Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 54 of 130
Found at i:11773915 original size:125 final size:124
Alignment explanation
Indices: 11773747--11774600 Score: 685
Period size: 125 Copynumber: 6.8 Consensus size: 124
11773737 ATATTGAGGA
** * * * *
11773747 GGATTATTTAAGGTGTTTTTGGCTA-AAAGACGCCTTAAATAATCCCATTCAATTTTTTAAAAGA
1 GGATTATTTAAGGCATTTTT-GCCAGAAA-ACACCTTGAATAATCCCATTCAATTTTTTAAAGGA
* * * *
11773811 TTATTTAAGGCATTCTCTAGCAAAAAATATCTTAAATAATCCTTCA-AAAAAATTTTTATG
64 TTATTTAAGGTATTTTCTAGCAAAAAATATCTTAAATAATCCTTTACAAAAAATTTGTATG
* ** *
11773871 GAGATTATTTAAGGCATATTTTGTCAGAAAACATGTTGAATAATCCTATT-AA-TTTTTAACCAG
1 G-GATTATTTAAGGCAT-TTTTGCCAGAAAACACCTTGAATAATCCCATTCAATTTTTTAA--AG
* * * *
11773934 TATTATTTAAGGCATTTTCTAGCCAAAAATACCTTAAATAATCCTTTACAAAAAA-TTGTACT-
62 GATTATTTAAGGTATTTTCTAGCAAAAAATATCTTAAATAATCCTTTACAAAAAATTTGTA-TG
** * * * * * * * **
11773996 GGATTATTTAAAACAATTTGGCTAGAAAACGCCTTGAATAATCTCATTTGATGTTTTTTAGTGGA
1 GGATTATTTAAGGCATTTTTGCCAGAAAACACCTTGAATAATCCCA-TTCA-ATTTTTTAAAGGA
* * * * * *
11774061 TTATTTAAGATGTTTTCTACCAAAAAATGTCTTAAATAATTCTTTACAAAAAATTTGTACAG
64 TTATTTAAGGTATTTTCTAGCAAAAAATATCTTAAATAATCCTTTACAAAAAATTTGTA-TG
** *
11774123 GGATTATTTAAGGCATTTTTTGCCAGAAAATGCTTTGAATAATCCCATTCAATTTTTTAAGAGGA
1 GGATTATTTAAGGCA-TTTTTGCCAGAAAACACCTTGAATAATCCCATTCAATTTTTTAA-AGGA
* * * * *
11774188 TTATTTAAGGTATGTTT-TAGCAAAACATACCATAAATAATCCTTTA-AAAAATTTTTGT-GG
64 TTATTTAAGGTAT-TTTCTAGCAAAAAATATCTTAAATAATCCTTTACAAAAA-ATTTGTATG
* * * * * *
11774248 GGATTTTTTAA-CCGTTTTTGGCCAAAAAAACACCTTGAATAATGCTATTCAATTTTTTAAAGGA
1 GGATTATTTAAGGCATTTTT-GCC-AGAAAACACCTTGAATAATCCCATTCAATTTTTTAAAGGA
* * * * * ***
11774312 TTATTTAAGATATTTTTTACCCAAAAATA-CTTTAAATAAT-TTTTTTTAAAAATTTGTATG
64 TTATTTAAGGTATTTTCTAGCAAAAAATATC-TTAAATAATCCTTTACAAAAAATTTGTATG
** * * * *
11774372 TGGATTATTTAAGGTGTTTTTGGCCAAAAAAATACCTTAAATAATCCCATTCAATTCTTTGAAAG
1 -GGATTATTTAAGGCATTTTT-GCC-AGAAAACACCTTGAATAATCCCATTCAATT-TTTTAAAG
* * *
11774437 GATTATTTAAGGTGTTTTCT-GACAAAAAACA-CTTTAAATAATCCTTTACAAAAAA-TTGTACA
62 GATTATTTAAGGTATTTTCTAG-CAAAAAATATC-TTAAATAATCCTTTACAAAAAATTTGTA-T
*
11774499 A
124 G
* ** * * **
11774500 TGATTATTTAAGGCATTTTTTGTTAGAAAATACCTTGAATAATCCCATTTAATTTTTTAGGGGAT
1 GGATTATTTAAGGCA-TTTTTGCCAGAAAACACCTTGAATAATCCCATTCAATTTTTTAAAGGAT
* * *
11774565 TATTTAAGGTGTTTTCTATCCAAAAATATCTTAAAT
65 TATTTAAGGTATTTTCTAGCAAAAAATATCTTAAAT
11774601 TATTTAAGTT
Statistics
Matches: 583, Mismatches: 115, Indels: 63
0.77 0.15 0.08
Matches are distributed among these distances:
123 46 0.08
124 59 0.10
125 216 0.37
126 97 0.17
127 124 0.21
128 41 0.07
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (124 bp):
GGATTATTTAAGGCATTTTTGCCAGAAAACACCTTGAATAATCCCATTCAATTTTTTAAAGGATT
ATTTAAGGTATTTTCTAGCAAAAAATATCTTAAATAATCCTTTACAAAAAATTTGTATG
Found at i:11773978 original size:61 final size:59
Alignment explanation
Indices: 11773779--11773978 Score: 161
Period size: 61 Copynumber: 3.2 Consensus size: 59
11773769 CTAAAAGACG
* * *
11773779 CCTTAAATAATCCCATTCAATTTTTTAAAAGATTATTTAAGGCATTCTCTAGCAAAAAATA
1 CCTTAAATAATCCTATT-AA-TTTTTAAAAGATTATTTAAGGCATTTTCTAGCCAAAAATA
* ** ** * *
11773840 TCTTAAATAATCCTTCAAAAAAATTTTTATGGAGATTATTTAAGGCATATTT-T-GTCAGAAAAC
1 CCTTAAATAATCC-T---ATTAATTTTTA-AAAGATTATTTAAGGCAT-TTTCTAGCCA-AAAAT
11773903 A
59 A
** * *
11773904 TGTTGAATAATCCTATTAATTTTTAACCAGTATTATTTAAGGCATTTTCTAGCCAAAAATA
1 CCTTAAATAATCCTATTAATTTTTAA-AAG-ATTATTTAAGGCATTTTCTAGCCAAAAATA
11773965 CCTTAAATAATCCT
1 CCTTAAATAATCCT
11773979 TTACAAAAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
60 14 0.13
61 43 0.40
62 3 0.03
63 9 0.08
64 35 0.33
65 3 0.03
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (59 bp):
CCTTAAATAATCCTATTAATTTTTAAAAGATTATTTAAGGCATTTTCTAGCCAAAAATA
Found at i:11774164 original size:251 final size:244
Alignment explanation
Indices: 11773763--11774600 Score: 766
Period size: 251 Copynumber: 3.3 Consensus size: 244
11773753 TTTAAGGTGT
* * * * * * *** *
11773763 TTTTGGCTA-AAAGACGCCTTAAATAATCCCATTCAATTTTTTAAAAGATTATTTAAGGCATTCT
1 TTTTGGCTAGAAA-ACACCTTGAATAATCTCATTTAATTTTTTAGAGGATTATTTAAGATGTTTT
* * * * *
11773827 CTAGCAAAAAATATCTTAAATAATCCTTCAAAAAAATTTTTATGGAGATTATTTAAGGCATATTT
65 CTACCAAAAAATATCTTAAATAATTCTTTAAAAAAATTTGTATGG-GATTATTTAAGGCATTTTT
* * * *
11773892 TGTCAGAAAA-CATGTTGAATAATCCTATT-AATTTTTAACCAGTATTATTTAAGGCATTTTCTA
129 TGCCAGAAAATC-T-TTGAATAATCCCATTCAATTTTTAA--AGGATTATTTAAGGTATTTTCTA
11773955 GCCAAAAATACCTTAAATAATCCTTTACAAAAAATTGTACTGGATTATTTAAAACA
190 G-CAAAAATACCTTAAATAATCCTTTACAAAAAATTGTACTGGATTATTTAAAACA
* * * *
11774011 ATTTGGCTAGAAAACGCCTTGAATAATCTCATTTGATGTTTTTTAGTGGATTATTTAAGATGTTT
1 TTTTGGCTAGAAAACACCTTGAATAATCTCATTT-A-ATTTTTTAGAGGATTATTTAAGATGTTT
* *
11774076 TCTACCAAAAAATGTCTTAAATAATTCTTTACAAAAAATTTGTACAGGGATTATTTAAGGCATTT
64 TCTACCAAAAAATATCTTAAATAATTCTTTA-AAAAAATTTGTA-TGGGATTATTTAAGGCATTT
