007 TGGTTTGAAAACC
1 TGGTTTGAAAACC
795020 CCCTATAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
TGGTTTGAAAACCAATCTGGCAATATGTTTTCTCCAGCTAA
Found at i:797868 original size:47 final size:47
Alignment explanation
Indices: 797786--797890 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 47
797776 ATTAGTATCA
* * * * *
797786 ACCTTTAGTAATTCTTGAATTTGTTACAGCCAGAGCCAGTTGT-GGGC
1 ACCTCTAGTAATTCTTGAATGTGTAACAACCAGAGCCAGTT-TCAGGC
* *
797833 ACCTCTAGTAATTCTTGAATGTGTAACAACTAGAGCTAGTTTCAGGC
1 ACCTCTAGTAATTCTTGAATGTGTAACAACCAGAGCCAGTTTCAGGC
*
797880 ACATCTAGTAA
1 ACCTCTAGTAA
797891 GAAACTATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 48 0.98
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (47 bp):
ACCTCTAGTAATTCTTGAATGTGTAACAACCAGAGCCAGTTTCAGGC
Found at i:799312 original size:19 final size:20
Alignment explanation
Indices: 799288--799348 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
799278 CAAACAAAAC
*
799288 AAAGAGATAAATTTTAAA-T
1 AAAGAGATAAATATTAAATT
*
799307 AAAGAGA-AAAAATTAAATT
1 AAAGAGATAAATATTAAATT
* *
799326 AAACAGATAAATACTAAAATT
1 AAAGAGATAAATA-TTAAATT
799347 AA
1 AA
799349 TAAGGGTGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 8 0.24
19 14 0.41
20 4 0.12
21 8 0.24
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (20 bp):
AAAGAGATAAATATTAAATT
Found at i:799394 original size:29 final size:28
Alignment explanation
Indices: 799358--799414 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
799348 ATAAGGGTGC
*
799358 AAATAAAACTTGAA-AAGAGAAAATAAAA
1 AAATAAAAATTGAATAA-AGAAAATAAAA
*
799386 AAATAAAAAATTGAATAAATAAAATAAAA
1 AAAT-AAAAATTGAATAAAGAAAATAAAA
799415 TATCCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 19 0.76
30 2 0.08
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (28 bp):
AAATAAAAATTGAATAAAGAAAATAAAA
Found at i:804774 original size:29 final size:30
Alignment explanation
Indices: 804717--804776 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
804707 GAAGAATATT
804717 AAAATTTTATAATTATAATATCATGAGTAAA
1 AAAATTTTATAATTATAATA-CATGAGTAAA
804748 AAAATTATTATGAATT-TAATA-AT-AGTAAA
1 AAAATT-TTAT-AATTATAATACATGAGTAAA
804777 GGATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
29 6 0.22
30 2 0.07
31 6 0.22
32 9 0.33
33 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (30 bp):
AAAATTTTATAATTATAATACATGAGTAAA
Found at i:807396 original size:17 final size:17
Alignment explanation
Indices: 807344--807484 Score: 133
Period size: 17 Copynumber: 8.2 Consensus size: 17
807334 AGATGAACCA
* *
807344 ACATACTTAAATAAACT
1 ACATGCTTAAATGAACT
*
807361 AACATGCTTTAAT--ACT
1 -ACATGCTTAAATGAACT
**
807377 ACATGCTTTTATGAACT
1 ACATGCTTAAATGAACT
*
807394 ACATGCTTAAATGAAGT
1 ACATGCTTAAATGAACT
* *
807411 AACATGCATAAATGAAAT
1 -ACATGCTTAAATGAACT
*
807429 AGCATGCTTAAATAAACT
1 A-CATGCTTAAATGAACT
* *
807447 ACATGCTTTAATAAACT
1 ACATGCTTAAATGAACT
*
807464 ACATGCTTAAATGAAGT
1 ACATGCTTAAATGAACT
807481 ACAT
1 ACAT
807485 AGTTTAGAGG
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
15 11 0.11
16 3 0.03
17 51 0.49
18 39 0.38
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (17 bp):
ACATGCTTAAATGAACT
Found at i:816155 original size:247 final size:251
Alignment explanation
Indices: 815716--816215 Score: 972
Period size: 247 Copynumber: 2.0 Consensus size: 251
815706 TGCACAATAA
815716 AATTTTCCTTAAGAGAAAATTGTATACTCTGTGTATGCCATAATCTACTTCAGTGACAGAACACT
1 AATTTTCCTTAAGAGAAAATTGTATACTCTGTGTATGCCATAATCTACTTCAGTGACAGAACACT
815781 TAAACACACTGAACACTTTATTTTCTCAGCTTACATCCTTAAGCTGTAAAATAGGAGAACAAGAA
66 TAAACACACTGAACACTTTATTTTCTCAGCTTACATCCTTAAGCTGTAAAATAGGAGAACAAGAA
815846 CGTGCTGAACTTCTACTTCAAAGTCTACCGGATTCGTATGATCAACTCATCATCAACTTGACAAA
131 CGTGCTGAACTTCTACTTCAAAGTCTACCGGATTCGTATGATCAACTCATCATCAACTTGACAAA
815911 CAGTAATGTCA-CAGTCTAGTCTTTGATGACGTTGCAGCTGATGTTCTACAAGAAG
196 CAGTAATGTCACCAGTCTAGTCTTTGATGACGTTGCAGCTGATGTTCTACAAGAAG
815966 AATTTTCCTTAAGAGAAAATTGTATACTCTGTGTATGCCATAATCTACTTCAGTGACAGAACACT
1 AATTTTCCTTAAGAGAAAATTGTATACTCTGTGTATGCCATAATCTACTTCAGTGACAGAACACT
816031 T-AA-ACACTGAACAC-TTATTTTCTCAGCTTACATCCTTAAGCTGTAAAATAGGAGAACAAGAA
66 TAAACACACTGAACACTTTATTTTCTCAGCTTACATCCTTAAGCTGTAAAATAGGAGAACAAGAA
816093 CGTGCTGAACTTCTACTTCAAAGTCTACCGGATTCGTATGATCAACTCATCATCAACTTGACAAA
131 CGTGCTGAACTTCTACTTCAAAGTCTACCGGATTCGTATGATCAACTCATCATCAACTTGACAAA
816158 CAGTAATGTCACCAGTCTAGTCTTTGATGACGTTGCAGCTGATGTTCTACAAGAAG
196 CAGTAATGTCACCAGTCTAGTCTTTGATGACGTTGCAGCTGATGTTCTACAAGAAG
816214 AA
1 AA
816216 AATCGGTGAA
Statistics
Matches: 249, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
247 124 0.50
248 57 0.23
249 2 0.01
250 66 0.27
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (251 bp):
AATTTTCCTTAAGAGAAAATTGTATACTCTGTGTATGCCATAATCTACTTCAGTGACAGAACACT
TAAACACACTGAACACTTTATTTTCTCAGCTTACATCCTTAAGCTGTAAAATAGGAGAACAAGAA
CGTGCTGAACTTCTACTTCAAAGTCTACCGGATTCGTATGATCAACTCATCATCAACTTGACAAA
CAGTAATGTCACCAGTCTAGTCTTTGATGACGTTGCAGCTGATGTTCTACAAGAAG
Found at i:820358 original size:2 final size:2
Alignment explanation
Indices: 820351--820379 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
820341 TCGTCGGATT
820351 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
820380 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:820415 original size:34 final size:34
Alignment explanation
Indices: 820366--820583 Score: 117
Period size: 35 Copynumber: 6.4 Consensus size: 34
820356 ATATATATAT
* *
820366 ATATATATATTATAATTTTTAAAATAATTTTAAA
1 ATATATATAATATAATTTTTAAAACAATTTTAAA
* * * **
820400 ATATATATAACATAA-TTTAAAAAAAAAATTAAA
1 ATATATATAATATAATTTTTAAAACAATTTTAAA
* *
820433 A-ATATATAATAT-AGTTTTAAAACATTTTTGAAA
1 ATATATATAATATAATTTTTAAAACAATTTT-AAA
** * *
820466 ACTATATA-ACATAT-GGTTTGAAAACATTTTTTAAA
1 A-TATATATA-ATATAATTTTTAAAACA-ATTTTAAA
** * * *
820501 AT-TATATAATATGTTGTTTTGAAAATATTTTTGAA
1 ATATATATAATATAAT-TTTT-AAAACAATTTTAAA
* * * *
820536 ATATATATTATATATAGTTTTAAAA-AAATTAAAA
1 ATATATATAATATA-ATTTTTAAAACAATTTTAAA
*
820570 ATATATATTATATA
1 ATATATATAATATA
820584 GTATATTTTA
Statistics
Matches: 145, Mismatches: 27, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.01
32 20 0.14
33 27 0.19
34 35 0.24
