Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_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: 2560905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:635438 original size:30 final size:30
Alignment explanation
Indices: 635404--635472 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
635394 TTATATGAGT
* * *
635404 TATGTGATAAATGTATGGAAATGATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
635434 TATGTGATAAAGGTATGAAAATAATATGTT
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
635464 TACGTGATA
1 TATGTGATA
635473 CAAATTATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Found at i:635717 original size:23 final size:23
Alignment explanation
Indices: 635684--635751 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
635674 ATTATTTTAT
635684 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
635707 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
635730 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
635752 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:636462 original size:40 final size:40
Alignment explanation
Indices: 636407--636487 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
636397 CAAAATTCTT
636407 AGAGTAATATTACAATAAAATAATCTTATTCCCAAATATA
1 AGAGTAATATTACAATAAAATAATCTTATTCCCAAATATA
* * *
636447 AGAGTAATATTACAATACAGTAATCTTATTCTCAAATATA
1 AGAGTAATATTACAATAAAATAATCTTATTCCCAAATATA
636487 A
1 A
636488 TCTTACATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (40 bp):
AGAGTAATATTACAATAAAATAATCTTATTCCCAAATATA
Found at i:637523 original size:19 final size:19
Alignment explanation
Indices: 637499--637549 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
637489 TAATTAGTGT
*
637499 ATCGATGCACTCCTCATGC
1 ATCGATGCACCCCTCATGC
637518 ATCGATGCACCCCTCATGC
1 ATCGATGCACCCCTCATGC
637537 ATCGATGCACCCC
1 ATCGATGCACCCC
637550 CTTAAGATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.22
Consensus pattern (19 bp):
ATCGATGCACCCCTCATGC
Found at i:638214 original size:18 final size:18
Alignment explanation
Indices: 638191--638225 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
638181 AGGGATTATC
*
638191 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
638209 AGTGGTCATTCGGGACA
1 AGTGGTCATTCGGGACA
638226 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:638647 original size:22 final size:22
Alignment explanation
Indices: 638619--638669 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
638609 TAACTAATAA
638619 AGTATGTATGTTGATTTTGTAT
1 AGTATGTATGTTGATTTTGTAT
638641 AGTATGTATGTTGATTTTGTAT
1 AGTATGTATGTTGATTTTGTAT
638663 AGTATGT
1 AGTATGT
638670 TGGCATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (22 bp):
AGTATGTATGTTGATTTTGTAT
Found at i:640503 original size:16 final size:16
Alignment explanation
Indices: 640479--640516 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
640469 TAAAAATTTT
640479 AATTAATGTTTT-ATTA
1 AATT-ATGTTTTAATTA
640495 ATATTATGTTTTAATTA
1 A-ATTATGTTTTAATTA
640512 AATTA
1 AATTA
640517 CATTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
AATTATGTTTTAATTA
Found at i:654249 original size:79 final size:79
Alignment explanation
Indices: 654117--654279 Score: 301
Period size: 79 Copynumber: 2.1 Consensus size: 79
654107 AACTAGCAGG
*
654117 ATTTAGTACGGCTTTCTTGATATTCACTTTGAGAATATGATTCGTTATTTCTGATTGTTAGTATG
1 ATTTAGTACGCCTTTCTTGATATTCACTTTGAGAATATGATTCGTTATTTCTGATTGTTAGTATG
654182 TTAATAATGCTGAA
66 TTAATAATGCTGAA
654196 ATTTAGTACGCCTTTCTTGATATTCACTTTGAGAATATGATTCGTT-TTCTCTGATTGTTAGTAT
1 ATTTAGTACGCCTTTCTTGATATTCACTTTGAGAATATGATTCGTTATT-TCTGATTGTTAGTAT
654260 GTTAATAATGCTGAA
65 GTTAATAATGCTGAA
654275 ATTTA
1 ATTTA
654280 TACAGAAAAA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
78 2 0.02
79 80 0.98
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (79 bp):
ATTTAGTACGCCTTTCTTGATATTCACTTTGAGAATATGATTCGTTATTTCTGATTGTTAGTATG
TTAATAATGCTGAA
Found at i:674732 original size:17 final size:18
Alignment explanation
Indices: 674712--674746 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
674702 GCTAATTATC
674712 ATAAAAATTA-TATTAAA
1 ATAAAAATTATTATTAAA
*
674729 ATAATAATTATTATTAAA
1 ATAAAAATTATTATTAAA
674747 GTTACAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAAATTATTATTAAA
Found at i:675110 original size:14 final size:14
Alignment explanation
Indices: 675064--675112 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
675054 TGAAAAAAAT
*
675064 TAATTATTAATTTA
1 TAATTATTATTTTA
* *
675078 TAATAATTTATAATTA
1 TAATTA-TTAT-TTTA
675094 TAATTATTATTTTA
1 TAATTATTATTTTA
675108 TAATT
1 TAATT
675113 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 13 0.46
15 7 0.25
16 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTATTTTA
Found at i:675486 original size:18 final size:19
Alignment explanation
Indices: 675463--675498 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
675453 CGTTATCGGT
675463 TATAAAAATAAA-AAAAAG
1 TATAAAAATAAAGAAAAAG
*
675481 TATAAAATTAAAGAAAAA
1 TATAAAAATAAAGAAAAA
675499 AGAAAATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
TATAAAAATAAAGAAAAAG
Found at i:676319 original size:14 final size:14
Alignment explanation
Indices: 676300--676330 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
676290 TTAAATGATA
676300 AACGAACACAAACG
1 AACGAACACAAACG
*
676314 AACGAACATAAACG
1 AACGAACACAAACG
676328 AAC
1 AAC
676331 TTAATAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.26, G:0.13, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:676644 original size:10 final size:10
Alignment explanation
Indices: 676625--676654 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
676615 TCGAACATAA
*
676625 ATAAAGGAAC
1 ATAAATGAAC
676635 ATAAATGAAC
1 ATAAATGAAC
676645 ATAAATGAAC
1 ATAAATGAAC
676655 GAACATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (10 bp):
ATAAATGAAC
Found at i:676649 original size:24 final size:24
Alignment explanation
Indices: 676616--676671 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
676606 GCACTCTGTT
*
676616 CGAACATAAATAAAGGAACATAAA
1 CGAACATAAATAAACGAACATAAA
* *
676640 TGAACATAAATGAACGAACATAAA
1 CGAACATAAATAAACGAACATAAA
676664 CGAACATA
1 CGAACATA
676672 TAATCGAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.14
Consensus pattern (24 bp):
CGAACATAAATAAACGAACATAAA
Found at i:676658 original size:14 final size:14
Alignment explanation
Indices: 676616--676668 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
676606 GCACTCTGTT
*
676616 CGAACATAAATAAA
1 CGAACATAAATGAA
*
676630 GGAACATAAAT---
1 CGAACATAAATGAA
676641 -GAACATAAATGAA
1 CGAACATAAATGAA
*
676654 CGAACATAAACGAA
1 CGAACATAAATGAA
676668 C
1 C
676669 ATATAATCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 10 0.30
14 23 0.70
ACGTcount: A:0.58, C:0.15, G:0.13, T:0.13
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:680602 original size:11 final size:11
Alignment explanation
Indices: 680586--680610 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
680576 TAAGAGGCTC
680586 AATCCATTTAA
1 AATCCATTTAA
680597 AATCCATTTAA
1 AATCCATTTAA
680608 AAT
1 AAT
680611 TCAAATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (11 bp):
AATCCATTTAA
Found at i:680695 original size:17 final size:17
Alignment explanation
Indices: 680673--680711 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
680663 TGAATCAAAT
680673 TAATTAGATATTACTTA
1 TAATTAGATATTACTTA
*
680690 TAATTAGATATTATTTA
1 TAATTAGATATTACTTA
680707 -AATTA
1 TAATTA
680712 ATTGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TAATTAGATATTACTTA
Found at i:681900 original size:15 final size:15
Alignment explanation
Indices: 681867--681910 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
681857 AAAATATTTA
681867 ATATTATGAT-TACAAT
1 ATATTAT-ATATA-AAT
681883 ATATTATATATAAAT
1 ATATTATATATAAAT
*
681898 ATATTATTTATAA
1 ATATTATATATAA
681911 TTATGATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATTATATATAAAT
Found at i:683015 original size:23 final size:23
Alignment explanation
Indices: 682984--683029 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
682974 TTAAAGTGAC
682984 TATAATAT-AATATTTATTTAAAA
1 TATAATATAAATATTT-TTTAAAA
*
683007 TATATTATAGAATATTTTTTAAA
1 TATAATATA-AATATTTTTTAAA
683030 TTATTGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATAATATAAATATTTTTTAAAA
Found at i:683910 original size:13 final size:13
Alignment explanation
Indices: 683884--683918 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
683874 CAATCCTGGC
683884 GACATACG-GGGT
1 GACATACGAGGGT
683896 GACATACGAGGGT
1 GACATACGAGGGT
683909 GACATACGAG
1 GACATACGAG
683919 CCATATACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.14
Consensus pattern (13 bp):
GACATACGAGGGT
Found at i:683928 original size:11 final size:11
Alignment explanation
Indices: 683912--683945 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
683902 CGAGGGTGAC
683912 ATACGAGCCAT
1 ATACGAGCCAT
683923 ATACGAGCCAT
1 ATACGAGCCAT
*
683934 ATACGAGTCAT
1 ATACGAGCCAT
683945 A
1 A
683946 CGAGCCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (11 bp):
ATACGAGCCAT
Found at i:683976 original size:22 final size:22
Alignment explanation
Indices: 683945--684024 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 22
683935 TACGAGTCAT
*
683945 ACGAGCCAATGGGGAGGATGCA
1 ACGAGCCAATGGGGAGCATGCA
*
683967 ACGAGGCAATGGGGAGCATGCAGGAA
1 ACGAGCCAATGGGGAGCATGC----A
*
683993 TAGAGAGCCAATGGGGAGCATGCA
1 -A-CGAGCCAATGGGGAGCATGCA
684017 ACGAGCCA
1 ACGAGCCA
684025 TATACGAGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 25 0.53
23 1 0.02
24 1 0.02
26 1 0.02
27 1 0.02
28 18 0.38
ACGTcount: A:0.34, C:0.19, G:0.39, T:0.09
Consensus pattern (22 bp):
ACGAGCCAATGGGGAGCATGCA
Found at i:684005 original size:28 final size:28
Alignment explanation
Indices: 683973--684138 Score: 188
Period size: 28 Copynumber: 5.6 Consensus size: 28
683963 TGCAACGAGG
683973 CAATGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
