Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008512.1 Hibiscus syriacus cultivar Beakdansim tig00111372_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: 1759229
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:677446 original size:3 final size:3
Alignment explanation
Indices: 677433--677495 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
677423 TTATTTGCAA
* *
677433 TAT TAT T-T TAT TAT TAT TAT TAT TAT TTT TAAT TAT TAT T-T CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* *
677477 TAT TTT TAT TTT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
677496 TATATAAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 3 0.06
3 44 0.90
4 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:677479 original size:33 final size:34
Alignment explanation
Indices: 677433--677497 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
677423 TTATTTGCAA
*
677433 TATTATTTTATTATTATTATTATTATT-TTTAAT
1 TATTATTTCATTATTATTATTATTATTATTTAAT
* *
677466 TATTATTTCATTATTTTTATTTTTATTATTTA
1 TATTATTTCATTATTATTATTATTATTATTTA
677498 TATAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (34 bp):
TATTATTTCATTATTATTATTATTATTATTTAAT
Found at i:685641 original size:27 final size:27
Alignment explanation
Indices: 685582--685633 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
685572 CCTGGATCAA
* *
685582 AACAGTATCAAGATCCTGGGAAGAAAT
1 AACAGTAGCAAGAGCCTGGGAAGAAAT
685609 AACAGTAGCAAGAGCCTGGGAAGAA
1 AACAGTAGCAAGAGCCTGGGAAGAA
685634 TTAGCAGTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.13
Consensus pattern (27 bp):
AACAGTAGCAAGAGCCTGGGAAGAAAT
Found at i:701667 original size:38 final size:38
Alignment explanation
Indices: 701615--701710 Score: 140
Period size: 38 Copynumber: 2.5 Consensus size: 38
701605 GTATAAACTA
* *
701615 TGTCCC-AAAGGACCTATCATCCCAAAGGATGTCATCTG
1 TGTCCCGAAA-GACCTATCATCCCAAAGGATGTAATATG
* *
701653 TGTCCCGAAAGACCTATCATCTCGAAGGATGTAATATG
1 TGTCCCGAAAGACCTATCATCCCAAAGGATGTAATATG
701691 TGTCCCGAAAGACCTATCAT
1 TGTCCCGAAAGACCTATCAT
701711 ATGTCTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 50 0.94
39 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAAGACCTATCATCCCAAAGGATGTAATATG
Found at i:704108 original size:13 final size:13
Alignment explanation
Indices: 704090--704115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
704080 ATATTGAATC
704090 TCTTTTGTTTGGA
1 TCTTTTGTTTGGA
704103 TCTTTTGTTTGGA
1 TCTTTTGTTTGGA
704116 ATTAAAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.23, T:0.62
Consensus pattern (13 bp):
TCTTTTGTTTGGA
Found at i:708397 original size:38 final size:38
Alignment explanation
Indices: 708355--708450 Score: 165
Period size: 38 Copynumber: 2.5 Consensus size: 38
708345 GTATAAACTA
* *
708355 TGTCCCAAAGGACCTATCATCCCAAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCAAAGGATGTAATCTG
*
708393 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCAAAGGATGTAATCTG
708431 TGTCCCGAAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
708451 ATGTCTCGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCAAAGGATGTAATCTG
Found at i:708455 original size:21 final size:20
Alignment explanation
Indices: 708352--708455 Score: 67
Period size: 21 Copynumber: 5.3 Consensus size: 20
708342 CTCGTATAAA
*
708352 CTATGTCCCAAAGGACCTAT
1 CTATGTCCCGAAGGACCTAT
* **
708372 C-A--TCCCAAAGGATGTCAT
1 CTATGTCCCGAAGGACCT-AT
*
708390 CTGTGTCCCGAAGGACCTAT
1 CTATGTCCCGAAGGACCTAT
**
708410 C-A--TCCCGAAGGATGTAAT
1 CTATGTCCCGAAGGACCT-AT
*
708428 CTGTGTCCCGAAGGACCTAT
1 CTATGTCCCGAAGGACCTAT
708448 CATATGTC
1 C-TATGTC
708456 TCGTAGGACA
Statistics
Matches: 62, Mismatches: 13, Indels: 17
0.67 0.14 0.18
Matches are distributed among these distances:
17 22 0.35
18 6 0.10
19 1 0.02
20 7 0.11
21 26 0.42
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
CTATGTCCCGAAGGACCTAT
Found at i:716612 original size:34 final size:32
Alignment explanation
Indices: 716550--716619 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
716540 CCTTACAAAC
* *
716550 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
716582 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
716616 TCCC
1 TCCC
716620 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:716928 original size:21 final size:21
Alignment explanation
Indices: 716902--716943 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
716892 CCATAATGGG
*
716902 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
716923 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
716944 ATATATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:717172 original size:30 final size:31
Alignment explanation
Indices: 717125--717215 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
717115 AAATTTTGAA
717125 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
717154 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
717185 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
717216 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:721268 original size:21 final size:21
Alignment explanation
Indices: 721240--721305 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
721230 CGCAACATAG
*
721240 TTTT-TAAATTCGTAACGCTA
1 TTTTCTAAATTCGTAACGCGA
* **
721260 TTTTCTAAATTCATAATACGA
1 TTTTCTAAATTCGTAACGCGA
*
721281 TTTTCTAAATTCGCAACGCGA
1 TTTTCTAAATTCGTAACGCGA
721302 TTTT
1 TTTT
721306 TCAAATTTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (21 bp):
TTTTCTAAATTCGTAACGCGA
Found at i:721291 original size:42 final size:41
Alignment explanation
Indices: 721240--721343 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 41
721230 CGCAACATAG
* *
721240 TTTTTAAATTCGTAACGCTA-TTTTCTAAATTCATAATACGA
1 TTTTTAAATTCGCAACGCTATTTTTC-AAATTCAAAATACGA
* *
721281 TTTTCTAAATTCGCAACGCGATTTTTCAAATTTAAAATACGA
1 TTTT-TAAATTCGCAACGCTATTTTTCAAATTCAAAATACGA
*
721323 TTTTTTAAATTTGCAACGCTA
1 -TTTTTAAATTCGCAACGCTA
721344 ATTACCGATA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 4 0.07
42 41 0.76
43 9 0.17
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (41 bp):
TTTTTAAATTCGCAACGCTATTTTTCAAATTCAAAATACGA
Found at i:721392 original size:37 final size:37
Alignment explanation
Indices: 721335--721413 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
721325 TTTTAAATTT
* *
721335 GCAACGCTAATTACCGATATAGGTAAACACAACTATC
1 GCAACGCTAATTACCAATATAAGTAAACACAACTATC
** *
721372 GCAACGCTAATTATTAATATAAGTAAACACAATTATC
1 GCAACGCTAATTACCAATATAAGTAAACACAACTATC
721409 GCAAC
1 GCAAC
721414 ACGAATTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (37 bp):
GCAACGCTAATTACCAATATAAGTAAACACAACTATC
Found at i:721973 original size:57 final size:57
Alignment explanation
Indices: 721885--721997 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
721875 AATTCGATTT
* * * *
721885 ACGAAATTCGCGTTGCGATAGTTGTGTTTACCTATGTCAG-TAATTAACGTTGCGAAA
1 ACGAAATTCACGTTGCGATAGTGGTGTTTACCTATATC-GTTAATTAACATTGCGAAA
*
721942 ACGAAATTCACGTTGGGATAGTGGTGTTTACCTATATCGTTAATTAACATTGCGAA
1 ACGAAATTCACGTTGCGATAGTGGTGTTTACCTATATCGTTAATTAACATTGCGAA
721998 TTTAGAAACT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
56 1 0.02
57 49 0.98
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (57 bp):
ACGAAATTCACGTTGCGATAGTGGTGTTTACCTATATCGTTAATTAACATTGCGAAA
Found at i:725863 original size:23 final size:25
Alignment explanation
Indices: 725820--725865 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
725810 TGGTATTAAA
725820 TTTAAAATATTAAATTCAAATAATT
1 TTTAAAATATTAAATTCAAATAATT
*
725845 TTTAACATA-TAAATT-AAATAA
1 TTTAAAATATTAAATTCAAATAA
725866 AAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTAAAATATTAAATTCAAATAATT
Found at i:726691 original size:32 final size:33
Alignment explanation
Indices: 726648--726724 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
726638 TTTATTTTGT
* *
726648 TCGGGTTGGGTTTTTT-AAGTGTTATATTCGGG
1 TCGGGTCGGGTTTTTTAAAGTGTGATATTCGGG
726680 TCGGGTCGGGTTTTTTAAAGTGTGATATTCGGG
1 TCGGGTCGGGTTTTTTAAAGTGTGATATTCGGG
*
726713 TTGGGTCGGGTT
1 TCGGGTCGGGTT
726725 CGGGTTTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 15 0.37
33 26 0.63
ACGTcount: A:0.12, C:0.08, G:0.38, T:0.43
Consensus pattern (33 bp):
TCGGGTCGGGTTTTTTAAAGTGTGATATTCGGG
Found at i:728744 original size:18 final size:18
Alignment explanation
Indices: 728723--728757 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
728713 AATAAAATTT
* *
728723 TAAAATAGATATAATCAG
1 TAAAATAAATAAAATCAG
728741 TAAAATAAATAAAATCA
