Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_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: 2791265
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:713735 original size:17 final size:17
Alignment explanation
Indices: 713713--713762 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
713703 ATTTTCTCTT
713713 ATATATATATTATATTA
1 ATATATATATTATATTA
713730 ATATATACT-TTATA-T-
1 ATATATA-TATTATATTA
713745 ATATATATATATATATTA
1 ATATATATAT-TATATTA
713763 TAATTGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.04
15 8 0.29
16 5 0.18
17 13 0.46
18 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATATATTATATTA
Found at i:722138 original size:24 final size:24
Alignment explanation
Indices: 722110--722157 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
722100 TCAGTTCATT
* *
722110 TATGTTCGCGAACAAACTCGTTTA
1 TATGTTCACGAACAAACTCATTTA
*
722134 TATGTTCATGAACAAACTCATTTA
1 TATGTTCACGAACAAACTCATTTA
722158 GGAGACGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (24 bp):
TATGTTCACGAACAAACTCATTTA
Found at i:723697 original size:42 final size:43
Alignment explanation
Indices: 723651--723736 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
723641 TAATTTGGAT
**
723651 TTCCTTTCTTATATTTAAATTGGTTTAATTTAATC-TACCCAA
1 TTCCTTTCTTATATTTAAATTAATTTAATTTAATCGTACCCAA
*
723693 TTCCTTTCTTATGTTTAAATTAATTTAATTTAATCGTACCCAA
1 TTCCTTTCTTATATTTAAATTAATTTAATTTAATCGTACCCAA
723736 T
1 T
723737 ATATTAAGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 32 0.80
43 8 0.20
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.50
Consensus pattern (43 bp):
TTCCTTTCTTATATTTAAATTAATTTAATTTAATCGTACCCAA
Found at i:726423 original size:16 final size:16
Alignment explanation
Indices: 726402--726434 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
726392 TCACCACATT
*
726402 TGTTTTGTTTATTTAA
1 TGTTTTGTTTATATAA
726418 TGTTTTGTTTATATAA
1 TGTTTTGTTTATATAA
726434 T
1 T
726435 TTGTTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (16 bp):
TGTTTTGTTTATATAA
Found at i:726518 original size:18 final size:19
Alignment explanation
Indices: 726495--726540 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
726485 ATTGTAATTA
726495 CTAATTGTTTA-GTTACTG
1 CTAATTGTTTATGTTACTG
*
726513 CTAATTGTTTATGTTAGTG
1 CTAATTGTTTATGTTACTG
726532 CTAATTGTT
1 CTAATTGTT
726541 ATTATACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (19 bp):
CTAATTGTTTATGTTACTG
Found at i:726648 original size:11 final size:10
Alignment explanation
Indices: 726620--726654 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
726610 CTAACTCATG
*
726620 TTATGATTGT
1 TTATAATTGT
726630 TTATAATTGT
1 TTATAATTGT
726640 TTCATAATTGT
1 TT-ATAATTGT
726651 TTAT
1 TTAT
726655 GCTACTGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (10 bp):
TTATAATTGT
Found at i:727203 original size:24 final size:24
Alignment explanation
Indices: 727131--727354 Score: 244
Period size: 24 Copynumber: 9.5 Consensus size: 24
727121 TATAAAAGAG
* *
727131 CATGTTCACGAACG-TCAATCGAA
1 CATGTTCACGAACGTTTAAACGAA
* *
727154 CATGTTCGCGAACG-CTAAACGAA
1 CATGTTCACGAACGTTTAAACGAA
**
727177 CATGTTCTTGAACGTTTAAAC-AGA
1 CATGTTCACGAACGTTTAAACGA-A
* *
727201 CATGATCACGAACG-CTAAAC-AA
1 CATGTTCACGAACGTTTAAACGAA
727223 GCATGTTCACGAACGTTTAAACGAA
1 -CATGTTCACGAACGTTTAAACGAA
727248 CATGTTCACGAACGTTTAAACGAA
1 CATGTTCACGAACGTTTAAACGAA
*
727272 CATGTTCACGAACGTTTAAATGAA
1 CATGTTCACGAACGTTTAAACGAA
** *
727296 CATGTTCGTGAACG-ATAAACGAA
1 CATGTTCACGAACGTTTAAACGAA
* *
727319 CATGTACACGAACGTATAAACGAA
1 CATGTTCACGAACGTTTAAACGAA
**
727343 CACATTCACGAA
1 CATGTTCACGAA
727355 TTTAGGTAAC
Statistics
Matches: 171, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
22 1 0.01
23 69 0.40
24 99 0.58
25 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (24 bp):
CATGTTCACGAACGTTTAAACGAA
Found at i:727216 original size:47 final size:47
Alignment explanation
Indices: 727131--727354 Score: 265
Period size: 47 Copynumber: 4.8 Consensus size: 47
727121 TATAAAAGAG
* * *
727131 CATGTTCACGAACG-TCAATCGAACATGTTCGCGAACGCTAAACGAA
1 CATGTTCACGAACGTTTAAACGAACATGTTCACGAACGCTAAACGAA
** *
727177 CATGTTCTTGAACGTTTAAAC-AGACATGATCACGAACGCTAAAC-AA
1 CATGTTCACGAACGTTTAAACGA-ACATGTTCACGAACGCTAAACGAA
*
727223 GCATGTTCACGAACGTTTAAACGAACATGTTCACGAACGTTTAAACGAA
1 -CATGTTCACGAACGTTTAAACGAACATGTTCACGAACG-CTAAACGAA
* ** *
727272 CATGTTCACGAACGTTTAAATGAACATGTTCGTGAACGATAAACGAA
1 CATGTTCACGAACGTTTAAACGAACATGTTCACGAACGCTAAACGAA
* * **
727319 CATGTACACGAACGTATAAACGAACACATTCACGAA
1 CATGTTCACGAACGTTTAAACGAACATGTTCACGAA
727355 TTTAGGTAAC
Statistics
Matches: 151, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
46 15 0.10
47 93 0.62
48 41 0.27
49 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (47 bp):
CATGTTCACGAACGTTTAAACGAACATGTTCACGAACGCTAAACGAA
Found at i:727248 original size:12 final size:12
Alignment explanation
Indices: 727231--727296 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
727221 AAGCATGTTC
727231 ACGAACGTTTAA
1 ACGAACGTTTAA
* *
727243 ACGAACATGTT-C
1 ACGAACGT-TTAA
727255 ACGAACGTTTAA
1 ACGAACGTTTAA
* *
727267 ACGAACATGTT-C
1 ACGAACGT-TTAA
727279 ACGAACGTTTAA
1 ACGAACGTTTAA
*
727291 ATGAAC
1 ACGAAC
727297 ATGTTCGTGA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
11 4 0.10
12 33 0.80
13 4 0.10
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (12 bp):
ACGAACGTTTAA
Found at i:727263 original size:71 final size:71
Alignment explanation
Indices: 727131--727344 Score: 249
Period size: 71 Copynumber: 3.0 Consensus size: 71
727121 TATAAAAGAG
* * **
727131 CATGTTCACGAACGTC--AATCGAACATGTTCGCGAACGCTAAACGAACATGTTCTTGAACGTTT
1 CATGATCACGAACGTCTAAATC-AACATGTTCGCGAACGATAAACGAACATGTTCACGAACGTTT
727194 AAAC-AGA
65 AAACGA-A
* *
727201 CATGATCACGAACG-CTAAA-CAAGCATGTTCACGAACGTTTAAACGAACATGTTCACGAACGTT
1 CATGATCACGAACGTCTAAATCAA-CATGTTCGCGAACG-ATAAACGAACATGTTCACGAACGTT
727264 TAAACGAA
64 TAAACGAA
* * * * * *
727272 CATGTTCACGAACGTTTAAATGAACATGTTCGTGAACGATAAACGAACATGTACACGAACGTATA
1 CATGATCACGAACGTCTAAATCAACATGTTCGCGAACGATAAACGAACATGTTCACGAACGTTTA
727337 AACGAA
66 AACGAA
727343 CA
1 CA
727345 CATTCACGAA
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
69 3 0.02
70 27 0.22
71 75 0.60
72 17 0.14
73 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (71 bp):
CATGATCACGAACGTCTAAATCAACATGTTCGCGAACGATAAACGAACATGTTCACGAACGTTTA
AACGAA
Found at i:728277 original size:12 final size:12
Alignment explanation
Indices: 728242--728269 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
728232 TCTGATTGTA
728242 ATTCAAAATTTT
1 ATTCAAAATTTT
728254 ATTCAAAATTTT
1 ATTCAAAATTTT
728266 ATTC
1 ATTC
728270 GAAGTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTCAAAATTTT
Found at i:728384 original size:18 final size:18
Alignment explanation
Indices: 728361--728402 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
728351 TATTGATATA
728361 TATTAAATAAAT-TAAGTT
1 TATTAAATAAATATAAG-T
* *
728379 TATTAACTAACTATAAGT
1 TATTAAATAAATATAAGT
728397 TATTAA
1 TATTAA
728403 TTATAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
TATTAAATAAATATAAGT
Found at i:730731 original size:21 final size:19
Alignment explanation
Indices: 730703--730748 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
730693 TCGTTGAATC
730703 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
730723 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
730742 ACTTAGT
1 A-TTAGT
730749 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:739790 original size:23 final size:23
Alignment explanation
Indices: 739760--739807 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
739750 ACAGAGGAAG
739760 AACATTTCAGTCGTGACAATGAA
1 AACATTTCAGTCGTGACAATGAA
739783 AACATTTCAGTCGTGACAATGAA
1 AACATTTCAGTCGTGACAATGAA
739806 AA
1 AA
739808 GTTGTAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (23 bp):
AACATTTCAGTCGTGACAATGAA
Found at i:748288 original size:64 final size:63
Alignment explanation
Indices: 748204--748362 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
748194 TTAACATGTG
* *
748204 CATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTT-TAATCTTAAGGGGGTA
1 CATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTCTAATCTTAA-GGGGTA
* * * ** * * *
748268 TATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCTATTTTTAAGGGGTG
1 CATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATGTTTCTAATCTTAAGGGGTA
* *
748332 CATCAATTCACTTCCTATGCATCGATACACA
1 CATCGATGCAC-TCCTATGCATCGATACACA
748363 CTAAACAATT
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
63 2 0.03
64 65 0.84
65 10 0.13
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (63 bp):
CATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTCTAATCTTAAGGGGTA
Found at i:751786 original size:50 final size:53
Alignment explanation
Indices: 751732--751865 Score: 175
Period size: 59 Copynumber: 2.5 Consensus size: 53
751722 CACACTCCAA
*
751732 TTTGCCTTTTCATTGTGACTAGGAGGGTT-G-GG-TAGAGCCATATTATCGAG
1 TTTGCCTTTTCATTGCGACTAGGAGGGTTCGAGGATAGAGCCATATTATCGAG
*
751782 TTTGCCTTTTCATTGCGACTATGAGGGTTCGATAGGACACTTAGAGCCATATTATCGAG
1 TTTGCCTTTTCATTGCGACTAGGAGGGTTCG--AGG--A--TAGAGCCATATTATCGAG
751841 TTTGCCTTTTCATTGCGACTAGGAG
1 TTTGCCTTTTCATTGCGACTAGGAG