* *
684001 CAATGGGGAGCATGCAACGAGCCATATACGAGC
1 CAATGGGGAGCATGC-A-G-G-AATAGA-GAGC
* *
684034 CCACGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
* *
684062 CAATGGGGAGCATGCAACGAGCCATATACGAGC
1 CAATGGGGAGCATGC-A-G-G-AATAGA-GAGC
684095 CAATGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
684123 CAATGGGGAGCATGCA
1 CAATGGGGAGCATGCA
684139 ACGAGCCATA
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 52 0.45
29 10 0.09
30 4 0.03
31 4 0.03
32 10 0.09
33 36 0.31
ACGTcount: A:0.34, C:0.20, G:0.36, T:0.11
Consensus pattern (28 bp):
CAATGGGGAGCATGCAGGAATAGAGAGC
Found at i:684006 original size:50 final size:51
Alignment explanation
Indices: 683947--684172 Score: 213
Period size: 61 Copynumber: 4.1 Consensus size: 51
683937 CGAGTCATAC
* *
683947 GAGCCAATGGGGAGGATGCAACGAGGCA-ATGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAGCATGCAGGAATAGA
683997 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCCACGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATAT----------GGGGAGCATGCAGGAATAGA
684058 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCAATGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCC--AT--------ATGGGGAGCATGCAGGAATAGA
**
684119 GAGCCAATGGGGAGCATGCAACGAGCCATAT-ACGAGCCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAG-CATGCAGGAATAGA
684170 GAG
1 GAG
684173 GTCGCCATGC
Statistics
Matches: 150, Mismatches: 4, Indels: 43
0.76 0.02 0.22
Matches are distributed among these distances:
50 29 0.19
51 21 0.14
59 2 0.01
61 94 0.63
63 2 0.01
71 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.36, T:0.11
Consensus pattern (51 bp):
GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAGCATGCAGGAATAGA
Found at i:684062 original size:61 final size:61
Alignment explanation
Indices: 683967--684157 Score: 346
Period size: 61 Copynumber: 3.1 Consensus size: 61
683957 GGAGGATGCA
* *
683967 ACGAGGCAATGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
*
684028 ACGAGCCCACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
*
684089 ACGAGCCAATGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
684150 ACGAGCCA
1 ACGAGCCA
684158 TGCAGGAATA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 125 1.00
ACGTcount: A:0.34, C:0.21, G:0.35, T:0.10
Consensus pattern (61 bp):
ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
Found at i:684221 original size:29 final size:29
Alignment explanation
Indices: 684171--684279 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
684161 AGGAATAGAG
* *
684171 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
684200 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
684229 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
684258 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
684280 CCATTCCATC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 75 0.97
30 2 0.03
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:684397 original size:36 final size:37
Alignment explanation
Indices: 684329--684402 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
684319 CATAGATTCC
684329 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
684366 TTCACGTGCTCCCCGCTGCA-TGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
684402 T
1 T
684403 GCATGCATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 17 0.46
37 20 0.54
ACGTcount: A:0.16, C:0.46, G:0.14, T:0.24
Consensus pattern (37 bp):
TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
Found at i:684430 original size:18 final size:18
Alignment explanation
Indices: 684407--684441 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
684397 CCCAATGCAT
684407 GCATGTGAACCATTTGAG
1 GCATGTGAACCATTTGAG
684425 GCATGTGAACCATTTGA
1 GCATGTGAACCATTTGA
684442 TTATTGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
GCATGTGAACCATTTGAG
Found at i:684566 original size:22 final size:23
Alignment explanation
Indices: 684531--684575 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
684521 AAAAGAAAGA
684531 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
684554 AAGAAA-GGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
684576 CCGAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.49, C:0.04, G:0.38, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:684609 original size:13 final size:13
Alignment explanation
Indices: 684585--684617 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
684575 GCCGAGAAAA
684585 AAGAAA-GAAAGG
1 AAGAAAGGAAAGG
*
684597 GAGAAAGGAAAGG
1 AAGAAAGGAAAGG
684610 AAGAAAGG
1 AAGAAAGG
684618 GAAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (13 bp):
AAGAAAGGAAAGG
Found at i:684625 original size:20 final size:21
Alignment explanation
Indices: 684584--684634 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
684574 AGCCGAGAAA
684584 AAAGAAAGAAAGGGAGAAAGG
1 AAAGAAAGAAAGGGAGAAAGG
*
684605 AAAGGAAGAAAGGGA-AAAGG
1 AAAGAAAGAAAGGGAGAAAGG
*
684625 AAAGTAAGAA
1 AAAGAAAGAA
684635 GAAGAAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (21 bp):
AAAGAAAGAAAGGGAGAAAGG
Found at i:684898 original size:46 final size:48
Alignment explanation
Indices: 684832--684922 Score: 134
Period size: 46 Copynumber: 1.9 Consensus size: 48
684822 AGTTATAGTT
684832 AAAAATAATTAATTAGTTTGTATT-GTT-AATAGTT-AGTTATATAAA
1 AAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATAAA
* *
684877 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAA-TAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATAT
684923 TTGTTTGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 5 0.12
46 17 0.43
47 3 0.08
48 7 0.17
49 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (48 bp):
AAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATAAA
Found at i:686360 original size:21 final size:21
Alignment explanation
Indices: 686316--686360 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
686306 GTATTTTTTA
*
686316 ATTATTATTTAAATTAACTAT
1 ATTATTATTTAAATTAAATAT
*
686337 ATTATTGATTTAAA-TAAATTT
1 ATTATT-ATTTAAATTAAATAT
686358 ATT
1 ATT
686361 GTTTTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATTATTTAAATTAAATAT
Found at i:687350 original size:14 final size:13
Alignment explanation
Indices: 687331--687592 Score: 102
Period size: 12 Copynumber: 19.3 Consensus size: 13
687321 TAACATAATA
687331 ATTATTATAAAATC
1 ATTATTAT-AAATC
*
687345 ATTATTAT-AATG
1 ATTATTATAAATC
687357 ATTATTATCAAATC
1 ATTATTAT-AAATC
687371 ATTACTAAATCATCAAATC
1 ATTA-T---T-AT-AAATC
*
687390 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
687406 ATTA-T-TAAATC
1 ATTATTATAAATC
* *
687417 ATTTTTAT-AATG
1 ATTATTATAAATC
687429 ATTATTACTAAATC
1 ATTATTA-TAAATC
* *
687443 ATTACTAT--ATG
1 ATTATTATAAATC
687454 ATTATTATCAAATC
1 ATTATTAT-AAATC
687468 ATTACTAAATCATCAAATC
1 ATTA-T---T-AT-AAATC
*
687487 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
687503 ATTA-T-TAAATC
1 ATTATTATAAATC
*
687514 ATT-TTAT-AATG
1 ATTATTATAAATC
687525 ATTATTACT-AATC
1 ATTATTA-TAAATC
*
687538 ATTATTAT-AATG
1 ATTATTATAAATC
687550 ATTATTATCAAATC
1 ATTATTAT-AAATC
* *
687564 ATTACTAT-AATG
1 ATTATTATAAATC
687576 ATTATT-TCAAATC
1 ATTATTAT-AAATC
687589 ATTA
1 ATTA
687593 CTAAATCATC
Statistics
Matches: 197, Mismatches: 20, Indels: 63
0.70 0.07 0.22
Matches are distributed among these distances:
11 35 0.18
12 47 0.24
13 21 0.11
14 42 0.21
15 2 0.01
16 16 0.08
17 2 0.01
18 6 0.03
19 22 0.11
20 2 0.01
21 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTATTATAAATC
Found at i:687460 original size:25 final size:26
Alignment explanation
Indices: 687406--687595 Score: 147
Period size: 25 Copynumber: 7.7 Consensus size: 26
687396 TATTTAAATC
* **
687406 ATTATTAAATCATTTTTATAATGATT
1 ATTACTAAATCATTACTATAATGATT
687432 ATTACTAAATCATTACTAT-ATGATT
1 ATTACTAAATCATTACTATAATGATT
* *
687457 ATTA-TCAAATCATTACTA-AATCATCAA
1 ATTACT-AAATCATTACTATAATGAT--T
* * *
687484 ATCATTAAAT-ATT--TA-AATCATT
1 ATTACTAAATCATTACTATAATGATT
*
687506 A-T--TAAATCATT-TTATAATGATT
1 ATTACTAAATCATTACTATAATGATT
*
687528 ATTACT-AATCATTATTATAATGATT
1 ATTACTAAATCATTACTATAATGATT
687553 ATTA-TCAAATCATTACTATAATGATT
1 ATTACT-AAATCATTACTATAATGATT
*
687579 ATTTC-AAATCATTACTA
1 ATTACTAAATCATTACTA
687596 AATCATCAAA
Statistics
Matches: 138, Mismatches: 11, Indels: 31
0.77 0.06 0.17
Matches are distributed among these distances:
19 5 0.04
20 3 0.02
21 2 0.01
22 8 0.06
23 1 0.01
24 17 0.12
25 54 0.39
26 40 0.29
27 7 0.05
28 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (26 bp):
ATTACTAAATCATTACTATAATGATT
Found at i:687473 original size:97 final size:97
Alignment explanation
Indices: 687325--687570 Score: 435
Period size: 97 Copynumber: 2.5 Consensus size: 97
687315 AAATAATAAC
*
687325 ATAATAATTATTA-TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
1 ATAATGATTATTACT-AAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
687389 CATTAAATATTTAAATCATTATTAAATCATTTTT
65 CATTAAATATTTAAATCATTATTAAATCA-TTTT
*
687423 ATAATGATTATTACTAAATCATTACTAT-ATGATTATTATCAAATCATTACTAAATCATCAAATC
1 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
687487 ATTAAATATTTAAATCATTATTAAATCATTTT
66 ATTAAATATTTAAATCATTATTAAATCATTTT
687519 ATAATGATTATTACT-AATCATTATTATAATGATTATTATCAAATCATTACTA
1 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTA
687571 TAATGATTAT
Statistics
Matches: 143, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
95 11 0.08
96 43 0.30
97 64 0.45
98 24 0.17
99 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (97 bp):
ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
ATTAAATATTTAAATCATTATTAAATCATTTT
Found at i:690520 original size:26 final size:24
Alignment explanation
Indices: 690462--690520 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
690452 CTAATAAACC
*
690462 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
690486 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
690514 TAATAAT
1 TAATAAT
690521 ATATGATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:690840 original size:17 final size:19