11774141 TTTGCCAGAAAATGCTTTGAATAATCCCATTCAATTTTTTAAGAGGATTATTTAAGGTATGTTT-
127 TTTGCCAGAAAAT-CTTTGAATAATCCCATTCAA-TTTTTAA-AGGATTATTTAAGGTAT-TTTC
* * ** * * *
11774205 TAGCAAAACATACCATAAATAATCCTTTA-AAAAATTTTTGT-GGGGATT-TTTTAACCGT
188 TAGCAAAA-ATACCTTAAATAATCCTTTACAAAAA--ATTGTACTGGATTATTTAAAAC-A
* * * * *
11774263 TTTTGGCCAAAAAAACACCTTGAATAATGCT-ATTCAATTTTTTAAAGGATTATTTAAGATATTT
1 TTTTGG-CTAGAAAACACCTTGAATAAT-CTCATTTAATTTTTTAGAGGATTATTTAAGATGTTT
* * * ** **
11774327 TTTACCCAAAAATA-CTTTAAATAATTTTTTTTAAAAATTTGTATGTGGATTATTTAAGGTGTTT
64 TCTACCAAAAAATATC-TTAAATAATTCTTTAAAAAAATTTGTATG-GGATTATTTAAGGCATTT
* * * * *
11774391 TTGGCCAAAAAAATACCTTAAATAATCCCATTCAATTCTTTGAAAGGATTATTTAAGGTGTTTTC
127 TTTGCC-AGAAAAT-CTTTGAATAATCCCATTCAATT-TTT-AAAGGATTATTTAAGGTATTTTC
**
11774456 T-GACAAAAA-ACACTTTAAATAATCCTTTACAAAAAATTGTACAAT-GATTATTTAAGGCA
188 TAG-CAAAAATAC-C-TTAAATAATCCTTTACAAAAAATTGTAC--TGGATTATTTAAAACA
* * * * * *
11774515 TTTTTTGTTAGAAAATACCTTGAATAATCCCATTTAATTTTTTAGGGGATTATTTAAGGTGTTTT
1 -TTTTGGCTAGAAAACACCTTGAATAATCTCATTTAATTTTTTAGAGGATTATTTAAGATGTTTT
11774580 CTATCC-AAAAATATCTTAAAT
65 CTA-CCAAAAAATATCTTAAAT
11774601 TATTTAAGTT
Statistics
Matches: 481, Mismatches: 75, Indels: 64
0.78 0.12 0.10
Matches are distributed among these distances:
248 26 0.05
249 7 0.01
250 92 0.19
251 180 0.37
252 125 0.26
253 49 0.10
254 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (244 bp):
TTTTGGCTAGAAAACACCTTGAATAATCTCATTTAATTTTTTAGAGGATTATTTAAGATGTTTTC
TACCAAAAAATATCTTAAATAATTCTTTAAAAAAATTTGTATGGGATTATTTAAGGCATTTTTTG
CCAGAAAATCTTTGAATAATCCCATTCAATTTTTAAAGGATTATTTAAGGTATTTTCTAGCAAAA
ATACCTTAAATAATCCTTTACAAAAAATTGTACTGGATTATTTAAAACA
Found at i:11774444 original size:63 final size:61
Alignment explanation
Indices: 11774123--11774579 Score: 206
Period size: 64 Copynumber: 7.3 Consensus size: 61
11774113 ATTTGTACAG
* * * * * * *
11774123 GGATTATTTAAGGCATTTTTTGCCAGAAAATGCTTTGAATAATCCCATTCAATTTTTTAAGA
1 GGATTATTTAAGGTATTTTTGGCCAAAAAATACCTTAAATAATCCCATTCAATTTTTGAA-A
* * * * * ***
11774185 GGATTATTTAAGGTATGTTTTAG-CAAAACATACCATAAATAAT-CCTTTAAAAAATTTTTGTGG
1 GGATTATTTAAGGTAT-TTTTGGCCAAAAAATACCTTAAATAATCCCATT---CAATTTTTGAAA
* * * * * * *
11774248 GGATTTTTTAACCG--TTTTTGGCCAAAAAAACACCTTGAATAATGCTATTCAATTTTTTAAA
1 GGATTATTTAA-GGTATTTTTGGCC-AAAAAATACCTTAAATAATCCCATTCAATTTTTGAAA
* ** * * **** * ** **
11774309 GGATTATTTAAGATATTTTTTACCCAAAAATACTTTAAATAATTTTTTTTAAAAATTTGTATGT
1 GGATTATTTAAGGTATTTTTGGCCAAAAAATACCTTAAATAA-TCCCATTCAATTTTTG-A-AA
*
11774373 GGATTATTTAAGGTGTTTTTGGCCAAAAAAATACCTTAAATAATCCCATTCAATTCTTTGAAA
1 GGATTATTTAAGGTATTTTTGGCC-AAAAAATACCTTAAATAATCCCATTCAATT-TTTGAAA
* * * * * ***
11774436 GGATTATTTAAGGTGTTTTCT-GACAAAAAACACTTTAAATAAT-CCTTTACAAAAAATTGTACA
1 GGATTATTTAAGGTATTTT-TGGCCAAAAAATACCTTAAATAATCCCATT-C-AATTTTTG-A-A
11774499 A
61 A
* * * ** * * * * **
11774500 TGATTATTTAAGGCATTTTTTGTTAGAAAATACCTTGAATAATCCCATTTAATTTTTTAGG
1 GGATTATTTAAGGTATTTTTGGCCAAAAAATACCTTAAATAATCCCATTCAATTTTTGAAA
*
11774561 GGATTATTTAAGGTGTTTT
1 GGATTATTTAAGGTATTTT
11774580 CTATCCAAAA
Statistics
Matches: 285, Mismatches: 88, Indels: 45
0.68 0.21 0.11
Matches are distributed among these distances:
61 60 0.21
62 69 0.24
63 60 0.21
64 72 0.25
65 24 0.08
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (61 bp):
GGATTATTTAAGGTATTTTTGGCCAAAAAATACCTTAAATAATCCCATTCAATTTTTGAAA
Found at i:11774514 original size:377 final size:376
Alignment explanation
Indices: 11773779--11774592 Score: 885
Period size: 376 Copynumber: 2.2 Consensus size: 376
11773769 CTAAAAGACG
* * * * *
11773779 CCTTAAATAATCCCATTCAATTTTTTAA-AAGATTATTTAAGGCATTCTCTAGCAAAAAATATCT
1 CCTTGAATAATCCCATTCAATTTTTTAAGAGGATTATTTAAGGTATTCTCTAGCAAAAAATACCA
* * * **
11773843 TAAATAATCCTTCAAAAAAATTTTTATGGAGATTATTTAAGGCATATTTTGTCAGAAAACATGTT
66 TAAATAATCCTTCAAAAAAATTTTTATGGAGATTATTTAAGCCATATTTTGCCAAAAAACACCTT
* * *
11773908 GAATAATCCTATTAATTTTTAACCAGTATTATTTAAGGCATTTTCTAGCCAAAAATACCTTAAAT
131 GAATAATCCTATTAATTTTTAA-CAGGATTATTTAAGACATTTTCTACCCAAAAATACCTTAAAT
* * * *
11773973 AATCCTTTACAAAAAATTGTACTGGATTATTTAAAACAATTTGGCTAGAAAACGCCTTGAATAAT
195 AATCCTTTACAAAAAATTGTACTGGATTATTTAAAACAATTTGGCAAAAAAACACCTTAAATAAT
* ** * * ** ** *
11774038 CTCATTTGATGTTTTTTAGTGGATTATTTAAGATGTTTTCTACCAAAAAATGTCTTAAATAATTC
260 CCCATTCAATGTCTTTGAAAGGATTATTTAAGATGTTTTCTACCAAAAAAACTCTTAAATAATCC
* *
11774103 TTTACAAAAAATTTGTACAGGGATTATTTAAGGCATTTTTTGCCAGAAAATG
325 TTTACAAAAAATTTGTACAAGGATTATTTAAGGCATTTTTTGCCAGAAAATA
* * *
11774155 CTTTGAATAATCCCATTCAATTTTTTAAGAGGATTATTTAAGGTATGT-TTTAGCAAAACATACC
1 CCTTGAATAATCCCATTCAATTTTTTAAGAGGATTATTTAAGGTAT-TCTCTAGCAAAAAATACC
* * * * *
11774219 ATAAATAATCCTT-TAAAAAATTTTTGTGGGGATTTTTTAA-CCGT-TTTTGGCCAAAAAAACAC
65 ATAAATAATCCTTCAAAAAAATTTTTATGGAGATTATTTAAGCCATATTTT-GCC-AAAAAACAC
* * * *
11774281 CTTGAATAATGCTATTCAATTTTTTAA-AGGATTATTTAAGATATTTTTTACCCAAAAATACTTT