751866 AGTTTGATAG
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
50 27 0.38
51 1 0.01
54 2 0.03
59 42 0.58
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (53 bp):
TTTGCCTTTTCATTGCGACTAGGAGGGTTCGAGGATAGAGCCATATTATCGAG
Found at i:751856 original size:59 final size:59
Alignment explanation
Indices: 751764--751879 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
751754 GAGGGTTGGG
* *
751764 TAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTATGAGGGTTCGATAGGACACT
1 TAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGAGTTCGATAGGACACT
*
751823 TAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGAGTTTGATAGGACA
1 TAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGAGTTCGATAGGACA
751880 TTTATCTATC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (59 bp):
TAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGAGTTCGATAGGACACT
Found at i:753950 original size:21 final size:23
Alignment explanation
Indices: 753926--753968 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
753916 AGAACATTAC
753926 CAAGGT-A-CTTCATCATCTTAA
1 CAAGGTAACCTTCATCATCTTAA
753947 CAAGGTAATCCTTCATCATCTT
1 CAAGGTAA-CCTTCATCATCTT
753969 CTACTCCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
24 12 0.63
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (23 bp):
CAAGGTAACCTTCATCATCTTAA
Found at i:756005 original size:43 final size:46
Alignment explanation
Indices: 755902--756007 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 46
755892 AGGAATACAT
*
755902 TTATTATTTTATTAGGAATTAAGGTTAAGTTAAAACATTATTTTTAGTTA
1 TTATTATTTTATTAGGAATTAAGG-T-AGTTAAAAC--TATGTTTAGTTA
*
755952 TTATTATTTTATTAGGAATT-A-G-AGTTAAAAC-ATGTTTAGTTTG
1 TTATTATTTTATTAGGAATTAAGGTAGTTAAAACTATGTTTAG-TTA
755995 TTATTATTTTATT
1 TTATTATTTTATT
756008 CATTAGTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
42 7 0.13
43 15 0.28
45 9 0.17
48 1 0.02
49 1 0.02
50 20 0.38
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (46 bp):
TTATTATTTTATTAGGAATTAAGGTAGTTAAAACTATGTTTAGTTA
Found at i:757508 original size:21 final size:19
Alignment explanation
Indices: 757463--757499 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
757453 TAATTAATTC
757463 CTTCT-CTTCCCCTTCACT
1 CTTCTCCTTCCCCTTCACT
757481 CTTCTCCTTCCCCTTCACT
1 CTTCTCCTTCCCCTTCACT
757500 ATCTTCTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.05, C:0.51, G:0.00, T:0.43
Consensus pattern (19 bp):
CTTCTCCTTCCCCTTCACT
Found at i:762406 original size:13 final size:13
Alignment explanation
Indices: 762388--762435 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 13
762378 GCCGGTTAAC
762388 GGTCAACGGGTCG
1 GGTCAACGGGTCG
762401 GGTCAACAGATCGGGTCG
1 GGT---CA-A-CGGGTCG
762419 GGTCAACGGGTCG
1 GGTCAACGGGTCG
762432 GGTC
1 GGTC
762436 GGGTTATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 14 0.47
14 1 0.03
15 2 0.07
16 2 0.07
17 1 0.03
18 10 0.33
ACGTcount: A:0.17, C:0.23, G:0.44, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:762417 original size:18 final size:18
Alignment explanation
Indices: 762394--762439 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
762384 TAACGGTCAA
762394 CGGGTCGGGTCAACAGAT
1 CGGGTCGGGTCAACAGAT
* *
762412 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACAGAT
762430 CGGGTCGGGT
1 CGGGTCGGGT
762440 TATGATCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.22, G:0.48, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGAT
Found at i:765390 original size:4 final size:4
Alignment explanation
Indices: 765381--765409 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
765371 CTGATCTTCC
765381 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
765410 CAAATTTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:771863 original size:67 final size:67
Alignment explanation
Indices: 771750--771902 Score: 254
Period size: 67 Copynumber: 2.3 Consensus size: 67
771740 AGATTGTCTG
* * *
771750 TCTCCCTTGAGACAATTTCTTTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTT
1 TCTCGCTTGAGACAATTTCTCTTAAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTT
*
771815 TA
66 CA
771817 TCTCGCTTGAGACAGA-TTCTCTTAAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTT
1 TCTCGCTTGAGACA-ATTTCTCTTAAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTT
771881 TCA
65 TCA
771884 TCTCGCTTGAGACAATTTC
1 TCTCGCTTGAGACAATTTC
771903 CCTTGAAGCC
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
66 1 0.01
67 78 0.98
68 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (67 bp):
TCTCGCTTGAGACAATTTCTCTTAAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTT
CA
Found at i:772077 original size:36 final size:36
Alignment explanation
Indices: 772037--772105 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
772027 GTTTCACTTT
* *
772037 AAACAAAATTGATCTCGCTTGAGATTGTTTTCCTAA
1 AAACAAAATTCATCTCGCTTGAGATAGTTTTCCTAA
*
772073 AAACAAATTTCATCTCGCTTGAGATAGTTTTCC
1 AAACAAAATTCATCTCGCTTGAGATAGTTTTCC
772106 CTTGAAACGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (36 bp):
AAACAAAATTCATCTCGCTTGAGATAGTTTTCCTAA
Found at i:772135 original size:102 final size:101
Alignment explanation
Indices: 771853--772157 Score: 352
Period size: 100 Copynumber: 3.0 Consensus size: 101
771843 ACATAAACCT
** * * *
771853 TTGAGATTG-TTTCTCTTGAAACAAAGTTTCATCTCGCTTGAGACA-ATTTCCCTTGAAGCCTGA
1 TTGAGATTGTTTTC-CTAAAAACAAA-TTTCATCTCGCTTGAGACAGTTTTCCCTTGAAACC-AA
* *
771916 ATTTCGAAGTTGTTTCACTTGAAACAAAATTGATCTCAC
63 ATTTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
* * *
771955 TTGAGATTATTTTCCTATAAA-AAATTTGC--CTTGCTTGAGACAGTTTT-CCTTCGAAACACAA
1 TTGAGATTGTTTTCCTAAAAACAAATTT-CATCTCGCTTGAGACAGTTTTCCCTT-GAAAC-CAA
* * *
772016 ATTTTGAACTTGTTTCACTTTAAACAAAATTGATCTCGC
63 ATTTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
*
772055 TTGAGATTGTTTTCCTAAAAACAAATTTCATCTCGCTTGAGATAGTTTTCCCTTGAAACGCAAAT
1 TTGAGATTGTTTTCCTAAAAACAAATTTCATCTCGCTTGAGACAGTTTTCCCTTGAAAC-CAAAT
* *
772120 TTTGAAATTGTTTCACTCGAAACAAAATTTTATCTCAC
65 TTTGAAATTGTTTCACTTGAAACAAAA-TTGATCTCAC
772158 CTAAGATAGC
Statistics
Matches: 172, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
99 16 0.09
100 66 0.38
101 11 0.06
102 63 0.37
103 16 0.09
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (101 bp):
TTGAGATTGTTTTCCTAAAAACAAATTTCATCTCGCTTGAGACAGTTTTCCCTTGAAACCAAATT
TTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
Found at i:774876 original size:147 final size:150
Alignment explanation
Indices: 774705--774998 Score: 567
Period size: 147 Copynumber: 2.0 Consensus size: 150
774695 AAGGGTCTAT
774705 AACGACTCCCAAATCAATTTAATAAAAATAAACACAAAAAATTATTTTTTTTCAAATAAATAGTA
1 AACGACTCCCAAATCAATTTAATAAAAATAAACACAAAAAATTATTTTTTTTCAAATAAATAGTA
774770 AATTCGAAGTTTTTATCTAAAATTTATTTGTTCATC-AAAAATACGTTACAAA-TTAA-TAATAG
66 AATTCGAAGTTTTTATCTAAAATTTATTTGTTCATCAAAAAATACGTTACAAATTTAACTAATAG
774832 TTTAGAGAGAGAGAGAGTGG
131 TTTAGAGAGAGAGAGAGTGG
774852 AACGACTCCCAAATCAATTTAATAAAAATAAACACAAAAAATTATTTTTTTTCAAATAAATAGTA
1 AACGACTCCCAAATCAATTTAATAAAAATAAACACAAAAAATTATTTTTTTTCAAATAAATAGTA
774917 AATTCGAAGTTTTTATCTAAAATTTATTTGTTCATCAAAAAATACGTTACAAATTTAACTAATAG
66 AATTCGAAGTTTTTATCTAAAATTTATTTGTTCATCAAAAAATACGTTACAAATTTAACTAATAG
774982 TTTAGAGAGAGAGAGAG
131 TTTAGAGAGAGAGAGAG
774999 AGTGGTGGGG
Statistics
Matches: 144, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
147 101 0.70
148 16 0.11
149 4 0.03
150 23 0.16
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (150 bp):
AACGACTCCCAAATCAATTTAATAAAAATAAACACAAAAAATTATTTTTTTTCAAATAAATAGTA
AATTCGAAGTTTTTATCTAAAATTTATTTGTTCATCAAAAAATACGTTACAAATTTAACTAATAG
TTTAGAGAGAGAGAGAGTGG
Found at i:776407 original size:18 final size:18
Alignment explanation
Indices: 776384--776429 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
776374 TGGTTCATCT
* *
776384 GTTCGTTTGTACAGGACG
1 GTTCGTTGGTACAAGACG
776402 GTTCGTTGGTACAAGACG
1 GTTCGTTGGTACAAGACG
*
776420 ATTCGTTGGT
1 GTTCGTTGGT
776430 TATCGCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (18 bp):
GTTCGTTGGTACAAGACG
Found at i:777162 original size:17 final size:17
Alignment explanation
Indices: 777131--777170 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
777121 ATTCTAAAGG
*
777131 AATTAACATATGATTATA
1 AATT-ACATAGGATTATA
777149 AATTACATAGGATTATA
1 AATTACATAGGATTATA
777166 AATTA
1 AATTA
777171 GTTAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (17 bp):
AATTACATAGGATTATA
Found at i:780440 original size:4 final size:4
Alignment explanation
Indices: 780431--780459 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
780421 TCACAATTTA
780431 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
780460 AAGGGAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:784265 original size:147 final size:140
Alignment explanation
Indices: 784019--784311 Score: 523
Period size: 147 Copynumber: 2.0 Consensus size: 140
784009 GATATCCCAC
784019 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAACTAGTTCCAT
1 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAACTAGTTCCAT
784084 CAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTGAAATGCT
66 CAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTGAAATGCT
784149 TTAATTGCAA
131 TTAATTGCAA