35 39 0.27
36 23 0.16
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (34 bp):
ATATATATAATATAATTTTTAAAACAATTTTAAA
Found at i:820419 original size:32 final size:32
Alignment explanation
Indices: 820383--820478 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 32
820373 TATTATAATT
*
820383 TTTAAAATAATTTTAAAATATATATAACATA-A
1 TTTAAAAAAATTTTAAAA-ATATATAACATAGA
** * *
820415 TTTAAAAAAAAAATTAAAAATATATAATATAGT
1 TTT-AAAAAAATTTTAAAAATATATAACATAGA
* * *
820448 TTTAAAACATTTTTGAAAACTATATAACATA
1 TTTAAAAAAATTTT-AAAAATATATAACATA
820479 TGGTTTGAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
32 21 0.42
33 29 0.58
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (32 bp):
TTTAAAAAAATTTTAAAAATATATAACATAGA
Found at i:820556 original size:36 final size:34
Alignment explanation
Indices: 820431--820560 Score: 129
Period size: 35 Copynumber: 3.8 Consensus size: 34
820421 AAAAAAATTA
820431 AAAATATA-TA-ATATAGTTTTAAAACATTTTTG
1 AAAATATATTATATATAGTTTTAAAACATTTTTG
* * * * *
820463 AAAACTATATAACATATGGTTTGAAAACATTTTTT
1 AAAA-TATATTATATATAGTTTTAAAACATTTTTG
* * * *
820498 AAAATTATATAATATGTTGTTTTGAAAATATTTTTG
1 AAAA-TATATTATATATAGTTTT-AAAACATTTTTG
820534 AAATATATATTATATATAGTTTTAAAA
1 AAA-ATATATTATATATAGTTTTAAAA
820561 AAATTAAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
32 4 0.05
33 4 0.05
34 1 0.01
35 41 0.52
36 28 0.35
37 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (34 bp):
AAAATATATTATATATAGTTTTAAAACATTTTTG
Found at i:822056 original size:15 final size:15
Alignment explanation
Indices: 822036--822079 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
822026 TAATCTCTTC
822036 AATATTTTTTTATTT
1 AATATTTTTTTATTT
*
822051 AATATTTTTTCATTT
1 AATATTTTTTTATTT
*
822066 CAT-TTTATTTTATT
1 AATATTT-TTTTATT
822080 CTATTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
AATATTTTTTTATTT
Found at i:826213 original size:116 final size:116
Alignment explanation
Indices: 826009--826863 Score: 1217
Period size: 116 Copynumber: 7.3 Consensus size: 116
825999 TTAGACTCGA
* *
826009 AACATTCATTGGATTTCAACTTCACGACGAATGATGTCCAATTCAAGGCTCAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
*
826074 TGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
66 GGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
* * *
826125 AACATTAATTGGATTTCAACTTCACGATGAATGATATCCAATTCAAGGCTCAACTAT-ACAACGA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACT-TCACAACGA
* * *
826189 AGGGGTCATCCAAGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCATC
65 AGGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
* *
826241 AGCATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
* * * ** * *
826306 TGGGACATTCATAGTTTCAACTTCACGACGAAGAGAGTCGTGCTCACCAGC
66 GGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
* *
826357 AACATTCATTGGATTTCAACTTCAGGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
* * *
826422 GGGGCCTATCCACAGTTTTAACTTCACGACTAAGGGAATCGTGCTCACCAGC
66 GGGGCC-ATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
*
826474 AACATTCATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
** * * *
826539 AAGGCCATCCACGGTTTTAACTTCATGACGAAGGGAATCGTGCTCACCAGT
66 GGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
* * *
826590 AACATTCATTAGATTTCAACTTCACGACGAAGAATATCCAATTCAAGGCTTAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
* * *
826655 AGGGCCATTCTCGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
66 GGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
**
826706 AACATTCATTGGATTTCAACTTCACGATTAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
* * * * * * *
826771 GCGGTCATCCACGGTTTCAACTTCAAGATGAAGGGAATTGTGCTCACAAGA
66 GGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
* ** *
826822 AGAAATGTCATCCACGATTTCAACTTCACAACGAAGGATATC
1 A-ACAT-TCAT--TGGATTTCAACTTCACGACGAAGGATATC
826864 GTGTTCATTT
Statistics
Matches: 661, Mismatches: 71, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
115 1 0.00
116 523 0.79
117 109 0.16
118 4 0.01
120 24 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (116 bp):
AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
GGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGC
Found at i:826653 original size:349 final size:348
Alignment explanation
Indices: 826009--826817 Score: 1257
Period size: 349 Copynumber: 2.3 Consensus size: 348
825999 TTAGACTCGA
* *
826009 AACATTCATTGGATTTCAACTTCACGACGAATGATGTCCAATTCAAGGCTCAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
* *
826074 TGGGCCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTAATTGGAT
66 GGGGCCATCCACGGTTTCAACTTCACGACTAAGGGAATCGTGCTCACCAGCAACATTAATTGGAT
* ** *
826139 TTCAACTTCACGATGAATGATATCCAATTCAAGGCTCAACTATACAACGAAGGGGTCATCCAAGG
131 TTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTATACAACGAAAAGGCCATCCAAGG
* *
826204 TTTCAACTTCACGACGAAGGGAATCGTGCTCACCATCAGCATTCATTGGATTTCAACTTCACGAC
196 TTTCAACTTCACGACGAAGGGAATCGTGCTCACCATCAACATTCATTAGATTTCAACTTCACGAC
* * *
826269 GAAGGATATCCAATTCAAGGCTCAACTTTACAACGAATGGGACATTCAT-AGTTTCAACTTCACG
261 GAAGAATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGACATTC-TCAGTTTCAACTTCACG
*
826333 ACGAAGAGAGTCGTGCTCACCAGC
325 ACGAAGAGAATCGTGCTCACCAGC
* *
826357 AACATTCATTGGATTTCAACTTCAGGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
* * *
826422 GGGGCCTATCCACAGTTTTAACTTCACGACTAAGGGAATCGTGCTCACCAGCAACATTCATTGGA
66 GGGGCC-ATCCACGGTTTCAACTTCACGACTAAGGGAATCGTGCTCACCAGCAACATTAATTGGA
*
826487 TTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACT-TCACAACGAAAAGGCCATCCAC
130 TTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTAT-ACAACGAAAAGGCCATCCAA
* *
826551 GGTTTTAACTTCATGACGAAGGGAATCGTGCTCACCAGT-AACATTCATTAGATTTCAACTTCAC
194 GGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCA-TCAACATTCATTAGATTTCAACTTCAC
* * *
826615 GACGAAGAATATCCAATTCAAGGCTTAACTTCACAACGAAAGGGCCATTCTCGGTTTCAACTTCA
258 GACGAAGAATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGACATTCTCAGTTTCAACTTCA
*
826680 CGACGAAGGGAATCGTGCTCACCAGC
323 CGACGAAGAGAATCGTGCTCACCAGC
**
826706 AACATTCATTGGATTTCAACTTCACGATTAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