1 TAAAATAAATAAAATCA
728758 AAGTTTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
TAAAATAAATAAAATCAG
Found at i:730716 original size:15 final size:15
Alignment explanation
Indices: 730696--730743 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
730686 TTAGCTGGGT
*
730696 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
*
730711 GGGCGGATGCGGGCC
1 GGGCGGATGCGGGGC
*
730726 AGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
730741 GGG
1 GGG
730744 TAATGTCTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.08, C:0.19, G:0.65, T:0.08
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:731586 original size:9 final size:9
Alignment explanation
Indices: 731572--731627 Score: 94
Period size: 9 Copynumber: 6.0 Consensus size: 9
731562 ATAACATGCT
731572 TTAAAAAAA
1 TTAAAAAAA
731581 TTAAAAAAA
1 TTAAAAAAA
731590 TTAAAAAAA
1 TTAAAAAAA
731599 TTAAAAAAAA
1 TT-AAAAAAA
731609 TTAAAAAAAA
1 TT-AAAAAAA
731619 TTAAAAAAA
1 TTAAAAAAA
731628 AAATTAAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
9 27 0.59
10 19 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:731589 original size:10 final size:10
Alignment explanation
Indices: 731574--731628 Score: 96
Period size: 10 Copynumber: 5.7 Consensus size: 10
731564 AACATGCTTT
731574 AAAAAAATT-
1 AAAAAAATTA
731583 AAAAAAATT-
1 AAAAAAATTA
731592 AAAAAAATTA
1 AAAAAAATTA
731602 AAAAAAATTA
1 AAAAAAATTA
731612 AAAAAAATTA
1 AAAAAAATTA
731622 AAAAAAA
1 AAAAAAA
731629 AATTAAACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
9 18 0.40
10 27 0.60
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:731593 original size:18 final size:18
Alignment explanation
Indices: 731572--731627 Score: 94
Period size: 19 Copynumber: 3.0 Consensus size: 18
731562 ATAACATGCT
731572 TTAAAAAAATTAAAAAAA
1 TTAAAAAAATTAAAAAAA
731590 TTAAAAAAATTAAAAAAAA
1 TTAAAAAAATT-AAAAAAA
731609 TTAAAAAAAATTAAAAAAA
1 TT-AAAAAAATTAAAAAAA
731628 AAATTAAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.31
19 16 0.44
20 9 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
TTAAAAAAATTAAAAAAA
Found at i:731818 original size:91 final size:91
Alignment explanation
Indices: 731663--731845 Score: 366
Period size: 91 Copynumber: 2.0 Consensus size: 91
731653 ATAATTTAAT
731663 ACATAGTAGTTCCATAAGTTGAAGAGTTTAATGGGGTTTTATATAGGAATATTATAGTGTTTAGG
1 ACATAGTAGTTCCATAAGTTGAAGAGTTTAATGGGGTTTTATATAGGAATATTATAGTGTTTAGG
731728 TTGTGTTTTTTGACAATGTGGGATAA
66 TTGTGTTTTTTGACAATGTGGGATAA
731754 ACATAGTAGTTCCATAAGTTGAAGAGTTTAATGGGGTTTTATATAGGAATATTATAGTGTTTAGG
1 ACATAGTAGTTCCATAAGTTGAAGAGTTTAATGGGGTTTTATATAGGAATATTATAGTGTTTAGG
731819 TTGTGTTTTTTGACAATGTGGGATAA
66 TTGTGTTTTTTGACAATGTGGGATAA
731845 A
1 A
731846 AGTTAAAATG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.40
Consensus pattern (91 bp):
ACATAGTAGTTCCATAAGTTGAAGAGTTTAATGGGGTTTTATATAGGAATATTATAGTGTTTAGG
TTGTGTTTTTTGACAATGTGGGATAA
Found at i:734620 original size:35 final size:35
Alignment explanation
Indices: 734579--734652 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
734569 TTTATATTTC
* * *
734579 TTTTTAAGTTTTAAT-TTTGGATTATGTAATTTAGA
1 TTTTTAAATTTT-ATGTTTAGATAATGTAATTTAGA
*
734614 TTTTTAAATTTTATGTTTAGATAATGTAATTTATA
1 TTTTTAAATTTTATGTTTAGATAATGTAATTTAGA
734649 TTTT
1 TTTT
734653 ATTTTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (35 bp):
TTTTTAAATTTTATGTTTAGATAATGTAATTTAGA
Found at i:735651 original size:31 final size:31
Alignment explanation
Indices: 735616--735684 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
735606 CTATAATTGA
735616 GTTGGTGTCTCAAGTCATGTGATACCAACTC
1 GTTGGTGTCTCAAGTCATGTGATACCAACTC
735647 GTTGGTGTCTCAAGTCATGTGATACCAACTC
1 GTTGGTGTCTCAAGTCATGTGATACCAACTC
735678 GTTGGTG
1 GTTGGTG
735685 CAATTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (31 bp):
GTTGGTGTCTCAAGTCATGTGATACCAACTC
Found at i:739362 original size:77 final size:77
Alignment explanation
Indices: 739235--739394 Score: 320
Period size: 77 Copynumber: 2.1 Consensus size: 77
739225 TTTTATGTTC
739235 GGAGATGTTCTATAGGGGCTTTAACCAAGGAGTTCTCTAGAGGTCTTATCTTGATGTACGAAGAA
1 GGAGATGTTCTATAGGGGCTTTAACCAAGGAGTTCTCTAGAGGTCTTATCTTGATGTACGAAGAA
739300 TGATCTTACATA
66 TGATCTTACATA
739312 GGAGATGTTCTATAGGGGCTTTAACCAAGGAGTTCTCTAGAGGTCTTATCTTGATGTACGAAGAA
1 GGAGATGTTCTATAGGGGCTTTAACCAAGGAGTTCTCTAGAGGTCTTATCTTGATGTACGAAGAA
739377 TGATCTTACATA
66 TGATCTTACATA
739389 GGAGAT
1 GGAGAT
739395 TCAGAGGATG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (77 bp):
GGAGATGTTCTATAGGGGCTTTAACCAAGGAGTTCTCTAGAGGTCTTATCTTGATGTACGAAGAA
TGATCTTACATA
Found at i:740234 original size:28 final size:29
Alignment explanation
Indices: 740190--740247 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
740180 CCTAAATTAA
740190 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
740219 TTTGATGT-ATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
740247 T
1 T
740248 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:744910 original size:29 final size:29
Alignment explanation
Indices: 744876--744934 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
744866 CCTAAATTAA
744876 TTTGATGTCATTGATTACATCAATTTAGT
1 TTTGATGTCATTGATTACATCAATTTAGT
*
744905 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGATTACATCAATTTAGT
744934 T
1 T
744935 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGATTACATCAATTTAGT
Found at i:754025 original size:2 final size:2
Alignment explanation
Indices: 754018--754060 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
754008 TTTTACAAGT
754018 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
754060 T
1 T
754061 GAGTCCTTGA
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:759622 original size:2 final size:2
Alignment explanation
Indices: 759617--759643 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
759607 TCCATTTTCC
759617 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
759644 TCGTAACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:760078 original size:20 final size:20
Alignment explanation
Indices: 760053--760186 Score: 169
Period size: 20 Copynumber: 6.7 Consensus size: 20
760043 CTAGCGCAAA
*
760053 TTCGCGTTGCGATTTTTCAT
1 TTCGCGTTGCGATTTTCCAT
* *
760073 TTCGCGTTGTGATTTTCCAG
1 TTCGCGTTGCGATTTTCCAT
* ** *
760093 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGAT-TTTCCAT
*
760114 ATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
760134 TTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
**
760154 TTCATGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
760174 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
760187 AGTCTACAGT
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
20 80 0.84
21 15 0.16
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.43
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAT
Found at i:760206 original size:22 final size:22
Alignment explanation
Indices: 760178--760249 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
760168 TTCCATTTCG
760178 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
760200 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
760219 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
760241 CGTTGCGAT
1 CGTTGCGAT
760250 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:760223 original size:19 final size:19
Alignment explanation
Indices: 760199--760268 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
760189 TCTACAGTTG
760199 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
760218 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
760239 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
760259 TCGTTGCGAT
1 TCGTTGCGAT
760269 AGTTAAGTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 20 0.50
20 5 0.12
21 5 0.12
22 10 0.25
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:760223 original size:81 final size:80
Alignment explanation
Indices: 760051--760227 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 80
760041 CACTAGCGCA
* * *
760051 AATTCGCGTTGCGATTTTTCATTTCGCGTTGTGATTTTCCAGTTCGCGTTGCGATAGTTGAAAAT
1 AATTC-CGTTGCGATTTTCCATTTCACGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAAT
760116 CGCGTTGCGATTTTCC
65 CGCGTTGCGATTTTCC
* * * * *
760132 ATTTCGCGTTGCGATTTTCCATTTCATGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAG
1 AATTC-CGTTGCGATTTTCCATTTCACGTTGCGATTTTCCAGTTCGCGTTGCGATAGT-TGAAAA
*
760196 TTGTCGTTGCGATTTTCC
64 TCG-CGTTGCGATTTTCC
760214 AAATT-CGTTGCGAT
1 -AATTCCGTTGCGAT