784159 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAAAAAAAAACTA
1 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGC-------AAAAAAAAAACTA
784224 GTTCCATCAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTG
59 GTTCCATCAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTG
784289 AAATGCTTTAATTGCAA
124 AAATGCTTTAATTGCAA
784306 CAATAA
1 CAATAA
784312 CAACAATAGA
Statistics
Matches: 146, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
140 45 0.31
147 101 0.69
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (140 bp):
CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAACTAGTTCCAT
CAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTGAAATGCT
TTAATTGCAA
Found at i:786968 original size:14 final size:14
Alignment explanation
Indices: 786951--786978 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
786941 TTCCATCTCC
786951 AAGATTCCAAACAA
1 AAGATTCCAAACAA
786965 AAGATTCCAAACAA
1 AAGATTCCAAACAA
786979 TGTCATCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
AAGATTCCAAACAA
Found at i:788614 original size:20 final size:21
Alignment explanation
Indices: 788575--788615 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
788565 TATAAGAGGA
*
788575 TGAATAAGAAAGAAATAAAGG
1 TGAATAAGAAAGAAAGAAAGG
*
788596 TGAATAAG-AAGAACGAAAGG
1 TGAATAAGAAAGAAAGAAAGG
788616 AAGCATCGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.02, G:0.27, T:0.12
Consensus pattern (21 bp):
TGAATAAGAAAGAAAGAAAGG
Found at i:788652 original size:35 final size:34
Alignment explanation
Indices: 788606--788711 Score: 131
Period size: 35 Copynumber: 3.0 Consensus size: 34
788596 TGAATAAGAA
* *
788606 GAACGAAAGGAAGCATCGACATTTTCGATTCAAGT
1 GAACGGAAGGAAGCATCG-CACTTTCGATTCAAGT
**
788641 GAACGGAAGGAAATATCGGCACTTTCGATTCAAGT
1 GAACGGAAGGAAGCATC-GCACTTTCGATTCAAGT
* *
788676 CGAACGGAAGGAGGCGTCGCACTTTCGATTCAAGT
1 -GAACGGAAGGAAGCATCGCACTTTCGATTCAAGT
788711 G
1 G
788712 TTCATCTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
34 1 0.02
35 46 0.75
36 14 0.23
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (34 bp):
GAACGGAAGGAAGCATCGCACTTTCGATTCAAGT
Found at i:795488 original size:135 final size:137
Alignment explanation
Indices: 795179--795506 Score: 418
Period size: 135 Copynumber: 2.4 Consensus size: 137
795169 CAAGTGTATT
* * * * *
795179 TTAATTATTTGATTCAATGAA-TTCTTAAAATTTG-TTAGGTTTTAATGTTAGAGTCTTCACCTT
1 TTAATTATTCGATTCAAT-AAGTTGTTAAAA-TTGATTAGGTTTTAATATTAGAGCCTTCACATT
* * * * * *
795242 AGTTTTGATTTCACTTTAGTTCTTCAATTTAGGTGAATTTTTAATTTGGTCTTTACGTTTTGTCT
64 AGTTTTAATTTCACTTTAGTCCTT--ATTTACGTGAATTTTTAATTTGGTCATCACATTTTGTCT
795307 GAGGTTCCAAG
127 GAGGTTCCAAG
*
795318 TTAATTATTCGATTCAATAATTTGTTAAAATTGATTAGGTTTTAATATTAGAGCCTTCACATTAG
1 TTAATTATTCGATTCAATAAGTTGTTAAAATTGATTAGGTTTTAATATTAGAGCCTTCACATTAG
795383 TTTTAATTTCA-TCTTAGTCCTT-TTTACGTGAA-TTTT-ATTTGGTCATCATCATTTTG-CTCG
66 TTTTAATTTCACT-TTAGTCCTTATTTACGTGAATTTTTAATTTGGTCATCA-CATTTTGTCT-G
795443 AGGTTCCAAG
128 AGGTTCCAAG
* *
795453 TTAGTTATTCGTTTCAATAAGTTGTTAAAATTGATTAGGTTTTAATATTAGAGC
1 TTAATTATTCGATTCAATAAGTTGTTAAAATTGATTAGGTTTTAATATTAGAGC
795507 TATATTTTAT
Statistics
Matches: 170, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
134 12 0.07
135 72 0.42
136 9 0.05
138 6 0.04
139 71 0.42
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (137 bp):
TTAATTATTCGATTCAATAAGTTGTTAAAATTGATTAGGTTTTAATATTAGAGCCTTCACATTAG
TTTTAATTTCACTTTAGTCCTTATTTACGTGAATTTTTAATTTGGTCATCACATTTTGTCTGAGG
TTCCAAG
Found at i:809934 original size:11 final size:12
Alignment explanation
Indices: 809918--809958 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
809908 AACAAAGCTT
809918 GAAAAAT-AAAA
1 GAAAAATGAAAA
809929 GAAAAATGAAAA
1 GAAAAATGAAAA
*
809941 G-AACATGAAAA
1 GAAAAATGAAAA
809952 GTAAAAA
1 G-AAAAA
809959 GAGAAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 17 0.68
12 5 0.20
13 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (12 bp):
GAAAAATGAAAA
Found at i:810932 original size:83 final size:81
Alignment explanation
Indices: 810818--811018 Score: 233
Period size: 83 Copynumber: 2.4 Consensus size: 81
810808 TTAGCTATGT
* * * **
810818 TTTTCCAACAAACGTCGTAATAGAGTAGTAATTTAGCGGCGTTTATAGCACAAACACTGGAATAA
1 TTTTCTAATAAACG-CGCAATAGAGTAGTAATTTAGCGGCGTTTATAGCACAAACACCAGAATAA
*
810883 GGTTGTTTATAATGGTA
65 GGTTGTTTATAATGGCA
* * * **
810900 TTTTTTAA-ACCAACGCCGCAATAGAGTGGTAATTTAGCGGCGTTTATAGCATAAATGCCAGAAT
1 TTTTCTAATA--AACG-CGCAATAGAGTAGTAATTTAGCGGCGTTTATAGCACAAACACCAGAAT
* *
810964 AGGGTTGTTTATAGTGGCA
63 AAGGTTGTTTATAATGGCA
*
810983 TTTTCTAATAAACGCGCAATAGAGTTGTAATTTAGC
1 TTTTCTAATAAACGCGCAATAGAGTAGTAATTTAGC
811019 AGTGTTTTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
81 22 0.22
82 10 0.10
83 68 0.67
84 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (81 bp):
TTTTCTAATAAACGCGCAATAGAGTAGTAATTTAGCGGCGTTTATAGCACAAACACCAGAATAAG
GTTGTTTATAATGGCA
Found at i:811037 original size:81 final size:81
Alignment explanation
Indices: 810836--811067 Score: 238
Period size: 81 Copynumber: 2.8 Consensus size: 81
810826 CAAACGTCGT
* * * *
810836 AATAGAGTAGTAATTTAGCGGCGTTTATAGCACAAACACTG--GAATAAGGTTGTTTATAATGGT
1 AATAGAGTGGTAATTTAGCAGCGTTTATAGCA-AAA-A-TGCCGAATAGGGTTGTTTATAGTGGT
*
810899 ATTTTTTAAACCAACGCCGC
63 ATTTTCTAAA-CAACGCCGC
* * *
810919 AATAGAGTGGTAATTTAGCGGCGTTTATAGCATAAATGCCAGAATAGGGTTGTTTATAGTGGCAT
1 AATAGAGTGGTAATTTAGCAGCGTTTATAGCAAAAATGCC-GAATAGGGTTGTTTATAGTGGTAT
810984 TTTCTAATA-AACG-CGC
65 TTTCTAA-ACAACGCCGC
* * * * * * *
811000 AATAGAGTTGTAATTTAGCAGTGTTTTTAGGAAAAATGTCGTAATAGGGTTATTTGTAGTGGTAT
1 AATAGAGTGGTAATTTAGCAGCGTTTATAGCAAAAATGCCG-AATAGGGTTGTTTATAGTGGTAT
811065 TTT
65 TTT
811068 TAGACAAACG
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
80 3 0.02
81 60 0.47
82 6 0.05
83 58 0.45
84 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (81 bp):
AATAGAGTGGTAATTTAGCAGCGTTTATAGCAAAAATGCCGAATAGGGTTGTTTATAGTGGTATT
TTCTAAACAACGCCGC
Found at i:811496 original size:22 final size:22
Alignment explanation
Indices: 811465--811513 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
811455 GTGTTTTTCT
*
811465 TCTTTTGAATAGAAAAATAATA
1 TCTTTCGAATAGAAAAATAATA
*
811487 TCTTTCGAATAGGAAAATAATA
1 TCTTTCGAATAGAAAAATAATA
*
811509 GCTTT
1 TCTTT
811514 TGAAAACGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (22 bp):
TCTTTCGAATAGAAAAATAATA
Found at i:813539 original size:90 final size:88
Alignment explanation
Indices: 813424--813597 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 88
813414 TCCTGAATAT
*
813424 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
813489 GGTAACTTGGATATAAAAGGATTA
65 GGTAACTTGGATATAAAAGGATTA
*
813513 TTAAATTCTAATTAATTACATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
813578 GGTAACTTGGCTATAAAAGG
65 GGTAACTTGGATATAAAAGG
813598 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 41 0.51
90 40 0.49
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAAAGGATTA
Found at i:814196 original size:41 final size:41
Alignment explanation
Indices: 814139--814220 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
814129 GTGGCGTTTA
* *
814139 CAACAAACGCTGCAACATAGTTGTACGGTAGCGACATTTTT
1 CAACAAACGCCGCAACACAGTTGTACGGTAGCGACATTTTT
* *
814180 CAACAAACGCCGCAACACAGTTGTACGGTAGTGGCATTTTT
1 CAACAAACGCCGCAACACAGTTGTACGGTAGCGACATTTTT
814221 TTTATCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
CAACAAACGCCGCAACACAGTTGTACGGTAGCGACATTTTT
Found at i:820981 original size:90 final size:89
Alignment explanation
Indices: 820853--821031 Score: 333
Period size: 90 Copynumber: 2.0 Consensus size: 89
820843 ACAATGGGAA
820853 TTTCTCTCGATTATTCAAAGTGGTCACGATTGATGGATGAACCATATGTATTTTCTTCTCAAGTG
1 TTTCTCTCGATTATTCAAAGTGGTCACGATTGATGGATGAACCATATGTATTTTCTTCTCAAGTG
820918 -AACAAGTATTTTACTGTCACGAT
66 AAACAAGTATTTTACTGTCACGAT
820941 TTTCTCTCGATTAATTCAAAGTGGTCAACGATTGATGGATGAACCATATGTATTTTCTTCTCAAG
1 TTTCTCTCGATT-ATTCAAAGTGGTC-ACGATTGATGGATGAACCATATGTATTTTCTTCTCAAG
821006 TGAAACAAGTATTTTACTGTCACGAT
64 TGAAACAAGTATTTTACTGTCACGAT
821032 CCAATGGATG
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
88 12 0.14
89 13 0.15
90 40 0.45
91 23 0.26
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (89 bp):
TTTCTCTCGATTATTCAAAGTGGTCACGATTGATGGATGAACCATATGTATTTTCTTCTCAAGTG
AAACAAGTATTTTACTGTCACGAT
Found at i:822856 original size:12 final size:12
Alignment explanation
Indices: 822841--822876 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
822831 AGCAGCAGCG
822841 GAAGCACAGAGA
1 GAAGCACAGAGA
822853 GAAG--CAGAG-
1 GAAGCACAGAGA
822862 GAAGCACAGAGA
1 GAAGCACAGAGA
822874 GAA
1 GAA
822877 ACAGCGGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.19
10 5 0.24
11 5 0.24
12 7 0.33
ACGTcount: A:0.50, C:0.14, G:0.36, T:0.00
Consensus pattern (12 bp):
GAAGCACAGAGA
Found at i:822858 original size:21 final size:21
Alignment explanation
Indices: 822834--822921 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
822824 AAGAGACAGC
822834 AGCAGCGGAAGCACAGAGAGA
1 AGCAGCGGAAGCACAGAGAGA
*
822855 AGCAGAGGAAGCACAGAGAGA
1 AGCAGCGGAAGCACAGAGAGA
* * *
822876 AACAGCGGCAA-TATAGAGAGA
1 AGCAGCGG-AAGCACAGAGAGA
* * * *
822897 AACAGCGGTAGCATAGAAAGA
1 AGCAGCGGAAGCACAGAGAGA
822918 AGCA
1 AGCA
822922 ACATATCAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.02