1 AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
* * * *
826771 GCGGTCATCCACGGTTTCAACTTCAAGA-TGAAGGGAATTGTGCTCAC
66 GGGGCCATCCACGGTTTCAACTTCACGACT-AAGGGAATCGTGCTCAC
826818 AAGAAGAAAT
Statistics
Matches: 420, Mismatches: 36, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
347 1 0.00
348 103 0.25
349 315 0.75
350 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (348 bp):
AACATTCATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
GGGGCCATCCACGGTTTCAACTTCACGACTAAGGGAATCGTGCTCACCAGCAACATTAATTGGAT
TTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTATACAACGAAAAGGCCATCCAAGG
TTTCAACTTCACGACGAAGGGAATCGTGCTCACCATCAACATTCATTAGATTTCAACTTCACGAC
GAAGAATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGACATTCTCAGTTTCAACTTCACGA
CGAAGAGAATCGTGCTCACCAGC
Found at i:827042 original size:83 final size:84
Alignment explanation
Indices: 826902--827077 Score: 228
Period size: 83 Copynumber: 2.1 Consensus size: 84
826892 AGAAGGGTTA
* * * *
826902 AGTTCGATTACACTCGGCTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATC
1 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCTATC
* *
826967 TATCAA-CAAATACCTTCG
66 TACCAACCAAAGACCTTCG
* * * * *
826985 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATT
1 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCTATC
* *
827050 TGCCAACCAAAGACTTTCG
66 TACCAACCAAAGACCTTCG
827069 AGTTCGATT
1 AGTTCGATT
827078 TTATTCAGCT
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
83 60 0.76
84 19 0.24
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (84 bp):
AGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGCTATC
TACCAACCAAAGACCTTCG
Found at i:827514 original size:34 final size:32
Alignment explanation
Indices: 827469--827689 Score: 181
Period size: 35 Copynumber: 6.4 Consensus size: 32
827459 GTATATATAT
* * *
827469 ATATATTATATAGTTTTTAAAATAATTTTGAAA
1 ATATATAATATAG-TTTTAAAACATTTTTGAAA
* *
827502 TATATATAATATAATTTAAAAAAACATTTTTGAAA
1 -ATATATAATATAGTTT--TAAAACATTTTTGAAA
*
827537 ACATATAATATAGTTTTAAAACATTTTTGAAA
1 ATATATAATATAGTTTTAAAACATTTTTGAAA
* *
827569 ACTATATAACATATAGTTTGAAAACATTTTTTAAA
1 A-TATAT-A-ATATAGTTTTAAAACATTTTTGAAA
* *
827604 ATTATATAATATGTGGTTTTGAAAATATTTTTGAAA
1 A-TATATAATA--TAGTTTT-AAAACATTTTTGAAA
*
827640 TATATATTATATATAGTTTTAAAACAAATTTTTAAAAA
1 -ATATA-TA-ATATAGTTTTAAAAC--ATTTTT-GAAA
*
827678 ATATATATTATA
1 ATATATAATATA
827690 TTGTATATTA
Statistics
Matches: 153, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
32 16 0.10
33 10 0.07
34 27 0.18
35 55 0.36
36 25 0.16
37 14 0.09
38 6 0.04
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (32 bp):
ATATATAATATAGTTTTAAAACATTTTTGAAA
Found at i:827682 original size:71 final size:67
Alignment explanation
Indices: 827471--827682 Score: 207
Period size: 71 Copynumber: 3.1 Consensus size: 67
827461 ATATATATAT
* * * *
827471 ATATTATATAGTTTTTAAAATAATTTTGAAATATATA-TAATATA-ATTTAAAAAAACATTTTTG
1 ATATAATATAG-TTTTAAAATATTTTTGAAATATATATTAATATAGTTTTAAAACAA-ATTTTT-
*
827534 AAAAC
63 AAAAA
* * * *
827539 ATATAATATAGTTTTAAAACATTTTTGAAA-ACTATATAACATATAGTTTGAAAAC-ATTTTTTA
1 ATATAATATAGTTTTAAAATATTTTTGAAATA-TATATTA-ATATAGTTTTAAAACAAATTTTTA
*
827602 AAATT
64 AAA-A
*
827607 ATATAATATGTGGTTTTGAAAATATTTTTGAAATATATATTATATATAGTTTTAAAACAAATTTT
1 ATATAATA--TAGTTTT-AAAATATTTTTGAAATATATATTA-ATATAGTTTTAAAACAAATTTT
827672 TAAAAA
62 TAAAAA
827678 ATATA
1 ATATA
827683 TATTATATTG
Statistics
Matches: 118, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
66 1 0.01
67 25 0.21
68 24 0.20
69 6 0.05
70 12 0.10
71 39 0.33
72 11 0.09
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (67 bp):
ATATAATATAGTTTTAAAATATTTTTGAAATATATATTAATATAGTTTTAAAACAAATTTTTAAA
AA
Found at i:827723 original size:4 final size:4
Alignment explanation
Indices: 827714--827760 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
827704 TTTATCCTTT
*
827714 TTTA TTTA -TT- TTTA TTT- TTTA ATT- TTTA TTTA TTTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
827757 TTTA
1 TTTA
827761 CTCGTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
3 12 0.33
4 24 0.67
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:827728 original size:28 final size:29
Alignment explanation
Indices: 827695--827759 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
827685 TTATATTGTA
*
827695 TATTATTTTTTTATCCTTT-TTTATTTATT
1 TATTATTTTTTAAT-CTTTATTTATTTATT
*
827724 T-TTATTTTTTAATTTTTATTTATTTATT
1 TATTATTTTTTAATCTTTATTTATTTATT
827752 TATTATTT
1 TATTATTT
827760 ACTCGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.09
28 22 0.69
29 7 0.22
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (29 bp):
TATTATTTTTTAATCTTTATTTATTTATT
Found at i:827734 original size:7 final size:7
Alignment explanation
Indices: 827718--827759 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
827708 TCCTTTTTTA
827718 TTTA-TT
1 TTTATTT
827724 TTTATTT
1 TTTATTT
*
827731 TTTAATT
1 TTTATTT
827738 TTTATTT
1 TTTATTT
827745 ATTTATTT
1 -TTTATTT
*
827753 ATTATTT
1 TTTATTT
827760 ACTCGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
6 4 0.13
7 20 0.65
8 7 0.23
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTATTT
Found at i:827768 original size:28 final size:24
Alignment explanation
Indices: 827712--827760 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
827702 TTTTTATCCT
*
827712 TTTTTATTTATTTTTATTTTTTAA
1 TTTTTATTTATTTTTATTATTTAA
827736 TTTTTATTTATTTATTTATTATTTA
1 TTTTTATTTA-TT-TTTATTATTTA
827761 CTCGTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 10 0.45
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTATTTATTTTTATTATTTAA
Found at i:831039 original size:23 final size:23
Alignment explanation
Indices: 831009--831054 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
830999 CGCGAAAACG
831009 GATGCAATTGGATGGTTCGCGTA
1 GATGCAATTGGATGGTTCGCGTA
831032 GATGCAATTGGATGGTTCGCGTA
1 GATGCAATTGGATGGTTCGCGTA
831055 TCGAAAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.30
Consensus pattern (23 bp):
GATGCAATTGGATGGTTCGCGTA
Found at i:832919 original size:35 final size:34
Alignment explanation
Indices: 832834--832921 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 34