Alignment explanation
Indices: 690795--690840 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
690785 TAAACAATTT
*
690795 ATTTTTAAAACAACACTAA
1 ATTTTTAAAACAACAATAA
690814 ATTTTT-AAAC-ACAAT-A
1 ATTTTTAAAACAACAATAA
*
690830 TTTTTTAAAAC
1 ATTTTTAAAAC
690841 GGAAATTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.25
17 8 0.33
18 4 0.17
19 6 0.25
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTTTAAAACAACAATAA
Found at i:691385 original size:27 final size:28
Alignment explanation
Indices: 691319--691378 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
691309 ATTTTTTATA
*
691319 TAATATAATATAACTTAAACTAATAAAC
1 TAATATAATATAACTTAAACTAACAAAC
691347 TAATATAATATAACTT-AACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
691374 TAATA
1 TAATA
691379 ATTTATACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAAAC
Found at i:691389 original size:21 final size:20
Alignment explanation
Indices: 691356--691403 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
691346 CTAATATAAT
691356 ATAACTTAACTAACAAACTA
1 ATAACTTAACTAACAAACTA
*
691376 ATAATTTATACTAACAAACTA
1 ATAACTTA-ACTAACAAACTA
691397 ATTAACT
1 A-TAACT
691404 AGATTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 13 0.54
22 4 0.17
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTTAACTAACAAACTA
Found at i:691942 original size:25 final size:25
Alignment explanation
Indices: 691888--691945 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
691878 GTTCCCACGT
* *
691888 CCCATGCACAGCATGCATCTGCATG
1 CCCATGCACAGCATGCATCTCCATC
* *
691913 ACCATGCACAGCATGCATC-CCCTCC
1 CCCATGCACAGCATGCATCTCCAT-C
691938 CCCATGCA
1 CCCATGCA
691946 TTCCCACGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.17
Consensus pattern (25 bp):
CCCATGCACAGCATGCATCTCCATC
Found at i:692035 original size:29 final size:29
Alignment explanation
Indices: 692003--692082 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
691993 TATACCTTGG
*
692003 AGGTCGCCCGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
692032 AGGTCGCCTGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
*
692061 AGGTCGCCTGAATTGCATGGCG
1 AGGTCGCCTGGATTGCATGGCG
692083 TCCTATGGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (29 bp):
AGGTCGCCTGGATTGCATGGCGACCTCCA
Found at i:701720 original size:28 final size:28
Alignment explanation
Indices: 701688--701744 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
701678 CTCTCAATTT
* *
701688 ACATTAT-ATCATCGAGTCAGTGCTTGAA
1 ACATTATGA-CATCGAGCCAGTGATTGAA
*
701716 ACATTATGACGTCGAGCCAGTGATTGAA
1 ACATTATGACATCGAGCCAGTGATTGAA
701744 A
1 A
701745 GCAATGACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (28 bp):
ACATTATGACATCGAGCCAGTGATTGAA
Found at i:708766 original size:14 final size:12
Alignment explanation
Indices: 708743--708797 Score: 56
Period size: 14 Copynumber: 4.2 Consensus size: 12
708733 GAACAAGTGA
708743 TAAAAATATTAT
1 TAAAAATATTAT
708755 CTAAATAATATTAT
1 -TAAA-AATATTAT
708769 ATATAAAATATTAT
1 -TA-AAAATATTAT
* *
708783 TTAATATATTAT
1 TAAAAATATTAT
708795 TAA
1 TAA
708798 TAGTTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 11 0.31
13 5 0.14
14 18 0.50
15 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:715709 original size:233 final size:233
Alignment explanation
Indices: 715302--715769 Score: 936
Period size: 233 Copynumber: 2.0 Consensus size: 233
715292 GGTTGATTTC
715302 TATAAGGATCTGTTCACGCAAAAAAATACTCTGGAGGCCGAAGAGTTGGACTTGGATTTTCTAAA
1 TATAAGGATCTGTTCACGCAAAAAAATACTCTGGAGGCCGAAGAGTTGGACTTGGATTTTCTAAA
715367 ACTTTCGACTGATCATAGTTTGGCTCTTGAAAAGCCATTTTCTGAAGAGGAAATATGGGATGTAA
66 ACTTTCGACTGATCATAGTTTGGCTCTTGAAAAGCCATTTTCTGAAGAGGAAATATGGGATGTAA
715432 TTGCCAATTCGGACAGCAACAAATCGCCTGGACCTGATGGGTTAAGCTTAGGGTTTTTTAAGAAA
131 TTGCCAATTCGGACAGCAACAAATCGCCTGGACCTGATGGGTTAAGCTTAGGGTTTTTTAAGAAA
715497 TTCTGGCCTAGTTTGAAACAAGTAATGCTGCTGTTTTT
196 TTCTGGCCTAGTTTGAAACAAGTAATGCTGCTGTTTTT
715535 TATAAGGATCTGTTCACGCAAAAAAATACTCTGGAGGCCGAAGAGTTGGACTTGGATTTTCTAAA
1 TATAAGGATCTGTTCACGCAAAAAAATACTCTGGAGGCCGAAGAGTTGGACTTGGATTTTCTAAA
715600 ACTTTCGACTGATCATAGTTTGGCTCTTGAAAAGCCATTTTCTGAAGAGGAAATATGGGATGTAA
66 ACTTTCGACTGATCATAGTTTGGCTCTTGAAAAGCCATTTTCTGAAGAGGAAATATGGGATGTAA
715665 TTGCCAATTCGGACAGCAACAAATCGCCTGGACCTGATGGGTTAAGCTTAGGGTTTTTTAAGAAA
131 TTGCCAATTCGGACAGCAACAAATCGCCTGGACCTGATGGGTTAAGCTTAGGGTTTTTTAAGAAA
715730 TTCTGGCCTAGTTTGAAACAAGTAATGCTGCTGTTTTT
196 TTCTGGCCTAGTTTGAAACAAGTAATGCTGCTGTTTTT
715768 TA
1 TA
715770 AGGATTTTTA
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 235 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (233 bp):
TATAAGGATCTGTTCACGCAAAAAAATACTCTGGAGGCCGAAGAGTTGGACTTGGATTTTCTAAA
ACTTTCGACTGATCATAGTTTGGCTCTTGAAAAGCCATTTTCTGAAGAGGAAATATGGGATGTAA
TTGCCAATTCGGACAGCAACAAATCGCCTGGACCTGATGGGTTAAGCTTAGGGTTTTTTAAGAAA
TTCTGGCCTAGTTTGAAACAAGTAATGCTGCTGTTTTT
Found at i:725299 original size:31 final size:32
Alignment explanation
Indices: 725261--725333 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
725251 ATGATATTTT
* * *
725261 TTAATTTGATTCTTGAACTTTAGAT-AAAATA
1 TTAATTTGACTCATAAACTTTAGATAAAAATA
* *
725292 TTGATTTGACTCATAAATTTTAGATAAAAATA
1 TTAATTTGACTCATAAACTTTAGATAAAAATA
725324 TTAATTTGAC
1 TTAATTTGAC
725334 CCCTAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 20 0.57
32 15 0.43
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.44
Consensus pattern (32 bp):
TTAATTTGACTCATAAACTTTAGATAAAAATA
Found at i:725331 original size:32 final size:32
Alignment explanation
Indices: 725261--725372 Score: 95
Period size: 32 Copynumber: 3.6 Consensus size: 32
725251 ATGATATTTT
* * * *
725261 TTAATTTGATTCTTGAACTTTAGAT-AAAATA
1 TTAATTTGACTCATAAATTTTAGATAAAAATA
*
725292 TTGATTTGACTCATAAATTTTAGATAAAAATA
1 TTAATTTGACTCATAAATTTTAGATAAAAATA
* * ** *
725324 TTAATTTGACCCCTAAAAATT--ATATAAATA
1 TTAATTTGACTCATAAATTTTAGATAAAAATA
* *
725354 TCAATTTAACTCATAAATT
1 TTAATTTGACTCATAAATT
725373 CGACCAAAGT
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
30 21 0.33
31 20 0.32
32 22 0.35
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (32 bp):
TTAATTTGACTCATAAATTTTAGATAAAAATA
Found at i:729764 original size:22 final size:22
Alignment explanation
Indices: 729738--729786 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
729728 TGTGGGGATA
*
729738 TTTTTAG-TTTTTTTATTAAAT
1 TTTTTAGATATTTTTATTAAAT
*
729759 GTTTTT-GATATTTTTATTTAAT
1 -TTTTTAGATATTTTTATTAAAT
729781 TTTTTA
1 TTTTTA
729787 AATAATTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (22 bp):
TTTTTAGATATTTTTATTAAAT
Found at i:732432 original size:36 final size:36
Alignment explanation
Indices: 732380--732482 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
732370 AGTTGAGTAT
* *
732380 TATCAGCTTTGATACATTTGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
732416 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
732452 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
732483 CCAGCTCCAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:734178 original size:22 final size:25
Alignment explanation
Indices: 734143--734194 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
734133 TTAAAATAAA
734143 TTTATATAATTATATAT-TTA-ATT
1 TTTATATAATTATATATATTATATT
*
734166 TTTAT-TATTTATATATATTATATT
1 TTTATATAATTATATATATTATATT
734190 TTTAT
1 TTTAT
734195 CCCAATCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 10 0.38
23 8 0.31
24 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTATATAATTATATATATTATATT
Found at i:736046 original size:29 final size:29
Alignment explanation
Indices: 736007--736116 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
735997 TATGTGATAT
736007 GAGAATATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
* *
736037 GAGAGATGACAAGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
736066 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
736095 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
736117 ACATATAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 7 0.09
29 63 0.85
30 4 0.05
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:736067 original size:17 final size:17
Alignment explanation
Indices: 736020--736068 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
736010 AATATGACAT
736020 GAGCTACATGATCACAA
1 GAGCTACATGATCACAA
*
736037 GAG----A-GATGACAA
1 GAGCTACATGATCACAA
736049 GAGCTACATGATCACAA
1 GAGCTACATGATCACAA
736066 GAG
1 GAG
736069 AAATGACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
16 1 0.04
17 13 0.52
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
GAGCTACATGATCACAA
Found at i:742334 original size:21 final size:21
Alignment explanation
Indices: 742308--742351 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
742298 AACATGAAGG
742308 ATATTCATAGTGCATCGATGC
1 ATATTCATAGTGCATCGATGC
742329 ATATTCATAGTGCATCGATGC
1 ATATTCATAGTGCATCGATGC
742350 AT
1 AT
742352 CAAGGTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (21 bp):
ATATTCATAGTGCATCGATGC
Found at i:742956 original size:29 final size:29
Alignment explanation
Indices: 742917--743026 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
742907 TATGTGATAT
742917 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
742947 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
* *
742976 GAGAAATGATATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
743005 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
743027 ACATATAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 7 0.09
29 64 0.84
30 5 0.07
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:752471 original size:2 final size:2
Alignment explanation
Indices: 752466--752510 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
752456 AGTATCGATA
752466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- 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
752506 AT AT A
1 AT AT A
