Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008627.1 Hibiscus syriacus cultivar Beakdansim tig00111594_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: 1073793
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 4 of 6
Found at i:621355 original size:94 final size:95
Alignment explanation
Indices: 621174--621435 Score: 307
Period size: 95 Copynumber: 2.7 Consensus size: 95
621164 GGCTAGATAA
* * * * * * *
621174 ATCCATAAAGCTG-GTGCGTTTAACCAATTGCTCTAGAGGGATAGATTAATATCATTGTATAG-A
1 ATCCATAAAGCCGAG-GCGTTTAACCAATTGCTATAGAGGGACA-ACTCA-AGC-TT-TATTGTA
621237 TATTATAATCACCTTTATCAGGCTAGTTGAATATT
61 TATTATAATCACCTTTATCAGGCTAGTTGAATATT
*
621272 ATTCATAAAG-C-ATGGCGTTTAACCAATTGCTATAGAGGGACAACTCAAGCTTTATTGTATATT
1 ATCCATAAAGCCGA-GGCGTTTAACCAATTGCTATAGAGGGACAACTCAAGCTTTATTGTATATT
* *
621335 ATAATCACCTTTATTAGGCTAGTTGAATCTT
65 ATAATCACCTTTATCAGGCTAGTTGAATATT
* * * *
621366 ATCCATAAAGCCGAGGCGTTTAACTAATTTCTTTAGAGGGGCAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTATAGAGGGACAACTCAAGCTTTATTGTATAT-T
621431 ATAAT
65 ATAAT
621436 ATTATAATCT
Statistics
Matches: 143, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
93 4 0.03
94 45 0.31
95 48 0.34
96 10 0.07
97 26 0.18
98 10 0.07
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (95 bp):
ATCCATAAAGCCGAGGCGTTTAACCAATTGCTATAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGGCTAGTTGAATATT
Found at i:624062 original size:35 final size:35
Alignment explanation
Indices: 623993--624074 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
623983 CAATTAAAAC
*
623993 AAATTAAATAAGATAAGATAAGATAAAGAAAATAA
1 AAATAAAATAAGATAAGATAAGATAAAGAAAATAA
* * *
624028 AAATAAAATGAAGATAA-ATAGGATAAATATAATAA
1 AAATAAAAT-AAGATAAGATAAGATAAAGAAAATAA
*
624063 AGAAAAAAATAA
1 A-AATAAAATAA
624075 TAAAAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 26 0.65
36 14 0.35
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (35 bp):
AAATAAAATAAGATAAGATAAGATAAAGAAAATAA
Found at i:624092 original size:12 final size:12
Alignment explanation
Indices: 624058--624112 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
624048 GGATAAATAT
624058 AATAAAGAAAAA
1 AATAAAGAAAAA
624070 AATAATA-AAAAA
1 AATAA-AGAAAAA
*
624082 TATAAAGAAAAA
1 AATAAAGAAAAA
*
624094 GAA-ACAAGGAAAA
1 -AATA-AAGAAAAA
624107 AATAAA
1 AATAAA
624113 ATATATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
11 1 0.03
12 24 0.69
13 10 0.29
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (12 bp):
AATAAAGAAAAA
Found at i:624157 original size:22 final size:23
Alignment explanation
Indices: 624129--624180 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
624119 AATAATAAAT
*
624129 AAATAAAAACTAGAAAG-GAAAA
1 AAATAAAAACAAGAAAGAGAAAA
* * *
624151 AAATAAATACAATAAAGATAAAA
1 AAATAAAAACAAGAAAGAGAAAA
624174 AAATAAA
1 AAATAAA
624181 TAAAATAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (23 bp):
AAATAAAAACAAGAAAGAGAAAA
Found at i:624185 original size:9 final size:9
Alignment explanation
Indices: 623964--624213 Score: 76
Period size: 9 Copynumber: 27.4 Consensus size: 9
623954 AAAAGTAATG
623964 AAAATAAAT
1 AAAATAAAT
*
623973 AAGATAAA-
1 AAAATAAAT
623981 AACAATTAAA-
1 AA-AA-TAAAT
623991 ACAAATTAAAT
1 A-AAA-TAAAT
*
624002 AAGATAAGAT
1 AAAATAA-AT
* *
624012 AAGATAAAG
1 AAAATAAAT
624021 AAAATAAA-
1 AAAATAAAT
*
624029 AATA-AAAT
1 AAAATAAAT
*
624037 GAAGATAAAT
1 -AAAATAAAT
**
624047 AGGATAAAT
1 AAAATAAAT
* *
624056 ATAATAAAG
1 AAAATAAAT
624065 AAAA-AAAT
1 AAAATAAAT
624073 --AATAAA-
1 AAAATAAAT
*
624079 AAATATAAAGA
1 AAA-ATAAA-T
* *
624090 AAAAGAAAC
1 AAAATAAAT
*
624099 AAGGAAAAAAT
1 AA--AATAAAT
*
624110 AAAATATAT
1 AAAATAAAT
624119 AATAATAAAT
1 AA-AATAAAT
624129 -AAATAAA-
1 AAAATAAAT
* * *
624136 AACTAGAAAGG
1 AA-AATAAA-T
624147 AAAA-AAAT
1 AAAATAAAT
624155 -AAATACAAT
1 AAAATA-AAT
624164 AAAGATAAA-
1 AAA-ATAAAT
624173 AAAATAAAT
1 AAAATAAAT
*
624182 AAAATAAGAG
1 AAAATAA-AT
*
624192 AAATTAAAT
1 AAAATAAAT
*
624201 AAATTAAAT
1 AAAATAAAT
624210 AAAA
1 AAAA
624214 AAGTATATAT
Statistics
Matches: 186, Mismatches: 28, Indels: 54
0.69 0.10 0.20
Matches are distributed among these distances:
6 2 0.01
7 9 0.05
8 22 0.12
9 87 0.47
10 49 0.26
11 17 0.09
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:624200 original size:23 final size:23
Alignment explanation
Indices: 624147--624212 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
624137 ACTAGAAAGG
*
624147 AAAAAAATAAATACAATAAAGAT
1 AAAAAAATAAATAAAATAAAGAT
624170 AAAAAAATAAATAAAATAAGAGA-
1 AAAAAAATAAATAAAATAA-AGAT
** *
624193 AATTAAATAAATTAAATAAA
1 AAAAAAATAAATAAAATAAA
624213 AAAGTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.03
23 34 0.89
24 3 0.08
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (23 bp):
AAAAAAATAAATAAAATAAAGAT
Found at i:624222 original size:2 final size:2
Alignment explanation
Indices: 624217--624276 Score: 62
Period size: 2 Copynumber: 33.0 Consensus size: 2
624207 AATAAAAAAG
624217 TA TA TA TA -A TGA TA -A TA -A TA -A TA -A TA -A TA TA -A TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
624253 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
624277 AACAAAGTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
1 7 0.14
2 41 0.82
3 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:624317 original size:20 final size:20
Alignment explanation
Indices: 624292--624344 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
624282 AGTAGTAGAG
*
624292 AAAATAATAATAAAATTATT
1 AAAATAATAATAAAATGATT
624312 AAAATAATAATAAAATGATT
1 AAAATAATAATAAAATGATT
624332 AAAATAA-AATAAA
1 AAAATAATAATAAA
624345 TATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATAATAATAAAATGATT
Found at i:624325 original size:11 final size:11
Alignment explanation
Indices: 624292--624344 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 11
624282 AGTAGTAGAG
624292 AAAATAATAAT
1 AAAATAATAAT
*
624303 AAAAT--TATT
1 AAAATAATAAT
624312 AAAATAATAAT
1 AAAATAATAAT
*
624323 AAAATGAT--T
1 AAAATAATAAT
624332 AAAATAA-AAT
1 AAAATAATAAT
624342 AAA
1 AAA
624345 TATATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
9 15 0.44
10 4 0.12
11 15 0.44
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:624408 original size:19 final size:20
Alignment explanation
Indices: 624371--624408 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
624361 ATCGTATAAA
*
624371 TAAAAAATAAGAAATAAAAT
1 TAAAAAATAAGAAAGAAAAT
*
624391 TAAAAAA-AATAAAGAAAA
1 TAAAAAATAAGAAAGAAAA
624409 AGATAAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (20 bp):
TAAAAAATAAGAAAGAAAAT
Found at i:625223 original size:33 final size:33
Alignment explanation
Indices: 625170--625260 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
625160 ATATTCTTCA
* * * *
625170 TGCATAGTGTAATTATATATTGTTCATGGATAC
1 TGCATATTGTTATTACATATTGTTCATGCATAC
625203 TGCATATTGTTATTACATATTGTTCATGCATAC
1 TGCATATTGTTATTACATATTGTTCATGCATAC
* *
625236 TACATATTGTTACATACATATTGTT
1 TGCATATTGTTA-TTACATATTGTT
625261 ATTATAATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 40 0.78
34 11 0.22
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (33 bp):
TGCATATTGTTATTACATATTGTTCATGCATAC
Found at i:625294 original size:13 final size:13
Alignment explanation
Indices: 625276--625300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
625266 AATGTTAATG
625276 TGTTATTGCATAT
1 TGTTATTGCATAT
625289 TGTTATTGCATA
1 TGTTATTGCATA
625301 ACTTATTTTA
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:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TGTTATTGCATAT
Found at i:625313 original size:23 final size:23
Alignment explanation
Indices: 625286--625336 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
625276 TGTTATTGCA
*
625286 TATTGTTATTGCATAACTTATT-T
1 TATTGTTATTG-ATAACATATTGT
*
625309 TATTGTTATTGATTACATATTGT
1 TATTGTTATTGATAACATATTGT
625332 TATTG
1 TATTG
625337 CATAACTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (23 bp):
TATTGTTATTGATAACATATTGT
Found at i:626112 original size:33 final size:31
Alignment explanation
Indices: 626075--626192 Score: 82
Period size: 33 Copynumber: 3.6 Consensus size: 31
626065 ATACTTGAGA
626075 CATTTGTGTTGTAGTTGAATTTGTTATTGACTG
1 CATTTGT-TT-TAGTTGAATTTGTTATTGACTG
* * * *
626108 CATTTGTTTTTTTA-TTGAGTTTGTTTTTTATTG
1 CATTTG---TTTTAGTTGAATTTGTTATTGACTG
*
626141 CATTTGTTTTAGATTGAATTT-TT-TT-AGCTTT
1 CATTTGTTTTAG-TTGAATTTGTTATTGA-C-TG
626172 CATTTGTTTTAGATTGAATTT
1 CATTTGTTTTAG-TTGAATTT
626193 TTTTTATTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
29 1 0.01
30 7 0.10
31 24 0.34
32 7 0.10
33 27 0.38
34 2 0.03
35 2 0.03
36 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.17, T:0.60
Consensus pattern (31 bp):
CATTTGTTTTAGTTGAATTTGTTATTGACTG
Found at i:626134 original size:16 final size:16
Alignment explanation
Indices: 626106--626212 Score: 69
Period size: 16 Copynumber: 6.8 Consensus size: 16
626096 TGTTATTGAC
626106 TGCATTTGTTTTTTTAT
1 TGCATTTG-TTTTTTAT
626123 TG-AGTTTGTTTTTTAT
1 TGCA-TTTGTTTTTTAT
**
626139 TGCATTTGTTTTAGAT
1 TGCATTTGTTTTTTAT
* ***
626155 TGAATTT-TTTTAGCT
1 TGCATTTGTTTTTTAT
* **
626170 TTCATTTGTTTTAGAT
1 TGCATTTGTTTTTTAT
*
626186 TG-AATT-TTTTTTAT
1 TGCATTTGTTTTTTAT
*
626200 TGTATTTGTTTTT
1 TGCATTTGTTTTT
626213 ATTACAGTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
14 8 0.11
15 18 0.25
16 40 0.55
17 7 0.10