760228 AGTCTACAGT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
81 65 0.78
82 15 0.18
83 3 0.04
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (80 bp):
AATTCCGTTGCGATTTTCCATTTCACGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATC
GCGTTGCGATTTTCC
Found at i:760232 original size:41 final size:41
Alignment explanation
Indices: 760159--760271 Score: 192
Period size: 41 Copynumber: 2.7 Consensus size: 41
760149 TCCATTTCAT
*
760159 GTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAGTTGTC
1 GTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGTC
760201 GTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTC
1 GTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTC
760242 GTTGCGATTTTCCAAATTCGTTGCGATAGT
1 GTTGCGATTTTCCAAATTCGTTGCGATAGT
760272 TAAGTATTAC
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
41 53 0.77
42 13 0.19
43 3 0.04
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (41 bp):
GTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTC
Found at i:760814 original size:6 final size:6
Alignment explanation
Indices: 760793--760829 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
760783 GTTTGTCTCG
760793 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
760830 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.16, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:760956 original size:22 final size:22
Alignment explanation
Indices: 760928--761002 Score: 141
Period size: 22 Copynumber: 3.4 Consensus size: 22
760918 AATTTGGAAA
760928 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
760950 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
760972 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
760994 ATCGCAACG
1 ATCGCAACG
761003 CGAAATGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:761019 original size:20 final size:20
Alignment explanation
Indices: 760994--761038 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
760984 ACTGTAGACT
*
760994 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
761014 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
761034 ATCGC
1 ATCGC
761039 GATTTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (20 bp):
ATCGCAACGCGAAATGAAAA
Found at i:761082 original size:41 final size:41
Alignment explanation
Indices: 761014--761156 Score: 233
Period size: 41 Copynumber: 3.6 Consensus size: 41
761004 GAAATGGAAA
*
761014 ATCGCAACGCGAAATGAAAAAT--C---GCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
761050 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
761091 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
*
761132 ATCGCAATGCGAAATGGAAAATCGC
1 ATCGCAACGCGAAATGGAAAATCGC
761157 AACGCGAATT
Statistics
Matches: 100, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
36 21 0.21
38 1 0.01
41 78 0.78
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
Found at i:761142 original size:21 final size:21
Alignment explanation
Indices: 761037--761143 Score: 56
Period size: 21 Copynumber: 5.2 Consensus size: 21
761027 ATGAAAAATC
*
761037 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAT
** ** * **
761058 GCGAAATGGAA-AATCGCGTT
1 GCGATTTTCAACTATCGCAAT
*
761078 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAT
** ** * **
761099 GCGAAATGGAA-AATCGCGTT
1 GCGATTTTCAACTATCGCAAT
761119 GCGATTTTCAACTATCGCAAT
1 GCGATTTTCAACTATCGCAAT
761140 GCGA
1 GCGA
761144 AATGGAAAAT
Statistics
Matches: 53, Mismatches: 31, Indels: 4
0.60 0.35 0.05
Matches are distributed among these distances:
20 24 0.45
21 29 0.55
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAT
Found at i:761304 original size:2 final size:2
Alignment explanation
Indices: 761297--761390 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
761287 TTATTTTCTC
761297 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
761339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
761381 AT AT AT AT AT
1 AT AT AT AT AT
761391 GCTATTAGTG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:763933 original size:44 final size:44
Alignment explanation
Indices: 763871--763973 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 44
763861 ATCGATTATT
* *
763871 TAAAA-ATTATAAATTATTACTTACGCATTACTTTTATTAACAA
1 TAAAACATTATAAATTATTACTTACACATGACTTTTATTAACAA
* *
763914 TAAAACATTGTAAATTATTACTTACATATGACTTTTATTAACAA
1 TAAAACATTATAAATTATTACTTACACATGACTTTTATTAACAA
**
763958 TTTAACATTATAAATT
1 TAAAACATTATAAATT
763974 GATAAAGATC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 5 0.10
44 47 0.90
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.43
Consensus pattern (44 bp):
TAAAACATTATAAATTATTACTTACACATGACTTTTATTAACAA
Found at i:764458 original size:15 final size:15
Alignment explanation
Indices: 764438--764467 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
764428 GTTGATAGCT
764438 ATTATCAGAAAGGGG
1 ATTATCAGAAAGGGG
764453 ATTATCAGAAAGGGG
1 ATTATCAGAAAGGGG
764468 GTCAAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (15 bp):
ATTATCAGAAAGGGG
Found at i:770080 original size:30 final size:30
Alignment explanation
Indices: 770040--770096 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
770030 TACCCCTTTT
770040 CAAAAAAATATT-AATAATTGAGGGAATCAA
1 CAAAAAAATATTCAATAATT-AGGGAATCAA
* *
770070 CAAAACAATATTCTATAATTAGGGAAT
1 CAAAAAAATATTCAATAATTAGGGAAT
770097 TATTTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (30 bp):
CAAAAAAATATTCAATAATTAGGGAATCAA
Found at i:771656 original size:41 final size:41
Alignment explanation
Indices: 771599--771686 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
771589 AGATTTATAT
771599 ATGATGATAATATAGTTTATGTTTGTTCAACCCAACAATTA
1 ATGATGATAATATAGTTTATGTTTGTTCAACCCAACAATTA
771640 ATGATGATAATATAGTTTATGTTTGTTCAACCCAACAATTA
1 ATGATGATAATATAGTTTATGTTTGTTCAACCCAACAATTA
771681 AT-ATGA
1 ATGATGA
771687 ATTTCTAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGATGATAATATAGTTTATGTTTGTTCAACCCAACAATTA
Found at i:771873 original size:10 final size:11
Alignment explanation
Indices: 771855--771887 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
771845 TCATACTATG
771855 TTATTTTTTTC
1 TTATTTTTTTC
771866 TT-TTTTTTTC
1 TTATTTTTTTC
771876 TTGATTTTTTTC
1 TT-ATTTTTTTC
771888 AATTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 2 0.10
12 8 0.40
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.82
Consensus pattern (11 bp):
TTATTTTTTTC
Found at i:773415 original size:14 final size:14
Alignment explanation
Indices: 773398--773431 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
773388 GAGTTTTAAA
773398 TTAGAGATTAAGGT
1 TTAGAGATTAAGGT
* *
773412 TTAGAGTTTAGGGT
1 TTAGAGATTAAGGT
773426 TTAGAG
1 TTAGAG
773432 GCTATAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (14 bp):
TTAGAGATTAAGGT
Found at i:777247 original size:29 final size:30
Alignment explanation
Indices: 777189--777247 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
777179 ATAATTAAAA
* *
777189 AATAAAAGAAAAAAGAAAAAAATATGATAT
1 AATAAAAGAAAAAAGAAAAAAAGATAATAT
*
777219 AATAAAA-AGAAAAGAAAAAAGAGA-AATAT
1 AATAAAAGAAAAAAGAAAAAA-AGATAATAT
777248 CGACGGAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (30 bp):
AATAAAAGAAAAAAGAAAAAAAGATAATAT
Found at i:777567 original size:35 final size:34
Alignment explanation
Indices: 777523--777635 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
777513 AAAACAATTC
*
777523 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
777558 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
777593 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
777628 TCAATTTC
1 TCAATTTC
777636 TGTCTTTTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:778702 original size:35 final size:34
Alignment explanation
Indices: 778654--778765 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
778644 ATTTCTCCTT
*
778654 AAATTGAAGTATTTTAGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTAGGGTTTAGAATG
*
778689 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTAGGGTTTAGAATG
* *
778724 AAATTGAATTACTTTGAAATTT-GGGATTTATAATG
1 AAATTGAATTATTTTG-AATTTAGGG-TTTAGAATG
778759 AAATTGA
1 AAATTGA
778766 GGAATGTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 4 0.06
35 65 0.94
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGAATTTAGGGTTTAGAATG
Found at i:779526 original size:29 final size:29
Alignment explanation
Indices: 779452--779516 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
779442 CGAGCAGCAG