752511 ATTTATTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:752768 original size:5 final size:5
Alignment explanation
Indices: 752758--752784 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
752748 TTGGTAGTGT
752758 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
752785 TTTTTTATCA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:755778 original size:2 final size:2
Alignment explanation
Indices: 755771--755824 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
755761 AAACGAGATG
755771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
755812 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
755825 CAACAACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:762526 original size:21 final size:22
Alignment explanation
Indices: 762502--762545 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
762492 AATCAAGTAA
*
762502 ATCATACAGTA-GTCAAATCAT
1 ATCAAACAGTATGTCAAATCAT
* *
762523 ATCAAACATTATTTCAAATCAT
1 ATCAAACAGTATGTCAAATCAT
762545 A
1 A
762546 GAAAACAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (22 bp):
ATCAAACAGTATGTCAAATCAT
Found at i:780905 original size:14 final size:14
Alignment explanation
Indices: 780886--780946 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
780876 CATTAACACA
780886 CATATATATCATAT
1 CATATATATCATAT
780900 CATATA-ATTCATAT
1 CATATATA-TCATAT
* *
780914 CACA-A-AACATAT
1 CATATATATCATAT
780926 -ATATATAT-ATAT
1 CATATATATCATAT
*
780938 CACATATAT
1 CATATATAT
780947 TGTATTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.05
12 10 0.26
13 11 0.29
14 15 0.39
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
CATATATATCATAT
Found at i:781801 original size:19 final size:19
Alignment explanation
Indices: 781779--781816 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
781769 CGATCGAATC
781779 TTAACTTGATAATCGTTCT
1 TTAACTTGATAATCGTTCT
781798 TTAACTTGATAATCGTTCT
1 TTAACTTGATAATCGTTCT
781817 GGAACTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (19 bp):
TTAACTTGATAATCGTTCT
Found at i:781822 original size:19 final size:19
Alignment explanation
Indices: 781781--781824 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
781771 ATCGAATCTT
**
781781 AACTTGATAATCGTTCTTT
1 AACTTGATAATCGTTCTGG
781800 AACTTGATAATCGTTCTGG
1 AACTTGATAATCGTTCTGG
781819 AACTTG
1 AACTTG
781825 TTCGTGCTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (19 bp):
AACTTGATAATCGTTCTGG
Found at i:784737 original size:23 final size:23
Alignment explanation
Indices: 784706--784774 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
784696 CACCACAGCT
* *
784706 CGTATAATTGCACCAAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * * *
784729 CGTAGAATTACATCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
784752 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
784775 TATAATAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:786048 original size:11 final size:11
Alignment explanation
Indices: 786028--786065 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
786018 CTCGATGGAG
*
786028 GAGAATAAGAA
1 GAGAAGAAGAA
786039 GAGAAGAAGAA
1 GAGAAGAAGAA
786050 GAGAAGAAGAA
1 GAGAAGAAGAA
786061 GAGAA
1 GAGAA
786066 ATCTGGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (11 bp):
GAGAAGAAGAA
Found at i:787057 original size:2 final size:2
Alignment explanation
Indices: 787052--787109 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
787042 TAACACACAC
787052 AT AT AT AT AT -T AT AT A- 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
787092 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
787110 CACATTAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:788144 original size:24 final size:20
Alignment explanation
Indices: 788091--788148 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
788081 TTCCCCTTGA
*
788091 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
788111 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
788134 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
788149 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:794803 original size:21 final size:22
Alignment explanation
Indices: 794777--794824 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
794767 CCGTCAAACC
794777 GAAAACATGCCA-AAAGACAGA
1 GAAAACATGCCATAAAGACAGA
* **
794798 GAAAACATTCCATAAAGGTAGA
1 GAAAACATGCCATAAAGACAGA
794820 GAAAA
1 GAAAA
794825 ACGTGTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (22 bp):
GAAAACATGCCATAAAGACAGA
Found at i:797560 original size:37 final size:37
Alignment explanation
Indices: 797519--797667 Score: 271
Period size: 37 Copynumber: 4.0 Consensus size: 37
797509 AACATAACGT
*
797519 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
797556 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
*
797593 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAAA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
*
797630 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
797667 T
1 T
797668 CCACAAGCTT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
Found at i:798675 original size:26 final size:25
Alignment explanation
Indices: 798615--798675 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
798605 ATATATATAT
* *
798615 ATATATATATGTATGTATACTATTA
1 ATATATATTTATATGTATACTATTA
* * *
798640 ATATTTTATTTATATGTCTATTATTA
1 ATA-TATATTTATATGTATACTATTA
798666 CATATATATT
1 -ATATATATT
798676 AATTGTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 3 0.11
26 22 0.79
27 3 0.11
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (25 bp):
ATATATATTTATATGTATACTATTA
Found at i:798948 original size:21 final size:21
Alignment explanation
Indices: 798922--798968 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
798912 TTTTGTTTTT
*
798922 ATTTTTT-CTTTATATTTTTAC
1 ATTTTTTCCATTAT-TTTTTAC
*
798943 ATTTTTTCCATTATTTTTTCC
1 ATTTTTTCCATTATTTTTTAC
798964 ATTTT
1 ATTTT
798969 ATTTTCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTTCCATTATTTTTTAC
Found at i:800059 original size:83 final size:83
Alignment explanation
Indices: 799915--800067 Score: 234
Period size: 83 Copynumber: 1.8 Consensus size: 83
799905 AAGCTGGCTA
* * *
799915 CCAAACTTTAACCCTCTGCTCCCTCATGCATGAGTTACATCTATAGATGGGAGATTCCTGCATCC
1 CCAAACTTTAACCATATGCTCCCTCATGCATGAGTTACATCCATAGATGGGAGATTCCTGCATCC
799980 ATAGCTGGGAGATTGCAG
66 ATAGCTGGGAGATTGCAG
* * * * *
799998 CCAAGCTTTAACCATATGCTCCCTTATGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCC
1 CCAAACTTTAACCATATGCTCCCTCATGCATGAGTTACATCCATAGATGGGAGATTCCTGCATCC
800063 ATAGC
66 ATAGC
800068 CGCATTATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (83 bp):
CCAAACTTTAACCATATGCTCCCTCATGCATGAGTTACATCCATAGATGGGAGATTCCTGCATCC
ATAGCTGGGAGATTGCAG
Found at i:800444 original size:28 final size:30
Alignment explanation
Indices: 800410--800471 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
800400 AATTTAGTTA
800410 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTGTATATTAT
800438 ATTAGTTTGTTAGTTTAAGTTGTATATTAT
1 ATTAGTTTGTTAGTTTAAGTTGTATATTAT
800468 ATTA
1 ATTA
800472 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTGTATATTAT
Found at i:800534 original size:45 final size:48
Alignment explanation
Indices: 800433--800535 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 48
800423 TTTAAGTTAT
* * *
800433 ATTATATTAGTTTGTTAGTTTAAGTTGTATATTATATTATATAAAAAATTA
1 ATTA-ATTAGTTTCTTAGTTTAA--TGTATATTATAATATAAAAAAAATTA
*
800484 GTTAATTAGTTTCTTAGTTTAA-GT-TATTA-AATATAAAAAAAATTA
1 ATTAATTAGTTTCTTAGTTTAATGTATATTATAATATAAAAAAAATTA
800529 ATTAATT
1 ATTAATT
800536 TGTTAGTATC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
45 20 0.43
46 5 0.11
47 2 0.04
50 17 0.36
51 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.49
Consensus pattern (48 bp):
ATTAATTAGTTTCTTAGTTTAATGTATATTATAATATAAAAAAAATTA
Found at i:800964 original size:17 final size:17
Alignment explanation
Indices: 800942--801003 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
800932 AGATAATTTA
800942 TGTTTAAAAAAATATTG
1 TGTTTAAAAAAATATTG
* *
800959 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A-ATATTG
* *
800978 TTGTTTTAAAAAATATTT
1 -TGTTTAAAAAAATATTG
800996 TGTTTAAA
1 TGTTTAAA
801004 TTATATTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 17 0.49
18 4 0.11
19 5 0.14
20 9 0.26
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (17 bp):
TGTTTAAAAAAATATTG
Found at i:804423 original size:49 final size:49
Alignment explanation
Indices: 804357--804471 Score: 185
Period size: 49 Copynumber: 2.3 Consensus size: 49
804347 TATTATTATT
*
804357 TAGTAATGATTAATAATAATGAAATTATTATTATTATTTAATGATTTGA
1 TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGA
* * *
804406 TAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATTATTTGA
1 TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGA
*
804455 TAGTAATGATTATTAAT
1 TAGTAATGATTAATAAT
804472 GATTTTAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (49 bp):
TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:804487 original size:24 final size:24
Alignment explanation
Indices: 804460--804518 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 24
804450 TTTGATAGTA
*
804460 ATGA-TTATTAATGATTTTAATATT
1 ATGATTTAATAATG-TTTTAATATT
804484 ATGATTTAATAATGTTTTAATA--
1 ATGATTTAATAATGTTTTAATATT
*
804506 ATGATTTAGTAAT
1 ATGATTTAATAAT
804519 AATCATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 12 0.38
24 12 0.38
25 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (24 bp):
ATGATTTAATAATGTTTTAATATT
Found at i:804491 original size:46 final size:46
Alignment explanation
Indices: 804357--804493 Score: 159
Period size: 49 Copynumber: 2.8 Consensus size: 46
804347 TATTATTATT
804357 TAGTAATGATTAATAATAATGAAATTATTATTATTATTTAATGATTTGA
1 TAGTAATGATT-AT-ATAATGAAATTATTATTA-TATTTAATGATTTGA
* *
804406 TAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATTATTTGA
1 TAGTAATGATTA-T-ATAATGAAATTATTATT-ATATTTAATGATTTGA