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.66
Consensus pattern (16 bp):
TGCATTTGTTTTTTAT
Found at i:626213 original size:31 final size:29
Alignment explanation
Indices: 626131--626211 Score: 110
Period size: 31 Copynumber: 2.7 Consensus size: 29
626121 ATTGAGTTTG
*
626131 TTTTTTATTGCATTTGTTTTAGATTGAAT
1 TTTTTTATTGTATTTGTTTTAGATTGAAT
626160 TTTTTTAGCTT-TCATTTGTTTTAGATTGAATT
1 TTTTTTA--TTGT-ATTTGTTTTAGATTGAA-T
626192 TTTTTTATTGTATTTGTTTT
1 TTTTTTATTGTATTTGTTTT
626212 TATTACAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
29 7 0.15
30 11 0.24
31 20 0.43
32 8 0.17
ACGTcount: A:0.17, C:0.04, G:0.12, T:0.67
Consensus pattern (29 bp):
TTTTTTATTGTATTTGTTTTAGATTGAAT
Found at i:626933 original size:26 final size:26
Alignment explanation
Indices: 626897--626950 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
626887 GTTACATACA
626897 TTGCATCTTCATTTCTAACACAAATC
1 TTGCATCTTCATTTCTAACACAAATC
* *
626923 TTGCATTTTCATTTCTAATACAAATC
1 TTGCATCTTCATTTCTAACACAAATC
626949 TT
1 TT
626951 ATAACCCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (26 bp):
TTGCATCTTCATTTCTAACACAAATC
Found at i:630474 original size:16 final size:16
Alignment explanation
Indices: 630439--630496 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
630429 ATGTTTAATA
630439 ATTTAA-ATTTTAT-T
1 ATTTAATATTTTATAT
630453 -TTTAATATTTTATAT
1 ATTTAATATTTTATAT
*
630468 ATTTAATACTTTA-ATT
1 ATTTAATATTTTATA-T
630484 ATTTAAATATTTT
1 ATTT-AATATTTT
630497 TAAGCGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
13 5 0.14
14 7 0.19
15 2 0.05
16 16 0.43
17 7 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTAATATTTTATAT
Found at i:638898 original size:20 final size:20
Alignment explanation
Indices: 638856--638902 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
638846 CCTATGGCAA
* *
638856 AGTATAGATACTAAAGGGTC
1 AGTATCGATACTAAAGGGCC
638876 AGTATCGATACTGAAA-GGCC
1 AGTATCGATACT-AAAGGGCC
638896 AGTATCG
1 AGTATCG
638903 GTACCAACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (20 bp):
AGTATCGATACTAAAGGGCC
Found at i:647878 original size:22 final size:22
Alignment explanation
Indices: 647850--647906 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
647840 CCAAAATGGG
647850 GTATCGGTACCATAGTATGGTA
1 GTATCGGTACCATAGTATGGTA
647872 GTATCGGTACCATAGTATGGTA
1 GTATCGGTACCATAGTATGGTA
*
647894 GTATCGATACCAT
1 GTATCGGTACCAT
647907 GGTAAGGGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (22 bp):
GTATCGGTACCATAGTATGGTA
Found at i:648385 original size:68 final size:68
Alignment explanation
Indices: 648267--648484 Score: 310
Period size: 68 Copynumber: 3.2 Consensus size: 68
648257 GAAAGTTAGG
* * *
648267 TAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTTTCATTCATGCCAGTTAGATGAAA
1 TAAGTACCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
648332 GGC
66 GGC
* *
648335 TAAGTATCTTTGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
1 TAAGTACCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
*
648400 GAC
66 GGC
* * * * *
648403 TAAGTGCCTTTGAGGCCTAACTGTGCATTGGACAGAAAGGTGTCAATCATTCTAGTGAGATGAAA
1 TAAGTACCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
*
648468 GGT
66 GGC
* *
648471 TAAATGCCTTTGAG
1 TAAGTACCTTTGAG
648485 TAAAAGACTA
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 134 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (68 bp):
TAAGTACCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
GGC
Found at i:648569 original size:45 final size:47
Alignment explanation
Indices: 648505--648606 Score: 122
Period size: 46 Copynumber: 2.2 Consensus size: 47
648495 AATGTATAAC
* * *
648505 AATGTATATTGGTGTAT-AAAAGGCATG-A-AATGATGCCATAAATG-A
1 AATGTATAATAGTATATAAAAAGGCATGAACAAT--TGCCATAAATGAA
*
648550 AATGTATAATAGTATATAAAAAGGCATGAACAATTGCCATTAATGAA
1 AATGTATAATAGTATATAAAAAGGCATGAACAATTGCCATAAATGAA
648597 AATGTATAAT
1 AATGTATAAT
648607 GGAGCATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
45 14 0.29
46 20 0.41
47 12 0.24
48 3 0.06
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (47 bp):
AATGTATAATAGTATATAAAAAGGCATGAACAATTGCCATAAATGAA
Found at i:663613 original size:64 final size:64
Alignment explanation
Indices: 663543--663684 Score: 164
Period size: 63 Copynumber: 2.2 Consensus size: 64
663533 ATGCACATGA
* ** *
663543 AGTGCATCGATGCACTCTTTTAAAATACAAACATCGAAT-GCTATCGATGCATCGATGCATAAG-
1 AGTGCATCGATGCACCCCATT-AAATACAAACATCGAATAG-GATCGATGCATCGATGCAT-AGT
663606 G-
63 GT
* ** *
663607 AGTGCATCGATGTACCCCATTAAATACAAACATCGAATAGGATTTATGCATCGATGCATGGTGT
1 AGTGCATCGATGCACCCCATTAAATACAAACATCGAATAGGATCGATGCATCGATGCATAGTGT
663671 AGTGCATCGATGCA
1 AGTGCATCGATGCA
663685 TACCTCCATT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
62 1 0.02
63 34 0.52
64 31 0.47
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (64 bp):
AGTGCATCGATGCACCCCATTAAATACAAACATCGAATAGGATCGATGCATCGATGCATAGTGT
Found at i:663658 original size:63 final size:66
Alignment explanation
Indices: 663565--663697 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 66
663555 CACTCTTTTA
*
663565 AAATACAAACATCGAATGCTATCGATGCATCGATGCATAAG-G-AGTGCATCGATG-TACC-CCA
1 AAATACAAACATCGAATGCGATCGATGCATCGATGCAT-AGTGTAGTGCATCGATGATACCTCCA
663626 TT
65 TT
** *
663628 AAATACAAACATCGAATAG-GATTTATGCATCGATGCATGGTGTAGTGCATCGATGCATACCTCC
1 AAATACAAACATCGAAT-GCGATCGATGCATCGATGCATAGTGTAGTGCATCGATG-ATACCTCC
663692 ATT
64 ATT
663695 AAA
1 AAA
663698 AGATGAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
62 1 0.02
63 34 0.57
64 13 0.22
66 4 0.07
67 8 0.13
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (66 bp):
AAATACAAACATCGAATGCGATCGATGCATCGATGCATAGTGTAGTGCATCGATGATACCTCCAT
T
Found at i:664299 original size:23 final size:23
Alignment explanation
Indices: 664273--664326 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
664263 TGGCACTACG
664273 GTGCAATTCTACGCGACACTCCA
1 GTGCAATTCTACGCGACACTCCA
* * * *
664296 GTGCAATTCTACGTGGCACTTCG
1 GTGCAATTCTACGCGACACTCCA
664319 GTGCAATT
1 GTGCAATT
664327 ATATGAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (23 bp):
GTGCAATTCTACGCGACACTCCA
Found at i:670589 original size:64 final size:64
Alignment explanation
Indices: 670451--670608 Score: 160
Period size: 63 Copynumber: 2.4 Consensus size: 64
670441 ATGCACATGA
* ** *
670451 AGTGCATCGATGCACTCTTTTAAAATACAAACATCGAATGCCATCGATGCATCGATGCATAAGG
1 AGTGCATCGATGCACCCCATTAAAATACAAACATCGAATGCCATCGATGCAACGATGCATAAGG
* * ** *
670515 AGTGTATCGATGCACCCCATT-AAATACAAACATCGAATAG-GATTTATGCAACGATGCAT-GGT
1 AGTGCATCGATGCACCCCATTAAAATACAAACATCGAAT-GCCATCGATGCAACGATGCATAAG-
670577 G
64 G
670578 TAGTGCATCGATGCATACCTCCATTAAAATA
1 -AGTGCATCGATGC--ACC-CCATTAAAATA
670609 TGAAAATGAC
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 33 0.43
64 30 0.39
66 3 0.04
67 5 0.06
68 5 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (64 bp):
AGTGCATCGATGCACCCCATTAAAATACAAACATCGAATGCCATCGATGCAACGATGCATAAGG
Found at i:671198 original size:23 final size:22
Alignment explanation
Indices: 671172--671239 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
671162 ATTATTATAT
* *
671172 GGCACTACGGTGCAATTCTATGC
1 GGCACT-CGGTGCAATTATACGC
671195 GGCACTCTGGTGCAATTATACGC
1 GGCACTC-GGTGCAATTATACGC
*
671218 GGCACTTCGGGGCAATTATACG
1 GGCAC-TCGGTGCAATTATACG
671240 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.03
23 37 0.93
24 2 0.05
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (22 bp):
GGCACTCGGTGCAATTATACGC
Found at i:674701 original size:3 final size:3
Alignment explanation
Indices: 674693--674885 Score: 262
Period size: 3 Copynumber: 63.7 Consensus size: 3
674683 TTTATCCATT
* *
674693 TTA TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
674741 TTA TTA GTA TTA TTA TTA TTA TTA GCA TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
674788 ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
674836 TTTA TTA TTA TTA TTA ATA TTA TATA TTA TTA TTA TATA TTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA
674884 TT
1 TT
674886 TAATAAATAA
Statistics
Matches: 166, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.01
3 156 0.94
4 8 0.05
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:687599 original size:18 final size:18
Alignment explanation
Indices: 687576--687664 Score: 99
Period size: 18 Copynumber: 4.6 Consensus size: 18
687566 TGCTTGAAGA
687576 AAAAAAGAAAAAAAAAAG
1 AAAAAAGAAAAAAAAAAG
*
687594 AAAAAAGAAAAGAAAAAG
1 AAAAAAGAAAAAAAAAAG
687612 AAGAGAAAGAAAAAAAAAAGGG
1 AA-A-AAAGAAAAAAAAAA--G
687634 AAAAGAAGAAAAAGAAAAAG
1 AAAA-AAGAAAAA-AAAAAG
687654 AAGAAAA-AAAA
1 AA-AAAAGAAAA
687665 GGGGTCAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
18 19 0.31
19 5 0.08
20 19 0.31
21 11 0.18
22 8 0.13
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAAAG
Found at i:687625 original size:36 final size:38
Alignment explanation
Indices: 687572--687664 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
687562 ATTATGCTTG
* *
687572 AAGAAAAAAAGAAAAAAAAAAGAAAA-AAG-AAAAGAAA
1 AAGAAGAAAA-AAAAAAAAAGGAAAAGAAGAAAAAGAAA
687609 AAGAAGAGAAAGAAAAAAAAAAGGGAAAAGAAGAAAAAGAAA
1 AAG-A-AGAAA-AAAAAAAAAA-GGAAAAGAAGAAAAAGAAA
687651 AAGAAGAAAAAAAA
1 AAGAAGAAAAAAAA
687665 GGGGTCAAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
37 3 0.06
38 1 0.02
39 18 0.38
40 11 0.23
41 4 0.08
42 11 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (38 bp):