128 CTTGAATAATCCTATT-AA-TTTTTAACAGGATTATTTAAGACATTTTCTACCCAAAAATACCTT
** ** * * ***** *
11774345 AAATAATTTTTTTTAAAAATTTGTATGTGGATTATTTAAGGTGTTTTTGGCCAAAAAAATACCTT
191 AAATAATCCTTTACAAAAAATTGTA-CTGGATTATTTAA-AACAATTTGG-CAAAAAAACACCTT
*
11774410 AAATAATCCCATTCAAT-TCTTTGAAAGGATTATTTAAGGTGTTTTCTGA-CAAAAAACACT-TT
253 AAATAATCCCATTCAATGTCTTTGAAAGGATTATTTAAGATGTTTTCT-ACCAAAAAA-ACTCTT
* **
11774472 AAATAATCCTTTACAAAAAA-TTGTACAATGATTATTTAAGGCATTTTTTGTTAGAAAATA
316 AAATAATCCTTTACAAAAAATTTGTACAAGGATTATTTAAGGCATTTTTTGCCAGAAAATA
* * * * * *
11774532 CCTTGAATAATCCCATTTAATTTTTT-AGGGGATTATTTAAGGTGTTTTCTATCCAAAAATA
1 CCTTGAATAATCCCATTCAATTTTTTAAGAGGATTATTTAAGGTATTCTCTAGCAAAAAATA
11774593 TCTTAAATTA
Statistics
Matches: 361, Mismatches: 65, Indels: 24
0.80 0.14 0.05
Matches are distributed among these distances:
374 4 0.01
375 5 0.01
376 148 0.41
377 113 0.31
378 66 0.18
379 25 0.07
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (376 bp):
CCTTGAATAATCCCATTCAATTTTTTAAGAGGATTATTTAAGGTATTCTCTAGCAAAAAATACCA
TAAATAATCCTTCAAAAAAATTTTTATGGAGATTATTTAAGCCATATTTTGCCAAAAAACACCTT
GAATAATCCTATTAATTTTTAACAGGATTATTTAAGACATTTTCTACCCAAAAATACCTTAAATA
ATCCTTTACAAAAAATTGTACTGGATTATTTAAAACAATTTGGCAAAAAAACACCTTAAATAATC
CCATTCAATGTCTTTGAAAGGATTATTTAAGATGTTTTCTACCAAAAAAACTCTTAAATAATCCT
TTACAAAAAATTTGTACAAGGATTATTTAAGGCATTTTTTGCCAGAAAATA
Found at i:11775092 original size:119 final size:119
Alignment explanation
Indices: 11774755--11775230 Score: 514
Period size: 119 Copynumber: 4.0 Consensus size: 119
11774745 GACCATGACT
* * * * *
11774755 AAACCACAAGTCAAGACAAAGTGACCAAGA-TCGAGTCGAGG-TAAAAAATAAATGATCGGGACG
1 AAACCACGAGTCAAGATAAAGTGACCAAGACTCAAGTCGAGGCT-AAAAATAAATGATCAGGATG
** * * *
11774818 GTACCACGAATCATAAGAAATGATCTAGACTGAGTTAAGATCAAGTGA-TCGGAATG
65 AAACCACGAATCATAAGAAATGATCTGGACTGAGTCAAGATCAAATGACT-GG-ATG
* * * * * * * *
11774874 AAATCACGAGTCAAAATAAAGCGACCAAGATTGAGGTCGGAAGCTAAAAATAAATGATTAGGATG
1 AAACCACGAGTCAAGATAAAGTGACCAAGACTCAAGTC-GAGGCTAAAAATAAATGATCAGGATG
* * * *
11774939 AAATCATGAATCATAAGAAATGATCTGGATTGAGTCAAGATCAAATAACTAGGATG
65 AAACCACGAATCATAAGAAATGATCTGGACTGAGTCAAGATCAAATGACT-GGATG
* *
11774995 AAACCACGAGTCAAGATAAAGTGACCAAGACT-AAGTCGAGGCCAAAAAGAAATGATCAGGATGA
1 AAACCACGAGTCAAGATAAAGTGACCAAGACTCAAGTCGAGGCTAAAAATAAATGATCAGGATGA
* * * * **
11775059 AACCATGAATCATAAGAAATGATTTGGACTGAGTCAAAATCAAATGACTGAAACA
66 AACCACGAATCATAAGAAATGATCTGGACTGAGTCAAGATCAAATGACTG-GATG
* * * *
11775114 AAATCACGAGTCAAGATAAAGTGACCAAGAC-CAAGTCGAGGTTGAAAATAAATGATC-GGAATA
1 AAACCACGAGTCAAGATAAAGTGACCAAGACTCAAGTCGAGGCTAAAAATAAATGATCAGG-ATG
* * *
11775177 AAACCACGAATCATAAGAAATGTTCTGGACTGAGCCAAGATCAAATGAATGGAT
65 AAACCACGAATCATAAGAAATGATCTGGACTGAGTCAAGATCAAATGACTGGAT
11775231 AATGTAAGTG
Statistics
Matches: 297, Mismatches: 53, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
118 4 0.01
119 191 0.64
120 8 0.03
121 90 0.30
122 4 0.01
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.19
Consensus pattern (119 bp):
AAACCACGAGTCAAGATAAAGTGACCAAGACTCAAGTCGAGGCTAAAAATAAATGATCAGGATGA
AACCACGAATCATAAGAAATGATCTGGACTGAGTCAAGATCAAATGACTGGATG
Found at i:11775457 original size:41 final size:41
Alignment explanation
Indices: 11775411--11775503 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
11775401 GTAAAAAAAT
*
11775411 CATCTTTCAT-TAACCTGAATGCACA-TCTTTAGCAAACAAAG
1 CATCTTTCATCT-ACCTGAATGCACACT-TTTAGCAAACAAAC
*
11775452 CATCTTTCATCTACCTGAATGCACACTTTTAGCAAAGAAAC
1 CATCTTTCATCTACCTGAATGCACACTTTTAGCAAACAAAC
11775493 CATCTTTCATC
1 CATCTTTCATC
11775504 ATCCTGATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
41 46 0.96
42 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (41 bp):
CATCTTTCATCTACCTGAATGCACACTTTTAGCAAACAAAC
Found at i:11785434 original size:40 final size:39
Alignment explanation
Indices: 11785342--11785445 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 39
11785332 GTTAAGTAGA
* * *
11785342 TATAAGCAATGAAGAAAAAAAAATGAGTAATTAAGCAAG
1 TATAAGCAATGAAAAAAAAAAAATGAATAATAAAGCAAG
** *
11785381 TATAAATAGTGAAAAAGAAAAAAATGAATAATAAAGCAAG
1 TATAAGCAATGAAAAA-AAAAAAATGAATAATAAAGCAAG
11785421 TATAAGCAATGAAAAAAAATAAAAT
1 TATAAGCAATGAAAAAAAA-AAAAT
11785446 AATTTTAAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
39 15 0.28
40 39 0.72
ACGTcount: A:0.63, C:0.04, G:0.14, T:0.18
Consensus pattern (39 bp):
TATAAGCAATGAAAAAAAAAAAATGAATAATAAAGCAAG
Found at i:11786044 original size:23 final size:24
Alignment explanation
Indices: 11786018--11786063 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
11786008 TTTATTTGAA
11786018 AAAT-ATTTTTTCTATTT-TTATTG
1 AAATGATTTTTT-TATTTATTATTG
11786041 AAATGATTTTTTTATTTATTATT
1 AAATGATTTTTTTATTTATTATT
11786064 TTTTTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
AAATGATTTTTTTATTTATTATTG
Found at i:11786079 original size:29 final size:29
Alignment explanation
Indices: 11786046--11786101 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