** *
804455 TAGTAATGATTAT-TAATGATTTTAATATTATGATTTAAT
1 TAGTAATGATTATATAATGAAATTATTATTAT-ATTTAAT
804494 AATGTTTTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
45 2 0.03
46 20 0.25
48 2 0.03
49 54 0.68
50 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (46 bp):
TAGTAATGATTATATAATGAAATTATTATTATATTTAATGATTTGA
Found at i:804504 original size:11 final size:11
Alignment explanation
Indices: 804468--804556 Score: 54
Period size: 11 Copynumber: 7.5 Consensus size: 11
804458 TAATGATTAT
804468 TAATGATTTTAA
1 TAATG-TTTTAA
*
804480 TATTATGATTTAA
1 TA--ATGTTTTAA
804493 TAATGTTTTAA
1 TAATGTTTTAA
804504 TAATGATTTAGTAA
1 TAATG-TTT--TAA
* *
804518 TAATCATTATAA
1 TAAT-GTTTTAA
804530 TAAT-TATTTAA
1 TAATGT-TTTAA
**
804541 TAATAATTTAA
1 TAATGTTTTAA
804552 TAATG
1 TAATG
804557 ACTAAAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
10 1 0.02
11 30 0.48
12 12 0.19
13 7 0.11
14 12 0.19
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (11 bp):
TAATGTTTTAA
Found at i:804620 original size:25 final size:26
Alignment explanation
Indices: 804587--804689 Score: 128
Period size: 25 Copynumber: 4.2 Consensus size: 26
804577 ATTGATTTAG
804587 TAATGATTT-GATAATAATCATTATAA
1 TAATGATTTAG-TAATAATCATTATAA
804613 TAAT-ATTTAGTAATAATCATTATAA
1 TAATGATTTAGTAATAATCATTATAA
* *
804638 TAATGA-TT--CAATAATGATT-TAA
1 TAATGATTTAGTAATAATCATTATAA
*
804660 TAATAATTTAGTAATAATCATTATAA
1 TAATGATTTAGTAATAATCATTATAA
804686 TAAT
1 TAAT
804690 AATCCAATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
22 8 0.12
23 11 0.17
25 34 0.52
26 13 0.20
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TAATGATTTAGTAATAATCATTATAA
Found at i:804652 original size:11 final size:11
Alignment explanation
Indices: 804458--804875 Score: 137
Period size: 12 Copynumber: 35.9 Consensus size: 11
804448 TATTTGATAG
*
804458 TAATGA-TTAT
1 TAATGATTTAA
804468 TAATGATTTTAA
1 TAATGA-TTTAA
804480 TATTATGATTTAA
1 TA--ATGATTTAA
*
804493 TAATGTTTTAA
1 TAATGATTTAA
804504 TAATGATTTAGTAA
1 TAATGA-TT--TAA
*
804518 TAATCATTATAA
1 TAATGATT-TAA
*
804530 TAATTATTTAA
1 TAATGATTTAA
*
804541 TAATAATTTAA
1 TAATGATTTAA
*
804552 TAATGA-CTAA
1 TAATGATTTAA
804562 -AAT-A-TT--
1 TAATGATTTAA
804568 TAATGATTT-A
1 TAATGATTTAA
*
804578 T--TGATTTAG
1 TAATGATTTAA
804587 TAATGATTTGATAA
1 TAATGA-TT--TAA
*
804601 TAATCATTATAA
1 TAATGATT-TAA
804613 TAAT-ATTTAGTAA
1 TAATGA-TT--TAA
*
804626 TAATCATTATAA
1 TAATGATT-TAA
*
804638 TAATGATTCAA
1 TAATGATTTAA
804649 TAATGATTTAA
1 TAATGATTTAA
*
804660 TAATAATTTAGTAA
1 TAATGA-TT--TAA
*
804674 TAATCATTATAA
1 TAATGATT-TAA
* **
804686 TAATAATCCAA
1 TAATGATTTAA
804697 TAATGATTTAA
1 TAATGATTTAA
804708 TAATGA-TTAA
1 TAATGATTTAA
804718 -AAT-ATTTAA
1 TAATGATTTAA
*
804727 TGATTTGATGATTTAG
1 T-A----ATGATTTAA
804743 TAATGACTTGATAA
1 TAATGA-TT--TAA
* *
804757 TAATTATTATAG
1 TAATGATT-TAA
804769 TAAT-ATTTAGTAA
1 TAATGA-TT--TAA
*
804782 TAATCATTATAA
1 TAATGATT-TAA
* *
804794 TAATGGTTCAA
1 TAATGATTTAA
804805 TAATGATTTTAA
1 TAATGA-TTTAA
* * * * *
804817 TATTTAATGATT
1 TAATGATTTA-A
*
804829 TAATGATTTAG
1 TAATGATTTAA
804840 TAATGATTTGATAA
1 TAATGA-TT--TAA
*
804854 TAATAATTATAA
1 TAATGATT-TAA
804866 TAATGATTTA
1 TAATGATTTA
804876 GAGTAGGATA
Statistics
Matches: 314, Mismatches: 52, Indels: 83
0.70 0.12 0.18
Matches are distributed among these distances:
7 3 0.01
8 10 0.03
9 13 0.04
10 14 0.04
11 91 0.29
12 97 0.31
13 34 0.11
14 43 0.14
15 3 0.01
16 6 0.02
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:804659 original size:156 final size:156
Alignment explanation
Indices: 804484--804818 Score: 537
Period size: 156 Copynumber: 2.1 Consensus size: 156
804474 TTTTAATATT
* * * * **
804484 ATGATTTAATAATGTTTTAATAATGATTTAGTAATAATCATTATAATAATTATTTAATAATAATT
1 ATGATTCAATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATAATCCAATAATAATT
*
804549 TAATAATGACTAAAATATTTAATGATTT-ATTGATTTAGTAATGATTTGATAATAATCATTATAA
66 TAATAATGACTAAAATATTTAATGATTTGA-TGATTTAGTAATGACTTGATAATAATCATTATAA
804613 TAATATTTAGTAATAATCATTATAATA
130 TAATATTTAGTAATAATCATTATAATA
*
804640 ATGATTCAATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATAATCCAATAATGATT
1 ATGATTCAATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATAATCCAATAATAATT
* * *
804705 TAATAATGATTAAAATATTTAATGATTTGATGATTTAGTAATGACTTGATAATAATTATTATAGT
66 TAATAATGACTAAAATATTTAATGATTTGATGATTTAGTAATGACTTGATAATAATCATTATAAT
804770 AATATTTAGTAATAATCATTATAATA
131 AATATTTAGTAATAATCATTATAATA
*
804796 ATGGTTCAATAATGATTTTAATA
1 ATGATTCAATAATGA-TTTAATA
804819 TTTAATGATT
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
156 157 0.95
157 8 0.05
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (156 bp):
ATGATTCAATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATAATCCAATAATAATT
TAATAATGACTAAAATATTTAATGATTTGATGATTTAGTAATGACTTGATAATAATCATTATAAT
AATATTTAGTAATAATCATTATAATA
Found at i:804671 original size:48 final size:47
Alignment explanation
Indices: 804599--804711 Score: 181
Period size: 48 Copynumber: 2.4 Consensus size: 47
804589 ATGATTTGAT
* * *
804599 AATAATCATTATAATAATATTTAGTAATAATCATTATAATAATGATTC
1 AATAATGATT-TAATAATATTTAGTAATAATCATTATAATAATAATCC
804647 AATAATGATTTAATAATAATTTAGTAATAATCATTATAATAATAATCC
1 AATAATGATTTAATAAT-ATTTAGTAATAATCATTATAATAATAATCC
804695 AATAATGATTTAATAAT
1 AATAATGATTTAATAAT
804712 GATTAAAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 7 0.11
48 54 0.89
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (47 bp):
AATAATGATTTAATAATATTTAGTAATAATCATTATAATAATAATCC
Found at i:804819 original size:97 final size:98
Alignment explanation
Indices: 804657--804876 Score: 286
Period size: 97 Copynumber: 2.3 Consensus size: 98
804647 AATAATGATT
* * ** *
804657 TAATAATAATTTAGTAATAATCA-TTA-TAATAAT-AATCCAATAATGATTTAATAATGATTAAA
1 TAATAATAA-TTA-TAATAATGATTTAGTAATAATCATTATAATAATGATTCAATAATGATTAAA
*
804719 ATATTTAATGATTTGATGATTTAGTAATGACTTGA
64 ATATTTAATGATTTAATGATTTAGTAATGACTTGA
* * * **
804754 TAATAATTATTATAGTAAT-ATTTAGTAATAATCATTATAATAATGGTTCAATAATGATTTTAAT
1 TAATAATAATTATAATAATGATTTAGTAATAATCATTATAATAATGATTCAATAATGATTAAAAT
*
804818 ATTTAATGATTTAATGATTTAGTAATGATTTGA
66 ATTTAATGATTTAATGATTTAGTAATGACTTGA
804851 TAATAATAATTATAATAATGATTTAG
1 TAATAATAATTATAATAATGATTTAG
804877 AGTAGGATAT
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
94 1 0.01
95 9 0.08
96 10 0.09
97 80 0.75
98 6 0.06
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (98 bp):
TAATAATAATTATAATAATGATTTAGTAATAATCATTATAATAATGATTCAATAATGATTAAAAT
ATTTAATGATTTAATGATTTAGTAATGACTTGA
Found at i:804829 original size:8 final size:8
Alignment explanation
Indices: 804805--804838 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
804795 AATGGTTCAA
804805 TAATGATTT
1 TAATGA-TT
804814 TAAT-ATT
1 TAATGATT
804821 TAATGATT
1 TAATGATT
804829 TAATGATT
1 TAATGATT
804837 TA
1 TA
804839 GTAATGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.25
8 14 0.58
9 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (8 bp):
TAATGATT
Found at i:805639 original size:143 final size:143
Alignment explanation
Indices: 805465--805750 Score: 545
Period size: 143 Copynumber: 2.0 Consensus size: 143
805455 ATATTAAATA
*
805465 TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTCTCAAATTTTTTGTCTAATTA
1 TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTATCAAATTTTTTGTCTAATTA
*
805530 CAATTTAAGTCATTATAACTTTAAATATTAGACAAATTAGAAATTGTTTTTTAAATTTTGAGTTT
66 CAATTTAAGTCATTATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAATTTTGAGTTT
805595 TTTTTAATTTATG
131 TTTTTAATTTATG
*
805608 TTTAATCAATTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTATCAAATTTTTTGTCTAATTA
1 TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTATCAAATTTTTTGTCTAATTA
805673 CAATTTAAGTCATTATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAATTTTGAGTTT
66 CAATTTAAGTCATTATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAATTTTGAGTTT
805738 TTTTTAATTTATG
131 TTTTTAATTTATG
805751 GTGAATACAA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 140 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (143 bp):
TTTAATCAAGTAGGGGTTGAACTAAAAAATGATAAGTTTGTCTTATCAAATTTTTTGTCTAATTA
CAATTTAAGTCATTATAACTTTAAATATTAGACAAATTAGAAATTATTTTTTAAATTTTGAGTTT
TTTTTAATTTATG
Found at i:810502 original size:23 final size:23
Alignment explanation
Indices: 810485--810529 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
810475 ATTTTATTTT
*
810485 AATATATATTTTAATTTTTTTAG
1 AATATAAATTTTAATTTTTTTAG
*
810508 AATCTAAATTTTAATTTTTTTA
1 AATATAAATTTTAATTTTTTTA
810530 TTAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
AATATAAATTTTAATTTTTTTAG
Found at i:811858 original size:48 final size:48
Alignment explanation
Indices: 811805--811944 Score: 119
Period size: 48 Copynumber: 3.1 Consensus size: 48
811795 CAGTGACTCG
811805 ATTAATATCATTAACAATTGAGTAATTATTTTAATACAAATCGATAAT
1 ATTAATATCATTAACAATTGAGTAATTATTTTAATACAAATCGATAAT
* * **
811853 ATTAATA--ATGCTAAC-ACTGA-T-A-TA---T-AT-C-AGT-GACT-CG
1 ATTAATATCAT--TAACAATTGAGTAATTATTTTAATACAAATCGA-TAAT
811890 ATTAATATCATTAACAATTGAGTAATTATTTTAATACAAATCGATAAT
1 ATTAATATCATTAACAATTGAGTAATTATTTTAATACAAATCGATAAT
811938 ATTAATA
1 ATTAATA
811945 ATGGTAATCT
Statistics
Matches: 67, Mismatches: 8, Indels: 34
0.61 0.07 0.31
Matches are distributed among these distances:
37 13 0.19
38 7 0.10
39 4 0.06
40 3 0.04
41 3 0.04
44 3 0.04
45 3 0.04
46 4 0.06
47 7 0.10
48 20 0.30
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (48 bp):
ATTAATATCATTAACAATTGAGTAATTATTTTAATACAAATCGATAAT
Found at i:811905 original size:37 final size:37
Alignment explanation
Indices: 811779--811905 Score: 85
Period size: 37 Copynumber: 3.1 Consensus size: 37
811769 TCAATTGTCC
811779 TAACACTGATATATATCAGTGACTCGATTAATATCAT
1 TAACACTGATATATATCAGTGACTCGATTAATATCAT
* * * * * *
811816 TAACAATTGAGTAATTATTTTAAT-ACAAATCGATAATATTAATAAT
1 TAAC-ACTGA-T-A-TATATCAGTGAC---TCGAT--TAAT-ATCAT
811862 GCTAACACTGATATATATCAGTGACTCGATTAATATCAT