21 53 0.95
22 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.33, T:0.05
Consensus pattern (21 bp):
AGCAGCGGAAGCACAGAGAGA
Found at i:822874 original size:23 final size:23
Alignment explanation
Indices: 822825--822875 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
822815 AAAATGAAGA
* * *
822825 AGAGACAGCAGCAGCGGAAGCAC
1 AGAGAGAGAAGCAGAGGAAGCAC
822848 --AGAGAGAAGCAGAGGAAGCAC
1 AGAGAGAGAAGCAGAGGAAGCAC
822869 AGAGAGA
1 AGAGAGA
822876 AACAGCGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 18 0.78
23 5 0.22
ACGTcount: A:0.45, C:0.18, G:0.37, T:0.00
Consensus pattern (23 bp):
AGAGAGAGAAGCAGAGGAAGCAC
Found at i:823399 original size:84 final size:84
Alignment explanation
Indices: 823299--823454 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 84
823289 CTAAAAACCC
* * *
823299 CGCTTTATACCAGACCTTTTA-CGCCGTTTATAAGAAAAAATGTCGCTATATACCAGACCTTTTG
1 CGCTATATACCAGACC-TTTAGCGCCGTTTATAACAAAAAATGTCGCTATATACCAGACCTTTTA
823363 CGGCGTTTATATGAGAAACA
65 CGGCGTTTATATGAGAAACA
** * * * *
823383 CGCTATATACCAGACCTTTAGCGGTGTTTGTATCTAAAAATGTCGCTATATACCAGATCTTTTAC
1 CGCTATATACCAGACCTTTAGCGCCGTTTATAACAAAAAATGTCGCTATATACCAGACCTTTTAC
*
823448 GGTGTTT
66 GGCGTTT
823455 GTATCCAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
83 4 0.07
84 57 0.93
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (84 bp):
CGCTATATACCAGACCTTTAGCGCCGTTTATAACAAAAAATGTCGCTATATACCAGACCTTTTAC
GGCGTTTATATGAGAAACA
Found at i:823451 original size:43 final size:43
Alignment explanation
Indices: 823277--823465 Score: 168
Period size: 43 Copynumber: 4.4 Consensus size: 43
823267 TACATTTTGT
* * *
823277 GGCGTTTGTATCCTAAAAACCCCGCTTTATACCAGACCTTTTAC
1 GGCGTTTGTAT-CTAAAAATCTCGCTATATACCAGACCTTTTAC
* * *** * *
823321 GCCGTTTATAAGAAAAAATGTCGCTATATACCAGACCTTTTGC
1 GGCGTTTGTATCTAAAAATCTCGCTATATACCAGACCTTTTAC
* * * *
823364 GGCGTTTATAT-GAGAAA-CACGCTATATACCAGACC-TTTAGC
1 GGCGTTTGTATCTAAAAATCTCGCTATATACCAGACCTTTTA-C
* * *
823405 GGTGTTTGTATCTAAAAATGTCGCTATATACCAGATCTTTTAC
1 GGCGTTTGTATCTAAAAATCTCGCTATATACCAGACCTTTTAC
* *
823448 GGTGTTTGTATCCAAAAA
1 GGCGTTTGTATCTAAAAA
823466 ATGCCGTGAA
Statistics
Matches: 116, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
40 3 0.03
41 26 0.22
42 8 0.07
43 67 0.58
44 12 0.10
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (43 bp):
GGCGTTTGTATCTAAAAATCTCGCTATATACCAGACCTTTTAC
Found at i:823601 original size:44 final size:44
Alignment explanation
Indices: 823546--823662 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
823536 GTTTATAGGG
* *
823546 AAAACGTCGCTAAATCTCAACACCTATTGCGA-CGTTTGTGGGAA
1 AAAACGCCGCTAAATCTCAACACCTATTGCGAGCATTTGTGGG-A
** *
823590 AAAACGCCGCTAAATCTCAACACCTATT-ATAGCATTTTTGGGA
1 AAAACGCCGCTAAATCTCAACACCTATTGCGAGCATTTGTGGGA
* * *
823633 CAAACGCTGCTAAATCTCAATACCTATTGC
1 AAAACGCCGCTAAATCTCAACACCTATTGC
823663 AACAAACGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 27 0.44
44 35 0.56
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (44 bp):
AAAACGCCGCTAAATCTCAACACCTATTGCGAGCATTTGTGGGA
Found at i:824019 original size:3 final size:3
Alignment explanation
Indices: 824011--824097 Score: 131
Period size: 3 Copynumber: 29.0 Consensus size: 3
824001 ATGGGTTTTA
* *
824011 ATT ATT ATT TTT ATT ATA ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
*
824057 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
824098 TATTTATATC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 72 0.95
4 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:824106 original size:10 final size:11
Alignment explanation
Indices: 824035--824106 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 11
824025 TATAATTTAT
*
824035 TATTATTATTAT
1 TATTA-TATTAA
*
824047 TATTATTATTAT
1 TATTA-TATTAA
*
824059 TATTATTATTAT
1 TATTA-TATTAA
*
824071 TATTATTATTAT
1 TATTA-TATTAA
824083 TATTATATTAA
1 TATTATATTAA
*
824094 TATT-TATTTA
1 TATTATATTAA
824104 TAT
1 TAT
824107 CTTTTGTAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
10 8 0.14
11 9 0.16
12 41 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATATTAA
Found at i:827001 original size:24 final size:24
Alignment explanation
Indices: 826974--827050 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
826964 TACTAACTCG
826974 TTTCTTCTCTTTTGTCTGTGTCAT
1 TTTCTTCTCTTTTGTCTGTGTCAT
** *
826998 TTTCACCT-TTTTG-CATTGCATTTCA-
1 TTTCTTCTCTTTTGTC--TG--TGTCAT
*
827023 TTTCTTCTCTTTTGTTTGTGTCAT
1 TTTCTTCTCTTTTGTCTGTGTCAT
827047 TTTC
1 TTTC
827051 ACCTTTTTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 1 0.03
23 9 0.23
24 12 0.31
25 8 0.21
26 9 0.23
ACGTcount: A:0.08, C:0.21, G:0.10, T:0.61
Consensus pattern (24 bp):
TTTCTTCTCTTTTGTCTGTGTCAT
Found at i:827030 original size:49 final size:49
Alignment explanation
Indices: 826974--827072 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
826964 TACTAACTCG
826974 TTTCTTCTCTTTTGTCTGTGTCATTTTCACCTTTTTGCATTGCATTTCA
1 TTTCTTCTCTTTTGTCTGTGTCATTTTCACCTTTTTGCATTGCATTTCA
*
827023 TTTCTTCTCTTTTGTTTGTGTCATTTTCACCTTTTTGCATTGCATTTCA
1 TTTCTTCTCTTTTGTCTGTGTCATTTTCACCTTTTTGCATTGCATTTCA
827072 T
1 T
827073 CAACATGACA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.59
Consensus pattern (49 bp):
TTTCTTCTCTTTTGTCTGTGTCATTTTCACCTTTTTGCATTGCATTTCA
Found at i:828794 original size:29 final size:30
Alignment explanation
Indices: 828760--828838 Score: 117
Period size: 29 Copynumber: 2.7 Consensus size: 30
828750 AAATCAAAGC
828760 AAAGAAAAAAAGAAAAAAAAA-CAAAGAGA
1 AAAGAAAAAAAGAAAAAAAAAGCAAAGAGA
828789 AAAGAAAAAAGAGAAAAAAAAAGCAAAGAGA
1 AAAGAAAAAA-AGAAAAAAAAAGCAAAGAGA
* *
828820 AGA-AAAAAAAGACAAAAAA
1 AAAGAAAAAAAGAAAAAAAA
828839 CACATGTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 19 0.41
30 17 0.37
31 10 0.22
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (30 bp):
AAAGAAAAAAAGAAAAAAAAAGCAAAGAGA
Found at i:828810 original size:31 final size:31
Alignment explanation
Indices: 828760--828838 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
828750 AAATCAAAGC
828760 AAAGAAAAAA-AG-AAAAAAAAACAAAGAGA
1 AAAGAAAAAAGAGAAAAAAAAAACAAAGAGA
*
828789 AAAGAAAAAAGAGAAAAAAAAAGCAAAGAGA
1 AAAGAAAAAAGAGAAAAAAAAAACAAAGAGA
*
828820 AGAA-AAAAAAGACAAAAAA
1 A-AAGAAAAAAGAGAAAAAA
828839 CACATGTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 10 0.22
30 2 0.04
31 31 0.69
32 2 0.04
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (31 bp):
AAAGAAAAAAGAGAAAAAAAAAACAAAGAGA
Found at i:828827 original size:17 final size:15
Alignment explanation
Indices: 828764--828838 Score: 77
Period size: 14 Copynumber: 5.1 Consensus size: 15
828754 CAAAGCAAAG
828764 AAAA-AAAGA-AAAA
1 AAAACAAAGAGAAAA
828777 AAAACAAAGAGAAAA
1 AAAACAAAGAGAAAA
*
828792 GAAA-AAAGAGAAAAA
1 AAAACAAAGAG-AAAA
*
828807 AAAAGCAAAGAGAAGA
1 AAAA-CAAAGAGAAAA
*
828823 AAAA-AAAGACAAAA
1 AAAACAAAGAGAAAA
828837 AA
1 AA
828839 CACATGTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
13 4 0.08
14 21 0.40
15 14 0.27
16 7 0.13
17 6 0.12
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAACAAAGAGAAAA
Found at i:829659 original size:21 final size:21
Alignment explanation
Indices: 829633--829673 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
829623 GCAATATTTT
829633 TTTTTTCAT-TTTTCAAAATTC
1 TTTTTT-ATATTTTCAAAATTC
829654 TTTTTTATATTTTCAAAATT
1 TTTTTTATATTTTCAAAATT
829674 TTGAAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTATATTTTCAAAATTC
Found at i:831455 original size:36 final size:36
Alignment explanation
Indices: 831406--831513 Score: 121
Period size: 37 Copynumber: 3.0 Consensus size: 36
831396 CTAGAGACGA
* * **
831406 TTTTTCTT-GAAACAAAATTGATCTCACTTGAGATTG
1 TTTTTCTTAAAAACAAATTTG-TCTCACTTGAGACAG
*
831442 -TTTTCTTAAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTTTCTTAAAAACAAA-TTTGTCTCACTTGAGACAG
*
831478 TTTTTCTTAAAAACAAATTTCGTCACACTTGAGACA
1 TTTTTCTTAAAAACAAATTT-GTCTCACTTGAGACA
831514 ATCTTCATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
35 7 0.11
36 22 0.36
37 32 0.52
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (36 bp):
TTTTTCTTAAAAACAAATTTGTCTCACTTGAGACAG
Found at i:832087 original size:3 final size:3
Alignment explanation
Indices: 832079--832127 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
832069 TCGGGTTTTA
* *
832079 ATT ATT ATT ATC ATT -TT ATT ATT ATT ATT ATT ATT ATT -TT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
832125 ATT
1 ATT
832128 TATTTACATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:832109 original size:23 final size:23
Alignment explanation
Indices: 832079--832127 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
832069 TCGGGTTTTA
*
832079 ATTATTATTATCATTTTATTATT
1 ATTATTATTATCATTTTATTAAT
*
832102 ATTATTATTATTATTTTATTAAT
1 ATTATTATTATCATTTTATTAAT
832125 ATT
1 ATT
832128 TATTTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTATTATTATCATTTTATTAAT
Found at i:837623 original size:21 final size:21
Alignment explanation
Indices: 837593--837640 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
837583 ATCCAGGCGA
837593 CATACAGGGTGACATACGAGC
1 CATACAGGGTGACATACGAGC
*
837614 CATACGGGGTGACATACGAGC
1 CATACAGGGTGACATACGAGC
837635 CATACA
1 CATACA
837641 AGCCATATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (21 bp):