832824 AATATAATTT
*
832834 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
832868 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
832906 T-AATA-AACAAAATTAC
1 TAAATACAACAAAATTAC
832922 CTGAAACACA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 25 0.54
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.27
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:835281 original size:17 final size:18
Alignment explanation
Indices: 835238--835278 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
835228 GAATTATATT
835238 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
835255 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
835273 ATTAAA
1 AGTAAA
835279 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:835360 original size:10 final size:10
Alignment explanation
Indices: 835320--835356 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
835310 CTTAAACAGA
835320 GAGAGAAATT
1 GAGAGAAATT
835330 GAGAGAAATT
1 GAGAGAAATT
*
835340 GAGAGAATTT
1 GAGAGAAATT
835350 GAGAGAA
1 GAGAGAA
835357 TTTGGTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.19
Consensus pattern (10 bp):
GAGAGAAATT
Found at i:835831 original size:23 final size:22
Alignment explanation
Indices: 835786--835839 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
835776 ATCTCTTCAA
835786 TATTTTTTATTTAATATTTTTC
1 TATTTTTTATTTAATATTTTTC
*
835808 TCATTTTTTATTTTAT-TTTATTC
1 T-ATTTTTTATTTAATATTT-TTC
*
835831 TATTATTTA
1 TATTTTTTA
835840 ACAGTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTTTATTTAATATTTTTC
Found at i:836378 original size:24 final size:25
Alignment explanation
Indices: 836346--836397 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
836336 AAGGCTATGA
* *
836346 AAACATAAATA-AAGCTATGAAAGC
1 AAACATAAACATAAGCTAAGAAAGC
836370 AAACATAAACATAAGCTAAGAAAGC
1 AAACATAAACATAAGCTAAGAAAGC
836395 AAA
1 AAA
836398 GCAGTTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.62, C:0.13, G:0.12, T:0.13
Consensus pattern (25 bp):
AAACATAAACATAAGCTAAGAAAGC
Found at i:836669 original size:17 final size:17
Alignment explanation
Indices: 836647--836698 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
836637 ATGATGATTG
836647 ATACTTGTATCATTTAT
1 ATACTTGTATCATTTAT
836664 ATAC-T-T-T--TTTAT
1 ATACTTGTATCATTTAT
* *
836676 TTACTTGTATCAATTAT
1 ATACTTGTATCATTTAT
836693 ATACTT
1 ATACTT
836699 TTTTTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
12 8 0.30
13 1 0.04
14 2 0.07
15 2 0.07
16 1 0.04
17 13 0.48
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.56
Consensus pattern (17 bp):
ATACTTGTATCATTTAT
Found at i:836692 original size:29 final size:28
Alignment explanation
Indices: 836648--836706 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 28
836638 TGATGATTGA
*
836648 TACTTGTATCATTTATATACTTTTTTATT
1 TACTTGTATCAATTATATACTTTTTT-TT
836677 TACTTGTATCAATTATATACTTTTTTTT
1 TACTTGTATCAATTATATACTTTTTTTT
836705 TA
1 TA
836707 TTTAGTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.61
Consensus pattern (28 bp):
TACTTGTATCAATTATATACTTTTTTTT
Found at i:838977 original size:100 final size:100
Alignment explanation
Indices: 838804--839004 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
838794 AGTGTTTTTA
838804 ATCTAGAAAGAAATTTTCAAAATTTTATATTTGAAAAAATGTTTTTAGAGCCAAATAATAATTTT
1 ATCTAGAAAGAAATTTTCAAAATTTTATATTTGAAAAAATGTTTTTAGAGCCAAATAATAATTTT
838869 AATATTATTTAATACATAATGTAAAAATTAATCCC
66 AATATTATTTAATACATAATGTAAAAATTAATCCC
838904 ATCTAGAAAGAAATTTTCAAAATTTTATATTTGAAAAAATGTTTTTAGAGCCAAATAATAATTTT
1 ATCTAGAAAGAAATTTTCAAAATTTTATATTTGAAAAAATGTTTTTAGAGCCAAATAATAATTTT
838969 AATATTATTTAATACATAATGTAAAAATTAATCCC
66 AATATTATTTAATACATAATGTAAAAATTAATCCC
839004 A
1 A
839005 AACTATTTTG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (100 bp):
ATCTAGAAAGAAATTTTCAAAATTTTATATTTGAAAAAATGTTTTTAGAGCCAAATAATAATTTT
AATATTATTTAATACATAATGTAAAAATTAATCCC
Found at i:839795 original size:3 final size:3
Alignment explanation
Indices: 839789--839813 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
839779 AATAATAGTT
839789 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
839814 GATAAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:841080 original size:35 final size:35
Alignment explanation
Indices: 840982--841059 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
840972 ATGTAACCAA
*
840982 AAAATAAGAGTTGGATTAGGACTCAAATACTAGTCT
1 AAAAT-AGAGTTGGATTATGACTCAAATACTAGTCT
841018 AAAATAGAGTTGGATTATGACTCAAATACTAGTCT
1 AAAATAGAGTTGGATTATGACTCAAATACTAGTCT
841053 AAAATAG
1 AAAATAG
841060 GGTTTTTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 36 0.88
36 5 0.12
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (35 bp):
AAAATAGAGTTGGATTATGACTCAAATACTAGTCT
Found at i:841458 original size:17 final size:18
Alignment explanation
Indices: 841432--841471 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
841422 ATTATATGGA
841432 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
841448 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
841466 TATTAT
1 TATTAT
841472 ACGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:841534 original size:2 final size:2
Alignment explanation
Indices: 841529--841567 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
841519 TATATTTTAT
841529 TA TA TA TA TA TA TA TA -A TA TA TA TA T- 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 TA TA T
841568 TCTTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:841550 original size:13 final size:12
Alignment explanation
Indices: 841529--841567 Score: 64
Period size: 11 Copynumber: 3.4 Consensus size: 12
841519 TATATTTTAT
841529 TATATATATATA
1 TATATATATATA
841541 TATA-ATATATA
1 TATATATATATA
841552 TAT-TATATATA
1 TATATATATATA
841563 TATAT
1 TATAT
841568 TCTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATATA
Found at i:841568 original size:13 final size:13
Alignment explanation
Indices: 841526--841568 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
841516 TACTATATTT
841526 TATTATATATATA
1 TATTATATATATA
841539 TA-TATAATATATA
1 TATTAT-ATATATA
841552 TATTATATATATA
1 TATTATATATATA
841565 TATT
1 TATT