11786036 TATTGAAATG
11786046 ATTTTTTTATT-TATTATTTTTTTAGAATT
1 ATTTTTTTATTCT-TTATTTTTTTAGAATT
* *
11786075 ATTTTTTTCTTCTTTTTTTTTTTAGAA
1 ATTTTTTTATTCTTTATTTTTTTAGAA
11786102 ATAAAATGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (29 bp):
ATTTTTTTATTCTTTATTTTTTTAGAATT
Found at i:11786643 original size:10 final size:10
Alignment explanation
Indices: 11786628--11786653 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11786618 AAACAATTTG
11786628 AAAAAAATCC
1 AAAAAAATCC
11786638 AAAAAAATCC
1 AAAAAAATCC
11786648 AAAAAA
1 AAAAAA
11786654 CTTCCCAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.15, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATCC
Found at i:11787169 original size:3 final size:3
Alignment explanation
Indices: 11787155--11787207 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
11787145 AAAAAGGAAA
* *
11787155 AAT AAT AA- AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT CA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11787201 AAT AAT A
1 AAT AAT A
11787208 GTTACATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 3 0.07
3 41 0.93
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11793884 original size:22 final size:23
Alignment explanation
Indices: 11793846--11793890 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11793836 CTAATAATAT
*
11793846 TTGCATTACATGTATTACATTTA
1 TTGCATTACATGAATTACATTTA
*
11793869 TTGCATT-CATGAATTACGTTTA
1 TTGCATTACATGAATTACATTTA
11793891 ATATATTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (23 bp):
TTGCATTACATGAATTACATTTA
Found at i:11794170 original size:50 final size:50
Alignment explanation
Indices: 11794088--11794305 Score: 217
Period size: 50 Copynumber: 4.3 Consensus size: 50
11794078 TAAGAAAAAA
* **
11794088 AAGATTTTTAAAAGTGTCATAGTCTCTATTTAGAGGGAGCCATTTTCAAGT
1 AAGATTTTT-AAAGTGTCATAGCCTCTATTTAGAGGGAGCCATTTTCAAAC
* * *
11794139 AAGATTTTTAAAGTTTCATAGCCTCTGTTTAGGGGGAGCCA-TTTCAAAC
1 AAGATTTTTAAAGTGTCATAGCCTCTATTTAGAGGGAGCCATTTTCAAAC
* * *
11794188 AAGTTTTTTTTAAGTGTCAAAGCCTCTATTTA-AGAGGAGCCATTTTCAAAC
1 AAG-ATTTTTAAAGTGTCATAGCCTCTATTTAGAG-GGAGCCATTTTCAAAC
* * * *
11794239 AAGATTTTTAAAAGATTTTCAAAGCCCCTATTTAG-GGAAAGCCATTTTCAAAC
1 AAGATTTTT-AAAG--TGTCATAGCCTCTATTTAGAGG-GAGCCATTTTCAAAC
*
11794292 AAGAACTTTTAAAG
1 AAG-ATTTTTAAAG
11794306 CTTCAATGCT
Statistics
Matches: 140, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
49 10 0.07
50 63 0.45
51 23 0.16
52 1 0.01
53 38 0.27
54 5 0.04
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (50 bp):
AAGATTTTTAAAGTGTCATAGCCTCTATTTAGAGGGAGCCATTTTCAAAC
Found at i:11794215 original size:100 final size:103
Alignment explanation
Indices: 11794099--11794294 Score: 265
Period size: 100 Copynumber: 1.9 Consensus size: 103
11794089 AGATTTTTAA
* * ** *
11794099 AAGTGTCATAGTCTCTATTT-AGAGGGAGCCATTTTCAAGTAAGATTTTT-AAAG-TTTCATAGC
1 AAGTGTCAAAGCCTCTATTTAAGA-GGAGCCATTTTCAAACAAGATTTTTAAAAGATTTCAAAGC
* * **
11794161 CTCTGTTTAGGGGGAGCCA-TTTCAAACAAGTTTTTTTT
65 CCCTATTTAGGGAAAGCCATTTTCAAACAAGTTTTTTTT
11794199 AAGTGTCAAAGCCTCTATTTAAGAGGAGCCATTTTCAAACAAGATTTTTAAAAGATTTTCAAAGC
1 AAGTGTCAAAGCCTCTATTTAAGAGGAGCCATTTTCAAACAAGATTTTTAAAAGA-TTTCAAAGC
11794264 CCCTATTTAGGGAAAGCCATTTTCAAACAAG
65 CCCTATTTAGGGAAAGCCATTTTCAAACAAG
11794295 AACTTTTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
100 41 0.50
101 7 0.09
103 23 0.28
104 11 0.13
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (103 bp):
AAGTGTCAAAGCCTCTATTTAAGAGGAGCCATTTTCAAACAAGATTTTTAAAAGATTTCAAAGCC
CCTATTTAGGGAAAGCCATTTTCAAACAAGTTTTTTTT
Found at i:11801432 original size:21 final size:21
Alignment explanation
Indices: 11801406--11801446 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11801396 CAAGAAAGTA
* *
11801406 AAGGAATTTGAAATTTGCATT
1 AAGGAACTTGAAATTCGCATT
11801427 AAGGAACTTGAAATTCGCAT
1 AAGGAACTTGAAATTCGCAT
11801447 GAAAATTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (21 bp):
AAGGAACTTGAAATTCGCATT
Found at i:11809098 original size:12 final size:12
Alignment explanation
Indices: 11809081--11809105 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11809071 TTAAATTATA
11809081 AATAATTTTTTT
1 AATAATTTTTTT
11809093 AATAATTTTTTT
1 AATAATTTTTTT
11809105 A
1 A
11809106 TATATTATTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATAATTTTTTT
Found at i:11809485 original size:2 final size:2
Alignment explanation
Indices: 11809478--11809509 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11809468 TCCTTCCTCG
*
11809478 CT CT CT CT CT CT GT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11809510 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11810665 original size:29 final size:25
Alignment explanation
Indices: 11810631--11810692 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 25
11810621 AACTTATTAT
*
11810631 TTTATTTAAATATATTTTTATATTTTTA
1 TTTATTTAAATA-AGTTTT-TA-TTTTA