CATACAGGGTGACATACGAGC
Found at i:837638 original size:9 final size:9
Alignment explanation
Indices: 837626--837665 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
837616 TACGGGGTGA
837626 CATACGAGC
1 CATACGAGC
*
837635 CATACAAGC
1 CATACGAGC
837644 CATATACGAGC
1 C--ATACGAGC
837655 CATACGAGC
1 CATACGAGC
837664 CA
1 CA
837666 ATGGAGAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (9 bp):
CATACGAGC
Found at i:837652 original size:20 final size:20
Alignment explanation
Indices: 837627--837665 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
837617 ACGGGGTGAC
837627 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
837647 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
837666 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:837708 original size:28 final size:28
Alignment explanation
Indices: 837668--837724 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
837658 ACGAGCCAAT
837668 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGTCTTATACGA
837696 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGTCTTATACGA
837724 G
1 G
837725 CCATACGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (28 bp):
GGAGAGGTCGCCATGCAGTCTTATACGA
Found at i:837787 original size:29 final size:29
Alignment explanation
Indices: 837743--837845 Score: 161
Period size: 29 Copynumber: 3.6 Consensus size: 29
837733 GCCAATGGAG
* *
837743 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCTCGGCGACCTTGT
837772 AGGTCGCCATGTAGTCTCGGCGACCTTGT
1 AGGTCGCCATGTAGTCTCGGCGACCTTGT
* **
837801 AGGTCGCCATGTAGTCCCGGCGACCAAGT
1 AGGTCGCCATGTAGTCTCGGCGACCTTGT
837830 AGGTCGCCATGTAGTC
1 AGGTCGCCATGTAGTC
837846 CTAGCTCACG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCTCGGCGACCTTGT
Found at i:838694 original size:16 final size:16
Alignment explanation
Indices: 838662--838708 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
838652 TTTAAAATGT
*
838662 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
838678 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
838694 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
838709 AGTTTAGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:840845 original size:17 final size:17
Alignment explanation
Indices: 840823--840855 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
840813 CAATGATTTT
*
840823 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
840840 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
840856 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:840872 original size:24 final size:22
Alignment explanation
Indices: 840840--840908 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
840830 AAATCATTAC
840840 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
840862 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
840887 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
840909 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:841081 original size:14 final size:14
Alignment explanation
Indices: 841062--841088 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
841052 TAGTAATAAT
841062 TATTAAATCATTAG
1 TATTAAATCATTAG
841076 TATTAAATCATTA
1 TATTAAATCATTA
841089 TTATAATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:841089 original size:25 final size:25
Alignment explanation
Indices: 841047--841326 Score: 131
Period size: 25 Copynumber: 11.3 Consensus size: 25
841037 GTATTCTATA
* *
841047 ATTATTAGT-AATAATTATTAAATC
1 ATTATTATTAAATCATTATTAAATC
*
841071 ATTAGTATTAAATCATTATTATAAT-
1 ATTATTATTAAATCATTATTA-AATC
* * * * *
841096 A--A-GACTAAAT-AATACTAAATA
1 ATTATTATTAAATCATTATTAAATC
* * *
841117 ATTATTATAAAATCATTATTATATG
1 ATTATTATTAAATCATTATTAAATC
* *
841142 ATTATTATCAAATCATTACTAAATC
1 ATTATTATTAAATCATTATTAAATC
* *
841167 ATCAAATCATTAAAT-A-T-TTAAATC
1 AT--TATTATTAAATCATTATTAAATC
*
841191 ---ATTATTAAATCATT-TTATAATG
1 ATTATTATTAAATCATTATTA-AATC
* *
841213 ATTATTACT-AATCATTATTATAATG
1 ATTATTATTAAATCATTATTA-AATC
* * *
841238 ATTATTA-TCAATCATTACTATAATG
1 ATTATTATTAAATCATTATTA-AATC
*
841263 ATTATTATCAAATCATTACTCATCAAATC
1 ATTATTATTAAATCATTA-T--T-AAATC
*
841292 ATTAAATATTTAAATCATTATTAAATC
1 ATT-ATTA-TTAAATCATTATTAAATC
*
841319 ATTTTTAT
1 ATTATTAT
841327 AATGATTAAT
Statistics
Matches: 198, Mismatches: 34, Indels: 47
0.71 0.12 0.17
Matches are distributed among these distances:
19 9 0.05
20 4 0.02
21 10 0.05
22 9 0.05
23 2 0.01
24 26 0.13
25 85 0.43
26 14 0.07
27 16 0.08
28 1 0.01
29 7 0.04
30 5 0.03
31 10 0.05
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.44
Consensus pattern (25 bp):
ATTATTATTAAATCATTATTAAATC
Found at i:841163 original size:60 final size:59
Alignment explanation
Indices: 841099--841282 Score: 153
Period size: 60 Copynumber: 3.1 Consensus size: 59
841089 TTATAATAAG
841099 ACTAAATAATACTAAATAATTATTATAAAATCATTATTATATGATTATTATCAAATCATT
1 ACTAAATAATACTAAATAATTATTAT-AAATCATTATTATATGATTATTATCAAATCATT
* * * * * *
841159 ACTAAATCAT-C-AAATCATTAAATATTTAAATCATTATTAAATCATT-TTAT-AATGATTATT
1 ACTAAATAATACTAAATAATT--AT-TATAAATCATTATTATATGATTATTATCAA--ATCATT
* * * * *
841219 ACT-AATCATTATTATAATGATTATTATCAATCATTACTATAATGATTATTATCAAATCATT
1 ACTAAAT-AATACTA-AATAATTATTATAAATCATTATTAT-ATGATTATTATCAAATCATT
841280 ACT
1 ACT
841283 CATCAAATCA
Statistics
Matches: 96, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
58 9 0.09
59 8 0.08
60 49 0.51
61 17 0.18
62 5 0.05
63 8 0.08
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (59 bp):
ACTAAATAATACTAAATAATTATTATAAATCATTATTATATGATTATTATCAAATCATT
Found at i:841300 original size:117 final size:119
Alignment explanation
Indices: 841117--841334 Score: 361
Period size: 117 Copynumber: 1.8 Consensus size: 119
841107 ATACTAAATA
*
841117 ATTATTATAAAATCATTATTATATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAAT
1 ATTATTATAAAATCATTACTATATGATTATTATCAAATCATTAC---ATCATCAAATCATTAAAT
841182 ATTTAAATCATTATTAAATCA-TTTTATAATGATTATTACTAATCATTATTATAATG
63 ATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAATCATTATTATAATG
*
841238 ATTATTAT-CAATCATTACTATAATGATTATTATCAAATCATTAC-TCATCAAATCATTAAATAT
1 ATTATTATAAAATCATTACTAT-ATGATTATTATCAAATCATTACATCATCAAATCATTAAATAT
841301 TTAAATCATTATTAAATCATTTTTATAATGATTA
65 TTAAATCATTATTAAATCATTTTTATAATGATTA
841335 ATAAATACAT
Statistics
Matches: 93, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
117 38 0.41
118 14 0.15
120 11 0.12
121 30 0.32
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (119 bp):
ATTATTATAAAATCATTACTATATGATTATTATCAAATCATTACATCATCAAATCATTAAATATT
TAAATCATTATTAAATCATTTTTATAATGATTATTACTAATCATTATTATAATG
Found at i:844192 original size:26 final size:24
Alignment explanation
Indices: 844134--844192 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
844124 ACTAATAACC
*
844134 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
844158 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
844186 TAATAAT
1 TAATAAT
844193 AATATGATTT
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:844507 original size:16 final size:16
Alignment explanation
Indices: 844474--844503 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
844464 ATTTTAAAAC
844474 AACACTAATATTTTTA
1 AACACTAATATTTTTA
844490 AACAC-AATATTTTT
1 AACACTAATATTTTT
844504 TAAAACGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
AACACTAATATTTTTA
Found at i:844509 original size:17 final size:17
Alignment explanation
Indices: 844456--844509 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
844446 AATGTAAATT
**
844456 AAACA-AATATTTTAAA
1 AAACACAATATTTTTTA
844472 ACAACACTAATA-TTTTT-
1 A-AACAC-AATATTTTTTA
844489 AAACACAATATTTTTTA
1 AAACACAATATTTTTTA
844506 AAAC
1 AAAC
844510 GGAAATTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.13
16 11 0.35
17 9 0.29
18 3 0.10
19 4 0.13
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (17 bp):
AAACACAATATTTTTTA
Found at i:844976 original size:42 final size:45
Alignment explanation
Indices: 844920--845021 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 45
844910 GTTTAAAGAC
* * *
844920 ACTAACAAATTAATTAA-TATTTT-TTTATATTTAATA-AT-TTAA
1 ACTAACAAACTAATTAACTATTTTATATA-ATATAATATATATTAA
*
844962 ACTAAGAAACTAATTAACTATTTTATATAATATAATATATACTTAA
1 ACTAACAAACTAATTAACTATTTTATATAATATAATATATA-TTAA
*
845008 ACTAATAAACTAAT
1 ACTAACAAACTAAT
845022 ATATATAACT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 15 0.30
43 13 0.26
44 5 0.10
46 17 0.34
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (45 bp):
ACTAACAAACTAATTAACTATTTTATATAATATAATATATATTAA
Found at i:845039 original size:27 final size:27
Alignment explanation
Indices: 844989--845074 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
844979 CTATTTTATA
844989 TAATATAATATATACTTAAACTAATAAAC
1 TAATAT-ATATA-ACTTAAACTAATAAAC
*
845018 TAATATATATAACTTAAACTAACAAAC
1 TAATATATATAACTTAAACTAATAAAC
*
845045 TAATAATTATACTAAC--AAACTAATTAAC
1 TAAT-A-TATA-TAACTTAAACTAATAAAC
845073 TA
1 TA
845075 GATTTTAGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 19 0.37
28 18 0.35
29 10 0.20
30 4 0.08
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (27 bp):
TAATATATATAACTTAAACTAATAAAC
Found at i:845463 original size:21 final size:21
Alignment explanation
Indices: 845438--845509 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