841569 CTTTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.11
13 22 0.79
14 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTATATATATA
Found at i:841744 original size:2 final size:2
Alignment explanation
Indices: 841737--841761 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
841727 CTTATAACTT
841737 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 T
841762 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:842018 original size:37 final size:38
Alignment explanation
Indices: 841968--842045 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 38
841958 AGTGAGAGAG
* *
841968 TAGCTTTTCTATTTTA-AATATTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAATACTTGATGTATATATATA
842005 TAGCTTATT-TATTTTATTAATACTTGATGTATATATATA
1 TAGCTT-TTCTATTTTA-TAATACTTGATGTATATATATA
842044 TA
1 TA
842046 TATATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 13 0.36
38 2 0.06
39 21 0.58
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (38 bp):
TAGCTTTTCTATTTTATAATACTTGATGTATATATATA
Found at i:842125 original size:9 final size:9
Alignment explanation
Indices: 842113--842155 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
842103 CCTTATCTTA
842113 TTTATTTAT
1 TTTATTTAT
842122 TTTATTTAT
1 TTTATTTAT
842131 TTTATTT-T
1 TTTATTTAT
*
842139 TTTCCTTTTAT
1 TTT--ATTTAT
842150 TTTATT
1 TTTATT
842156 CTCTTTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 4 0.14
9 18 0.62
10 3 0.10
11 4 0.14
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTAT
Found at i:843641 original size:30 final size:30
Alignment explanation
Indices: 843608--843827 Score: 386
Period size: 30 Copynumber: 7.3 Consensus size: 30
843598 GAAGGACCTA
* *
843608 TCCAGAGGTCATAAAGATCTTCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTC
843638 TCCAGAGGTCATAAAGATCCTCGGTAACTC
1 TCCAGAGGTCATAAAGATCCTCGGTAACTC
843668 TCCAGAGGTCATAAAGATCCTCGGTAACTC
1 TCCAGAGGTCATAAAGATCCTCGGTAACTC
843698 TCCAGAGGTCATAAAGATCCTCGGTAACTC
1 TCCAGAGGTCATAAAGATCCTCGGTAACTC
*
843728 TCCAGAGGTCATAAACATCCTCGGTAACTC
1 TCCAGAGGTCATAAAGATCCTCGGTAACTC
*
843758 TCTAGAGGTCATAAAGATCCTCGGTAACTC
1 TCCAGAGGTCATAAAGATCCTCGGTAACTC
*
843788 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTC
*
843818 TCCATAGGTC
1 TCCAGAGGTC
843828 CCGAAGAACC
Statistics
Matches: 182, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 182 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTC
Found at i:843844 original size:30 final size:30
Alignment explanation
Indices: 843801--843894 Score: 80
Period size: 31 Copynumber: 3.1 Consensus size: 30
843791 AGAGGTCATA
* * *
843801 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATATGTCCCG
* * * *
843831 AAGAACCTAGGTAAATTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATATGTCCCG
* * *
843862 TAGAACATAGGTATACTGTCCATATGTCTCG
1 AAGAACCTAGGTA-ACTGTCCATATGTCCCG
843893 AA
1 AA
843895 AGACATAGGT
Statistics
Matches: 47, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
30 11 0.23
31 36 0.77
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATATGTCCCG
Found at i:844088 original size:4 final size:4
Alignment explanation
Indices: 844079--844107 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
844069 ATATAACCAT
844079 TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA T
844108 GTCATCCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:844863 original size:21 final size:21
Alignment explanation
Indices: 844839--844881 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
844829 TCATATTCGT
* *
844839 TTGAGGGGGAATCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
* *
844860 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
844881 T
1 T
844882 AGCCCATAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGAACCGATTCCCC
Found at i:848322 original size:4 final size:4
Alignment explanation
Indices: 848313--848337 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
848303 ATATAACCAT
848313 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
848338 GTCATCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:849101 original size:21 final size:21
Alignment explanation
Indices: 849077--849119 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
849067 TCATATTCGT
* *
849077 TTGAGGGGGAATCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
* *
849098 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
849119 T
1 T
849120 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGAACCGATTCCCC
Found at i:855157 original size:8 final size:8
Alignment explanation
Indices: 855146--855225 Score: 61
Period size: 8 Copynumber: 9.5 Consensus size: 8
855136 ATGGTTTACC
855146 TGAATATT
1 TGAATATT
855154 TGAATATT
1 TGAATATT
855162 TGAATATT
1 TGAATATT
* *
855170 TGAAAAAT
1 TGAATATT
*
855178 TGATCATACGTA
1 TGA--ATA--TT
** **
855190 TCCATACC
1 TGAATATT
855198 TGAATATT
1 TGAATATT
855206 TGAATATT
1 TGAATATT
855214 TGAATATT
1 TGAATATT
855222 TGAA
1 TGAA
855226 GAATTCAAGA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
8 49 0.89
10 5 0.09
12 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (8 bp):
TGAATATT
Found at i:855270 original size:14 final size:14
Alignment explanation
Indices: 855251--855277 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
855241 GATCGAAACT
855251 TCAAGATTCCAGAG
1 TCAAGATTCCAGAG
855265 TCAAGATTCCAGA
1 TCAAGATTCCAGA
855278 CAGATTTTAG
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:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAG
Found at i:855480 original size:106 final size:106
Alignment explanation
Indices: 855290--856057 Score: 1044
Period size: 106 Copynumber: 7.4 Consensus size: 106
855280 GATTTTAGCT
** * **
855290 AGAGTCAATTTCAACTTCACAGTAAAGGATATTAGACTAAAGACAACACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
*
855355 CGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * * *
855396 AGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
*
855461 CGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* *
855502 AGAGTCAATTTCAAGTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* *
855567 CGAAGGGACGACTGGTTGTCAACAAACAATCTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
*