AAGAAGAAAAAAAAAAAAAGGAAAAGAAGAAAAAGAAA
Found at i:687637 original size:27 final size:27
Alignment explanation
Indices: 687572--687665 Score: 97
Period size: 27 Copynumber: 3.5 Consensus size: 27
687562 ATTATGCTTG
*
687572 AAGAAAA-AAAGAA-AAAAAAAAGAAAA
1 AAGAAAAGAAA-AAGAAGAAAAAGAAAA
*
687598 AAGAAAAGAAAAAGAAGAGAAAGAAAA
1 AAGAAAAGAAAAAGAAGAAAAAGAAAA
*
687625 AA-AAAAGGGAAAAGAAGAAAAAG-AAA
1 AAGAAAA-GAAAAAGAAGAAAAAGAAAA
*
687651 AAGAAGAAAAAAAAG
1 AAGAA-AAGAAAAAG
687666 GGGTCAAGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
26 18 0.32
27 37 0.65
28 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (27 bp):
AAGAAAAGAAAAAGAAGAAAAAGAAAA
Found at i:687637 original size:33 final size:31
Alignment explanation
Indices: 687572--687667 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 31
687562 ATTATGCTTG
**
687572 AAGAAAAAAAGAAAA-AAAAAAGAAAAAAGAA
1 AAGAAAAAAAGAAAAGAAAAAA-AAAAGGGAA
687603 AAGAAAAAGAAGAGAAAGAAAAAAAAAAGGGAA
1 AAGAAAAA-AAGA-AAAGAAAAAAAAAAGGGAA
687636 AAGAAGAAAAAGAAAAAGAAGAAAAAAAAGGG
1 AAGAA-AAAAAG-AAAAGAA-AAAAAAAAGGG
687668 GTCAAGGTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
31 8 0.14
32 4 0.07
33 24 0.42
34 21 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (31 bp):
AAGAAAAAAAGAAAAGAAAAAAAAAAGGGAA
Found at i:687648 original size:6 final size:6
Alignment explanation
Indices: 687577--687665 Score: 69
Period size: 6 Copynumber: 14.0 Consensus size: 6
687567 GCTTGAAGAA
687577 AAAAAG AAAAA- AAAAAG AAAAA- AGAAAAG AAAAAG AAGAGAAAG AAAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG -A-A-AAAG AAAAAG
687626 AAAAAGGG AAAAGAAG AAAAAG AAAAAG AAGAAA- AAAAAG
1 AAAAA--G -AAA-AAG AAAAAG AAAAAG AA-AAAG AAAAAG
687666 GGGTCAAGGT
Statistics
Matches: 70, Mismatches: 0, Indels: 26
0.73 0.00 0.27
Matches are distributed among these distances:
5 14 0.20
6 35 0.50
7 9 0.13
8 3 0.04
9 7 0.10
10 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:688679 original size:52 final size:52
Alignment explanation
Indices: 688601--689310 Score: 1277
Period size: 52 Copynumber: 13.7 Consensus size: 52
688591 TATGTGCTCA
*
688601 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688653 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688705 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688756 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688808 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
*
688859 ATAGCATCTTCTGGAAGTTTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688911 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688962 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
689014 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
689065 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
689117 ATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
689169 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
689221 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GTTTGATCATAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-CAGAAC
*
689273 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
689311 CAAAGAAGTG
Statistics
Matches: 640, Mismatches: 13, Indels: 10
0.97 0.02 0.02
Matches are distributed among these distances:
51 205 0.32
52 435 0.68
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
Found at i:688793 original size:103 final size:103
Alignment explanation
Indices: 688601--689310 Score: 1278
Period size: 103 Copynumber: 6.9 Consensus size: 103
688591 TATGTGCTCA
*
688601 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
688666 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688705 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
688770 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688808 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
*
688873 AAGTTTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
688911 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
688976 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
689014 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
* *
689079 AAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
689117 ATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
* *
689182 GAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAAC
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
689221 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GTTTGATCATAACATAGCATCTTCT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA--AGAACATAGCATCTTCT
*
689285 GGAAGTGTTCTTTGAGTTATTTGATC
64 GGAAGTGTTCTTTGAGTTATCTGATC
689311 CAAAGAAGTG
Statistics
Matches: 593, Mismatches: 11, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
103 411 0.69
104 182 0.31
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (103 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
Found at i:690307 original size:113 final size:113
Alignment explanation
Indices: 689872--690778 Score: 1355
Period size: 113 Copynumber: 7.9 Consensus size: 113
689862 GATTCAAATT
* * * *
689872 CATCATTTGATGGATCATCATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
* *
689937 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* * * *
689985 CATCACTTGATGGATCAACATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCATCATCTGAAG
1 CATCATTTGATGGATCATCTTTTCCAGAG-AA-AGTTCATAATAAGAAGAA--C-TCATCTGAAG
* * * * *
690050 AAGAAAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
61 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
*
690103 CATCACTTGATGGATCATTCTTTTCCAGAAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA
1 CATCATTTGATGGATCA-TCTTTTCCAG-AGAA-AGTTCATAATAAGAAGAACTCATCTGAAGAA
690168 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* *
690219 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
* *
690284 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
*
690332 CATCATTTGGTGGATCATTCTTTTCCAGAAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA
1 CATCATTTGATGGATCA-TCTTTTCCAG-AGAA-AGTTCATAATAAGAAGAACTCATCTGAAGAA
690397 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* *
690448 CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
* *
690513 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* *
690561 CATCATTTGGTGGATCATCTTTTCCAGAGAAAATTCATGAATAAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCAT-AATAAGAAGAACTCATCTGAAGAAGG
* ** * *
690626 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
* * ** *
690675 CATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATAAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCAT-AATAAGAAGAACTCATCTGAAGAAGG
*
690740 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
690779 GTTTGATATC
Statistics
Matches: 739, Mismatches: 44, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
113 238 0.32
114 182 0.25
115 41 0.06
116 169 0.23
117 2 0.00
118 77 0.10
119 28 0.04
120 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATC
Found at i:690380 original size:229 final size:227
Alignment explanation
Indices: 689872--690778 Score: 1395
Period size: 229 Copynumber: 4.0 Consensus size: 227
689862 GATTCAAATT
* * *
689872 CATCATTTGATGGATCATCATTACCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATCTTTTCCAGAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
* * *
689936 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATC
66 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATGGATC
*
690001 AACATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGAAAGAAGAAGTTC
131 AACATTTCCAGAG-AA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTC
* * * * *
690066 ACAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
191 ATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
*
690103 CATCACTTGATGGATCATTCTTTTCCAGAAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA
1 CATCATTTGATGGATCA-TCTTTTCCAG-AGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA
*
690168 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGGTGGA
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATGGA
* *
690233 TCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
129 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
690298 ATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
194 ATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
*
690332 CATCATTTGGTGGATCATTCTTTTCCAGAAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA
1 CATCATTTGATGGATCA-TCTTTTCCAG-AGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA
*
690397 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGGTGGA
64 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATGGA
* *
690462 TCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
129 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
690527 ATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
194 ATGAGAAGAACTTGTTCAACCTTTTACCTGAATC
* *
690561 CATCATTTGGTGGATCATCTTTTCCAGAGAA-AATTCATGAATAAGAAGAACTCATCTGAAGAAG
1 CATCATTTGATGGATCATCTTTTCCAGAGAAGAGTTCAT-AATAAGAAGAACTCATCTGAAGAAG
* ** * *
690625 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGAT
65 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATGGAT
** * *
690690 CAACATGGCCAAAGAAAGTTCATGAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
130 CAACATTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
690755 ATGAGAAGAGCTTGTTCAACCTTT
194 ATGAGAAGAACTTGTTCAACCTTT
690779 GTTTGATATC
Statistics