845428 ACGCAACTAT
845438 GGATGCAACACATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
* *
845459 GGATGCATGA-ATC-TCCCAGCTAT
1 GGATGCA--ACA-CAT-GCAGCTAC
*
845482 GGATGCAACGCATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
845503 GGATGCA
1 GGATGCA
845510 GGAATCTCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
21 22 0.55
22 3 0.08
23 15 0.38
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (21 bp):
GGATGCAACACATGCAGCTAC
Found at i:845484 original size:44 final size:44
Alignment explanation
Indices: 845434--845522 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
845424 AATAACGCAA
*
845434 CTATGGATGCAACACATGCAGCTACGGATGCATGAATCTCCCAG
1 CTATGGATGCAACACATGCAGCTACGGATGCAGGAATCTCCCAG
*
845478 CTATGGATGCAACGCATGCAGCTACGGATGCAGGAATCTCCCAG
1 CTATGGATGCAACACATGCAGCTACGGATGCAGGAATCTCCCAG
845522 C
1 C
845523 CGTGACCCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (44 bp):
CTATGGATGCAACACATGCAGCTACGGATGCAGGAATCTCCCAG
Found at i:845920 original size:29 final size:29
Alignment explanation
Indices: 845878--845988 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
845868 CACCACACAT
*
845878 GTCGCTCGGATGCCATGGCGACCTCCAAG
1 GTCGCCCGGATGCCATGGCGACCTCCAAG
845907 GTCGCCCGGATGCCATGGCGACCTCCAAG
1 GTCGCCCGGATGCCATGGCGACCTCCAAG
*
845936 GTCGCCCGGATGCCATGGCGACCTCTAAG
1 GTCGCCCGGATGCCATGGCGACCTCCAAG
*
845965 GTCGCCCGGATGGCATGGCGACCT
1 GTCGCCCGGATGCCATGGCGACCT
845989 ACGGCTGCAC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (29 bp):
GTCGCCCGGATGCCATGGCGACCTCCAAG
Found at i:846736 original size:12 final size:12
Alignment explanation
Indices: 846719--846744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
846709 ACCATAAACC
846719 TTAAAATATATT
1 TTAAAATATATT
846731 TTAAAATATATT
1 TTAAAATATATT
846743 TT
1 TT
846745 GTGAACCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAAAATATATT
Found at i:846861 original size:186 final size:190
Alignment explanation
Indices: 846527--847061 Score: 643
Period size: 186 Copynumber: 2.8 Consensus size: 190
846517 CTATTTATAA
*
846527 AAAATAATATTTTAAAATATATTTTATGAACCCTAAACCTTAAACCCTATACCCTAAAATATTTT
1 AAAAT-ATATTTTAAAATATATTTTATGAACCCTAAACCTT-AA--C-ACACCCTAAAATATTTT
* *
846592 GGTTATTATTGAAAACCCTAAACCTCTAAACCCTAATAATTCTCCCTTCAATCAATTTCTTCTTA
61 GGTTATTATTGAAAA-CCTAAACCTCTAAACCCTAACAATTCTCCCTCCAATCAATTTCTTCTTA
* ** * *
846657 TAAAAACAAATTTATAACCATAAACCCTAAAATATTTTGGTTGTTGCT-AA-AAACCATAAACCT
125 TAAAAACAAATTTATAACCATAAACCCTAAAATATTCTAATTGTTACTAAATAAACCATAAACCC
846720 T
190 T
* *
846721 AAAATATATTTTAAAATATATTTTGTGAACCCTAAACCTT-A-A-ACCCTAAAATATTTTGATTA
1 AAAATATATTTTAAAATATATTTTATGAACCCTAAACCTTAACACACCCTAAAATATTTTGGTTA
* * *
846783 TTGTTGAAAACCGTAAACCTCTAAACCCTAACAATTCCCCCTCCAATCAATTTCTTCTTATATAA
66 TTATTGAAAACC-TAAACCTCTAAACCCTAACAATTCTCCCTCCAATCAATTTCTTCTTATAAAA
* *
846848 AC-AATTCTATAACCCTAAACCCTAAAATATTCTAATTGTTACTAAAAATTCTAAACCCTAAACC
130 ACAAATT-TATAACCATAAACCCTAAAATATTCTAATTGTTACT--AAA---TAAACCATAAACC
846912 CT
189 CT
* * *
846914 AAAATATATTTTAAAATATATTTTTTGAATCCTAAACCTTAAACCCTACACCCTAAAATATTTGG
1 AAAATATATTTTAAAATATATTTTATGAACCCTAAACCTT-AA--C-ACACCCTAAAATATTTTG
* * *
846979 GTTGTTATTGAAAATCCTAAACC-CTAAACCCTAACAATTCTCCCTCCAATCAATTTCTTGTAAT
62 GTTATTATTGAAAA-CCTAAACCTCTAAACCCTAACAATTCTCCCTCCAATCAATTTCTTCTTAT
* * *
847043 AATAACAAATATGTAACCA
126 AAAAACAAATTTATAACCA
847062 CCATCATGGA
Statistics
Matches: 295, Mismatches: 28, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
185 6 0.02
186 109 0.37
187 1 0.00
189 2 0.01
191 1 0.00
193 84 0.28
194 5 0.02
195 1 0.00
199 49 0.17
200 35 0.12
201 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (190 bp):
AAAATATATTTTAAAATATATTTTATGAACCCTAAACCTTAACACACCCTAAAATATTTTGGTTA
TTATTGAAAACCTAAACCTCTAAACCCTAACAATTCTCCCTCCAATCAATTTCTTCTTATAAAAA
CAAATTTATAACCATAAACCCTAAAATATTCTAATTGTTACTAAATAAACCATAAACCCT
Found at i:846939 original size:14 final size:12
Alignment explanation
Indices: 846913--846937 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
846903 CCCTAAACCC
846913 TAAAATATATTT
1 TAAAATATATTT
846925 TAAAATATATTT
1 TAAAATATATTT
846937 T
1 T
846938 TTGAATCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATATTT
Found at i:847536 original size:15 final size:14
Alignment explanation
Indices: 847516--847546 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
847506 GGGAGAATTA
847516 TTAGGGTTTAGAGGT
1 TTAGGGTTTAG-GGT
847531 TTAGGGTTTAGGGT
1 TTAGGGTTTAGGGT
847545 TT
1 TT
847547 TCAATAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTAGGGT
Found at i:847538 original size:7 final size:7
Alignment explanation
Indices: 847516--847546 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
847506 GGGAGAATTA
847516 TTAGGGT
1 TTAGGGT
847523 TTAGAGGT
1 TTAG-GGT
847531 TTAGGGT
1 TTAGGGT
847538 TTAGGGT
1 TTAGGGT
847545 TT
1 TT
847547 TCAATAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:847556 original size:110 final size:109
Alignment explanation
Indices: 847209--847572 Score: 440
Period size: 110 Copynumber: 3.4 Consensus size: 109
847199 GAAAGAATGG
* * * * *
847209 TTAGGGTTTAGGGTTTTTAGCAACAACTAAAATATTTTAGGGTTTAGGGTTACAAATTTGTTTTT
1 TTAGGATTTAGGGTTTTCAACAACAACCAAAATATTTTAGGGTTTAGGTTTACAAATTTGTTTTT
847274 ATAAGAAGAAATTGATTGGAGGGAGAATTGTTAGGGTTTAGAGGT
66 ATAAGAAGAAATTGATTGGAGGGAGAATT-TTAGGGTTTAGAGGT
* * * *
847319 TTAGGATTTAGGATTTTCATCAACAATCAAAATATTTTAGGGTTTAAGGTTCAC-AA-TT-TTTT
1 TTAGGATTTAGGGTTTTCAACAACAACCAAAATATTTTAGGGTTT-AGGTTTACAAATTTGTTTT
* * *** * * *
847381 T-TAA-AATATATT--TT-GAGGTTTATAGTTTATGGTTTAG-TGT
65 TATAAGAAGAAATTGATTGGAGGGAGA-ATTTTAGGGTTTAGAGGT
* *
847421 TTAGGATTTAGGGTTTTTAGCAACAACCAAAATATTTTAGGGTTTAGGTTTACAAATTTGTTTTT
1 TTAGGATTTAGGGTTTTCAACAACAACCAAAATATTTTAGGGTTTAGGTTTACAAATTTGTTTTT
847486 ATAAGAAGAAATTGATTGGAGGGAGAATTATTAGGGTTTAGAGGT
66 ATAAGAAGAAATTGATTGGAGGGAGAATT-TTAGGGTTTAGAGGT
* *
847531 TTAGGGTTTAGGGTTTTCAATAACAACCAAAATATTTTAGGG
1 TTAGGATTTAGGGTTTTCAACAACAACCAAAATATTTTAGGG
847573 AATAGGGTTT
Statistics
Matches: 209, Mismatches: 33, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
101 7 0.03
102 45 0.22
103 17 0.08
104 9 0.04
105 3 0.01
106 12 0.06
107 3 0.01
108 9 0.04
109 17 0.08
110 81 0.39
111 6 0.03
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (109 bp):
TTAGGATTTAGGGTTTTCAACAACAACCAAAATATTTTAGGGTTTAGGTTTACAAATTTGTTTTT
ATAAGAAGAAATTGATTGGAGGGAGAATTTTAGGGTTTAGAGGT
Found at i:848813 original size:13 final size:13
Alignment explanation
Indices: 848789--848834 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
848779 TATACATATA
848789 TATTTT-ATTTAT
1 TATTTTCATTTAT
848801 TATTTTCATTTAT
1 TATTTTCATTTAT
*
848814 TATATTCATCATTAT
1 TATTTTCAT--TTAT
848829 TATTTT
1 TATTTT
848835 ATTACTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 6 0.21
13 14 0.48
15 9 0.31
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTTCATTTAT
Found at i:850439 original size:65 final size:65
Alignment explanation
Indices: 850368--850498 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
850358 TAACAGTGGA
850368 CGTTGAAGTTGGTAGCAAAATCATAATTTACAAAGTAGATAAACCATCTGATCCTTAGAAATGCG
1 CGTTGAAGTTGGTAGCAAAATCATAATTTACAAAGTAGATAAACCATCTGATCCTTAGAAATGCG
*
850433 CGTTGAAGTTGGTAGCAAAATCATAATTTACAAAGTAGCTAAACCATCTGATCCTTAGAAATGCG
1 CGTTGAAGTTGGTAGCAAAATCATAATTTACAAAGTAGATAAACCATCTGATCCTTAGAAATGCG
850498 C
1 C
850499 AAATATATTC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (65 bp):
CGTTGAAGTTGGTAGCAAAATCATAATTTACAAAGTAGATAAACCATCTGATCCTTAGAAATGCG
Found at i:851695 original size:31 final size:30
Alignment explanation
Indices: 851634--851748 Score: 110
Period size: 31 Copynumber: 3.8 Consensus size: 30
851624 TTCAATTATA
* * *
851634 TTTT-TAATATTTATTATTAAGGG-TTCAAT
1 TTTTCTAA-ATTTATTATTATGGGCCTAAAT
851663 TTTTCTTCAAATTTATTATTATGGGCCT-AAT
1 TTTTC-T-AAATTTATTATTATGGGCCTAAAT
* *
851694 TTTTGTAATATATATTATTATGGGCCTAAAT
1 TTTTCTAA-ATTTATTATTATGGGCCTAAAT
*
851725 GTTTTCTATATTTATTATTATGGG
1 -TTTTCTAAATTTATTATTATGGG
851749 TCTACTCTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
29 6 0.08
30 18 0.25
31 39 0.54
32 9 0.12
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (30 bp):
TTTTCTAAATTTATTATTATGGGCCTAAAT
Found at i:851704 original size:61 final size:60
Alignment explanation
Indices: 851634--851748 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
851624 TTCAATTATA
* * *
851634 TTTTTAATATTTATTATTAAGGG-TTCAAT-TTTTCTTCAAATTTATTATTATGGGCCTAAT
1 TTTTTAATATATATTATTAAGGGCCTAAATGTTTTC-T-AAATTTATTATTATGGGCCTAAT
* *
851694 TTTTGTAATATATATTATTATGGGCCTAAATGTTTTCTATATTTATTATTATGGG
1 TTTT-TAATATATATTATTAAGGGCCTAAATGTTTTCTAAATTTATTATTATGGG
851749 TCTACTCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
60 4 0.09
61 33 0.70
62 5 0.11
63 5 0.11
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (60 bp):
TTTTTAATATATATTATTAAGGGCCTAAATGTTTTCTAAATTTATTATTATGGGCCTAAT
Found at i:853362 original size:27 final size:29
Alignment explanation
Indices: 853314--853367 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
853304 TTTAAACTAA
853314 TTAAAAATAATTAAAAAATT-AATTTAAT
1 TTAAAAATAATTAAAAAATTAAATTTAAT
*
853342 TTAAAAAT-A-TAAAAACTTTAAATTTA
1 TTAAAAATAATTAAAAA-ATTAAATTTA
853368 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 3 0.13