779452 CAAGAATAAAACCCCAAACTGAGTGATCC
1 CAAGAATAAAACCCCAAACTGAGTGATCC
779481 CAAGAATAAAACCCCAAACTGAGTGATCC
1 CAAGAATAAAACCCCAAACTGAGTGATCC
779510 CAAGAAT
1 CAAGAAT
779517 GATTAGCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (29 bp):
CAAGAATAAAACCCCAAACTGAGTGATCC
Found at i:783201 original size:27 final size:27
Alignment explanation
Indices: 783150--783201 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
783140 AGAGGATGTT
* **
783150 GGAGTGGAAGACGAAGACGGGGAAGGG
1 GGAGAGGAAGACGAAGACGAAGAAGGG
783177 GGAGAGGAAGACGAAGACGAAGAAG
1 GGAGAGGAAGACGAAGACGAAGAAG
783202 AGGCTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.50, T:0.02
Consensus pattern (27 bp):
GGAGAGGAAGACGAAGACGAAGAAGGG
Found at i:788512 original size:18 final size:18
Alignment explanation
Indices: 788478--788524 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
788468 TAACATTTTC
*
788478 ATATATTTTCCAACAATTG
1 ATATATTTT-TAACAATTG
*
788497 GTATATTTTTAACAATTG
1 ATATATTTTTAACAATTG
*
788515 ATATCTTTTT
1 ATATATTTTT
788525 CATTAAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (18 bp):
ATATATTTTTAACAATTG
Found at i:788766 original size:20 final size:20
Alignment explanation
Indices: 788743--788805 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
788733 AAGTGTATTG
788743 ATACACCCTGCAGTGTATCC
1 ATACACCCTGCAGTGTATCC
788763 ATACA--CTG--GTGTA-CC
1 ATACACCCTGCAGTGTATCC
*
788778 GATACACCCTGCATTGTATCC
1 -ATACACCCTGCAGTGTATCC
788799 ATACACC
1 ATACACC
788806 TATGACTGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
15 2 0.06
16 10 0.28
18 6 0.17
20 16 0.44
21 2 0.06
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.25
Consensus pattern (20 bp):
ATACACCCTGCAGTGTATCC
Found at i:789874 original size:18 final size:19
Alignment explanation
Indices: 789853--789896 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
789843 GTTGTTTTTA
*
789853 AAATAAAAGATAAA-AATT
1 AAATAAAAGAAAAATAATT
789871 AAATAAAAGAAAAATAATT
1 AAATAAAAGAAAAATAATT
789890 AAATAAA
1 AAATAAA
789897 TAATCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (19 bp):
AAATAAAAGAAAAATAATT
Found at i:790895 original size:2 final size:2
Alignment explanation
Indices: 790888--790912 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
790878 TGAAAATTGA
790888 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 A
790913 GTTAGTTAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:800454 original size:5 final size:5
Alignment explanation
Indices: 800444--800498 Score: 57
Period size: 5 Copynumber: 11.8 Consensus size: 5
800434 TCAAAGGGAA
*
800444 AAAAT AAAAT AACAT -AAA- AAAAT AAAAT -AAAT AAAAGT --AAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT
800490 AAAAT AAAA
1 AAAAT AAAA
800499 ACATAATGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 1 0.02
4 11 0.26
5 29 0.69
6 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:800463 original size:18 final size:17
Alignment explanation
Indices: 800442--800504 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 17
800432 AATCAAAGGG
800442 AAAAAATAAAATAACATA
1 AAAAAATAAAATAA-ATA
800460 AAAAAATAAAATAAATA
1 AAAAAATAAAATAAATA
*
800477 AAAGTAATAAAATAAAATA
1 AAA-AAATAAAAT-AAATA
*
800496 AAAACATAA
1 AAAAAATAA
800505 TGATTGAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.15
18 26 0.65
19 8 0.20
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAATAAATA
Found at i:800465 original size:13 final size:14
Alignment explanation
Indices: 800445--800498 Score: 67
Period size: 13 Copynumber: 3.9 Consensus size: 14
800435 CAAAGGGAAA
*
800445 AAATAAAATAACAT
1 AAATAAAATAAAAT
800459 AAA-AAAATAAAAT
1 AAATAAAATAAAAT
*
800472 AAATAAAAGTAATA-
1 AAATAAAA-TAAAAT
800486 AAATAAAATAAAA
1 AAATAAAATAAAA
800499 ACATAATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 16 0.46
14 15 0.43
15 4 0.11
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:800470 original size:23 final size:24
Alignment explanation
Indices: 800444--800498 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
800434 TCAAAGGGAA
*
800444 AAAATAAAATAACA-TAAAAAAAT
1 AAAATAAAATAAAAGTAAAAAAAT
*
800467 AAAAT-AAATAAAAGTAATAAAAT
1 AAAATAAAATAAAAGTAAAAAAAT
800490 AAAATAAAA
1 AAAATAAAA
800499 ACATAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 18 0.64
24 3 0.11
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATAAAATAAAAGTAAAAAAAT
Found at i:803047 original size:106 final size:106
Alignment explanation
Indices: 802863--803645 Score: 1223
Period size: 106 Copynumber: 7.4 Consensus size: 106
802853 GTATTGTTCC
* * *
802863 GAGTCCAATATCC-TCTG-TCGTGAATTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* * * *
802926 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
802969 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
803034 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
803075 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
803140 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
803181 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
803246 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
803287 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTT-TTTTTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
803351 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
803392 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
803457 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
803498 GAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGTATTGGAAAATTATTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAATTGTTTGTTGACA
803562 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
803604 GAGTCCAATTTTCTTCGTTGCGAAGTTGAAATAGACTCTGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
803646 TGAAATTGGA
Statistics
Matches: 629, Mismatches: 43, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
105 101 0.16
106 524 0.83
107 4 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:803484 original size:317 final size:318
Alignment explanation
Indices: 802863--803635 Score: 1255
Period size: 317 Copynumber: 2.4 Consensus size: 318
802853 GTATTGTTCC
* * * *
802863 GAGTCCAATATCCTCTG-TCGTGAATTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTTGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * *
802927 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
**
802992 AGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
803057 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGG
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
803122 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
260 GAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
803181 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
803246 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
*
803311 GTTGAAATTGGCTCCGAAATTGGGAAGTT-TTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
803375 TGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
803440 AAGTTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
261 AAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
803498 GAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGTATTGGAAAATTATTTATTGACA
1 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAATTGTTTGTTGACA
* * * *
803562 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATTTTCTTCGTTGCGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
803627 AGTTGAAAT
130 AGTTGAAAT
803636 AGACTCTGAA
Statistics
Matches: 424, Mismatches: 29, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
316 1 0.00
317 276 0.65
318 146 0.34
319 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (318 bp):
GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGG
AAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:807515 original size:5 final size:5
Alignment explanation
Indices: 807505--807558 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
807495 TCAAAGGGAA
*
807505 AAAAT AAAAT AACATAA AAAAT AAAAT -AAAT AAAAGT --AAT AAAAT
1 AAAAT AAAAT AA-A-AT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT
807550 AAAAT AAAA
1 AAAAT AAAA
807559 ACATAATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
3 1 0.02
4 6 0.15
5 28 0.68
6 3 0.07
7 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:807537 original size:9 final size:9
Alignment explanation
Indices: 807506--807558 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
807496 CAAAGGGAAA
807506 AAATAAAAT
1 AAATAAAAT
807515 AACAT-AAA-
1 AA-ATAAAAT
807523 AAATAAAAT