*
11810659 TTGTATTCAAATAAGTTTTTATTTTA
1 TT-TATTTAAATAAGTTTTTATTTTA
11810685 TTTATTTA
1 TTTATTTA
11810693 TCTTTAGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 5 0.17
26 7 0.23
27 2 0.07
28 7 0.23
29 9 0.30
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (25 bp):
TTTATTTAAATAAGTTTTTATTTTA
Found at i:11810788 original size:30 final size:30
Alignment explanation
Indices: 11810744--11810810 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
11810734 TGTGAAAAGC
* *
11810744 TTATTTAGATATAAATTAAAAACTAAAAAT
1 TTATTTGGAAATAAATTAAAAACTAAAAAT
** *
11810774 TTATTTGGAAATAAATTAAAATTTAAAAGT
1 TTATTTGGAAATAAATTAAAAACTAAAAAT
11810804 TTATTTG
1 TTATTTG
11810811 AGTACAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (30 bp):
TTATTTGGAAATAAATTAAAAACTAAAAAT
Found at i:11811549 original size:18 final size:18
Alignment explanation
Indices: 11811526--11811576 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11811516 ATACAAATAG
* *
11811526 ACGTTTAATATGTTTAAT
1 ACGTTTAATATATTTAAC
11811544 ACGTTTAATATATTTAAC
1 ACGTTTAATATATTTAAC
*
11811562 ACGTTTAACATATTT
1 ACGTTTAATATATTT
11811577 TTTATATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (18 bp):
ACGTTTAATATATTTAAC
Found at i:11811571 original size:9 final size:9
Alignment explanation
Indices: 11811526--11811569 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
11811516 ATACAAATAG
11811526 ACGTTTAAT
1 ACGTTTAAT
*
11811535 ATGTTTAAT
1 ACGTTTAAT
11811544 ACGTTTAAT
1 ACGTTTAAT
** *
11811553 ATATTTAAC
1 ACGTTTAAT
11811562 ACGTTTAA
1 ACGTTTAA
11811570 CATATTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (9 bp):
ACGTTTAAT
Found at i:11811756 original size:11 final size:11
Alignment explanation
Indices: 11811740--11811769 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11811730 TTTCATATTA
11811740 ATAATATAAAT
1 ATAATATAAAT
11811751 ATAATATAAAT
1 ATAATATAAAT
11811762 ATTAATAT
1 A-TAATAT
11811770 TAGTGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:11812897 original size:39 final size:39
Alignment explanation
Indices: 11812811--11812912 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
11812801 CTTCTATAGC
* * * * *
11812811 TTGGTAAGATTTAATTTAAGATACAAATCCTCTAATAGT
1 TTGGTAAGATATAATTTGATATACAAATCCTCCAATAAT
**
11812850 TTAATAAGATATAATTTGATATACAAATCCTCCAATAAT
1 TTGGTAAGATATAATTTGATATACAAATCCTCCAATAAT
* *
11812889 TTGGTAAGATCAAAATATGATATA
1 TTGGTAAGAT-ATAATTTGATATA
11812913 ATAATAATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 40 0.78
40 11 0.22
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (39 bp):
TTGGTAAGATATAATTTGATATACAAATCCTCCAATAAT
Found at i:11813317 original size:24 final size:25
Alignment explanation
Indices: 11813290--11813341 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
11813280 CAATTAAAAT
*
11813290 AAATACATAA-TAAACAAA-AAAACA
1 AAATAAATAAGTAAA-AAATAAAACA
*
11813314 AAATAAATAAGTAAAAAATGAAACA
1 AAATAAATAAGTAAAAAATAAAACA
11813339 AAA
1 AAA
11813342 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.13
Consensus pattern (25 bp):
AAATAAATAAGTAAAAAATAAAACA
Found at i:11814938 original size:91 final size:91
Alignment explanation
Indices: 11814760--11814927 Score: 239
Period size: 91 Copynumber: 1.8 Consensus size: 91
11814750 TCATACCCGG
* * *
11814760 AGGTCTTACAAATCTCAAATCTAAAATAGATTCAGCTTAAAAGACTTATGAATCTTATCTGAAGG
1 AGGTCTTACAAATCTCAAATATAAAATAGATTCAGCTCAAAAGACTTATAAATCTTATCTGAAGG
11814825 ACTTAGAGATTACACTCAAAGGTAAA
66 ACTTAGAGATTACACTCAAAGGTAAA
* * * * *
11814851 AGGTCTTATAAATCTCGACTATAAAATAGATTCAGCTCGAAAGACTTATAAATCTT-GCTTGAAG
1 AGGTCTTACAAATCTCAAATATAAAATAGATTCAGCTCAAAAGACTTATAAATCTTATC-TGAAG
*
11814915 GACTTGGAGATTA
65 GACTTAGAGATTA
11814928 TGTTTGAAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
90 1 0.01
91 66 0.99
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (91 bp):
AGGTCTTACAAATCTCAAATATAAAATAGATTCAGCTCAAAAGACTTATAAATCTTATCTGAAGG
ACTTAGAGATTACACTCAAAGGTAAA
Found at i:11821342 original size:46 final size:46
Alignment explanation
Indices: 11821275--11821366 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
11821265 TACTCTCGGG
11821275 CCAGCTCAACTTGATCTTATTCCATGTAAACTACCTTGTTTCTGCT
1 CCAGCTCAACTTGATCTTATTCCATGTAAACTACCTTGTTTCTGCT
* *
11821321 CCAGCTCAACTTGCTCTTATTCCATGTAAACTATCTTGTTTCTGCT
1 CCAGCTCAACTTGATCTTATTCCATGTAAACTACCTTGTTTCTGCT
11821367 TCACATCTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (46 bp):
CCAGCTCAACTTGATCTTATTCCATGTAAACTACCTTGTTTCTGCT
Found at i:11830121 original size:44 final size:44
Alignment explanation
Indices: 11830071--11830157 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
11830061 ATCTTTTATA
* * *
11830071 TTTGAATCAGATTTAAATGTGACGGTGATGTCGGTGTTGAATGC
1 TTTGAATCAGATTTAAAGGTGACGGTGATATCGGTGTTAAATGC
*
11830115 TTTGAATCAGATTTAAAGGTTACGGTGATATCGGTGTTAAATG
1 TTTGAATCAGATTTAAAGGTGACGGTGATATCGGTGTTAAATG