Matches: 637, Mismatches: 34, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
226 6 0.01
227 106 0.17
228 72 0.11
229 300 0.47
230 1 0.00
231 16 0.03
232 26 0.04
233 7 0.01
234 103 0.16
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (227 bp):
CATCATTTGATGGATCATCTTTTCCAGAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATCCATCATTTGATGGATC
AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTACCTGAATC
Found at i:691083 original size:3 final size:3
Alignment explanation
Indices: 691075--691257 Score: 240
Period size: 3 Copynumber: 59.7 Consensus size: 3
691065 TTTATCCATT
* * *
691075 TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
691123 TTA TTA TTA TTA TTA GCA TTTA TTA TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
691169 TTA TCA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA GTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
691215 TTA TTA TTA ATA TTA TATA TTA TTA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TT
691258 TAATAAATAA
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
3 147 0.94
4 9 0.06
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:694124 original size:14 final size:14
Alignment explanation
Indices: 694092--694118 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
694082 GGGATAAAAA
694092 ATTAATTATTATTC
1 ATTAATTATTATTC
694106 ATTAATTATTATT
1 ATTAATTATTATT
694119 TTTTAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAATTATTATTC
Found at i:695091 original size:24 final size:23
Alignment explanation
Indices: 695042--695110 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
695032 TTAGGGTATA
**
695042 TTTTATTATATTTAATATTTTGT
1 TTTTATTATATTTAATATTTAAT
695065 TTTTAATT-TATTTAAATATTTAAT
1 TTTT-ATTATATTT-AATATTTAAT
695089 TTTT-TTAATATTT--TATTTAAT
1 TTTTATT-ATATTTAATATTTAAT
695110 T
1 T
695111 ATTTTTTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
21 9 0.22
22 2 0.05
23 9 0.22
24 20 0.50
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (23 bp):
TTTTATTATATTTAATATTTAAT
Found at i:695091 original size:29 final size:31
Alignment explanation
Indices: 695049--695114 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
695039 ATATTTTATT
*
695049 ATATTTAATATTTTGTTT-TTAATTTATTTAA
1 ATATTTAATATTTT-TTTAATAATTTATTTAA
*
695080 ATATTT-A-ATTTTTTTAATATTTTATTTAA
1 ATATTTAATATTTTTTTAATAATTTATTTAA
*
695109 TTATTT
1 ATATTT
695115 TTTTTGCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 3 0.10
29 21 0.68
30 1 0.03
31 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (31 bp):
ATATTTAATATTTTTTTAATAATTTATTTAA
Found at i:695100 original size:16 final size:17
Alignment explanation
Indices: 695066--695107 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
695056 ATATTTTGTT
695066 TTTAATTTATTTAAATA
1 TTTAATTTATTTAAATA
*
695083 TTTAATTT-TTTTAATA
1 TTTAATTTATTTAAATA
*
695099 TTTTATTTA
1 TTTAATTTA
695108 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATTTATTTAAATA
Found at i:697488 original size:35 final size:32
Alignment explanation
Indices: 697453--697533 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 32
697443 TTTGGTTAAT
697453 TTTGTT-TATTACCATTTAATATCAGTTATTGTAA
1 TTTGTTATATTACCATTTAATA-C--TTATTGTAA
697487 TTTGTTTATCATTTACCATTTAATACTTATTGTAA
1 TTTG-TTAT-A-TTACCATTTAATACTTATTGTAA
*
697522 GTTTGTTGTATT
1 -TTTGTTATATT
697534 TAAAATTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
33 2 0.05
34 5 0.12
35 14 0.34
36 5 0.12
37 2 0.05
38 13 0.32
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.56
Consensus pattern (32 bp):
TTTGTTATATTACCATTTAATACTTATTGTAA
Found at i:700979 original size:15 final size:16
Alignment explanation
Indices: 700946--700985 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
700936 TCAAATAATC
*
700946 ATAATAAACAATAAGT
1 ATAATAAAAAATAAGT
700962 ATAATAAAAAAT-AGT
1 ATAATAAAAAATAAGT
700977 ATAATAAAA
1 ATAATAAAA
700986 TTACCTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (16 bp):
ATAATAAAAAATAAGT
Found at i:702311 original size:19 final size:17
Alignment explanation
Indices: 702274--702309 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
702264 CTTTTCAATC
702274 TTCACACCAAGAGTTTT
1 TTCACACCAAGAGTTTT
702291 TTCACACCAAGAGTTTT
1 TTCACACCAAGAGTTTT
702308 TT
1 TT
702310 TTGTGAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (17 bp):
TTCACACCAAGAGTTTT
Found at i:707893 original size:20 final size:20
Alignment explanation
Indices: 707868--707916 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
707858 AGAAGAAGTT
707868 GAAAAAGAGTGAACGGTGAG
1 GAAAAAGAGTGAACGGTGAG
*
707888 GAAAAAGAATGAACGGTGAG
1 GAAAAAGAGTGAACGGTGAG
*
707908 GAGAAAGAG
1 GAAAAAGAG
707917 GAAGTTAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.39, T:0.08
Consensus pattern (20 bp):
GAAAAAGAGTGAACGGTGAG
Found at i:712937 original size:2 final size:2
Alignment explanation
Indices: 712930--712996 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
712920 TCTATCTATC
*
712930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
712972 TA TA TA TA TA TT TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
712997 TGTCATTAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:724765 original size:134 final size:134
Alignment explanation
Indices: 724503--725248 Score: 929
Period size: 134 Copynumber: 5.6 Consensus size: 134
724493 TCTTTCTTTA
* * * * *
724503 TTCCTAAAGAACAATGAAGCAAATCACATTAGATTCAATCTTCCATGAAGAGCAGCGAAGTGAAT
1 TTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAAT
* * * * * * *
724568 CAAAATTTCCTCGAGTCTGACCTGCCCTATAGAGTAGTGGAGA-AGATACTTCTTCATTCAGATT
66 CAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGA-ACAGATTCTTTTTCTTTCAGATT
724632 TGGTC
130 TGGTC
* ** * * *
724637 TTCCTAAAGAGCAACGAAGCAAATCA-AATCTGATTCAATATTCTCTGAAGAGCAGCGAAGTGAA
1 TTCCTGAAGAGCAGTGAAGCAAATCACATTC-GATTCAATCTTCCCTGAAGAGCAGCGAAGTGAA
* * *
724701 TCAAAATTTTCTCGAGTCTGACCTCCCCTTAAGAGTAGCGGATCAGATTCTTTTTCTTTTAGATT
65 TCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAACAGATTCTTTTTCTTTCAGATT
724766 TGGTC
130 TGGTC
** * * * *
724771 TTTTTGAAGAGTAGTGAAGCAAATCACATTTGATTCTATCTTCCCTGAAGAGCAACGAAGTGAAT
1 TTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAAT
* * * * * *
724836 CAAAATTTTCTCTAGTCTGGCCTCCCGTAAAGAGTAGCGAAACATATTCTTTTTCTTTCATATTT
66 CAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAACAGATTCTTTTTCTTTCAGATTT
724901 GGTC
131 GGTC
* *
724905 TTCCTGAAGACCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGTGAAGTGAAT
1 TTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAAT
* * * * *
724970 CAAAATTTTATCGAGTCTGACCTCCCCTAAAGAGTAGTGGAACATATTATTTTTCTTTCAAATTT
66 CAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAACAGATTCTTTTTCTTTCAGATTT
725035 GGTC
131 GGTC
* * * *
725039 TTCATGAAGAGTAGTGAAGCAAATCACATTCGATTCAGTCTTCCCTGAAGAGCAACGAAGTGAAT
1 TTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAAT
* * * * * * *
725104 CAAATTTTTCTTGAGTCTGATCTCCCCTAAAGAGTAGCGGAGCAAATTCTTTCTTTTTTCATATT
66 CAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAACAGATTCTTT-TTCTTTCAGATT
725169 TGGTC
130 TGGTC
* * ** *
725174 TTCTTGAAGGGCAGTGAAGCAAATCGTATTCGATTCAATCTTCCCTGAAGAGCAGCGATGTGAAT
1 TTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAAT
* *
725239 TAAATTTTTC
66 CAAAATTTTC
725249 AGATCTGATT
Statistics
Matches: 529, Mismatches: 79, Indels: 7
0.86 0.13 0.01
Matches are distributed among these distances:
133 2 0.00
134 444 0.84
135 83 0.16
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (134 bp):
TTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCGAAGTGAAT
CAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAACAGATTCTTTTTCTTTCAGATTT
GGTC
Found at i:726180 original size:22 final size:22
Alignment explanation
Indices: 726152--726202 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
726142 GTCTCATTCA
726152 TGCAACAGTCTTGGATTGCACC
1 TGCAACAGTCTTGGATTGCACC
726174 TGCAACAGTCTTGGATTGCACC
1 TGCAACAGTCTTGGATTGCACC
726196 TGCAACA
1 TGCAACA
726203 AACAAAATAA
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:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (22 bp):
TGCAACAGTCTTGGATTGCACC
Found at i:731413 original size:30 final size:30
Alignment explanation
Indices: 731377--731435 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
731367 TCAGTTAAGC
731377 AAAAAAATCTTGCATAGGCTAAACTTATCA
1 AAAAAAATCTTGCATAGGCTAAACTTATCA
731407 AAAAAAATCTTGCATAGGCTAAACTTATC
1 AAAAAAATCTTGCATAGGCTAAACTTATC
731436 CACCACATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (30 bp):
AAAAAAATCTTGCATAGGCTAAACTTATCA
Found at i:734004 original size:2 final size:2
Alignment explanation
Indices: 733997--734023 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
733987 TAAAGATGAT
733997 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
734024 TGAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:736751 original size:17 final size:17
Alignment explanation
Indices: 736725--736764 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
736715 CTTATTTCTC
736725 AAAA-TAAATAATGAAA
1 AAAAGTAAATAATGAAA
736741 AAAAGTAAATAATGAAA
1 AAAAGTAAATAATGAAA
736758 AAAAGTA
1 AAAAGTA
736765 TAGTGAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAGTAAATAATGAAA
Found at i:737684 original size:17 final size:17
Alignment explanation
Indices: 737636--737687 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