855608 AGAG-C-----CAA--T---AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
*
855662 CGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * *
855703 AGGGTTAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC--CACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* *
855766 CGAAAGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * **
855807 AGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCGAGATGACACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
855872 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * * * * *
855913 AGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTC-AGGATAGCACAAGCTCAACTTCACA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGA-GACAACACAAGTTCAACTTCACA
* * * * * *
855977 GCGAAGGGGCGGTTGGCTGTCAACAAACAATTTTCC-AGTTC
65 ACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * *
856018 TAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 -AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
856058 AGAACAATAC
Statistics
Matches: 590, Mismatches: 57, Indels: 30
0.87 0.08 0.04
Matches are distributed among these distances:
95 84 0.14
98 1 0.00
100 3 0.01
101 3 0.01
103 1 0.00
104 97 0.16
105 6 0.01
106 395 0.67
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (106 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
Found at i:855867 original size:305 final size:306
Alignment explanation
Indices: 855314--856057 Score: 1006
Period size: 305 Copynumber: 2.4 Consensus size: 306
855304 CTTCACAGTA
855314 AAGGATATTAGACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACA
1 AAGGATATTAGACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACA
* *
855379 AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACA
66 AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-ACA
* * *
855444 CAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAATTTCAGAGTCA
130 CAAGTTCAACTTCACAACGAAAGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* *
855509 ATTTCAAGTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGG
195 ATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGG
855574 ACGACTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGCG
260 ACGACTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGCG
* ** * *
855621 AAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACA
1 AAGGATATTAGACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACA
* * **
855686 AATAATTTCCCAATTTCAGGGTTAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-CAC
66 AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACACAC
*
855750 AAGTTCAACTTCACAACGAAAGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAA
131 AAGTTCAACTTCACAACGAAAGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAA
* **
855815 TTTCAACTTCACAGCAAAGGATATTGGACTCGAGATGACACAAGTTCAACTTCACAACGAAGGGA
196 TTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGA
* * * *
855880 CGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCG
261 CGACTGGTTGTCAACAAACAATCTCCCAATTTCAGAG-C-----CAA--T---AGCG
* * * * * * * * * *
855937 AAGGATATTAGACTCAGGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGGTTGGCTGTCAACA
1 AAGGATATTAGACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACA
* * ** *
856002 AACAATTTTCC-AGTTCTAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTC
66 AACAATTTCCCAATTTC-AGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTC
856058 AGAACAATAC
Statistics
Matches: 381, Mismatches: 44, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
305 158 0.41
306 1 0.00
307 115 0.30
311 3 0.01
313 1 0.00
315 4 0.01
316 99 0.26
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (306 bp):
AAGGATATTAGACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACA
AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACACAC
AAGTTCAACTTCACAACGAAAGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAA
TTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGA
CGACTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGCG
Found at i:856977 original size:17 final size:18
Alignment explanation
Indices: 856951--856990 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
856941 ATTATATGGA
856951 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
856967 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
856985 TATTAT
1 TATTAT
856991 ACGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:857052 original size:2 final size:2
Alignment explanation
Indices: 857047--857089 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
857037 ACTATATTTT
857047 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
857089 T
1 T
857090 TTCTTTAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:857269 original size:2 final size:2
Alignment explanation
Indices: 857264--857303 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
857254 CTTATAACTT
857264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
857304 TATTTTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:857708 original size:18 final size:18
Alignment explanation
Indices: 857685--857725 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
857675 TTTCTTTTAT
*
857685 TTTATTCTCTTTATCTTA
1 TTTATTCTCTTTACCTTA
* *
857703 TTTATTTTCTTTACCTTT
1 TTTATTCTCTTTACCTTA
857721 TTTAT
1 TTTAT
857726 CTAACACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTCTCTTTACCTTA
Found at i:860573 original size:32 final size:32
Alignment explanation
Indices: 860537--860622 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
860527 GATTATCTTG
* ** *
860537 GGGCCTGAGAGCCTACCCAAGTG-TGTGCCTTC
1 GGGCCTAAGAGCCTACCCAAG-GAAATACCTTC
* *
860569 GGGCCTAAGAGCTTACCCAAGGAAATACCTTG
1 GGGCCTAAGAGCCTACCCAAGGAAATACCTTC
*
860601 GGGCCTCAGAGCCTACCCAAGG
1 GGGCCTAAGAGCCTACCCAAGG
860623 TGACCTTAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
31 1 0.02
32 44 0.98
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.17
Consensus pattern (32 bp):
GGGCCTAAGAGCCTACCCAAGGAAATACCTTC
Found at i:861748 original size:29 final size:29
Alignment explanation
Indices: 861715--861771 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
861705 AGTTAAAGGG
* *
861715 TATTTCAGTCCTTTTCTTCCATCTAGTCA