11830158 AAGACAGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.37
Consensus pattern (44 bp):
TTTGAATCAGATTTAAAGGTGACGGTGATATCGGTGTTAAATGC
Found at i:11841202 original size:24 final size:24
Alignment explanation
Indices: 11841156--11841202 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11841146 TTGATAATTG
* *
11841156 CATTTGCATCATGGTTTGGACATA
1 CATTTGCATCATGGTATGAACATA
11841180 CATTTGCATCAT-GTAATGAACAT
1 CATTTGCATCATGGT-ATGAACAT
11841203 TTGAATCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (24 bp):
CATTTGCATCATGGTATGAACATA
Found at i:11841546 original size:21 final size:22
Alignment explanation
Indices: 11841492--11841546 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
11841482 GGACATAATC
*
11841492 TTTAAGAATTTTCAAATGCGAAT
1 TTTAA-AATTTTCAAATGAGAAT
* *
11841515 TTTTAAGTTTT-AAATGAGAAT
1 TTTAAAATTTTCAAATGAGAAT
11841536 TTTAAAATTTT
1 TTTAAAATTTT
11841547 TGAATGTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 18 0.67
22 5 0.19
23 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (22 bp):
TTTAAAATTTTCAAATGAGAAT
Found at i:11841635 original size:21 final size:21
Alignment explanation
Indices: 11841575--11841651 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 21
11841565 AATTTTAGCC
*
11841575 TTGAGATTTTAAATGTGAATCT
1 TTGA-ATTTTAAATGAGAATCT
*
11841597 CTAAGAATTTTCAAATGAGAATCT
1 -T-TGAATTTT-AAATGAGAATCT
11841621 TTGAATTTTAAATGAGAAGT-T
1 TTGAATTTTAAATGAGAA-TCT
11841642 TTGAAATTTT
1 TTG-AATTTT
11841652 GAATATAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 13 0.28
22 14 0.30
23 7 0.15
24 13 0.28
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (21 bp):
TTGAATTTTAAATGAGAATCT
Found at i:11841740 original size:18 final size:18
Alignment explanation
Indices: 11841704--11841742 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11841694 GAATCACTAA
*
11841704 AAAATTCTTGCAAATCTG
1 AAAATTCTTGCAAACCTG
**
11841722 AAAATTCTTGTGAACCTG
1 AAAATTCTTGCAAACCTG
11841740 AAA
1 AAA
11841743 TCCTTGAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (18 bp):
AAAATTCTTGCAAACCTG
Found at i:11841948 original size:32 final size:32
Alignment explanation
Indices: 11841906--11841978 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
11841896 ACGAATCTAA
* * * * *
11841906 AAATTTTTGTGACCCTGAAATCTTTGATAATC
1 AAATTCTTGTGAACCTAAAATCCTTGAGAATC
11841938 AAATTCTTGTGAACCTAAAATCCTTGAGAATC
1 AAATTCTTGTGAACCTAAAATCCTTGAGAATC
11841970 AAATTCTTG
1 AAATTCTTG
11841979 CCAATTTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (32 bp):
AAATTCTTGTGAACCTAAAATCCTTGAGAATC
Found at i:11842026 original size:17 final size:16
Alignment explanation
Indices: 11841987--11842027 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11841977 TGCCAATTTG
*
11841987 AAATTCTTATGAATCA
1 AAATTCTTATGAAGCA
*
11842003 TAATTCTTATGAAGCTA
1 AAATTCTTATGAAGC-A
11842020 AAATTCTT
1 AAATTCTT
11842028 GGAAAACTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (16 bp):
AAATTCTTATGAAGCA
Found at i:11842071 original size:18 final size:18
Alignment explanation
Indices: 11842050--11842127 Score: 86
Period size: 18 Copynumber: 4.4 Consensus size: 18
11842040 AAGTTTTGCG
11842050 AATTCTTACGAATTTGAA
1 AATTCTTACGAATTTGAA
* *
11842068 AATTCTTATGAATTTGAT
1 AATTCTTACGAATTTGAA
* **
11842086 CATTCTTACGAAGCT-AA
1 AATTCTTACGAATTTGAA
* *
11842103 AATTTTTACAAATTTGAA
1 AATTCTTACGAATTTGAA
11842121 AATTCTT
1 AATTCTT
11842128 TGAATTTCTT
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
17 11 0.24
18 35 0.76
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (18 bp):
AATTCTTACGAATTTGAA
Found at i:11842126 original size:35 final size:36
Alignment explanation
Indices: 11842050--11842127 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 36
11842040 AAGTTTTGCG
** ** *
11842050 AATTCTTACGAATTTGAAAATTCTTATGAATTTGAT
1 AATTCTTACGAAGCTGAAAATTCTTACAAATTTGAA
* *
11842086 CATTCTTACGAAGCT-AAAATTTTTACAAATTTGAA
1 AATTCTTACGAAGCTGAAAATTCTTACAAATTTGAA
11842121 AATTCTT
1 AATTCTT
11842128 TGAATTTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (36 bp):
AATTCTTACGAAGCTGAAAATTCTTACAAATTTGAA
Found at i:11842167 original size:21 final size:19
Alignment explanation
Indices: 11842141--11842181 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11842131 ATTTCTTGTG
11842141 AATCTTTAAATTCTTTTACAA
1 AATC-TTAAA-TCTTTTACAA
*
11842162 AATCTTGAATCTTTTACAA
1 AATCTTAAATCTTTTACAA
11842181 A
1 A
11842182 CGTTTGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 4 0.21
21 4 0.21
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (19 bp):
AATCTTAAATCTTTTACAA
Found at i:11842251 original size:18 final size:18
Alignment explanation
Indices: 11842223--11842286 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
11842213 AATCTTGAAA
11842223 AATCTTTGAATTCTTTATG
1 AATC-TTGAATTCTTTATG
*
11842242 AATCTTGAA-TCTTT-TCAA
1 AATCTTGAATTCTTTAT--G
*
11842260 AATTTTGAATTCTTTATG