737626 TACAGTCTTG
* *
737636 AAATATCCTAAAGATAGA
1 AAATATACTAAAAATA-A
* *
737654 ATATATACTCAAAATAA
1 AAATATACTAAAAATAA
*
737671 AAATATTCTAAAAATAA
1 AAATATACTAAAAATAA
737688 TCCAAAAGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.27
Consensus pattern (17 bp):
AAATATACTAAAAATAA
Found at i:737754 original size:39 final size:39
Alignment explanation
Indices: 737709--737783 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
737699 AATCCCAAAT
737709 TATTTTCAAATTCAAACTTAAGTTCCTAAGATAACTAAG
1 TATTTTCAAATTCAAACTTAAGTTCCTAAGATAACTAAG
737748 TATTTTCAAATTCAAACTTAAGTTCCTAAGATAACT
1 TATTTTCAAATTCAAACTTAAGTTCCTAAGATAACT
737784 CTACCCGTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (39 bp):
TATTTTCAAATTCAAACTTAAGTTCCTAAGATAACTAAG
Found at i:738031 original size:17 final size:17
Alignment explanation
Indices: 738009--738112 Score: 81
Period size: 17 Copynumber: 6.1 Consensus size: 17
737999 ATATAGCATG
*
738009 TAGTTTTTGAAAACATA
1 TAGTTTTTGAAAATATA
*
738026 TAGTTTTT-AAAA-ATG
1 TAGTTTTTGAAAATATA
* * *
738041 T-GTGTTTGTATATATA
1 TAGTTTTTGAAAATATA
738057 TAGTTTTTGAAAATATA
1 TAGTTTTTGAAAATATA
*
738074 TAGTATATTAT-ATAATTTATA
1 TAGT-T-TT-TGA-AA-ATATA
738095 TAGTTTTTGAAAATATA
1 TAGTTTTTGAAAATATA
738112 T
1 T
738113 TATATAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.07
15 5 0.07
16 7 0.10
17 29 0.43
18 4 0.06
19 6 0.09
20 4 0.06
21 8 0.12
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (17 bp):
TAGTTTTTGAAAATATA
Found at i:738117 original size:60 final size:65
Alignment explanation
Indices: 738049--738186 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 65
738039 TGTGTGTTTG
738049 TATA-TATATAGTTTTTGAAAATATATAGTATAT-TATAT-A-ATT-TATATAGTTTTTG-AAA-
1 TATATTATATAGTTTTTGAAAATATATA-TATATATATATAATATTATATATAGTTTTTGAAAAG
738107 A
65 A
* *
738108 TATATTATATAATTTTTGAATATATATATATATATATATAATATTATATATAGTTTTTGAAAAGA
1 TATATTATATAGTTTTTGAAAATATATATATATATATATAATATTATATATAGTTTTTGAAAAGA
*
738173 TATATAATATAGTT
1 TATATTATATAGTT
738187 ATATATATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
59 9 0.13
60 26 0.38
61 1 0.01
62 3 0.04
63 13 0.19
64 3 0.04
65 13 0.19
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.49
Consensus pattern (65 bp):
TATATTATATAGTTTTTGAAAATATATATATATATATATAATATTATATATAGTTTTTGAAAAGA
Found at i:738129 original size:20 final size:21
Alignment explanation
Indices: 738090--738141 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 21
738080 ATTATATAAT
*
738090 TTATATAGTTTTTGAAAATATA
1 TTATATAATTTTTG-AAATATA
738112 TTATATAATTTTTGAATATATA
1 TTATATAATTTTTGAA-ATATA
738134 TATATATA
1 T-TATATA
738142 TATATAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.07
22 19 0.70
23 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TTATATAATTTTTGAAATATA
Found at i:738151 original size:41 final size:44
Alignment explanation
Indices: 738106--738200 Score: 121
Period size: 41 Copynumber: 2.3 Consensus size: 44
738096 AGTTTTTGAA
* *
738106 AATATAT-TATATAATTTTTGAATATATATAT-ATATA-TATAT
1 AATATATATATATAATTTTTGAAAAGATATATAATATAGTATAT
*
738147 AATAT-TATATATAGTTTTTGAAAAGATATATAATATAGT-TAT
1 AATATATATATATAATTTTTGAAAAGATATATAATATAGTATAT
738189 -ATATATATATAT
1 AATATATATATAT
738201 TCCTATTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
40 1 0.02
41 30 0.64
42 15 0.32
43 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (44 bp):
AATATATATATATAATTTTTGAAAAGATATATAATATAGTATAT
Found at i:738178 original size:2 final size:2
Alignment explanation
Indices: 738127--738159 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
738117 TAATTTTTGA
738127 AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
738160 GTTTTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:738191 original size:60 final size:58
Alignment explanation
Indices: 738069--738201 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 58
738059 GTTTTTGAAA
* **
738069 ATATATAGTATATTATATAATTTATATAGTTTTTGAAAATATATTATATAATTTTTGAAT
1 ATATATA-TATATTATATAATTTATATAGTTTTTGAAAAGATATTATATAATAGTT-AAT
738129 ATATATATATATATATATAATATTATATATAGTTTTTGAAAAGATA-TATA-ATATAGTT-AT
1 ATATATATATAT-TATAT-A-ATT-TATATAGTTTTTGAAAAGATATTATATA-ATAGTTAAT
738189 ATATATATATATT
1 ATATATATATATT
738202 CCTATTATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
59 6 0.09
60 26 0.40
61 2 0.03
62 11 0.17
63 20 0.31
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (58 bp):
ATATATATATATTATATAATTTATATAGTTTTTGAAAAGATATTATATAATAGTTAAT
Found at i:739682 original size:20 final size:20
Alignment explanation
Indices: 739637--739691 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
739627 GTTCCATAAC
**
739637 TTACTTTTTT-TTATTTTGT
1 TTACTTTTTTATTATTTAAT
* *
739656 ATCCTTTTTTATTATTTAAT
1 TTACTTTTTTATTATTTAAT
*
739676 TTACTTTTATATTATT
1 TTACTTTTTTATTATT
739692 ATTTTTAGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (20 bp):
TTACTTTTTTATTATTTAAT
Found at i:744045 original size:6 final size:6
Alignment explanation
Indices: 744034--744069 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
744024 GATCATGTAG
*
744034 ATGCAA ATGCAA ATGCAA ATGCAA ATACAA ATGCAA
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA
744070 TAATGGTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (6 bp):
ATGCAA
Found at i:748337 original size:22 final size:21
Alignment explanation
Indices: 748295--748334 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
748285 GAGTTTGTTT
*
748295 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
748316 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
748335 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:752991 original size:21 final size:21
Alignment explanation
Indices: 752965--753004 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
752955 TAGAACCCCA
*
752965 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
752986 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
753005 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:753039 original size:20 final size:21
Alignment explanation
Indices: 752985--753047 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
752975 GATTCCCCTG
752985 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
753009 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
753029 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
753048 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:756861 original size:22 final size:21
Alignment explanation
Indices: 756819--756858 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
756809 GAGTTTGTTT
*
756819 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
756840 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
756859 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:766494 original size:21 final size:21
Alignment explanation
Indices: 766451--766494 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
766441 TGATGAATTA
**
766451 TGGCTTTATAATAAAGCTTCT
1 TGGCTTTATAATAAAGCACCT
*
766472 TGGCTTTGTAATAAAGCACCT
1 TGGCTTTATAATAAAGCACCT
766493 TG
1 TG
766495 ATTCTTGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TGGCTTTATAATAAAGCACCT
Found at i:771900 original size:16 final size:15
Alignment explanation
Indices: 771877--771915 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
771867 AAACAAAAGT
771877 AAAATAAAAACTTGA
1 AAAATAAAAACTTGA
771892 AAAAGTAAAAACTTG-
1 AAAA-TAAAAACTTGA
*
771907 CAAATAAAA
1 AAAATAAAA
771916 GTAAAACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 7 0.32
16 10 0.45
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.18
Consensus pattern (15 bp):
AAAATAAAAACTTGA
Found at i:772066 original size:23 final size:23
Alignment explanation
Indices: 772020--772067 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
772010 TTGTCAAAAC
772020 CCTAAAAATTCTAAAAGATAATT
1 CCTAAAAATTCTAAAAGATAATT
772043 CCTAATAAATTGC-AAAAGAT-ATT
1 CCTAA-AAATT-CTAAAAGATAATT
772066 CC
1 CC
772068 CTTAATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 10 0.43
24 12 0.52
25 1 0.04
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (23 bp):
CCTAAAAATTCTAAAAGATAATT
Found at i:776450 original size:22 final size:22
Alignment explanation
Indices: 776422--776490 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
776412 GTGAATGCAT
776422 TTTAGTATCATTGCCATGGCAC
1 TTTAGTATCATTGCCATGGCAC
776444 TTTAGTATCATTGCCATGTG-AC
1 TTTAGTATCATTGCCATG-GCAC
* * *
776466 TTTAGTATCAGTGCTAAGGCAC
1 TTTAGTATCATTGCCATGGCAC
776488 TTT
1 TTT
776491 CGGTGTATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.02
22 40 0.95
23 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (22 bp):
TTTAGTATCATTGCCATGGCAC
Found at i:782263 original size:27 final size:27
Alignment explanation
Indices: 782232--782290 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
782222 TTACCTTTAA
782232 GGATTTCTTTACTTCCTCTTTCCTTTG
1 GGATTTCTTTACTTCCTCTTTCCTTTG
782259 GGATTTCTTTACTTCCTCTTTCCTTTG
1 GGATTTCTTTACTTCCTCTTTCCTTTG
782286 GGATT
1 GGATT
782291 GTGTGTCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.08, C:0.24, G:0.14, T:0.54
Consensus pattern (27 bp):
GGATTTCTTTACTTCCTCTTTCCTTTG
Found at i:784660 original size:23 final size:22
Alignment explanation
Indices: 784626--784704 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
784616 AAATTCTAAG
* *
784626 AGATAACTCCTAATAAATGCTA
1 AGATAATTCCTAATAAATGCAA