1 TATTTCAGTCATTTCCTTCCATCTAGTCA
861744 TATTTCAGTCATTTCCTTCCATCTAGTC
1 TATTTCAGTCATTTCCTTCCATCTAGTC
861772 TTTCCATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.28, G:0.07, T:0.47
Consensus pattern (29 bp):
TATTTCAGTCATTTCCTTCCATCTAGTCA
Found at i:862865 original size:38 final size:38
Alignment explanation
Indices: 862814--862890 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
862804 AAAATTTACC
862814 AGTCTTGTAGAATGACACCTTGGGAGTCTCTTGCATGT
1 AGTCTTGTAGAATGACACCTTGGGAGTCTCTTGCATGT
*
862852 AGTCTTGTAGAATGGCACCTTGGGAGTCTCTTGCATGT
1 AGTCTTGTAGAATGACACCTTGGGAGTCTCTTGCATGT
862890 A
1 A
862891 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (38 bp):
AGTCTTGTAGAATGACACCTTGGGAGTCTCTTGCATGT
Found at i:864022 original size:5 final size:5
Alignment explanation
Indices: 864012--864038 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
864002 CTAAATTATA
864012 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
864039 GTACTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:864601 original size:30 final size:28
Alignment explanation
Indices: 864548--864604 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
864538 GTATGATTTT
*
864548 GAAATAAATCGAAGTTTAGGTACTAAAA
1 GAAATAAATCGAAGTTTAAGTACTAAAA
*
864576 GAAATAAAATTGATAGTTTAAGTACTAAA
1 GAAAT-AAATCGA-AGTTTAAGTACTAAA
864605 TATGTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 6 0.24
30 14 0.56
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (28 bp):
GAAATAAATCGAAGTTTAAGTACTAAAA
Found at i:866412 original size:12 final size:12
Alignment explanation
Indices: 866397--866457 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
866387 TACACACACA
866397 TATATATATAAG
1 TATATATATAAG
*
866409 TATATACATAAG
1 TATATATATAAG
* *
866421 TATATATGTAAT
1 TATATATATAAG
*
866433 TAACAATTATATAAG
1 T-A-TA-TATATAAG
866448 TATATATATA
1 TATATATATA
866458 TAAAGTATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
12 27 0.71
13 2 0.05
14 2 0.05
15 7 0.18
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (12 bp):
TATATATATAAG
Found at i:866453 original size:2 final size:2
Alignment explanation
Indices: 866448--866558 Score: 73
Period size: 2 Copynumber: 55.5 Consensus size: 2
866438 ATTATATAAG
* * * * *
866448 TA TA TA TA TA TA AA GTA TA AA TA TA CA TA TG CA TA GTA TA T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * * *
866491 TA TA TA TA TA TG TA TA TG TA TA AA TA TA TT TA TG CA 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
* *
866533 AA TA TA TA TA -A TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
866559 TATTTGATCC
Statistics
Matches: 79, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
1 2 0.03
2 74 0.94
3 3 0.04
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (2 bp):
TA
Found at i:868644 original size:14 final size:14
Alignment explanation
Indices: 868627--868671 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
868617 TTAAAGAAAT
868627 TAATTTAATGATTA
1 TAATTTAATGATTA
868641 TAA-TTAA-GATTA
1 TAATTTAATGATTA
* *
868653 TAATATAATAATTA
1 TAATTTAATGATTA
868667 TAATT
1 TAATT
868672 AATATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 8 0.31
13 7 0.27
14 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
TAATTTAATGATTA
Found at i:868672 original size:20 final size:21
Alignment explanation
Indices: 868627--868672 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
868617 TTAAAGAAAT
*
868627 TAATT-TAATGATTATAATTA
1 TAATTATAATGATAATAATTA
868647 -AGATTATAAT-ATAATAATTA
1 TA-ATTATAATGATAATAATTA
868667 TAATTA
1 TAATTA
868673 ATATATAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.05
20 16 0.73
21 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TAATTATAATGATAATAATTA
Found at i:869275 original size:32 final size:32
Alignment explanation
Indices: 869232--869293 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
869222 AGTTTTTGTC
*
869232 AAAATAGTACCTTAAACTATTAATTGACTAAT
1 AAAATAATACCTTAAACTATTAATTGACTAAT
869264 AAAATAATACCTTAAACTATTAATTGACTA
1 AAAATAATACCTTAAACTATTAATTGACTA
869294 GTGATCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (32 bp):
AAAATAATACCTTAAACTATTAATTGACTAAT
Found at i:869334 original size:2 final size:2
Alignment explanation
Indices: 869322--869391 Score: 112
Period size: 2 Copynumber: 37.0 Consensus size: 2
869312 TGATATGATA
869322 AT AT AT A- AT AT AT AT -T AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
869361 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
869392 CGGTGATGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
1 4 0.06
2 60 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:869351 original size:19 final size:19
Alignment explanation
Indices: 869322--869391 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
869312 TGATATGATA
869322 ATATATA-ATATATATTAT
1 ATATATATATATATATTAT
*
869340 ATATATATATATATAATAT
1 ATATATATATATATATTAT
869359 ATATATATATATATA-TAT
1 ATATATATATATATATTAT
869377 ATATAT-TATATATAT
1 ATATATATATATATAT
869392 CGGTGATGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
17 8 0.16
18 16 0.33
19 25 0.51
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATATATATATATTAT
Found at i:872384 original size:119 final size:119
Alignment explanation
Indices: 872173--872410 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
872163 TACTAAGAAT
872173 CAGCTGCCATCCCATGCATTTTAAAAGGGAGAAAACAAACCTGTTTTAGATATCAGGTTTCGTGA
1 CAGCTGCCATCCCATGCATTTTAAAAGGGAGAAAACAAACCTGTTTTAGATATCAGGTTTCGTGA
872238 GAAATAAATGGTTTATTATGATATTAAAAAGAGAAAATCGCCTCAGTGACCAAA
66 GAAATAAATGGTTTATTATGATATTAAAAAGAGAAAATCGCCTCAGTGACCAAA
872292 CAGCTGCCATCCCATGCATTTTAAAAGGGAGAAAACAAACCTGTTTTAGATATCAGGTTTCGTGA
1 CAGCTGCCATCCCATGCATTTTAAAAGGGAGAAAACAAACCTGTTTTAGATATCAGGTTTCGTGA
872357 GAAATAAATGGTTTATTATGATATTAAAAAGAGAAAATCGCCTCAGTGACCAAA
66 GAAATAAATGGTTTATTATGATATTAAAAAGAGAAAATCGCCTCAGTGACCAAA
872411 AATGCCTTAT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (119 bp):
CAGCTGCCATCCCATGCATTTTAAAAGGGAGAAAACAAACCTGTTTTAGATATCAGGTTTCGTGA
GAAATAAATGGTTTATTATGATATTAAAAAGAGAAAATCGCCTCAGTGACCAAA
Found at i:872620 original size:20 final size:21
Alignment explanation