1 AATCTTGAATTCTTTATG
11842278 AATCTTGAA
1 AATCTTGAA
11842287 ATTTTTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 5 0.14
18 21 0.57
19 9 0.24
20 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.48
Consensus pattern (18 bp):
AATCTTGAATTCTTTATG
Found at i:11842328 original size:18 final size:18
Alignment explanation
Indices: 11842242--11842328 Score: 63
Period size: 18 Copynumber: 4.7 Consensus size: 18
11842232 ATTCTTTATG
11842242 AATCTTGAATCTTTT-CAA
1 AATCTTGAATCTTTTGC-A
*
11842260 AATTTTGAATTCTTTATG--
1 AATCTTGAA-TCTTT-TGCA
* *
11842278 AATCTTGAAATTTTTTGTA
1 AATCTTG-AATCTTTTGCA
* *
11842297 AACCTTTGAGTCTTTTGCA
1 AATC-TTGAATCTTTTGCA
11842316 AATCTTGAATCTT
1 AATCTTGAATCTT
11842329 GTGAATCTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 2 0.04
18 26 0.49
19 21 0.40
20 4 0.08
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (18 bp):
AATCTTGAATCTTTTGCA
Found at i:11845238 original size:30 final size:30
Alignment explanation
Indices: 11845202--11845258 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11845192 TTTAATATGA
11845202 AAAATTGTTTGAGTTTTTAGA-ATCTTAGAT
1 AAAATTGTTTGAGTTTTTA-ATATCTTAGAT
*
11845232 AAAATTGTTTGATTTTTTAATATCTTA
1 AAAATTGTTTGAGTTTTTAATATCTTA
11845259 CATAGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (30 bp):
AAAATTGTTTGAGTTTTTAATATCTTAGAT
Found at i:11845440 original size:21 final size:21
Alignment explanation
Indices: 11845392--11845443 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11845382 GTAATTTTTT
11845392 AAATAAAATTATTTGATAAAC
1 AAATAAAATTATTTGATAAAC
* * *
11845413 AACTAAAATTATTT-ATTAAG
1 AAATAAAATTATTTGATAAAC
11845433 AAGATAAAATT
1 AA-ATAAAATT
11845444 CATATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (21 bp):
AAATAAAATTATTTGATAAAC
Found at i:11846139 original size:17 final size:18
Alignment explanation
Indices: 11846107--11846140 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11846097 TGATACCGAC
11846107 ATAAAATTAATGTAAAAA
1 ATAAAATTAATGTAAAAA
*
11846125 ATAAAA-TAATTTAAAA
1 ATAAAATTAATGTAAAA
11846141 TTTTAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAAAATTAATGTAAAAA
Found at i:11848085 original size:24 final size:23
Alignment explanation
Indices: 11848050--11848094 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
11848040 TTTTAAATAT
*
11848050 ATATTTTAATTAAATTAAATAAAA
1 ATATTTTAATT-AATAAAATAAAA
*
11848074 ATATTTTTATTAATAAAATAA
1 ATATTTTAATTAATAAAATAA
11848095 TATTACGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATTTTAATTAATAAAATAAAA
Found at i:11848650 original size:19 final size:20
Alignment explanation
Indices: 11848610--11848651 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11848600 GAAATGAACA
* *
11848610 AAAGGGGGAAATATTGAAAT
1 AAAGGGAGAAATATTAAAAT
11848630 AAAGGGAGAAATA-TAAAAT
1 AAAGGGAGAAATATTAAAAT
11848649 AAA
1 AAA
11848652 AATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.17
Consensus pattern (20 bp):
AAAGGGAGAAATATTAAAAT
Found at i:11849202 original size:15 final size:15
Alignment explanation
Indices: 11849169--11849201 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11849159 ATTAACTCCT
11849169 AAAATAAATATATAA
1 AAAATAAATATATAA
*
11849184 AAAATTAATAT-TAA
1 AAAATAAATATATAA
11849198 AAAA
1 AAAA
11849202 AATTTACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAATATATAA
Found at i:11849533 original size:20 final size:18
Alignment explanation
Indices: 11849493--11849529 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11849483 ATATCCATAA
*
11849493 AAATTATATCAATAATTT
1 AAATTATATAAATAATTT
11849511 AAATTATATAAAT-ATTT
1 AAATTATATAAATAATTT
11849528 AA
1 AA
11849530 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTATATAAATAATTT
Found at i:11849633 original size:16 final size:18
Alignment explanation
Indices: 11849612--11849646 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
11849602 TAAAATTATT
11849612 TAATTT-ATTTT-TTTTA
1 TAATTTCATTTTATTTTA
11849628 TAATTTCATTTTATTTTA
1 TAATTTCATTTTATTTTA
11849646 T
1 T
11849647 TATATCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TAATTTCATTTTATTTTA
Found at i:11850499 original size:67 final size:66
Alignment explanation
Indices: 11850389--11850521 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 66
11850379 TGAGTGCTTC
*
11850389 GATGCCCGGTAATGACAACGGATCTAAGCCGTAGGATTGAAGCTTTACGACGATGAATGATTAAT
1 GATGCCCGGTAATGACAACGGATCTAAGCCATAGGATTGAAGCTTTACGACGATGAATGATTAAT
11850454 T
66 T
* * *
11850455 GATGCCCGGTAATGACAAACGGATCTAAGCCATAGTATTGAAGCTTTTCGATGATGAATGATTAA
1 GATGCCCGGTAATGAC-AACGGATCTAAGCCATAGGATTGAAGCTTTACGACGATGAATGATTAA
11850520 TT
65 TT
11850522 CAGATGACAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
66 16 0.26
67 46 0.74
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (66 bp):
GATGCCCGGTAATGACAACGGATCTAAGCCATAGGATTGAAGCTTTACGACGATGAATGATTAAT
T
Found at i:11853149 original size:47 final size:47