**
784648 AGATAATTCCCTAA-AAATAAAAA
1 AGATAATT-CCTAATAAAT-GCAA
*
784671 AGATAATTCCAAATAAATTGCAAA
1 AGATAATTCCTAATAAA-TGC-AA
784695 AGATAATTCC
1 AGATAATTCC
784705 CTTAGTTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
22 15 0.33
23 17 0.38
24 13 0.29
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (22 bp):
AGATAATTCCTAATAAATGCAA
Found at i:784665 original size:22 final size:24
Alignment explanation
Indices: 784610--784665 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
784600 CTCATCAAAA
*
784610 CCCTAAAAATTCTAAGAGATAACT
1 CCCTAAAAATGCTAAGAGATAACT
*
784634 -CCTAATAAATGCT-A-AGATAATT
1 CCCTAA-AAATGCTAAGAGATAACT
784656 CCCTAAAAAT
1 CCCTAAAAAT
784666 AAAAAAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 11 0.39
23 11 0.39
24 6 0.21
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (24 bp):
CCCTAAAAATGCTAAGAGATAACT
Found at i:794721 original size:3 final size:3
Alignment explanation
Indices: 794707--794757 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
794697 ATTTAAAAAA
* *
794707 TAT TAT TAAT TAT TAT TAT TAG TAT TAT TAT TAC TAT TAAT TAT TAAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT T-AT
794755 TAT
1 TAT
794758 AACCTAAACC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 32 0.78
4 9 0.22
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:794834 original size:22 final size:23
Alignment explanation
Indices: 794799--794841 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
794789 CCCACTATCC
*
794799 ACCACTAAAACCCACT-AAAACA
1 ACCACCAAAACCCACTCAAAACA
*
794821 ACCACCAAATCCCACTCAAAA
1 ACCACCAAAACCCACTCAAAA
794842 TACCTACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (23 bp):
ACCACCAAAACCCACTCAAAACA
Found at i:795532 original size:29 final size:29
Alignment explanation
Indices: 795446--795539 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 29
795436 TTATAATTAT
*
795446 TATTTTAGTCCCTTAAATGTTTGTTTTTAC
1 TATTTTAGTCCTTTAAAT-TTTGTTTTTAC
* *
795476 TATTTTAGTCATTTAAGTTTT-TCATTTTA-
1 TATTTTAGTCCTTTAAATTTTGT--TTTTAC
* *
795505 TATTTTAGTCCTTTAAATTCATGTTTTTGC
1 TATTTTAGTCCTTTAAATT-TTGTTTTTAC
795535 TATTT
1 TATTT
795540 AATCCATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
28 1 0.02
29 24 0.46
30 26 0.50
31 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.60
Consensus pattern (29 bp):
TATTTTAGTCCTTTAAATTTTGTTTTTAC
Found at i:798617 original size:2 final size:2
Alignment explanation
Indices: 798601--798652 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
798591 TCATTTATCC
* *
798601 AT AT AT GT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
798643 AT AT AT AT AT
1 AT AT AT AT AT
798653 CCCATGTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:798856 original size:9 final size:10
Alignment explanation
Indices: 798843--798911 Score: 75
Period size: 10 Copynumber: 6.5 Consensus size: 10
798833 AAAAGAAGAA
798843 AAAAACAAAG
1 AAAAACAAAG
798853 AAAAACAAAG
1 AAAAACAAAG
798863 AAAAACAAAG
1 AAAAACAAAG
798873 AAAAAAGCAAAG
1 -AAAAA-CAAAG
* *
798885 AGAAAAAAAAC
1 A-AAAACAAAG
*
798896 AAAAATAAAGG
1 AAAAACAAA-G
798907 AAAAA
1 AAAAA
798912 GTGAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
10 27 0.53
11 15 0.29
12 9 0.18
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (10 bp):
AAAAACAAAG
Found at i:798856 original size:20 final size:20
Alignment explanation
Indices: 798843--798911 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 20
798833 AAAAGAAGAA
798843 AAAAACAAAGAAAAACAAAG
1 AAAAACAAAGAAAAACAAAG
798863 AAAAACAAAGAAAAAAGCAAAG
1 AAAAACAAAG-AAAAA-CAAAG
* * *
798885 AGAAAAAAAACAAAAATAAAGG
1 A-AAAACAAAGAAAAACAAA-G
798907 AAAAA
1 AAAAA
798912 GTGAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 10 0.24
21 12 0.29
22 13 0.31
23 7 0.17
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (20 bp):
AAAAACAAAGAAAAACAAAG
Found at i:798863 original size:22 final size:22
Alignment explanation
Indices: 798838--798911 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 22
798828 AAGAGAAAAG
798838 AAGAAAAAAACAAAGAAAAACA
1 AAGAAAAAAACAAAGAAAAACA
798860 AAG--AAAAACAAAGAAAAAAGCA
1 AAGAAAAAAACAAAG-AAAAA-CA
* * *
798882 AAGAGAAAAA-AAACAAAAATA
1 AAGAAAAAAACAAAGAAAAACA
*
798903 AAGGAAAAA
1 AAGAAAAAA
798912 GTGAAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 10 0.23
21 13 0.30
22 13 0.30
23 3 0.07
24 5 0.11
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (22 bp):
AAGAAAAAAACAAAGAAAAACA
Found at i:798874 original size:32 final size:33
Alignment explanation
Indices: 798838--798911 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
798828 AAGAGAAAAG
* *
798838 AAGAAAAAAACAAAGA-AAAACAAAGAAAAACA
1 AAGAAAAAAACAAAGAGAAAAAAAACAAAAACA
* *
798870 AAGAAAAAAGCAAAGAGAAAAAAAACAAAAATA
1 AAGAAAAAAACAAAGAGAAAAAAAACAAAAACA
*
798903 AAGGAAAAA
1 AAGAAAAAA
798912 GTGAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 15 0.42
33 21 0.58
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (33 bp):
AAGAAAAAAACAAAGAGAAAAAAAACAAAAACA
Found at i:799988 original size:32 final size:33
Alignment explanation
Indices: 799952--800038 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 33
799942 TGAGGAACAA
*
799952 TTGGGGT-ATATTTGAAGATTTAACA-TCAAATG
1 TTGGGGTCATATTTGAAGATTCAA-AGTCAAATG
*
799984 TT-GGGTCATCTTTGAAGATTCAAAGTCAAATG
1 TTGGGGTCATATTTGAAGATTCAAAGTCAAATG
* **
800016 TTGGGG-CATTTTTGGTGATTCAA
1 TTGGGGTCATATTTGAAGATTCAA
800039 CATCGAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
31 5 0.11
32 39 0.83
33 3 0.06
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (33 bp):
TTGGGGTCATATTTGAAGATTCAAAGTCAAATG
Found at i:800062 original size:32 final size:31
Alignment explanation
Indices: 799968--800073 Score: 115
Period size: 32 Copynumber: 3.3 Consensus size: 31
799958 TATATTTGAA
* **
799968 GATTTAACATCAAATGTTGGGTCATCTTTGAA
1 GATTCAACATCAAATGTTGGG-CATCTTTGGT
*
800000 GATTCAA-AGTCAAATGTTGGGGCATTTTTGGT
1 GATTCAACA-TCAAATGTT-GGGCATCTTTGGT
* *
800032 GATTCAACATCGAATATTGGAGCATCTTTGGT
1 GATTCAACATCAAATGTTGG-GCATCTTTGGT
800064 GATTCAACAT
1 GATTCAACAT
800074 TCTGATGCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
31 3 0.05
32 56 0.89
33 4 0.06
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (31 bp):
GATTCAACATCAAATGTTGGGCATCTTTGGT
Found at i:800548 original size:61 final size:61
Alignment explanation
Indices: 800453--800861 Score: 567
Period size: 61 Copynumber: 6.7 Consensus size: 61
800443 TAAAGTTTTT
* * *
800453 AAGATTGGATTTCAACTTTACAACGAAGGATATCCAACTCAAAGACAATTTGGTGAAGCAG
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAC
*** *
800514 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGTTGATTTTGTGAAGCAC
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAC
* *
800575 AAGATTGGATTTCAACTTCACAACGAATGG-TATCCAACTCAAAACCAATTTGGTGAAACTTACA
1 AAGATTGGATTTCAACTTCACAACGAA-GGATATCCAACTCAAAGCCAATTTGGTG-AA---GCA
800639 C
61 C
* *
800640 AAGCTTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCGATTTGGTGAAGCA-
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAC
* *
800700 ATA-CTTGGATTTCAACTTCACAACGAAGGATATCCAACTTAAAGCCAATTTGGTGAA--AC
1 A-AGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAC
* *
800759 AAGATTGGATTTCAACTTCACAACAAAGGATATCCAACTCAAAGCCGATTTGGTGAAGCAC
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAC
* * *
800820 AAGATTGGATTTCCACTTCACAACGAAGGATGTCCAATTCAA
1 AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAA
800862 CGCTCAACTT
Statistics
Matches: 311, Mismatches: 26, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
58 2 0.01
59 51 0.16
60 53 0.17
61 145 0.47
62 4 0.01
64 4 0.01
65 52 0.17
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (61 bp):
AAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAGCAC
Found at i:801179 original size:231 final size:230
Alignment explanation
Indices: 800818--801387 Score: 723
Period size: 230 Copynumber: 2.5 Consensus size: 230
800808 TTGGTGAAGC
* ** * * *
800818 ACAAGATTGGATTTCCACTTCACAACGAAGGATGTCCAATTCAACGCTCAACTTCACAGCGAATG
1 ACAAGATTGGATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTGCACAGCGAAGG
* * *
800883 AGCCATCCACGATTTCAACTTCACGATAAAGGATATCGTGCCCAAAAGATTGACCCAACTTCACG
66 AGCCATCCACGATTTCAACTTCACAACAAAGGATATCGTACCCAAAAGATTGACCCAACTTCACG
* * *
800948 ATGAATGAGTCATCTGTGACACAACAATGAAAAACCAGTTTCATTCATAGTCAATTTCAACTTCA
131 AAGAATGAGTCATCTGTGACACAACAATG-AAAACCAATTTCATTCAGAGTCAATTTCAACTTCA
* *
801013 CAACGAAAGATATTGAACTCAAAAGTGATGCAATTT
195 CAACGAAAGATATTGAACTCAAAAGAGATACAATTT
* * **
801049 ACAAGATTGGATTTTAACTTCACAACGAATGACATTTAATTCAAAGCTCAACTGCACAGCGAAGG
1 ACAAGATTGGATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTGCACAGCGAAGG
* * * *
801114 AGCCATTCACGATTTCAACTTCACAACGAATGATATCGTACCCAAAAGATTGACCCAATTTCACG
66 AGCCATCCACGATTTCAACTTCACAACAAAGGATATCGTACCCAAAAGATTGACCCAACTTCACG
**
801179 AAGAATGAGTCATCTGTGGTACAACAATGAAAACCAATTTCATTCAGAGTCAATTTCAACTTCAC
131 AAGAATGAGTCATCTGTGACACAACAATGAAAACCAATTTCATTCAGAGTCAATTTCAACTTCAC
*
801244 AGCGAAAGATATTGAACTCAAAAGAGATACAATTT
196 AACGAAAGATATTGAACTCAAAAGAGATACAATTT
** * * * * * *** *
801279 ACAAGCGTGGATTTCAACTTCACGATGAAAGATATCCAACTCAAAGAAAAACTTCAC-GACGAAG
1 ACAAGATTGGATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTGCACAG-CGAAG
* * * *
801343 GAGCTA-CACATGATTTCAACTTCACGAA-GAAGGATATCGTGCCCA
65 GAGCCATC-CACGATTTCAACTTCAC-AACAAAGGATATCGTACCCA
801388 GTGGATCGAC
Statistics