28 14 0.61
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
TTAAAAATAATTAAAAAATTAAATTTAAT
Found at i:858408 original size:7 final size:7
Alignment explanation
Indices: 858393--858430 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
858383 AAATACGGTA
858393 TGAATAG
1 TGAATAG
*
858400 TGAACAG
1 TGAATAG
858407 TGAATAG
1 TGAATAG
858414 TGAATAG
1 TGAATAG
*
858421 TGAACAG
1 TGAATAG
858428 TGA
1 TGA
858431 CGAACAGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (7 bp):
TGAATAG
Found at i:863127 original size:17 final size:17
Alignment explanation
Indices: 863105--863150 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
863095 AAAATATATA
863105 AATATTTTACAATTTGT
1 AATATTTTACAATTTGT
863122 AATATTTTACAATTTGT
1 AATATTTTACAATTTGT
*
863139 AATATTATACAA
1 AATATTTTACAA
863151 ATATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (17 bp):
AATATTTTACAATTTGT
Found at i:863318 original size:20 final size:20
Alignment explanation
Indices: 863282--863319 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
863272 ATCCTATTCC
**
863282 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
863302 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
863320 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:873830 original size:8 final size:8
Alignment explanation
Indices: 873817--873857 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
873807 CTCATTTTCA
873817 GAGAATTT
1 GAGAATTT
873825 GAGAATTT
1 GAGAATTT
*
873833 -AGAGTTT
1 GAGAATTT
*
873840 GGGAATTT
1 GAGAATTT
873848 GAGAATTT
1 GAGAATTT
873856 GA
1 GA
873858 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:874153 original size:128 final size:128
Alignment explanation
Indices: 873925--874427 Score: 952
Period size: 128 Copynumber: 3.9 Consensus size: 128
873915 CTATAATCGG
* *
873925 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAAATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
873990 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
874053 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
874118 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* *
874181 TTCACTATTCATATGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
874246 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
874309 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
874374 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGT
874428 TTGAATAACT
Statistics
Matches: 368, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 368 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:874880 original size:33 final size:34
Alignment explanation
Indices: 874812--874917 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
874802 TAAGTTGAAA
* *
874812 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* *
874846 TTTAATTTTAAATTT-GAATAATATTATTTTTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* *
874879 TTTTATTTTAAATTTCGAATAATATAATTTGTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
874913 TTTAA
1 TTTAA
874918 AAACATTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.46
34 34 0.54
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTATAT
Found at i:875526 original size:21 final size:21
Alignment explanation
Indices: 875438--875531 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
875428 TATGGTATAA
*
875438 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
875459 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
875480 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
875501 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
875522 AACCCTGCGG
1 AACCCTGCGG
875532 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:875575 original size:21 final size:21
Alignment explanation
Indices: 875535--875576 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
875525 CCTGCGGAGA
*
875535 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
875556 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
875577 GGGAATGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.26
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:877370 original size:33 final size:34
Alignment explanation
Indices: 877298--877377 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
877288 TTAATAATTC
* *
877298 TAAATAATAATAATTATATAAATATTATTTAATA
1 TAAAAAATAATAATTACATAAATATTATTTAATA
* *
877332 AAAAAAATAATATTTTACATAAATA-TA-TTAATA
1 TAAAAAATAATA-ATTACATAAATATTATTTAATA
877365 TAAAAAATAATAA
1 TAAAAAATAATAA
877378 CTATTTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 17 0.44
34 12 0.31
35 10 0.26
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
TAAAAAATAATAATTACATAAATATTATTTAATA
Found at i:877383 original size:37 final size:36
Alignment explanation
Indices: 877299--877383 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 36
877289 TAATAATTCT
* * *
877299 AAATAATAATA-ATTATATAAATATTATTTAATAAA
1 AAATAATAATATTTTACATAAATATTATTAAATAAA
877334 AAA-AATAATATTTTACATAAATA-TATTAATATAAA
1 AAATAATAATATTTTACATAAATATTATTAA-ATAAA
877369 AAATAATAACTATTT
1 AAATAATAA-TATTT
877384 AAAAAAATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
34 12 0.28
35 21 0.49
36 5 0.12
37 5 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (36 bp):
AAATAATAATATTTTACATAAATATTATTAAATAAA
Found at i:879103 original size:3 final size:3
Alignment explanation
Indices: 879097--879122 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
879087 TCAGTAAAAA
879097 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
879123 ACCCACTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:882077 original size:34 final size:34
Alignment explanation
Indices: 882039--882107 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
882029 AGATACGATC
*
882039 CTTATCCGAAGCTGGATACAATTTTAGAATCCTA
1 CTTATCCGAAGCTGGATACAATTCTAGAATCCTA
882073 CTTATCCGAAGCTGGATACAATTCTAGAATCCTA
1 CTTATCCGAAGCTGGATACAATTCTAGAATCCTA
882107 C
1 C
882108 GTATAACTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (34 bp):
CTTATCCGAAGCTGGATACAATTCTAGAATCCTA
Found at i:883335 original size:104 final size:104
Alignment explanation
Indices: 883213--883414 Score: 361
Period size: 104 Copynumber: 1.9 Consensus size: 104
883203 AATTCACAAA
*
883213 CTCATTATGAACACCATCAATGCACACATAGTG-TCGAAAGTACACAAAGGTACTGATACGAAAA
1 CTCATTATGAACACCATCAATGCACACATAGTGCT-GAAAGTACACAAAGGTACTGATACAAAAA
*
883277 TGCAAAAAATGCATTAAACAAAATTGATCGATAACAAATG
65 TGCAAAAAATGCATTAAACAAAATCGATCGATAACAAATG
883317 CTCATTATGAACACCATCAATGCACACATAGTGCTGAAAGTACACAAAGGTACTGATACAAAAAT
1 CTCATTATGAACACCATCAATGCACACATAGTGCTGAAAGTACACAAAGGTACTGATACAAAAAT
*
883382 GCAACAAATGCATTAAACAAAATCGATCGATAA
66 GCAAAAAATGCATTAAACAAAATCGATCGATAA
883415 ATATCAAACT
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
104 93 0.99
105 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (104 bp):
CTCATTATGAACACCATCAATGCACACATAGTGCTGAAAGTACACAAAGGTACTGATACAAAAAT
GCAAAAAATGCATTAAACAAAATCGATCGATAACAAATG
Found at i:888345 original size:57 final size:57
Alignment explanation
Indices: 888265--888684 Score: 671
Period size: 57 Copynumber: 7.4 Consensus size: 57
888255 ATGGCACTGA
* * *
888265 GTGTGTAAAAAGTTAAGAAATTCATAATTAGTTTAAGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* *
888322 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCTTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * * *
888379 GTGTGAAAAAAGCTAAGAAATTCATAATAAGTTTATTAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
*
888436 ATGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
*
888493 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
888550 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
** * *
888607 GTGCACAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCTGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * *
888664 ATTTGCAAAAA-CTAAGAAATT
1 GTGTGCAAAAAGTTAAGAAATT
888685 ATATGAATTT
Statistics
Matches: 337, Mismatches: 26, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
56 9 0.03
57 328 0.97
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
Found at i:905670 original size:19 final size:20
Alignment explanation
Indices: 905631--905671 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
905621 ATCATATTGT
905631 CCAGGGGGTACAAATTCCCC
1 CCAGGGGGTACAAATTCCCC
*
905651 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAAATTCCCC
905671 C
1 C
905672 TGTAGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.37, G:0.27, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACAAATTCCCC
Found at i:905743 original size:19 final size:20
Alignment explanation
Indices: 905704--905745 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
905694 AACAGAATGT
905704 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
905724 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACAGATTCCCC
905744 CC
1 CC
905746 TTTCTAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:906997 original size:3 final size:3
Alignment explanation
Indices: 906991--907046 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
906981 TTTCATTTTT
906991 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
907039 TTA TTA TT
1 TTA TTA TT
907047 GTATAGGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:907128 original size:11 final size:12