1 --TAACACTGATATATATCAGTGACTCGATTAATATCAT
811901 TAACA
1 TAACA
811906 ATTGAGTAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 26
0.63 0.12 0.25
Matches are distributed among these distances:
37 9 0.14
38 4 0.06
39 5 0.08
40 6 0.09
41 6 0.09
42 5 0.08
43 5 0.08
44 6 0.09
45 6 0.09
46 5 0.08
47 4 0.06
48 4 0.06
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (37 bp):
TAACACTGATATATATCAGTGACTCGATTAATATCAT
Found at i:811921 original size:85 final size:85
Alignment explanation
Indices: 811778--811947 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
811768 ATCAATTGTC
811778 CTAACACTGATATATATCAGTGACTCGATTAATATCATTAACAATTGAGTAATTATTTTAATACA
1 CTAACACTGATATATATCAGTGACTCGATTAATATCATTAACAATTGAGTAATTATTTTAATACA
811843 AATCGATAATATTAATAATG
66 AATCGATAATATTAATAATG
811863 CTAACACTGATATATATCAGTGACTCGATTAATATCATTAACAATTGAGTAATTATTTTAATACA
1 CTAACACTGATATATATCAGTGACTCGATTAATATCATTAACAATTGAGTAATTATTTTAATACA
811928 AATCGATAATATTAATAATG
66 AATCGATAATATTAATAATG
811948 GTAATCTAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (85 bp):
CTAACACTGATATATATCAGTGACTCGATTAATATCATTAACAATTGAGTAATTATTTTAATACA
AATCGATAATATTAATAATG
Found at i:815178 original size:162 final size:162
Alignment explanation
Indices: 814967--815302 Score: 528
Period size: 162 Copynumber: 2.1 Consensus size: 162
814957 TTGAAATAAA
* * * * *
814967 TATCGACACTTTTGGAATTTAAAAGAGAATCAGTAATAGCGCTTATAAAGTGTTAATACTTTATA
1 TATCGATACTTTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCAATACTTTATA
* *
815032 AAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGATAA
66 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
*
815097 AACCGGTAAAACGCTACCGAATATGTTGAAAG
131 AACCGGTAAAACACTACCGAATATGTTGAAAG
* *
815129 TGTCGATACTTTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTATA
1 TATCGATACTTTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCAATACTTTATA
* *
815194 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACCAAACCGGTCTCGAAATGACCA
66 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
* * * *
815259 AATCGGTTAAGCACTACCGGATATGTTGAAAG
131 AACCGGTAAAACACTACCGAATATGTTGAAAG
815291 TATCGATACTTT
1 TATCGATACTTT
815303 AATATAAGTA
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
162 157 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (162 bp):
TATCGATACTTTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCAATACTTTATA
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
AACCGGTAAAACACTACCGAATATGTTGAAAG
Found at i:819835 original size:51 final size:51
Alignment explanation
Indices: 819736--820095 Score: 639
Period size: 51 Copynumber: 7.0 Consensus size: 51
819726 TTGGCAAACG
* * * *
819736 TGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAACAAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACT
819791 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
819842 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
819893 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
819944 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
819995 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
*
820046 TATCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
820096 GAATTTGCTT
Statistics
Matches: 300, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
51 268 0.89
55 32 0.11
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACT
Found at i:820038 original size:27 final size:27
Alignment explanation
Indices: 820008--820089 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
819998 CCGCTCCCTA
820008 TTCATTCAGAGAGTATAGGACTCAATC
1 TTCATTCAGAGAGTATAGGACTCAATC
* * ** ** *
820035 TTCA-AC-GA-ACTTATCCG-CTCCCTA
1 TTCATTCAGAGA-GTATAGGACTCAATC
820059 TTCATTCAGAGAGTATAGGACTCAATC
1 TTCATTCAGAGAGTATAGGACTCAATC
820086 TTCA
1 TTCA
820090 ACGAACGAAT
Statistics
Matches: 36, Mismatches: 14, Indels: 10
0.60 0.23 0.17
Matches are distributed among these distances:
24 9 0.25
25 7 0.19
26 7 0.19
27 13 0.36
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (27 bp):
TTCATTCAGAGAGTATAGGACTCAATC
Found at i:821466 original size:54 final size:53
Alignment explanation
Indices: 821407--821554 Score: 137
Period size: 54 Copynumber: 2.8 Consensus size: 53
821397 TGAACCCTCC
* *
821407 TTTTATTTCTCTTTTTTTCATTTTTC-TCTTTTTATTTTTCTTTCTTTTTTTCAT
1 TTTTATTTCTCTTTTTTTCATTTTTCTTC-TTTTATTCTT-TTTCTTTTTCTCAT
* *
821461 TTTTATTTTTTCTCATTTTTTC--TTTTCTTCTTTTCTTCTTTTTCTTTTTCTCAT
1 TTTTA---TTTCTCTTTTTTTCATTTTTCTTCTTTTATTCTTTTTCTTTTTCTCAT
* *
821515 TTTTATTAT-TATTTTTTTTCATTTTTCAT-TTTT-TTCTTTT
1 TTTTATT-TCT-CTTTTTTTCATTTTTCTTCTTTTATTCTTTT
821555 ATTTCTTCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
51 3 0.04
52 15 0.19
53 4 0.05
54 29 0.37
55 13 0.16
56 2 0.03
57 13 0.16
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (53 bp):
TTTTATTTCTCTTTTTTTCATTTTTCTTCTTTTATTCTTTTTCTTTTTCTCAT
Found at i:821539 original size:6 final size:7
Alignment explanation
Indices: 821420--821547 Score: 54
Period size: 7 Copynumber: 17.7 Consensus size: 7
821410 TATTTCTCTT
821420 TTTTTCA
1 TTTTTCA
821427 TTTTTC-
1 TTTTTCA
*
821433 TCTTTTTA
1 T-TTTTCA
821441 TTTTTC-
1 TTTTTCA
821447 TTTCTT--
1 TTT-TTCA
821453 TTTTTCA
1 TTTTTCA
821460 TTTTT-A
1 TTTTTCA
821466 TTTTTTCTCA
1 --TTTT-TCA
*
821476 TTTTTTCT
1 -TTTTTCA
*
821484 TTTCTTCT
1 TTT-TTCA
821492 TTTCTTC-
1 TTT-TTCA
*
821499 TTTTTCT
1 TTTTTCA
821506 TTTTCTCA
1 TTTT-TCA
821514 TTTTT-A
1 TTTTTCA
**
821520 TTATTATTT
1 TT-TT-TCA
821529 TTTTTCA
1 TTTTTCA
821536 TTTTTCA
1 TTTTTCA
821543 TTTTT
1 TTTTT
821548 TTCTTTTATT
Statistics
Matches: 99, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
5 2 0.02
6 14 0.14
7 47 0.47
8 27 0.27
9 8 0.08
10 1 0.01
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:821550 original size:16 final size:15
Alignment explanation
Indices: 821407--821554 Score: 103
Period size: 15 Copynumber: 9.7 Consensus size: 15
821397 TGAACCCTCC
*
821407 TTTT-ATTTCTCTTT
1 TTTTCATTTTTCTTT
821421 TTTTCATTTTTCTCTT
1 TTTTCATTTTTCT-TT
**
821437 TTTATTTTTCTTTCTTT
1 TTT-TCATT-TTTCTTT
*
821454 TTTTCATTTTTATTT
1 TTTTCATTTTTCTTT
821469 TTTCTCATTTTTTCTTT
1 TTT-TCA-TTTTTCTTT
*
821486 TCTTC--TTTTCTTCT
1 TTTTCATTTTTCTT-T
*
821500 TTTTC-TTTTTCTCAT
1 TTTTCATTTTTCT-TT
821515 TTTT-ATTATTAT-TTT
1 TTTTCATT-TT-TCTTT
821530 TTTTCATTTTTCATTT
1 TTTTCATTTTTC-TTT
821546 TTTTC-TTTT
1 TTTTCATTTT
821555 ATTTCTTCTT
Statistics
Matches: 108, Mismatches: 11, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
13 7 0.06
14 10 0.09
15 40 0.37
16 27 0.25
17 19 0.18
18 5 0.05
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCATTTTTCTTT
Found at i:821560 original size:9 final size:8
Alignment explanation
Indices: 821416--821561 Score: 84
Period size: 8 Copynumber: 17.5 Consensus size: 8
821406 CTTTTATTTC
821416 TCTTTTTT
1 TCTTTTTT
*
821424 TCATTTTTC
1 TC-TTTTTT
821433 TCTTTTTAT
1 TCTTTTT-T
*
821442 T-TTTCTT
1 TCTTTTTT
821449 TCTTTTTT
1 TCTTTTTT
*
821457 TCATTTTTA
1 TC-TTTTTT
*
821466 T-TTTTTC
1 TCTTTTTT
*
821473 TCATTTTT
1 TCTTTTTT
*
821481 TCTTTTCT
1 TCTTTTTT
*
821489 TCTTTTCT
1 TCTTTTTT
821497 TC--TTTT
1 TCTTTTTT
*
821503 TCTTTTTC
1 TCTTTTTT
821511 TCATTTTTAT
1 TC-TTTTT-T
*
821521 TATTATTTT
1 TCTT-TTTT
*
821530 TTTTCATTTT
1 TCTT--TTTT
821540 TCATTTTTT
1 TC-TTTTTT
821549 TCTTTTATT
1 TCTTTT-TT
821558 TCTT
1 TCTT
821562 CTTCAAGCGA
Statistics
Matches: 109, Mismatches: 16, Indels: 25
0.73 0.11 0.17
Matches are distributed among these distances:
6 5 0.05
7 8 0.07
8 47 0.43
9 37 0.34
10 10 0.09
11 2 0.02
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.77
Consensus pattern (8 bp):
TCTTTTTT
Found at i:835177 original size:18 final size:18
Alignment explanation
Indices: 835156--835203 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
835146 AGGCGGAAGA
* * *
835156 GGAGGAAGTGGATGTAGT
1 GGAGGCAGTGGATGCAAT
*
835174 GGAGGCTGTGGATGCAAT
1 GGAGGCAGTGGATGCAAT
835192 GGAGGCAGTGGA
1 GGAGGCAGTGGA
835204 GGAAGAGGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.06, G:0.50, T:0.19
Consensus pattern (18 bp):
GGAGGCAGTGGATGCAAT
Found at i:836921 original size:24 final size:24
Alignment explanation
Indices: 836883--836940 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
836873 TTTCATGTTC
836883 ATTTAATATTTAATTGGAGTTTGA
1 ATTTAATATTTAATTGGAGTTTGA
*
836907 ATTTAA-ATTTCAATTTGAGTTTGA
1 ATTTAATATTT-AATTGGAGTTTGA
836931 ATTTCAATAT
1 ATTT-AATAT
836941 AAATTTCGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 4 0.13
24 22 0.73
25 2 0.07
26 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAATATTTAATTGGAGTTTGA
Found at i:836923 original size:18 final size:18
Alignment explanation
Indices: 836902--836938 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
836892 TTAATTGGAG
836902 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
836920 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
836938 T
1 T
836939 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:836945 original size:24 final size:24
Alignment explanation
Indices: 836894--836946 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
836884 TTTAATATTT
* * *
836894 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
836918 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
836942 AATTT
1 AATTT
836947 CGAATCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:839058 original size:199 final size:199
Alignment explanation
Indices: 838471--839427 Score: 1480
Period size: 199 Copynumber: 4.8 Consensus size: 199
838461 GTAAACAAAT
838471 GTGTCGATACATTTATTAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* *
838534 AGGTAAATTTACAATGTAACCGGTAGATATATACCGATTTTATGAGAAAATAGGTCTACATAATG
64 AGGTAACTTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATG
* * *
838599 TATCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCTCAACGAGGTGCACG
129 TATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACA
838664 CATAAA
194 CATAAA
* *
838670 GTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