Matches: 292, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
229 1 0.00
230 150 0.51
231 141 0.48
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (230 bp):
ACAAGATTGGATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTGCACAGCGAAGG
AGCCATCCACGATTTCAACTTCACAACAAAGGATATCGTACCCAAAAGATTGACCCAACTTCACG
AAGAATGAGTCATCTGTGACACAACAATGAAAACCAATTTCATTCAGAGTCAATTTCAACTTCAC
AACGAAAGATATTGAACTCAAAAGAGATACAATTT
Found at i:801943 original size:22 final size:22
Alignment explanation
Indices: 801915--801958 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
801905 TACCCACTAT
801915 CCACCACTAAAACCCACTCAAA
1 CCACCACTAAAACCCACTCAAA
*
801937 CCACCACTAAATCCCACTCAAA
1 CCACCACTAAAACCCACTCAAA
801959 ATACTTACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.11
Consensus pattern (22 bp):
CCACCACTAAAACCCACTCAAA
Found at i:802678 original size:29 final size:30
Alignment explanation
Indices: 802584--802677 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 30
802574 TTATAATGAT
* * *
802584 TATTTTAGTCCCTTAAATGT-TTTTTTTTGC
1 TATTTTAGTCCTTTAAAT-TCCTGTTTTTGC
* * * * *
802614 TATTTTAGTCATTTAAGTTTCTGATTTT-A
1 TATTTTAGTCCTTTAAATTCCTGTTTTTGC
802643 TATTTTAGTCCTTTAAATTCCTGTTTTTGC
1 TATTTTAGTCCTTTAAATTCCTGTTTTTGC
802673 TATTT
1 TATTT
802678 AATCCATTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
29 25 0.50
30 25 0.50
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAATTCCTGTTTTTGC
Found at i:804009 original size:12 final size:12
Alignment explanation
Indices: 803979--804009 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
803969 ATTTTTTGTT
803979 AATAAAGTAAAA
1 AATAAAGTAAAA
803991 AATTAAAGTAAAA
1 AA-TAAAGTAAAA
804004 AATAAA
1 AATAAA
804010 TGTTGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
AATAAAGTAAAA
Found at i:805754 original size:27 final size:28
Alignment explanation
Indices: 805716--805774 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
805706 TTTGTTCGGG
805716 TCGGGTCGGG-TTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
805743 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
805771 TCGG
1 TCGG
805775 TTCGATTCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.14, C:0.08, G:0.34, T:0.44
Consensus pattern (28 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:806425 original size:18 final size:17
Alignment explanation
Indices: 806367--806430 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
806357 TATGGAATTG
*
806367 GATTCCAATTCCTAACA
1 GATTTCAATTCCTAACA
*
806384 GATTTCGATTCCTAACA
1 GATTTCAATTCCTAACA
*
806401 GATTTCAATTCCTTCACA
1 GATTTCAATTCC-TAACA
*
806419 TATTTCAATTCC
1 GATTTCAATTCC
806431 CTCATAAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 26 0.63
18 15 0.37
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (17 bp):
GATTTCAATTCCTAACA
Found at i:810934 original size:23 final size:23
Alignment explanation
Indices: 810908--810951 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
810898 TTAAGAAAAT
*
810908 ATATTAATTTATATATAAATAAG
1 ATATTAATTTATATAGAAATAAG
* *
810931 ATATTTATTTATTTAGAAATA
1 ATATTAATTTATATAGAAATA
810952 TCAGAAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATATTAATTTATATAGAAATAAG
Found at i:811227 original size:22 final size:22
Alignment explanation
Indices: 811195--811249 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
811185 TATATATATT
*
811195 TATA-ATA-ATAATATTTTAAA
1 TATATATATATAATAGTTTAAA
811215 TATATATATATAA-AGTTTAAA
1 TATATATATATAATAGTTTAAA
811236 TA-ATA-ACTATAATA
1 TATATATA-TATAATA
811250 AATAAAAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.03
20 12 0.40
21 13 0.43
22 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATATATATAATAGTTTAAA
Found at i:812638 original size:3 final size:3
Alignment explanation
Indices: 812630--812666 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
812620 TAATTATTTC
*
812630 ATA ATA ATA AT- ATA A-C ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
812667 TAAGCAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 3 0.10
3 27 0.90
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:812664 original size:25 final size:25
Alignment explanation
Indices: 812630--812677 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
812620 TAATTATTTC
812630 ATAATAATAATATAA-CATAATAATA
1 ATAATAATAATATAAGCA-AATAATA
812655 ATAATAATAATATAAGCAAATAA
1 ATAATAATAATATAAGCAAATAA
812678 GAAAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (25 bp):
ATAATAATAATATAAGCAAATAATA
Found at i:813277 original size:118 final size:120
Alignment explanation
Indices: 813039--813426 Score: 437
Period size: 118 Copynumber: 3.3 Consensus size: 120
813029 GTTGAACAAG
* * * * * *
813039 TTCTTCCTCTTCAGATGAGTTCTTATCATTATGAACTTCTTCTGGAAATGATGGTGCTGATCTAT
1 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAAC--CTTCTGAAAATGTTGATGATGA-CTAT
* *
813104 CTCCTTATGTGATAGAATCATACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
63 CTCCTTATGTGATAGAATCATACAAAAAGTTGAACAAATTCTTCTCATTACGAACTTC
813162 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGAAAATGTTGATGATGA-TATCTC
1 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGAAAATGTTGATGATGACTATCTC
* *
813226 CTT-TGTGATAGAATCGA-GCAAAAGGTTGAACAAATTCTTCTCATTACGAACTTC
66 CTTATGTGATAGAATC-ATACAAAAAGTTGAACAAATTCTTCTCATTACGAACTTC
* *
813280 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTAGAAAA-G-T--TGAT--CCA--T
1 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCT-GAAAATGTTGATGATGACTATCT
* * * * *
813337 -C-GA-GTGAT-GAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTA
65 CCTTATGTGATAGAA-TCATACAAAAAGTTGAACAAATTCTTCTCATTACGAACTTC
**
813390 TTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAAC
1 TTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAAC
813427 TCTACCTGGC
Statistics
Matches: 238, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
109 4 0.02
110 46 0.19
111 28 0.12
112 1 0.00
114 1 0.00
115 4 0.02
117 1 0.00
118 86 0.36
119 15 0.06
121 18 0.08
123 34 0.14
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (120 bp):
TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGAAAATGTTGATGATGACTATCTC
CTTATGTGATAGAATCATACAAAAAGTTGAACAAATTCTTCTCATTACGAACTTC
Found at i:813889 original size:18 final size:20
Alignment explanation
Indices: 813861--813917 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 20
813851 TTTACAAAAT
*
813861 AAAAGAATAAATTGAATTTC
1 AAAATAATAAATTGAATTTC
* *
813881 -AAA-AATAAATTAAATCTC
1 AAAATAATAAATTGAATTTC
813899 AAAATAATAAATTGAATTT
1 AAAATAATAAATTGAATTT
813918 AGAGAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 13 0.42
19 6 0.19
20 12 0.39
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAATAATAAATTGAATTTC
Found at i:813927 original size:20 final size:18
Alignment explanation
Indices: 813860--813940 Score: 72
Period size: 20 Copynumber: 4.1 Consensus size: 18
813850 ATTTACAAAA
813860 TAAAAGAATAAATTGAATT
1 TAAAA-AATAAATTGAATT
* *
813879 TCAAAAATAAATTAAATCT
1 TAAAAAATAAATTGAAT-T
*
813898 CAAAATAATAAATTGAATT
1 TAAAA-AATAAATTGAATT
813917 TAGAGAAAATAAACTTAGAATT
1 TA-A-AAAATAAA-TT-GAATT
813939 TA
1 TA
813941 TTAATAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 11 0.22
19 10 0.20
20 18 0.36
21 4 0.08
22 7 0.14
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (18 bp):
TAAAAAATAAATTGAATT
Found at i:814277 original size:16 final size:16
Alignment explanation
Indices: 814256--814298 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
814246 ATCTTGACCC
814256 TCTTTTTT-TATTTTCT
1 TCTTTTTTCT-TTTTCT
814272 TCTTTTTTCTTTTTCT
1 TCTTTTTTCTTTTTCT
814288 T-TTTTTTCTTT
1 TCTTTTTTCTTT
814299 CTTTTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.38
16 15 0.58
17 1 0.04
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (16 bp):
TCTTTTTTCTTTTTCT
Found at i:814279 original size:15 final size:13
Alignment explanation
Indices: 814259--814305 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
814249 TTGACCCTCT
814259 TTTTTTATTTTCTTC
1 TTTTTT-TTTT-TTC
*
814274 TTTTTTCTTTTTC
1 TTTTTTTTTTTTC
*
814287 TTTTTTTTCTTTC
1 TTTTTTTTTTTTC
814300 TTTTTT
1 TTTTTT
814306 CATTTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 20 0.69
14 3 0.10
15 6 0.21
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:814311 original size:16 final size:15
Alignment explanation
Indices: 814256--814310 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 15
814246 ATCTTGACCC
*
814256 TCTTTTTTTATTTTCT
1 TCTTTTTTCATTTT-T
814272 TCTTTTTTC--TTTT
1 TCTTTTTTCATTTTT
*
814285 TCTTTTTT--TTCTT
1 TCTTTTTTCATTTTT
814298 TCTTTTTTCATTT
1 TCTTTTTTCATTT
814311 CATTTTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 20 0.61
14 3 0.09
15 2 0.06
16 8 0.24
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TCTTTTTTCATTTTT
Found at i:814311 original size:25 final size:26
Alignment explanation
Indices: 814261--814323 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
814251 GACCCTCTTT
*
814261 TTTTATTTTC-TTCTTTTTTCTTTTTC
1 TTTT-TTTTCTTTCTTTTTTCTATTTC
814287 TTTTTTTTCTTTCTTTTTTC-ATTTC
1 TTTTTTTTCTTTCTTTTTTCTATTTC
*
814312 -ATTTTTTCTTTC
1 TTTTTTTTCTTTC
814324 AAGCATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 11 0.32
25 9 0.26
26 14 0.41
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTTTTCTTTCTTTTTTCTATTTC
Found at i:814324 original size:12 final size:12
Alignment explanation