Alignment explanation
Indices: 906997--907136 Score: 71
Period size: 12 Copynumber: 11.1 Consensus size: 12
906987 TTTTTTATTA
906997 TTATTATTAT-T
1 TTATTATTATAT
907008 ATTATTATTAT-T
1 -TTATTATTATAT
907020 ATTATTATTAT-T
1 -TTATTATTATAT
907032 ATTATTATTATTAT
1 -TTATTATTA-TAT
907046 TGTA-TAGGTT-TCAT
1 T-TATTA--TTAT-AT
**
907060 TTATATAGCATAT
1 TTAT-TATTATAT
907073 TTA-TATTAT-T
1 TTATTATTATAT
907083 TTGATTATTACTAT
1 TT-ATTATTA-TAT
907097 ACTTATTATTATAT
1 --TTATTATTATAT
907111 TAGTATTATTA-AT
1 T--TATTATTATAT
907124 TTATTATTATAT
1 TTATTATTATAT
907136 T
1 T
907137 AAATAAATGG
Statistics
Matches: 106, Mismatches: 4, Indels: 36
0.73 0.03 0.25
Matches are distributed among these distances:
10 3 0.03
11 13 0.12
12 42 0.40
13 16 0.15
14 19 0.18
15 11 0.10
16 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (12 bp):
TTATTATTATAT
Found at i:908749 original size:13 final size:13
Alignment explanation
Indices: 908731--908755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
908721 CATTGATTTG
908731 TTGATTAATTTTT
1 TTGATTAATTTTT
908744 TTGATTAATTTT
1 TTGATTAATTTT
908756 CTGTGAAGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TTGATTAATTTTT
Found at i:919087 original size:94 final size:94
Alignment explanation
Indices: 918982--919201 Score: 327
Period size: 94 Copynumber: 2.4 Consensus size: 94
918972 GCATTTCAAG
*
918982 GGAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAATAATATAAAGTGAGATCAATTTT
1 GGAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAACAATATAAAGTGAGATCAATTTT
*
919047 GTTTCAAGAGAAAAAATTTCAAATTATGT
66 GGTTCAAGAGAAAAAATTTCAAATTATGT
* * * *
919076 GGAAAACTGTCTCAAGCGAGACAAAAATTGTTTTTAGGAAAACAATCTCAAGTGAGATCAATTTT
1 GGAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAACAATATAAAGTGAGATCAATTTT
* * *
919141 GGTTCAAGTGCAAAAATTTCAAATTTTGT
66 GGTTCAAGAGAAAAAATTTCAAATTATGT
* *
919170 GGAAAATTGTCTTAAGCAAGAC--AATTTGTTTT
1 GGAAAATTGTCTCAAGCGAGACAAAATTTGTTTT
919202 GAGAGAAACA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 9 0.08
94 104 0.92
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (94 bp):
GGAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAACAATATAAAGTGAGATCAATTTT
GGTTCAAGAGAAAAAATTTCAAATTATGT
Found at i:919276 original size:67 final size:66
Alignment explanation
Indices: 919173--919422 Score: 193
Period size: 67 Copynumber: 3.7 Consensus size: 66
919163 ATTTTGTGGA
* * *
919173 AAATTGTCTTAAGCAAGAC-AA-TTTGTTTTGAGAGAAACAATCTCAAATGCTTATATTTCAAAA
1 AAATTGTCTCAAGCGAGACAAACTTTGTTTTGAGAGAAACAATCTCAAATGATTATATTTCAAAA
919236 G
66 G
* * * * ** * *
919237 AAATTGTCTCAAGCGAGACTAAACTTTGTTTGGAGAGAAACAAACTCAAAGGTTTACGTTACAAG
1 AAATTGTCTCAAGCGAGAC-AAACTTTGTTTTGAGAGAAACAATCTCAAATGATTATATTTCAAA
919302 AG
65 AG
* * * * * *
919304 AAATTGTGTCAAGTGAGACAAAATTTGTTTTTAG-GAAAATAATCTCAAGTGAGATTAATTTTAT
1 AAATTGTCTCAAGCGAGACAAACTTTGTTTTGAGAG-AAACAATCTCAAAT--GATT-A---TAT
919368 TTCAAGAA-
59 TTCAA-AAG
* * * *
919376 AAATTATCTCAAACGAGACAAAACTTTGTTTAGAGAGAGACAATCTC
1 AAATTGTCTCAAGCGAGAC-AAACTTTGTTTTGAGAGAAACAATCTC
919423 CAAGGTGACA
Statistics
Matches: 140, Mismatches: 33, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
64 17 0.12
65 1 0.01
66 24 0.17
67 52 0.37
68 3 0.02
69 1 0.01
72 20 0.14
73 21 0.15
74 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (66 bp):
AAATTGTCTCAAGCGAGACAAACTTTGTTTTGAGAGAAACAATCTCAAATGATTATATTTCAAAA
G
Found at i:922406 original size:9 final size:9
Alignment explanation
Indices: 922392--922429 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
922382 ACTTAATCTG
922392 TTTTCTTTC
1 TTTTCTTTC
922401 TTTTCTTTC
1 TTTTCTTTC
922410 TTTTCTTT-
1 TTTTCTTTC
922418 TTCTT-TTTC
1 TT-TTCTTTC
922427 TTT
1 TTT
922430 GTTCTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:922421 original size:6 final size:6
Alignment explanation
Indices: 922392--922452 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
922382 ACTTAATCTG
922392 TTTTCT TTCTT-T TCTTTC- TTTTCT TTTTCT TTTTCT TTGTTCT TTTTC-
1 TTTTCT TT-TTCT T-TTTCT TTTTCT TTTTCT TTTTCT TT-TTCT TTTTCT
922440 TTTT-T TTTTCT TT
1 TTTTCT TTTTCT TT
922453 GTTCACTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
5 12 0.25
6 27 0.56
7 9 0.19
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:922426 original size:30 final size:29
Alignment explanation
Indices: 922392--922452 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
922382 ACTTAATCTG
922392 TTTTCTTTCTT-TTCTTTCTTTTCTTTTTCT
1 TTTTCTTTCTTCTT-TTTCTTTT-TTTTTCT
*
922422 TTTTCTTTGTTCTTTTTCTTTTTTTTTCT
1 TTTTCTTTCTTCTTTTTCTTTTTTTTTCT
922451 TT
1 TT
922453 GTTCACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 9 0.31
30 18 0.62
31 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (29 bp):
TTTTCTTTCTTCTTTTTCTTTTTTTTTCT
Found at i:922451 original size:23 final size:25
Alignment explanation
Indices: 922410--922456 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
922400 CTTTTCTTTC
922410 TTTTCTTTTTCTTTTTCTTTGTTCT
1 TTTTCTTTTTCTTTTTCTTTGTTCT
922435 TTTTC-TTTT-TTTTTCTTTGTTC
1 TTTTCTTTTTCTTTTTCTTTGTTC
922457 ACTTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 13 0.59
24 4 0.18
25 5 0.23
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTTCTTTTTCTTTGTTCT
Found at i:925593 original size:15 final size:17
Alignment explanation
Indices: 925569--925608 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
925559 AACGTCTTTT
925569 AAAATAA-TTTTAAGA-
1 AAAATAATTTTTAAGAC
*
925584 AAAATTATTTTTAAGAC
1 AAAATAATTTTTAAGAC
925601 AAAA-AATT
1 AAAATAATT
925609 GGTTTGCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (17 bp):
AAAATAATTTTTAAGAC
Found at i:926466 original size:51 final size:51
Alignment explanation
Indices: 926390--926491 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
926380 GTCTAAATCA
926390 AACCTATATAACTACAAGAAATTTCTACTATTGTGACAAATTTAATTTTGT
1 AACCTATATAACTACAAGAAATTTCTACTATTGTGACAAATTTAATTTTGT
*
926441 AACCTATATCACTACAAGAAATTTCTACTATTGTGACAAATTTAATTTTGT
1 AACCTATATAACTACAAGAAATTTCTACTATTGTGACAAATTTAATTTTGT
926492 CAAAATTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (51 bp):
AACCTATATAACTACAAGAAATTTCTACTATTGTGACAAATTTAATTTTGT
Found at i:929864 original size:75 final size:76
Alignment explanation
Indices: 929673--929940 Score: 376
Period size: 78 Copynumber: 3.5 Consensus size: 76
929663 AGGTTGTTCT
* * * *
929673 TCAGCTTTGTCTTCCTTCTGTCGTTCCGAAACATTTACAGTCTCTTTTTGTTTTGCCTCGTTTCC
1 TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTGCAGTCTCTTTTTGTTTTGCCTCGTTT--
929738 TTTCCCTTGATCC
64 TTTCCCTTGATCC
* * **
929751 TCAACATTGTCTTCTTTTTTTCGTTTAGAAACATTTGCAGTCTCTTTTTGTTTTGCCTCG-TTTT
1 TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTGCAGTCTCTTTTTGTTTTGCCTCGTTTTT
*
929815 TCCCTTGATCT
66 TCCCTTGATCC
* *
929826 TCAGCATTGTCTTCTTTTTGTCGCTCCGAAACACTTGCAGTCTCTTTTTGTTTTGCCTCGTTTCT
1 TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTGCAGTCTCTTTTTGTTTTGCCTCG-TT-T
929891 TTTCCCTTGATCC
64 TTTCCCTTGATCC
* *
929904 TCAGCATTGTCTTCTTTTTGTTGTTCCAAAACATTTG
1 TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTG
929941 AATCCCCTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
75 66 0.40
77 3 0.02
78 98 0.59
ACGTcount: A:0.12, C:0.25, G:0.13, T:0.49
Consensus pattern (76 bp):
TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTGCAGTCTCTTTTTGTTTTGCCTCGTTTTT
TCCCTTGATCC
Found at i:929951 original size:153 final size:153
Alignment explanation
Indices: 929670--929956 Score: 418
Period size: 153 Copynumber: 1.9 Consensus size: 153
929660 AACAGGTTGT
* * *
929670 TCTTCAGCTTTGTCTTCCTTCTGTCGTTCCGAAACATTTACAGTCTCTTTTTGTTTTGCCTCGTT
1 TCTTCAGCATTGTCTTCCTTCTGTCGCTCCGAAACACTTACAGTCTCTTTTTGTTTTGCCTCGTT
* * *
929735 TCCTTTCCCTTGATCCTCAACATTGTCTTCTTTTTTTCGTTTAGAAACATTTGCAGTCTCTTTTT
66 TCCTTTCCCTTGATCCTCAACATTGTCTTCTTTTTTTCGTTCAGAAACATTTGCAATCCCTTTTT
929800 GTTTTGCCTCGTTTTTCCCTTGA
131 GTTTTGCCTCGTTTTTCCCTTGA
* * *
929823 TCTTCAGCATTGTCTTCTTTTTGTCGCTCCGAAACACTTGCAGTCTCTTTTTGTTTTGCCTCGTT
1 TCTTCAGCATTGTCTTCCTTCTGTCGCTCCGAAACACTTACAGTCTCTTTTTGTTTTGCCTCGTT
* * *
929888 TCTTTTCCCTTGATCCTCAGCATTGTCTTCTTTTTGTT-GTTCCA-AAACATTTG-AATCCCCTT
66 TCCTTTCCCTTGATCCTCAACATTGTCTTCTTTTT-TTCGTT-CAGAAACATTTGCAATCCCTTT
*
929950 TTCTTTT
129 TTGTTTT
929957 AGATGCTTGA
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
152 12 0.10
153 104 0.87
154 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.12, T:0.50
Consensus pattern (153 bp):
TCTTCAGCATTGTCTTCCTTCTGTCGCTCCGAAACACTTACAGTCTCTTTTTGTTTTGCCTCGTT
TCCTTTCCCTTGATCCTCAACATTGTCTTCTTTTTTTCGTTCAGAAACATTTGCAATCCCTTTTT
GTTTTGCCTCGTTTTTCCCTTGA
Found at i:931119 original size:33 final size:33
Alignment explanation
Indices: 931038--931119 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
931028 TAATCAAAAT
* * *
931038 AAAAATGTATAACAAATATTAATTTTTCATTATA
1 AAAAAT-TGTAACAAATAATAATTTTTCATAATA
*
931072 AAAAATTG-AGACAAATAATATTTTTTCATAATA
1 AAAAATTGTA-ACAAATAATAATTTTTCATAATA
*
931105 ACAAATTGTAACAAA
1 AAAAATTGTAACAAA
931120 ATTATTTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 1 0.02
33 33 0.80
34 7 0.17
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.35
Consensus pattern (33 bp):
AAAAATTGTAACAAATAATAATTTTTCATAATA
Done.