838735 GTAACTTTACAATGTAACCGGTAGAAA-ATACC-AGTTTTATGAGAAAATAGGTCTACATAATGT
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGA-TTTTATGAGAAAATAGGTCTACATAATGT
838798 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACAC
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACAC
838863 ATAAA
195 ATAAA
* *
838868 GTGTCGATATATTTAAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * *
838933 GTAACTTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAGTTCTACATAATGTA
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTA
838998 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCA-AGC
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACA-C
839062 ATAAA
195 ATAAA
* *
839067 GTGTCGATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAC
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * * *
839132 GTAACTTTACAATGTAACCAGTAAAAATATACCTA-TTAATTAGAAAATAGGTCAACATAATGTA
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTA
* * * * *
839196 TCGATACTTTTTAAA-TTGTGTCAATACTTTTTGTCCAGAATGAAAGTCAAACGAGGTGCACACA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACA
839260 TAAA
196 TAAA
* *
839264 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * *
839328 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGATATAATTAGAAAATAGATCAACATAATG
64 AGGTAACTTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATG
* * *
839393 TATCGACACTTTTTAAATTTTTATCGATATTTTTT
129 TATCGACACTTTTTAAATTTGTGTCGATACTTTTT
839428 TTTAAATTAC
Statistics
Matches: 702, Mismatches: 45, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
197 66 0.09
198 302 0.43
199 321 0.46
200 13 0.02
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAACTTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACA
TAAA
Found at i:839207 original size:397 final size:395
Alignment explanation
Indices: 838471--839427 Score: 1549
Period size: 397 Copynumber: 2.4 Consensus size: 395
838461 GTAAACAAAT
*
838471 GTGTCGATACATTTATTAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* *
838536 GTAAATTTACAATGTAACCGGTAGATATATACCGATTTTATGAGAAAATAGGTCTACATAATGTA
66 GTAAATTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGATCTACATAATGTA
* * *
838601 TCGACACTTTCTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCTCAACGAGGTGCACGCA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGCA
838666 TAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTA
196 TAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTA
* * * * *
838731 ATAGGTAACTTTACAATGTAACCGGTAGAAAATACCAGTTTTATGAGAAAATAGGTCTACATAAT
261 ATACGTAACTTTACAATGTAACCAGTAAAAAATACCAG-TTAATGAGAAAATAGGTCAACATAAT
* * *
838796 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAC
325 GTATCGACACTTTTTAAA-TTGTGTCAATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCAC
838861 ACATAAA
389 ACATAAA
* * *
838868 GTGTCGATATATTTA-AAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
838932 GGTAACTTTACAATGTAACCAGTAGAAATATACCGGTTTTATGAGAAAATAGTTCTACATAATGT
65 GGTAAATTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGATCTACATAATGT
838997 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGC
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGC
*
839062 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGT
195 ATAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGT
*
839127 AATACGTAACTTTACAATGTAACCAGTAAAAATATACCTA-TTAATTAGAAAATAGGTCAACATA
260 AATACGTAACTTTACAATGTAACCAGTAAAAA-ATACC-AGTTAATGAGAAAATAGGTCAACATA
* *
839191 ATGTATCGATACTTTTTAAATTGTGTCAATACTTTTTGTCCAGAATGAAAGTCAAACGAGGTGCA
323 ATGTATCGACACTTTTTAAATTGTGTCAATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCA
839256 CACATAAA
388 CACATAAA
*
839264 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
839329 GGTAAATTTACAATGTAACCGGTAGAAATATACCGATATAATTAGAAAATAGATCAACATAATGT
65 GGTAAATTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGATCTACATAATGT
* * *
839394 ATCGACACTTTTTAAATTTTTATCGATATTTTTT
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTT
839428 TTTAAATTAC
Statistics
Matches: 516, Mismatches: 39, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
396 65 0.13
397 442 0.86
398 8 0.02
399 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (395 bp):
GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTAGAAATATACCGATTTTATGAGAAAATAGATCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGCA
TAAAGTGTCAATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTA
ATACGTAACTTTACAATGTAACCAGTAAAAAATACCAGTTAATGAGAAAATAGGTCAACATAATG
TATCGACACTTTTTAAATTGTGTCAATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACAC
ATAAA
Found at i:843507 original size:2 final size:2
Alignment explanation
Indices: 843500--843525 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
843490 CCCCAAAAAG
843500 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
843526 CACACGGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:843762 original size:2 final size:2
Alignment explanation
Indices: 843755--843783 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
843745 ACATTGTAAC
843755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
843784 GAAAGAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:845821 original size:26 final size:26
Alignment explanation
Indices: 845785--845840 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
845775 AATTTATATG
* *
845785 TTTTCTTTTTTAAAATATATATATAA
1 TTTTATTTTTTAAAATATATATAAAA
* * *
845811 TTTTATTTTTTTAATTTTATATAAAA
1 TTTTATTTTTTAAAATATATATAAAA
845837 TTTT
1 TTTT
845841 TAAAATTATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTATTTTTTAAAATATATATAAAA
Found at i:847356 original size:21 final size:21
Alignment explanation
Indices: 847332--847394 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
847322 TTATTAATTC
847332 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
847353 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
847372 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
847393 AT
1 AT
847395 ATTAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Found at i:847370 original size:40 final size:40
Alignment explanation
Indices: 847300--847403 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
847290 ATAAATTCGA
* * *
847300 ATGTATGATATGTATATATAATTTATTAATTCATGCATGT
1 ATGTATGATATGTATATATAATGTATTAATTCATGAATGC
* * *
847340 ATGTATAATATGTATGCATAT-ATGTA-TAATTTATTAATGC
1 ATGTATGATATGTAT--ATATAATGTATTAATTCATGAATGC
847380 ATGTATGATATGTATAT-TAATGTA
1 ATGTATGATATGTATATATAATGTA
847404 ATATGCATAG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.02
38 7 0.13
40 38 0.70
41 4 0.07
42 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (40 bp):
ATGTATGATATGTATATATAATGTATTAATTCATGAATGC
Found at i:847557 original size:7 final size:7
Alignment explanation
Indices: 847547--847615 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
847537 TAGTTTATAG
847547 AAACCCT
1 AAACCCT
*
847554 AAACTCT
1 AAACCCT
847561 AAACCCT
1 AAACCCT
*
847568 AAACCAT
1 AAACCCT
*
847575 ACACCCT
1 AAACCCT
**
847582 -AACTTT
1 AAACCCT
*
847588 AAACCAT
1 AAACCCT
*
847595 AAACACT
1 AAACCCT
*
847602 AAACCAT
1 AAACCCT
847609 AAACCCT
1 AAACCCT
847616 GATATAAATA
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
6 3 0.07
7 43 0.93
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:847764 original size:13 final size:13
Alignment explanation
Indices: 847732--847758 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
847722 TAATTTACAT
847732 TTAAATAATTTTA
1 TTAAATAATTTTA
847745 TTAAATAATTTTA
1 TTAAATAATTTTA
847758 T
1 T
847759 ATAATATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:847875 original size:21 final size:22
Alignment explanation
Indices: 847850--847909 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
847840 TATAGAAATC
*
847850 CTAAATCATAAACCA-TAAACT
1 CTAAATCATAAACCACTAAACA
* *
847871 TTAAATCACAAA-CACTAAACA
1 CTAAATCATAAACCACTAAACA
847892 CTAAATCATAAACC-CTAA
1 CTAAATCATAAACCACTAA
847910 TGTAAATAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (22 bp):
CTAAATCATAAACCACTAAACA
Found at i:848302 original size:20 final size:20
Alignment explanation
Indices: 848250--848302 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
848240 TAAATAATTT
*
848250 TATATAATATGTATGTATAAAC
1 TATATAA-A-GTATATATAAAC
* * *
848272 CATCTATAGTATATATAAAC
1 TATATAAAGTATATATAAAC
848292 TATATAAAGTA
1 TATATAAAGTA
848303 AATTACTTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TATATAAAGTATATATAAAC
Found at i:848374 original size:48 final size:49
Alignment explanation
Indices: 848281--848375 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 49
848271 CCATCTATAG
* * **
848281 TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
848330 TATACATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAAC
848376 CTTAAATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 21 0.51
49 20 0.49
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (49 bp):
TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:848387 original size:49 final size:49
Alignment explanation
Indices: 848286--848389 Score: 131
Period size: 48 Copynumber: 2.1 Consensus size: 49
848276 TATAGTATAT
* ** *
848286 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
*
848335 ATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC-CTTAAATC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC-TAAA-C
848384 ATAAAC
1 ATAAAC
848390 CCTAAATCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 24 0.50
49 23 0.48
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:848417 original size:28 final size:28
Alignment explanation
Indices: 848372--848430 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
848362 TAGTTTATAG
* * * *
848372 AAACCTTAAATCATAAACCCTAAATCCT
1 AAACCTTAAACCACAAACACTAAATACT
*
848400 AAACTTTAAACCACAAACACTAAATACT
1 AAACCTTAAACCACAAACACTAAATACT
848428 AAA
1 AAA
848431 TCATAAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (28 bp):