1 AAATAAAAT
807532 AAATAAAAGT
1 AAATAAAA-T
807542 -AATAAAAT
1 AAATAAAAT
807550 AAAATAAAA
1 -AAATAAAA
807559 ACATAATGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
7 2 0.05
8 6 0.16
9 20 0.53
10 10 0.26
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:807564 original size:18 final size:17
Alignment explanation
Indices: 807503--807564 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
807493 AATCAAAGGG
*
807503 AAAAAATAAAATAACAT
1 AAAAAATAAAATAAAAT
807520 AAAAAATAAAAT-AAAT
1 AAAAAATAAAATAAAAT
807536 AAAAGTAATAAAATAAAAT
1 AAAA--AATAAAATAAAAT
807555 AAAAACATAA
1 AAAAA-ATAA
807565 TGATTGAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 7 0.17
17 13 0.32
18 12 0.30
19 8 0.20
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:808921 original size:18 final size:19
Alignment explanation
Indices: 808900--808937 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
808890 CGAGGCCTGC
*
808900 AAAATAATTATAAT-ATAT
1 AAAATAATAATAATAATAT
808918 AAAATAATAATAATAATAT
1 AAAATAATAATAATAATAT
808937 A
1 A
808938 CTTATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATAATAATAATAATAT
Found at i:820208 original size:23 final size:22
Alignment explanation
Indices: 820178--820259 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
820168 GCATGGCTTT
820178 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
820200 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
820222 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
820245 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
820260 TGTTCAGTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:820274 original size:44 final size:42
Alignment explanation
Indices: 820156--820278 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 42
820146 AAAACCCGAT
*
820156 GGATGCATCGATGCA-TGGCTT-TGTGCATCGATGCACATTCAA
1 GGATGCATCGATGCACT-G-TTCAGTGCATCGATGCACATTCAA
* * *
820198 GGAGTGCATCGGTGCAC-CTTCATGGTGTATCGATGCACATTCAAA
1 GGA-TGCATCGATGCACTGTTCA--GTGCATCGATGCACATTC-AA
*
820243 GGGATGCATCGATGCACTGTTCAGTGGATCGATGCA
1 -GGATGCATCGATGCACTGTTCAGTGCATCGATGCA
820279 TTAATCACAA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
41 2 0.03
42 3 0.05
43 11 0.17
44 29 0.44
45 14 0.21
46 7 0.11
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (42 bp):
GGATGCATCGATGCACTGTTCAGTGCATCGATGCACATTCAA
Found at i:826097 original size:17 final size:19
Alignment explanation
Indices: 826056--826103 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
826046 TTGGACCCTT
* *
826056 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATACACTAAG
826075 AGTGCATCGATACA-TAA-
1 AGTGCATCGATACACTAAG
826092 AGTGCATTCGAT
1 AGTGCA-TCGAT
826104 GTTTCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 12 0.46
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (19 bp):
AGTGCATCGATACACTAAG
Found at i:826172 original size:46 final size:45
Alignment explanation
Indices: 826073--826180 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
826063 CGGTGCACTA
* *
826073 AGAGTGCATCGATACATAAAGTGCATTCGATGTTTCAAATAAGCC
1 AGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAATAAGCC
*
826118 AGAGTGCATCGACGCATAAAATGCATTCGATGTTTTCATAA-AA-CAC
1 AGAGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AATAAGC-C
*
826164 TGAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
826181 GGTATGTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 30 0.55
46 23 0.42
47 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (45 bp):
AGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAATAAGCC
Found at i:826258 original size:65 final size:64
Alignment explanation
Indices: 826121--826246 Score: 166
Period size: 65 Copynumber: 2.0 Consensus size: 64
826111 ATAAGCCAGA
*
826121 GTGCATCGACGCATAAAATGCATTCGATGTTTTCATAAAACACTGAGTGCATCGATGCATGGTAT
1 GTGCATCGACGCATAAAATGCATTCGATG-TTTCATAAAACAATGAGTGCATCGATGCATGGTAT
* * **
826186 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTCAATG-GTGCATCGATGCATGG
1 GTGCATCGACGCATAAAATGCATTCGATGTTTC-A-TAAAACAATGAGTGCATCGATGCATGG
826247 ATTGGTGCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
63 3 0.06
64 17 0.31
65 34 0.63
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (64 bp):
GTGCATCGACGCATAAAATGCATTCGATGTTTCATAAAACAATGAGTGCATCGATGCATGGTAT
Found at i:827491 original size:172 final size:171
Alignment explanation
Indices: 827177--827557 Score: 539
Period size: 172 Copynumber: 2.2 Consensus size: 171
827167 CGTTACAGCT
* * * * * * *
827177 TAGGCATCAAAAAATGTAACGTCGAAAACATTAGACACAAATTCTTAGCGAAAAATTCTTTAGGC
1 TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCACAAATTCTTAGCGAAAAATTCTTTAAGC
* * * *
827242 ACCTAAAGTTAACTTGAAATATAGTTTGGGCACTTATTTTTGTATTAAACCAAAATATAAACATG
66 ACCTAAAGTTAACTTGAAATATAGTTTGAGCACATATTTCTGCATTAAACCAAAATATAAACATG
* * *
827307 ACATGGGTCACTTAACGACTTTTTTTAATGACTATTACTGCG
131 ACATGAGTCACTTAACGAC-TTTTTTAAGGACTATTACTACG
* * * *
827349 TAGGCACCTAAAAGTGTAATGTTGAAAACATTTGGCACATATTCTTAGTGAAAAATTCTTTAAGC
1 TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCACAAATTCTTAGCGAAAAATTCTTTAAGC
*
827414 ACCTAAAGTTAACTT-AAGATATAGTTTGAGCACATATTTCTGCATTAAGCCAAAATATAAACAT
66 ACCTAAAGTTAACTTGAA-ATATAGTTTGAGCACATATTTCTGCATTAAACCAAAATATAAACAT
*
827478 GACATGAGTCACTTAACGACTTTTTTAAGGACTGTTACTACG
130 GACATGAGTCACTTAACGACTTTTTTAAGGACTATTACTACG
* *
827520 TATGCACCTAAAAGTGTAATGAAGAAAACATTAGGCAC
1 TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCAC
827558 CTAAAAGTGT
Statistics
Matches: 185, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
171 55 0.30
172 130 0.70
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (171 bp):
TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCACAAATTCTTAGCGAAAAATTCTTTAAGC
ACCTAAAGTTAACTTGAAATATAGTTTGAGCACATATTTCTGCATTAAACCAAAATATAAACATG
ACATGAGTCACTTAACGACTTTTTTAAGGACTATTACTACG
Found at i:830993 original size:109 final size:107
Alignment explanation
Indices: 830805--831020 Score: 249
Period size: 109 Copynumber: 2.0 Consensus size: 107
830795 TATTAATTTT
* * *
830805 TATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCTTA
1 TATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCTTA
* *
830870 AGACAGCTCTTTTCTTCGATATT-AAAAA-AAATGAAAAATTAA
66 AGACAGCTCCTTTCTT-AATATTGAAAAATAAAT-AAAAATTAA
** * ***
830912 TATATAATTTATAAAATATGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTTTT
1 TATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCAGGTGCC
* *
830977 TTAAGACTG-TCCTTTCTTAATATTGAAAAATAAATAAATATTAA
63 TTAAGACAGCTCCTTTCTTAATATTGAAAAATAAATAAAAATTAA
831021 AACAGGATTA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
107 5 0.05
108 11 0.12
109 55 0.60
110 20 0.22
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (107 bp):
TATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTGCCTTA
AGACAGCTCCTTTCTTAATATTGAAAAATAAATAAAAATTAA
Found at i:831216 original size:21 final size:21
Alignment explanation
Indices: 831191--831233 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
831181 TATATATTTA
* *
831191 AAATAAATAAAATTTGTAAAT
1 AAATAAATAAAAATTGAAAAT
831212 AAATAAATAAAAATTGAAAAT
1 AAATAAATAAAAATTGAAAAT
831233 A
1 A
831234 GTGACTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
AAATAAATAAAAATTGAAAAT
Found at i:832079 original size:24 final size:26
Alignment explanation
Indices: 832047--832095 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
832037 TGGTTCTCAG
832047 TTTTGTGTTGTTTTT-GCTCTCTGTA
1 TTTTGTGTTGTTTTTGGCTCTCTGTA
*
832072 TTTT-TGTTGTTTTTGGTTCTCTGT
1 TTTTGTGTTGTTTTTGGCTCTCTGT
832096 CTCCTCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.02, C:0.10, G:0.20, T:0.67
Consensus pattern (26 bp):
TTTTGTGTTGTTTTTGGCTCTCTGTA
Found at i:832500 original size:3 final size:3
Alignment explanation
Indices: 832494--832559 Score: 93
Period size: 3 Copynumber: 22.7 Consensus size: 3
832484 TAATATTTAT
*
832494 TAA TAA TAA -AA TAA -AA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
832540 TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA T-AA TAA TA
832560 TTCAAATGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 6 0.11
3 49 0.86
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:833039 original size:113 final size:113
Alignment explanation
Indices: 832897--833332 Score: 631
Period size: 113 Copynumber: 3.9 Consensus size: 113
832887 ATAGAGTCAT
* * *
832897 GCAAAAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * *
832962 ATTATGAACT-TTCTCTGGAAACGTTGATACATCGAGTGATGAATTCAA