Indices: 814289--814324 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
814279 TCTTTTTCTT
814289 TTTTTTCTTTC-
1 TTTTTTCTTTCA
814300 TTTTTTCATTTCA
1 TTTTTTC-TTTCA
814313 TTTTTTCTTTCA
1 TTTTTTCTTTCA
814325 AGCATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.30
12 9 0.39
13 7 0.30
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTCTTTCA
Found at i:817835 original size:9 final size:9
Alignment explanation
Indices: 817820--817851 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
817810 GAAAAATAAT
817820 GAATGTAAA
1 GAATGTAAA
*
817829 AAATGTAAA
1 GAATGTAAA
817838 GAATGTAAA
1 GAATGTAAA
817847 GAATG
1 GAATG
817852 ATTACCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (9 bp):
GAATGTAAA
Found at i:821644 original size:15 final size:15
Alignment explanation
Indices: 821621--821652 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
821611 TTCAATGAAT
821621 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
821636 AATGCATGTATGCAA
1 AATGAATGTATGCAA
821651 AA
1 AA
821653 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:824904 original size:28 final size:27
Alignment explanation
Indices: 824853--824906 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
824843 ATATTAATAA
*
824853 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAACTATGAAAAT
* *
824880 AATAAGTATATATAAAAATTTTGAAAA
1 AATAA-TATATATAAAAACTATGAAAA
824907 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (27 bp):
AATAATATATATAAAAACTATGAAAAT
Found at i:825415 original size:23 final size:23
Alignment explanation
Indices: 825383--825426 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
825373 TTAAGAAAAT
*
825383 ATATTAATTTATATATAAATAAG
1 ATATTAATTTATATAGAAATAAG
* *
825406 ATATTTATTTATTTAGAAATA
1 ATATTAATTTATATAGAAATA
825427 TCAGAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATATTAATTTATATAGAAATAAG
Found at i:825676 original size:27 final size:28
Alignment explanation
Indices: 825644--825704 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 28
825634 TAATAAAATA
* *
825644 AAATAAATAAATATTATTTATATATATTTAT
1 AAAT-AAT-AATATT-TTAATATATATATAT
825675 -AATAATAATATTTTAATATATATATAT
1 AAATAATAATATTTTAATATATATATAT
825702 AAA
1 AAA
825705 AGTTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
27 13 0.48
28 8 0.30
29 3 0.11
30 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AAATAATAATATTTTAATATATATATAT
Found at i:825733 original size:27 final size:27
Alignment explanation
Indices: 825688--825765 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
825678 AATAATATTT
* *
825688 TAATATATATATATAAAAGTTTAAATAA
1 TAATATA-ATAAATAAAAGTTAAAATAA
*
825716 TAATATAATAAATAAAAGTAAAAATAA
1 TAATATAATAAATAAAAGTTAAAATAA
* * *
825743 TAAAACTAATAATTTAAAGTTAA
1 TAATA-TAATAAATAAAAGTTAA
825766 TGGCTAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 21 0.50
28 21 0.50
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (27 bp):
TAATATAATAAATAAAAGTTAAAATAA
Found at i:827115 original size:23 final size:23
Alignment explanation
Indices: 827078--827123 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
827068 ATTAATTATT
827078 TAATAATAAATATAA-CATAATAA
1 TAATAATAAATATAAGCA-AATAA
827101 TAATAAT-AATAATAAGCAAATAA
1 TAATAATAAAT-ATAAGCAAATAA
827124 GAAAAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.14
23 16 0.76
24 2 0.10
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (23 bp):
TAATAATAAATATAAGCAAATAA
Found at i:828152 original size:13 final size:13
Alignment explanation
Indices: 828134--828161 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
828124 TCGATATGTC
828134 TCTCTGAAAAATA
1 TCTCTGAAAAATA
828147 TCTCTGAAAAATA
1 TCTCTGAAAAATA
828160 TC
1 TC
828162 ACAGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (13 bp):
TCTCTGAAAAATA
Found at i:840330 original size:22 final size:21
Alignment explanation
Indices: 840304--840348 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
840294 ATTTTAATAT
840304 AATCTTA-AAGTCTAAAATTATA
1 AATCTTAGAA-TCT-AAATTATA
840326 AATCTTAGAATCTAAATTATA
1 AATCTTAGAATCTAAATTATA
840347 AA
1 AA
840349 CCCTAAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 10 0.45
23 2 0.09
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (21 bp):
AATCTTAGAATCTAAATTATA
Found at i:841467 original size:11 final size:11
Alignment explanation
Indices: 841451--841481 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
841441 TCAAACTGTA
841451 ATAAATATTAT
1 ATAAATATTAT
841462 ATAAATATTAT
1 ATAAATATTAT
841473 AT-AATATTA
1 ATAAATATTA
841482 CTACCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAAATATTAT
Found at i:842142 original size:3 final size:3
Alignment explanation
Indices: 842125--842158 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
842115 AGGTTCTAAT
*
842125 TTA TCA TTA -TA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
842159 TATTTTCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:842738 original size:41 final size:41
Alignment explanation
Indices: 842693--842773 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
842683 AAATGTACAG
*
842693 AAGGGGCCCTTTTTGAGGGGATATAGAGAAACCATGTAAAA
1 AAGGGGCCCTTTTTGAGGGGATATAGAGAAAACATGTAAAA
* *
842734 AAGGGGGCCTTTTTGAGGGGATATAGAGAAAATATGTAAA
1 AAGGGGCCCTTTTTGAGGGGATATAGAGAAAACATGTAAA
842774 CAATGGGTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.37, C:0.09, G:0.31, T:0.23
Consensus pattern (41 bp):
AAGGGGCCCTTTTTGAGGGGATATAGAGAAAACATGTAAAA
Found at i:846523 original size:19 final size:20
Alignment explanation
Indices: 846487--846528 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
846477 ATGGCAACTG
846487 TAGAAGTTCAGAAAGATGAA
1 TAGAAGTTCAGAAAGATGAA
846507 TAGAAGTTCAG-AAGATGAA
1 TAGAAGTTCAGAAAGATGAA
846526 TAG
1 TAG
846529 CCCTACAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.48, C:0.05, G:0.26, T:0.21
Consensus pattern (20 bp):
TAGAAGTTCAGAAAGATGAA
Found at i:847802 original size:21 final size:21
Alignment explanation
Indices: 847778--847818 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
847768 TTTGCATCTT
847778 TACATTCACAT-ATATACATCA
1 TACATT-ACATAATATACATCA
*
847799 TACATTGCATAATATACATC
1 TACATTACATAATATACATC
847819 GCATCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.34
Consensus pattern (21 bp):
TACATTACATAATATACATCA
Found at i:849943 original size:159 final size:159
Alignment explanation
Indices: 849655--850001 Score: 477
Period size: 159 Copynumber: 2.2 Consensus size: 159
849645 ATTCCTACAC
* *
849655 ATGTGATTCAAATTTGGT-AAAAAATGGACTTGAAATAAAGGATGAAGTGAAGAAATACAGAAAT
1 ATGTGGTTCAAATTTGGTAAAAAAATGGAATTGAAATAAAGGATGAAGTGAAGAAATACAGAAAT
* *
849719 TATGAAAAATTGAGGGATTGAATCAGAAAATAGAAAATTTTTTATCAAAAAGAGGAATTGAAAGT
66 TATGAAAAATTGAGGGATTAAATCAGAAAATAGAAAATTTGTTATCAAAAAGAGGAATTGAAAGT
*
849784 AAATATGTAGTATACGATGACTTAGGAGA
131 AAATATGTAGTATACGATGACTTACGAGA
* * *
849813 ATGTGGTTCAAAATTGGTAAAAAAATGGAATTGAAATAAAGGATGAATTGAAGAAATACGGAAAT
1 ATGTGGTTCAAATTTGGTAAAAAAATGGAATTGAAATAAAGGATGAAGTGAAGAAATACAGAAAT
* *
849878 TATG-AAAATTGAGGG-TCTAAAT-TGAAAAATAGAAACTTTGTTATCAAAAAAGAGGAATTGAA
66 TATGAAAAATTGAGGGAT-TAAATCAG-AAAATAGAAAATTTGTTATC-AAAAAGAGGAATTGAA
* * * * ** *
849940 AGTACATATGTATTCTATGATGGTTTACGAGC
128 AGTAAATATGTAGTATACGATGACTTACGAGA
849972 ATGTGGTTCAAATTTGGTAAAACAAATGGA
1 ATGTGGTTCAAATTTGGTAAAA-AAATGGA
850002 CTTAAAATGG
Statistics
Matches: 166, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
157 2 0.01
158 49 0.30
159 108 0.65
160 7 0.04
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.28
Consensus pattern (159 bp):
ATGTGGTTCAAATTTGGTAAAAAAATGGAATTGAAATAAAGGATGAAGTGAAGAAATACAGAAAT
TATGAAAAATTGAGGGATTAAATCAGAAAATAGAAAATTTGTTATCAAAAAGAGGAATTGAAAGT
AAATATGTAGTATACGATGACTTACGAGA
Found at i:851837 original size:41 final size:42
Alignment explanation
Indices: 851752--851867 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 42
851742 TTATTTCATG
*
851752 CAAAAAATAAATCTAAATAATAATGATTAATTTATTAATAAATAA
1 CAAAAAATAAAT-TAAATAATAAT-ATT-ATTTTTTAATAAATAA
* *
851797 TAAAAAATAAATTAACTAAT-ATATTATTTTTTAATAAATAA
1 CAAAAAATAAATTAAATAATAATATTATTTTTTAATAAATAA
* * *
851838 CAAAATAT-TATTAATTAATAATATTATTTT
1 CAAAAAATAAATTAAATAATAATATTATTTT
851868 AATACAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 9 0.14
41 31 0.49
42 3 0.05
43 2 0.03
44 7 0.11
45 11 0.17
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (42 bp):
CAAAAAATAAATTAAATAATAATATTATTTTTTAATAAATAA
Found at i:851855 original size:25 final size:27
Alignment explanation
Indices: 851802--851863 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 27
851792 AATAATAAAA
* **
851802 AATAAATTAACTAATATATTATTTTTT
1 AATAAATTAACTAAAATATTATTAATT
851829 AATAAA-TAAC-AAAATATTATTAATT
1 AATAAATTAACTAAAATATTATTAATT
851854 AATAATATTA
1 AATAA-ATTA
851864 TTTTAATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 17 0.57
26 5 0.17
27 8 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AATAAATTAACTAAAATATTATTAATT
Found at i:851977 original size:21 final size:21
Alignment explanation
Indices: 851951--851995 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
851941 AATTTTTAGT
*
851951 GAGCTTAACGAGTAACGAGTC
1 GAGCTTAACGAGCAACGAGTC
*
851972 GAGCTTAACGAGCAATGAGTC
1 GAGCTTAACGAGCAACGAGTC
851993 GAG
1 GAG
851996 TTGAGCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (21 bp):
GAGCTTAACGAGCAACGAGTC
Done.