AAACCTTAAACCACAAACACTAAATACT
Found at i:848833 original size:13 final size:13
Alignment explanation
Indices: 848815--848844 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
848805 CCATGTATAG
848815 TATATATAAACTA
1 TATATATAAACTA
848828 TATATATAAACTA
1 TATATATAAACTA
848841 TATA
1 TATA
848845 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:848833 original size:20 final size:21
Alignment explanation
Indices: 848784--848834 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
848774 TAAATAATTT
*
848784 TATATAATATGTATGTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
848806 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
848826 TATATATAT
1 TATATATAT
848835 AAACTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:848947 original size:14 final size:14
Alignment explanation
Indices: 848919--848989 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
848909 TAGTTTATAG
* *
848919 AAACCTTAAATCCT
1 AAACCATAAACCCT
*
848933 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
848947 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
848960 AAACCATAAACACT
1 AAACCATAAACCCT
848974 AAACCATAAACCCT
1 AAACCATAAACCCT
848988 AA
1 AA
848990 TTTAAATGGA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 9 0.20
14 36 0.80
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:849189 original size:546 final size:546
Alignment explanation
Indices: 847808--850691 Score: 4826
Period size: 546 Copynumber: 5.3 Consensus size: 546
847798 ATATACATAT
* * * **
847808 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAATCCTAAATCATAAACCATAAACTTT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
* * * *
847873 AAATC---AC---AAA-CACTAAACACTAAATCATAAACCCTAATGTAAATAGACTATCACTAAT
66 AATTCTAAACTTTAAACCA-TAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAAT
* * *
847931 GCATATATATTTGTAATAAAAGAGTAGGCTTGCATTGGGCATAT-CTAAATTAATGTTAATGGAC
130 GCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGC-AAACTAATGTTAATGGAC
*
847995 TAGCACTATTACAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAA
194 TAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAA
* * *
848060 TG-GACTATTAATGTGAATTAACCTAACATGCAACTAAAA-AGCTAATTATGCAAATGAAATTAA
259 TGAGAC-ATTAATGTGAATTAACCTAACATGCAACTAAAATA-CAAATTATGCAATTTAAATTAA
848123 TATGACATGTACTACTATTTATGAACCATATAATATAG-AATGTGACATACTAATTATTTAACAC
322 TATGACATGTACTACTATTTATGAACCATATAATAT-GCAATGTGACATACTAATTATTTAACAC
848187 CTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTA
386 CTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTA
*
848252 TATAATATGTATGTATAAACCATCTATAG-------------TATATATAAACTATATAAAGTAA
451 TATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAA
*
848304 ATTACTTATATAGTTTATAGAAACACTATAC
516 ATTACTTATATAGTTTATAGAAACACTATGC
* * * * * *
848335 ATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAACCCTAAATCCT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
*** * * ** * *
848400 AAACTT-TAAACCACAAA-CACTAAATACTAAATCATAAATTCTAATGTGAAT-GAACTAGCACT
66 -AA-TTCTAAACTTTAAACCA-TAAACACTAAACCATAAACCCTAATTTAAATAG-ACTAGCACT
* * *
848462 AATGCATATATATTTGTAATGAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTAATGTTAATGG
127 AATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGCAAACTAATGTTAATGG
* *
848527 ACTAGCACTATTGCAAATAGACTTATTTTTGGGTTTTATTATTACTTATTAATAACAACAAAATA
192 ACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATA
*
848592 AATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAA
257 AATGAGACATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAA
*
848657 TATGACATGTACTACTATTTATGAATCATATAATATGCAATGTGACATACTAATTATTTAACACC
322 TATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACC
848722 TAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTAT
387 TAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTAT
848787 ATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAAA
452 ATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAAA
848852 TTACTTATATAGTTTATAGAAACACTATGC
517 TTACTTATATAGTTTATAGAAACACTATGC
*
848882 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCCTAAATCATAAACCCT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
*
848947 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATGGACTAGCACTAATG
66 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
*
849012 TATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTA
131 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTA
849077 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
196 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
*
849142 AGACATTATTGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
261 AGACATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
849207 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
326 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
849272 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
391 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
849337 TATGTATGTATAAACCATGTATAG-------------TATATATAAACTATATAAAGTAAATTAC
456 TATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAAATTAC
849389 TTATATAGTTTATAGAAACACTATGC
521 TTATATAGTTTATAGAAACACTATGC
849415 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
*
849480 AATTCTAAACTTTAAACCATAAATACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
66 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
*
849545 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTA
131 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTA
*
849610 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAAAAAAATAAATG
196 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
* *
849675 AGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATCTAAATTAATATG
261 AGACATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
849740 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
326 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
849805 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
391 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
849870 TATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAAATTAC
456 TATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAAATTAC
849935 TTATATAGTTTATAGAAACACTATGC
521 TTATATAGTTTATAGAAACACTATGC
*
849961 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCTT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
*
850026 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAAAG
66 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
* *
850091 CATATATATTTGTAATAAAAGAGTGTGCTTGCATTGGACCTATGCAAACTAATGTTAATGGACTA
131 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTA
850156 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
196 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
*
850221 AGTCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
261 AGACATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
*
850286 ACATGCACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
326 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
850351 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
391 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
*
850416 TATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAGACTATATAAAGTAAATTAC
456 TATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAAATTAC
850481 TTATATAGTTTATAGAAACACTATGC
521 TTATATAGTTTATAGAAACACTATGC
* *
850507 ATAAACTATATAAAGTAATAAAATATATAGTTTATAAAAACCCTAAACCCTAAATCATAAA-CCT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
850571 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
66 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
* * *
850636 CATATATATTTGTAATAAAAGAGTGGGCTTATGTATT-GGCCTTTGTAAACTAATGT
131 CATATATATTTGTAATAAAAGAGTGGGC-T-TGCATTGGGCCTATGCAAACTAATGT
850692 ATTGCCAAAA
Statistics
Matches: 2232, Mismatches: 81, Indels: 69
0.94 0.03 0.03
Matches are distributed among these distances:
527 58 0.03
528 2 0.00
529 1 0.00
531 2 0.00
533 526 0.24
534 371 0.17
535 3 0.00
545 95 0.04
546 1053 0.47
547 121 0.05
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (546 bp):
ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT
AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTA
GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
AGACATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
TATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAAACTATATAAAGTAAATTAC
TTATATAGTTTATAGAAACACTATGC
Found at i:849382 original size:20 final size:20
Alignment explanation
Indices: 849330--849382 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
849320 TAAATAATTT
*
849330 TATATAATATGTATGTATAAAC
1 TATATAA-A-GTATATATAAAC
* * *
849352 CATGTATAGTATATATAAAC
1 TATATAAAGTATATATAAAC
849372 TATATAAAGTA
1 TATATAAAGTA
849383 AATTACTTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (20 bp):
TATATAAAGTATATATAAAC
Found at i:849480 original size:14 final size:14
Alignment explanation
Indices: 849452--849522 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
849442 TAGTTTATAG
* *
849452 AAACCCTAAATCCT
1 AAACCATAAACCCT
*
849466 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
849480 AATTC-TAAACTTT
1 AAACCATAAACCCT
**
849493 AAACCATAAATACT
1 AAACCATAAACCCT
849507 AAACCATAAACCCT
1 AAACCATAAACCCT
849521 AA
1 AA
849523 TTTAAATAGA
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
13 9 0.21
14 34 0.79
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:849497 original size:41 final size:40
Alignment explanation
Indices: 849452--849528 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
849442 TAGTTTATAG
* * *
849452 AAACCCTAAATCCTAAATCATAAACCCTAATTCTAAACTTT
1 AAACCATAAATACTAAACCATAAACCCTAATT-TAAACTTT
849493 AAACCATAAATACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAATACTAAACCATAAACCCTAATTTAAA
849529 TAGACTAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (40 bp):
AAACCATAAATACTAAACCATAAACCCTAATTTAAACTTT
Done.