66 ATTATGAACTCGAC-CTGGAAATGTTGATCCATCGAATGATGAATTCAA
* * * * *
833010 TCTAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
833075 ATTATGAACTCGACCCGGTAATGCTGATCCATCGAATGATGAATTCAA
66 ATTATGAACTCGACCTGGAAATGTTGATCCATCGAATGATGAATTCAA
*
833123 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
833188 ATTATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAA
66 ATTATGAACTCGACCTGGAAATGTTGATCCATCGAATGATGAATTCAA
* * *
833236 GCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*** *
833301 ATTATGAACTCTTTCTGGAAATATTGATCCAT
66 ATTATGAACTCGACCTGGAAATGTTGATCCAT
833333 TGCGATGGAT
Statistics
Matches: 293, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
113 292 1.00
114 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCGACCTGGAAATGTTGATCCATCGAATGATGAATTCAA
Found at i:834216 original size:54 final size:54
Alignment explanation
Indices: 834152--834259 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
834142 ACAATAGCAG
* * * * *
834152 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGTTTCTGCTTAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
834206 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
834260 TTCTCAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
Found at i:836312 original size:114 final size:114
Alignment explanation
Indices: 836109--836670 Score: 917
Period size: 114 Copynumber: 4.9 Consensus size: 114
836099 GATCATGCAG
* * * * *
836109 TTCATCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
836174 ATACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* * *
836223 TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * * *
836288 ACACTTCTAGAAGATGCTACTGGGTCTTTTTATTTCTATTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
*
836337 TTTATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
836402 ACACTTCCATAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
* * * *
836451 TTTATCTTTCAAATCCAATGATTGGTTTTGAGGTTCATACCAAACCAAATCAGATCACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
836516 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
*
836565 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
836630 ACACTTTCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTA
836671 CGAGAACATG
Statistics
Matches: 414, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 414 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
Found at i:841119 original size:12 final size:12
Alignment explanation
Indices: 841099--841148 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
841089 TGGAAATATG
841099 CAAATGTAAATA
1 CAAATGTAAATA
* *
841111 CAAACGTAAAAATG
1 CAAATGT--AAATA
*
841125 CAAATGTAAATG
1 CAAATGTAAATA
841137 CAAATGTAAATA
1 CAAATGTAAATA
841149 TATGAATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 22 0.69
14 10 0.31
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (12 bp):
CAAATGTAAATA
Found at i:841129 original size:26 final size:26
Alignment explanation
Indices: 841096--841146 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
841086 TTATGGAAAT
841096 ATGCAAATGTAAATACAAACGTAAAA
1 ATGCAAATGTAAATACAAACGTAAAA
* *
841122 ATGCAAATGTAAATGCAAATGTAAA
1 ATGCAAATGTAAATACAAACGTAAA
841147 TATATGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.22
Consensus pattern (26 bp):
ATGCAAATGTAAATACAAACGTAAAA
Found at i:841156 original size:26 final size:25
Alignment explanation
Indices: 841100--841159 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
841090 GGAAATATGC
841100 AAATGTAAATACAAACGTAAAAATG
1 AAATGTAAATACAAACGTAAAAATG
* *
841125 CAAATGTAAATGCAAATGTAAATATATG
1 -AAATGTAAATACAAACGTAAA-A-ATG
841153 -AATGTAA
1 AAATGTAA
841160 CAATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 26 0.87
27 1 0.03
28 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (25 bp):
AAATGTAAATACAAACGTAAAAATG
Found at i:841240 original size:7 final size:7
Alignment explanation
Indices: 841206--841247 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
841196 ATAAGAGTAT
841206 AAATGCA
1 AAATGCA
* *
841213 CAATGAA
1 AAATGCA
841220 AAATGCA
1 AAATGCA
841227 AAGATGCA
1 AA-ATGCA
841235 AAATGC-
1 AAATGCA
841241 AAATGCA
1 AAATGCA
841248 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:842764 original size:28 final size:28
Alignment explanation
Indices: 842707--842765 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
842697 TTAATACCTG
*
842707 AATAAAATAAAATAAAAAATATTAATAA
1 AATAAAATAAAATAAAAAATAATAATAA
* * *
842735 AATAATATAAAAATAATAAGTAATAA-AA
1 AATAAAAT-AAAATAAAAAATAATAATAA
842763 AAT
1 AAT
842766 TTGAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (28 bp):
AATAAAATAAAATAAAAAATAATAATAA
Found at i:843462 original size:115 final size:112
Alignment explanation
Indices: 843262--843485 Score: 270
Period size: 115 Copynumber: 2.0 Consensus size: 112
843252 AAAAAATATT
* * * * * *
843262 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAAGACATCCAGGT
* *
843327 GCCTTAAGACGGCTCTTTTCTTCGATATTAAAAAATAAATAAATAAAA
66 GCCTTAAGACGGCTCCTTTCTT-AATATTAAAAAATAAATAAATAAAA
**
843375 AATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAAAAAATAGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAAAAAA-AGACATCCA
* ** * *
843440 GTTGTTTTAAGACTG-TCCTTTCTTAATATTGAAAAATAAATAAATA
63 GGTGCCTTAAGACGGCTCCTTTCTTAATATTAAAAAATAAATAAATA
843486 TTAAAACAGG
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
113 10 0.11
114 26 0.28
115 40 0.43
116 17 0.18
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (112 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAAGACATCCAGGT
GCCTTAAGACGGCTCCTTTCTTAATATTAAAAAATAAATAAATAAAA
Found at i:843683 original size:21 final size:20
Alignment explanation
Indices: 843657--843698 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
843647 CTATATATTT
*
843657 AAAATAAATAAAATTTGTAAA
1 AAAATAAATAAAAATTG-AAA
843678 AAAATAAATAAAAATTGAAA
1 AAAATAAATAAAAATTGAAA
843698 A
1 A
843699 TAGTGACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAATAAATAAAAATTGAAA
Found at i:844547 original size:24 final size:26
Alignment explanation
Indices: 844515--844565 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
844505 TGGTTCTCGG
844515 TTTTGTGTTGTTTTT-GCTCTCTGTC
1 TTTTGTGTTGTTTTTGGCTCTCTGTC
*
844540 TTTT-TGTTGTTTTTGGTTCTCTGTC
1 TTTTGTGTTGTTTTTGGCTCTCTGTC
844565 T
1 T
844566 CCTCCCTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.00, C:0.14, G:0.20, T:0.67
Consensus pattern (26 bp):
TTTTGTGTTGTTTTTGGCTCTCTGTC
Found at i:844968 original size:3 final size:3
Alignment explanation
Indices: 844962--845012 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
844952 TAATATTTAT
*
844962 TAA TAA TAA -AA TAA -AA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
845008 TAA TA
1 TAA TA
845013 TTCAAATGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:845895 original size:14 final size:14
Alignment explanation
Indices: 845876--845908 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
845866 TTTTAGTTTC
845876 TGTGAACATAGTTA
1 TGTGAACATAGTTA
*
845890 TGTGAACTTAGTTA
1 TGTGAACATAGTTA
845904 TGTGA
1 TGTGA
845909 GAAAATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.39
Consensus pattern (14 bp):
TGTGAACATAGTTA
Found at i:847393 original size:172 final size:171
Alignment explanation
Indices: 847101--847481 Score: 546
Period size: 172 Copynumber: 2.2 Consensus size: 171
847091 CGTTACAGCT
* * * * * * *
847101 TAGGCACCAAAAAATATAACGTCGAAAACATTAGACACATATTCTTAGCGAAAAATTCTTTATGC
1 TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCACATATTCTTAGCGAAAAATTCTTTAAGC
* * * * **
847166 ACCTAAAGTTAACTTGAGATATAGTTTGGGAACTTATTTTTTTATTAAACCAAAATATAAACATG
66 ACCTAAAGTTAACTTAAGATATAGTTTGAGAACATATTTCTGCATTAAACCAAAATATAAACATG
* * *
847231 ACATGGGTCACTTAACGACTTTTTTTAATGACTATTACTGCG
131 ACATGAGTCACTTAACGAC-TTTTTTAAGGACTATTACTACG
* * *
847273 TAGGCACCTAAAAGTGTAATGTTGAAAACATTTGGCACATATTCTTAGTGAAAAATTCTTTAAGC
1 TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCACATATTCTTAGCGAAAAATTCTTTAAGC
* *
847338 ACCTAAAGTTAACTTAAGATATAGTTTGAGCACATATTTCTGCATTAAGCCAAAATATAAACATG
66 ACCTAAAGTTAACTTAAGATATAGTTTGAGAACATATTTCTGCATTAAACCAAAATATAAACATG
*
847403 ACATGAGTCACTTAACGACTTTTTTAAGGACTGTTACTACG
131 ACATGAGTCACTTAACGACTTTTTTAAGGACTATTACTACG
*
847444 TAGGCACCTAAAAGTGTAATGAAGAAAACATTAGGCAC
1 TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCAC
847482 CTAAAAGTGT
Statistics
Matches: 185, Mismatches: 24, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