Indices: 872595--872646 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
872585 TTTTCCCAAT
*
872595 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
872615 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
872636 TCGCAATGCGA
1 TCGCAATGCGA
872647 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:872660 original size:20 final size:20
Alignment explanation
Indices: 872635--872748 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
872625 AATTGGGAAA
*
872635 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
872655 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * **
872675 ATCGCAATGCGATAATGCAAA
1 ATCGCAACGCGATACTG-ACT
*
872696 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
872716 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
872736 TTCGCAACGCGAT
1 ATCGCAACGCGAT
872749 TTACATAGCG
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 65 0.81
21 15 0.19
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:872679 original size:61 final size:61
Alignment explanation
Indices: 872614--872748 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
872604 GAATAAGTAA
* * * * * *
872614 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAAT-GCAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
* * *
872675 ATCGCAATGCGATAATGCAAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATGCAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
*
872736 TTCGCAACGCGAT
1 ATCGCAACGCGAT
872749 TTACATAGCG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATAATGCAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACT
Found at i:872700 original size:41 final size:40
Alignment explanation
Indices: 872635--872728 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 40
872625 AATTGGGAAA
* ** * * *
872635 ATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAATGAAAATCGCAACGAGATACTGACT
872675 ATCGCAATGCGATAATGCAAAATCGCAACGAGATACTGACT
1 ATCGCAATGCGATAATG-AAAATCGCAACGAGATACTGACT
* *
872716 TTCGCAACGCGAT
1 ATCGCAATGCGAT
872729 TCTGACTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 16 0.36
41 29 0.64
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (40 bp):
ATCGCAATGCGATAATGAAAATCGCAACGAGATACTGACT
Found at i:873062 original size:131 final size:127
Alignment explanation
Indices: 872832--873087 Score: 476
Period size: 131 Copynumber: 2.0 Consensus size: 127
872822 CTGAACCGTC
872832 CAGTAATCGCAACTCATAACCTCAAACCCAAAATCACACTCAGTCCATCTCCATCTCTCACTCTC
1 CAGTAATCGCAACTCATAACCTCAAACCCAAAATCACACTCAGTCCATCTCCATCTCTCACTCTC
872897 TACGGCGAAATCCGTCCCCATCTCCAAAGATTTCCGTCCCCATCGCCGGCGAAATCCCTCCA
66 TACGGCGAAATCCGTCCCCATCTCCAAAGATTTCCGTCCCCATCGCCGGCGAAATCCCTCCA
872959 CAGTAATCGCAACTCATAACCTCAAACCCAAAATCACAACACTCAGTCCCATCTCCATCTCTCAC
1 CAGTAATCGCAACTCATAACCTCAAACCCAAAAT--C-ACACTCAGT-CCATCTCCATCTCTCAC
873024 TCTCTACGGCGAAATCCGTCCCCATCTCCAAAGATTTCCGTCCCCATCGCCGGCGAAATCCCTC
62 TCTCTACGGCGAAATCCGTCCCCATCTCCAAAGATTTCCGTCCCCATCGCCGGCGAAATCCCTC
873088 ACAACCATTC
Statistics
Matches: 125, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
127 34 0.27
129 1 0.01
130 9 0.07
131 81 0.65
ACGTcount: A:0.28, C:0.41, G:0.10, T:0.21
Consensus pattern (127 bp):
CAGTAATCGCAACTCATAACCTCAAACCCAAAATCACACTCAGTCCATCTCCATCTCTCACTCTC
TACGGCGAAATCCGTCCCCATCTCCAAAGATTTCCGTCCCCATCGCCGGCGAAATCCCTCCA
Found at i:873441 original size:19 final size:19
Alignment explanation
Indices: 873417--873460 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
873407 GCAACGAGAG
*
873417 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
873436 AATCGC-ACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
873454 AATCGCA
1 AATCGCA
873461 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:873481 original size:19 final size:19
Alignment explanation
Indices: 873456--873525 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
873446 GAAACCAAAA
873456 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
873475 TCACATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
873494 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
873513 TCGCGTTGCGATT
1 TCGCATTGCGATT
873526 CTCTCGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:873536 original size:38 final size:37
Alignment explanation
Indices: 873461--873620 Score: 138
Period size: 33 Copynumber: 4.4 Consensus size: 37
873451 CAAAATCGCA
* * * *
873461 TTGCGATTTTCATTTCACATTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCATCTC-CG
873499 TTGCGATTTTCATTTCGCGTTGCGA-T-TC-TCT-CG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCATCTCCG
* **
873532 TCGCGATAGTCATTTCGCGTTGCGA-T-TC-TCT-CG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCATCTCCG
** *
873565 TTGCGATAGTCATTTCCGCGTTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATTT-CGCGTTGCGATTCTCA-TCTC-CG
873605 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
873621 AACCAAAAGA
Statistics
Matches: 105, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
33 46 0.44
34 10 0.10
35 3 0.03
36 4 0.04
37 1 0.01
38 25 0.24
39 1 0.01
40 15 0.14
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (37 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCATCTCCG
Found at i:873538 original size:33 final size:33
Alignment explanation
Indices: 873508--873595 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
873498 GTTGCGATTT
873508 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
873541 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
873574 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
873596 ATTATCTCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.72
34 15 0.28
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:874486 original size:17 final size:18
Alignment explanation
Indices: 874464--874513 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
874454 AGAATTTCTA
874464 TATAATGTTTTTAA-AAT
1 TATAATGTTTTTAACAAT
874481 TATAAT-TAATTCTTAACAAT
1 TATAATGT--TT-TTAACAAT
874501 TACTAATGTTTTT
1 TA-TAATGTTTTT
874514 TTATATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
16 1 0.04
17 6 0.22
18 2 0.07
19 6 0.22
20 7 0.26
21 4 0.15
22 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (18 bp):
TATAATGTTTTTAACAAT
Done.