171 54 0.29
172 131 0.71
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (171 bp):
TAGGCACCTAAAAGTGTAATGTAGAAAACATTAGGCACATATTCTTAGCGAAAAATTCTTTAAGC
ACCTAAAGTTAACTTAAGATATAGTTTGAGAACATATTTCTGCATTAAACCAAAATATAAACATG
ACATGAGTCACTTAACGACTTTTTTAAGGACTATTACTACG
Found at i:847482 original size:31 final size:31
Alignment explanation
Indices: 847444--847503 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
847434 TGTTACTACG
847444 TAGGCACCTAAAAGTGTAAT-GAAGAAAACAT
1 TAGGCACCTAAAAGTGTAATAGAA-AAAACAT
847475 TAGGCACCTAAAAGTGTAATAGAAAAAAC
1 TAGGCACCTAAAAGTGTAATAGAAAAAAC
847504 CTTATACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.18
Consensus pattern (31 bp):
TAGGCACCTAAAAGTGTAATAGAAAAAACAT
Found at i:851178 original size:14 final size:14
Alignment explanation
Indices: 851159--851191 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
851149 TTTTAGTTTC
851159 TGTGAACATAGTTA
1 TGTGAACATAGTTA
*
851173 TGTGAACTTAGTTA
1 TGTGAACATAGTTA
851187 TGTGA
1 TGTGA
851192 GAAAATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.39
Consensus pattern (14 bp):
TGTGAACATAGTTA
Found at i:852745 original size:21 final size:23
Alignment explanation
Indices: 852721--852773 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
852711 ATTTAAATTT
852721 AAAATAATATT-ATTTATTA-TA
1 AAAATAATATTAATTTATTATTA
* *
852742 AAAA-AATGTTAATTTTTTATTA
1 AAAATAATATTAATTTATTATTA
852764 AAAAGTAATA
1 AAAA-TAATA
852774 ATATGTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.20
21 11 0.44
22 6 0.24
24 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAATAATATTAATTTATTATTA
Found at i:853274 original size:22 final size:22
Alignment explanation
Indices: 853231--853277 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
853221 TTTGTTAAAA
*
853231 AATTAATAAAAAATAACGTGAT
1 AATTAATAAAAAATAACATGAT
* *
853253 AATTAATAAAAAATTATATGAT
1 AATTAATAAAAAATAACATGAT
853275 AAT
1 AAT
853278 AAATTTAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (22 bp):
AATTAATAAAAAATAACATGAT
Found at i:862202 original size:37 final size:37
Alignment explanation
Indices: 862149--862245 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
862139 CCTTTTCGTC
862149 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * * *
862186 TTGCTAGGATTTAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* *
862223 CTACTATGATTGAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
862246 GATAGGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:862699 original size:2 final size:2
Alignment explanation
Indices: 862692--862763 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
862682 TTAATTAGTT
862692 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
862734 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
862764 CATACTTGCT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:862894 original size:12 final size:12
Alignment explanation
Indices: 862875--862912 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
862865 ATTTTTATTA
862875 TTACTATTATAT
1 TTACTATTATAT
* *
862887 TTATTATTATTT
1 TTACTATTATAT
862899 TTACTATTATAT
1 TTACTATTATAT
862911 TT
1 TT
862913 TCCTTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (12 bp):
TTACTATTATAT
Found at i:862896 original size:24 final size:24
Alignment explanation
Indices: 862862--862977 Score: 88
Period size: 24 Copynumber: 5.1 Consensus size: 24
862852 TCTTTGCATT
*
862862 TTTATTTTTATTATTACTATTATA
1 TTTATTATTATTATTACTATTATA
*
862886 TTTATTATTATTTTTACTATTATA
1 TTTATTATTATTATTACTATTATA
** *
862910 TTT-TCCTT-TTATT-CTACT-TA
1 TTTATTATTATTATTACTATTATA
*
862930 TTTA-TATTATATATGTA-TATT-TC
1 TTTATTATTAT-TAT-TACTATTATA
*
862953 TTTA-TATT-TTATTATTATTATA
1 TTTATTATTATTATTACTATTATA
862975 TTT
1 TTT
862978 TTTTACTTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.12
21 12 0.16
22 12 0.16
23 16 0.22
24 25 0.34
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTATTATTATTATTACTATTATA
Found at i:862968 original size:18 final size:18
Alignment explanation
Indices: 862862--862968 Score: 62
Period size: 18 Copynumber: 5.9 Consensus size: 18
862852 TCTTTGCATT
*
862862 TTTAT-TTTTATTATTAC
1 TTTATATTTTATTATTTC
*
862879 TATTATA-TTTATTATTATT
1 T-TTATATTTTATTATT-TC
* *
862898 TTTACTATTATATT-TTCC
1 TTTA-TATTTTATTATTTC
* *
862916 TTT-TATTCTACTTATTTA
1 TTTATATTTTA-TTATTTC
*
862934 TATTATATATGTA-TATTTC
1 T-TTATAT-TTTATTATTTC
862953 TTTATATTTTATTATT
1 TTTATATTTTATTATT
862969 ATTATATTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
16 6 0.09
17 6 0.09
18 32 0.47
19 13 0.19
20 8 0.12
21 3 0.04
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTATATTTTATTATTTC
Found at i:863020 original size:12 final size:11
Alignment explanation
Indices: 862998--863038 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
862988 TCTTTCTTTT
862998 TATTATTCTTG
1 TATTATTCTTG
863009 TATTATTACTTG
1 TATTATT-CTTG
* *
863021 TATTATTTTTA
1 TATTATTCTTG
863032 TATTATT
1 TATTATT
863039 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:863054 original size:2 final size:2
Alignment explanation
Indices: 863047--863073 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
863037 TTTATTTTGT
863047 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
863074 GCGTATGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:863274 original size:2 final size:2
Alignment explanation
Indices: 863269--863351 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
863259 ATTTTACTAT
863269 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
863311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
863352 TCTACACAAG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:863600 original size:2 final size:2
Alignment explanation
Indices: 863593--863645 Score: 63
Period size: 2 Copynumber: 26.5 Consensus size: 2
863583 TTTATTAATT
* * *
863593 TA TA TA TA TT TA CT- TA TT TA TT 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
863635 TA TA TA TA TA T
1 TA TA TA TA TA T
863646 TATTCGTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.95
3 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:863717 original size:24 final size:23
Alignment explanation
Indices: 863681--863731 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
863671 TGTTTATTTG
* *
863681 TTTTATTTATTTTCTT-TTTCTT
1 TTTTATTTATTTTATTATTTATT
863703 TTTTATATATATTTTATTATTTATT
1 TTTTAT-T-TATTTTATTATTTATT
863728 TTTT
1 TTTT
863732 TACTTACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 8 0.33
25 9 0.38
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTATTTATTTTATTATTTATT
Found at i:868219 original size:22 final size:22
Alignment explanation
Indices: 868194--868250 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
868184 AACAAAAAGG
*
868194 GCAAAAACAAAAAAGAAAAGAA
1 GCAAAAACAAAAAAGAAAAAAA
*
868216 GC-AAAACAGAAGAAGAAAAAAA
1 GCAAAAACA-AAAAAGAAAAAAA
868238 G-AAAGAACAAAAA
1 GCAAA-AACAAAAA
868251 TCAAAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.21
22 19 0.66
23 4 0.14
ACGTcount: A:0.75, C:0.09, G:0.16, T:0.00
Consensus pattern (22 bp):
GCAAAAACAAAAAAGAAAAAAA
Found at i:868221 original size:15 final size:14
Alignment explanation
Indices: 868203--868250 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
868193 GGCAAAAACA
868203 AAAAAGAAAAGAAGC
1 AAAAAGAAAAGAA-C
868218 AAAACAGAAGAAGAA-
1 AAAA-AGAA-AAGAAC
868233 AAAAAG-AAAGAAC
1 AAAAAGAAAAGAAC
868246 AAAAA
1 AAAAA
868251 TCAAAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.17
13 6 0.20
14 2 0.07
15 8 0.27
16 4 0.13
17 5 0.17
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAC
Found at i:868250 original size:29 final size:29
Alignment explanation
Indices: 868202--868263 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
868192 GGGCAAAAAC
868202 AAAAAAGAAAAGAAGCAAAA-CAGAAGAAGA
1 AAAAAAGAAAAGAAGCAAAATCA-AA-AAGA
868232 AAAAAAG-AAAGAA-CAAAAATCAAAAAGA
1 AAAAAAGAAAAGAAGC-AAAATCAAAAAGA
868260 AAAA
1 AAAA
868264 GGGACAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.30
29 12 0.40
30 9 0.30
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (29 bp):
AAAAAAGAAAAGAAGCAAAATCAAAAAGA
Found at i:868953 original size:21 final size:22
Alignment explanation
Indices: 868867--868964 Score: 144
Period size: 22 Copynumber: 4.5 Consensus size: 22
868857 GCTACCCCAT
* *
868867 CAAACCGTTGAGCATCAAATTC
1 CAAACCTTTGAGCATCAAATGC
* *
868889 CAAACCTATGAGCATCACATGC
1 CAAACCTTTGAGCATCAAATGC
868911 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
868933 CAAACCTTTGAGAAT-AAATGC
1 CAAACCTTTGAGCATCAAATGC
868954 CAAACCTTTGA
1 CAAACCTTTGA
868965 CCAAACATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
21 17 0.25
22 52 0.75
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:870000 original size:106 final size:106
Alignment explanation
Indices: 869789--871261 Score: 2091
Period size: 106 Copynumber: 14.0 Consensus size: 106
869779 ATATCGTGCC
* * * * * *
869789 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
869853 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869894 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAACGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
869959 AATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
870000 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
870065 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
870106 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCTCTGGTTTTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
870171 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
870212 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
870277 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * *
870318 ACTCCAGACAACGCAAGTTCAACTTCAAAATGAAGAGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
870383 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
870424 ACTCCAGACAACGCAAGTTCAACATCACGACGAAGGGACAGCTGATTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
870489 AATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
870530 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
870595 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
870636 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
870701 AATTTCAGAGCCCATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
870742 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCTACCAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
870807 AATTTTAGAGCAAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
870848 ACTCCAGACAACGCAAGTTTAACTT--C-AC-----GACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
870905 AATTTCAGAGCCAATTTCAACTTCACAGTGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
870946 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
871011 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * **
871052 AC-CCAAGGCAACACAAGCTCAACTTCGCGATGAAGAGG-CGGCTAATTGTCAAC-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAACTTC
** * * *
871111 -TTA-TTCAGAGTCAATTTCAACTTCACAACGAAAGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
871152 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
871217 GGTTCCAGAGCCAATTTCAACTTCA-AGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
871258 ACTC
1 ACTC
871262 AGAACAATGC
Statistics
Matches: 1226, Mismatches: 122, Indels: 39
0.88 0.09 0.03
Matches are distributed among these distances:
98 82 0.07
99 2 0.00
100 73 0.06
101 6 0.00
102 2 0.00
103 6 0.00
104 3 0.00
105 51 0.04
106 999 0.81
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:872035 original size:37 final size:37
Alignment explanation
Indices: 871982--872086 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
871972 CCTTTTCGTC
*
871982 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
872019 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
872056 CTACTATGATTTAGACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
872087 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:872791 original size:11 final size:11
Alignment explanation
Indices: 872775--872814 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
872765 TCTTTCTTTT
872775 TATTATTCTTG
1 TATTATTCTTG
872786 TATTATTCTTG
1 TATTATTCTTG
* *
872797 TATTATTTTTA
1 TATTATTCTTG
872808 TATTATT
1 TATTATT
872815 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:872815 original size:11 final size:11
Alignment explanation
Indices: 872771--872815 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
872761 TTTCTCTTTC
872771 TTTT-TATTAT
1 TTTTGTATTAT
*
872781 TCTTGTATTAT
1 TTTTGTATTAT
*
872792 TCTTGTATTAT
1 TTTTGTATTAT
*
872803 TTTTATATTAT
1 TTTTGTATTAT
872814 TT
1 TT
872816 ATTTTGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
10 3 0.10
11 28 0.90
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (11 bp):
TTTTGTATTAT
Found at i:873328 original size:12 final size:13
Alignment explanation
Indices: 873312--873347 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
873302 GTTATTTAAA
873312 CGGGTATTGGGCT
1 CGGGTATTGGGCT
873325 -GGGTATTGGG-T
1 CGGGTATTGGGCT
873336 CGGGTATTGGGC
1 CGGGTATTGGGC
873348 CGAGAATCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.05
12 20 0.95
ACGTcount: A:0.08, C:0.11, G:0.50, T:0.31
Consensus pattern (13 bp):
CGGGTATTGGGCT
Found at i:873363 original size:24 final size:24
Alignment explanation
Indices: 873312--873366 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
873302 GTTATTTAAA
* * * * *
873312 CGGGTATTGGGCTGGGTATTGGGT
1 CGGGTATTGGGCCGAGAATCGGGC
873336 CGGGTATTGGGCCGAGAATCGGGC
1 CGGGTATTGGGCCGAGAATCGGGC
873360 CGGGTAT
1 CGGGTAT
873367 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.15, G:0.47, T:0.25
Consensus pattern (24 bp):
CGGGTATTGGGCCGAGAATCGGGC
Found at i:873497 original size:13 final size:12
Alignment explanation
Indices: 873465--873514 Score: 73
Period size: 13 Copynumber: 4.0 Consensus size: 12
873455 TTTTAATATT
*
873465 TATCGGGTCGGG
1 TATCGGGGCGGG
873477 TATCGGGGCGGG
1 TATCGGGGCGGG
873489 TATTCGGGGCGGG
1 TA-TCGGGGCGGG
873502 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
873515 GATTACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
12 13 0.37
13 21 0.60
14 1 0.03
ACGTcount: A:0.10, C:0.16, G:0.54, T:0.20
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:873536 original size:6 final size:6
Alignment explanation
Indices: 873525--873553 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
873515 GATTACCAAA
873525 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
1 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
873554 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.66, G:0.17, T:0.17
Consensus pattern (6 bp):
CCCGTC
Found at i:873883 original size:2 final size:2
Alignment explanation
Indices: 873878--873904 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
873868 TTTTATTTAT
873878 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
873905 TATTCGTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:873945 original size:13 final size:13
Alignment explanation
Indices: 873927--873951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
873917 GTTATTATTA
873927 TTTTATTTATTTG
1 TTTTATTTATTTG
873940 TTTTATTTATTT
1 TTTTATTTATTT
873952 TCTTTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTG
Found at i:878241 original size:36 final size:36
Alignment explanation
Indices: 878194--878266 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
878184 AGTTTTGGAA
878194 TTAAGTGATAAAAGAATCAACCATGAATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGAATATGTAGAT
* *
878230 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCATGAATATGTAGAT
878266 T
1 T
878267 ATAATTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAACCATGAATATGTAGAT
Found at i:880088 original size:12 final size:12
Alignment explanation
Indices: 880073--880132 Score: 68
Period size: 12 Copynumber: 5.0 Consensus size: 12
880063 GATACATGAC
880073 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
880085 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
880097 ATGGATTCTGTT
1 CTGAATTCTGTT
880109 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
880121 CTGAATTCTGTT
1 CTGAATTCTGTT
880133 TTGATTTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 2 0.05
12 35 0.90
13 2 0.05
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:880092 original size:48 final size:48
Alignment explanation
Indices: 880036--880146 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 48
880026 AAATATTTTA
880036 TCTGATTTCTGACT-TGAATTCTATTCTGATA-CATGACCTGAATTCTGT
1 TCTGATTTCTGA-TATGAATTCTATTCTGATATC-TGACCTGAATTCTGT
* * **
880084 TCTGATTTCTGATATGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTATTCTGATATCTGACCTGAATTCTGT
* *
880132 TTTGATTTATGATAT
1 TCTGATTTCTGATAT
880147 CTCTGTGTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.02
48 53 0.96
49 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (48 bp):
TCTGATTTCTGATATGAATTCTATTCTGATATCTGACCTGAATTCTGT
Done.