Alignment explanation
Indices: 11853080--11853169 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
11853070 AGTATATCTT
*
11853080 CAATCTATTTTTTTGTTCTACCATTCTTTGATGATTATGAAAAACTC
1 CAATCTACTTTTTTGTTCTACCATTCTTTGATGATTATGAAAAACTC
11853127 CAATCTACTTTTTTGTTCTACCATTCTTTGATGATTATGAAAA
1 CAATCTACTTTTTTGTTCTACCATTCTTTGATGATTATGAAAA
11853170 TATGGTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (47 bp):
CAATCTACTTTTTTGTTCTACCATTCTTTGATGATTATGAAAAACTC
Found at i:11855776 original size:3 final size:3
Alignment explanation
Indices: 11855763--11855820 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
11855753 TATTACCACG
*
11855763 TTA TTA CTA 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
11855811 TTA TTA TTA T
1 TTA TTA TTA T
11855821 AAAGGATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11859699 original size:145 final size:146
Alignment explanation
Indices: 11859337--11859739 Score: 450
Period size: 146 Copynumber: 2.8 Consensus size: 146
11859327 TTTTAAAACA
* * * ** * *
11859337 CAAAAAATCATGAAATATTATAAAATTGAGATCTGAAAATTTTCATGAAAATTTGATCTTGGAAA
1 CAAAAAATTATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATACGAGCTCGGAAA
* * * * * * ** * *
11859402 GATTAAATTACAAAATTACCCTTATAAGGTTATTTTGGTAATTACACATTTCTCAGGGCAATACT
66 GGTCAAATTATAAAAATACCCTTATAGGGGTATTTTGGTAATTTTACACTTATCAGGGCAATACT
11859467 ATGATTTAAAATGCAT
131 ATGATTTAAAATGCAT
* * *
11859483 CAAAAAATTATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCCGAGTTCGAAAA
1 CAAAAAATTATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATACGAGCTCGGAAA
* * *
11859548 GGTCAAATTATAAAAATACCCTTATAGGGGTATTTTGGTAATTTTACACTTATTATGG-TATAGC
66 GGTCAAATTATAAAAATACCCTTATAGGGGTATTTTGGTAATTTTACACTTATCAGGGCAATA-C
* *
11859612 TGTGATTTCAAATGCA-
130 TATGATTTAAAATGCAT
* * * * * * *
11859628 CCAAAATTTATTAAATATTATGAAATTAAGATCTGAAAAGTTTCATAAAAATACAAGCTCGGGAA
1 CAAAAAATTATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATACGAGCTCGGAAA
* ** *
11859693 GGTCAAATTATGAAAATATCTTTTATAGGGGTATTTTAGTAATTTTA
66 GGTCAAATTATAAAAATA-CCCTTATAGGGGTATTTTGGTAATTTTA
11859740 TATTTTTCTC
Statistics
Matches: 217, Mismatches: 38, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
145 75 0.35
146 142 0.65
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (146 bp):
CAAAAAATTATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATACGAGCTCGGAAA
GGTCAAATTATAAAAATACCCTTATAGGGGTATTTTGGTAATTTTACACTTATCAGGGCAATACT
ATGATTTAAAATGCAT
Found at i:11862789 original size:25 final size:25
Alignment explanation
Indices: 11862756--11862807 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
11862746 CGTATTGTGT
*
11862756 TTGACACATGTAAT-GACACGAATTA
1 TTGAAACATG-AATAGACACGAATTA
*
11862781 TTGAAACATGAATACGACATGAATTA
1 TTGAAACATGAATA-GACACGAATTA
11862807 T
1 T
11862808 AAAACGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 9 0.39
26 11 0.48
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (25 bp):
TTGAAACATGAATAGACACGAATTA
Found at i:11865360 original size:15 final size:15
Alignment explanation
Indices: 11865340--11865401 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
11865330 TGTATGAGTC
11865340 AAAAACATATATATT
1 AAAAACATATATATT
11865355 AAAAAC--ATATATT
1 AAAAACATATATATT
** * *
11865368 AAAAATGTA-AGAGTC
1 AAAAACATATATA-TT
11865383 AAAAACATATATATT
1 AAAAACATATATATT
11865398 AAAA
1 AAAA
11865402 TAAATGCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
13 12 0.33
14 2 0.06
15 20 0.56
16 2 0.06
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (15 bp):
AAAAACATATATATT
Found at i:11865366 original size:13 final size:13
Alignment explanation
Indices: 11865348--11865372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11865338 TCAAAAACAT
11865348 ATATATTAAAAAC
1 ATATATTAAAAAC
11865361 ATATATTAAAAA
1 ATATATTAAAAA
11865373 TGTAAGAGTC
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATATTAAAAAC
Found at i:11866013 original size:21 final size:21
Alignment explanation
Indices: 11865989--11866040 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
11865979 TTAAAGATAA
*
11865989 TAAAAGTCAACCTTGAAAGTT
1 TAAAAGTCAACATTGAAAGTT
* *
11866010 TAAAAGTTAGCATTGAAAGTT
1 TAAAAGTCAACATTGAAAGTT
*
11866031 TAAAAATCAA
1 TAAAAGTCAA
11866041 TCATCCACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (21 bp):
TAAAAGTCAACATTGAAAGTT
Found at i:11866280 original size:17 final size:17
Alignment explanation
Indices: 11866258--11866326 Score: 54
Period size: 18 Copynumber: 4.2 Consensus size: 17
11866248 TGTAATATTA
11866258 ATATTTATATACTATAT
1 ATATTTATATACTATAT
* * *
11866275 ATATTTTTTATATTTTAT
1 ATA-TTTATATACTATAT
* *
11866293 ATTTTTTTATAC-ATA-
1 ATATTTATATACTATAT
*
11866308 ATATTAATATA-TATAT
1 ATATTTATATACTATAT
11866324 ATA
1 ATA
11866327 CCACATTTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
15 11 0.28
16 5 0.12
17 11 0.28
18 13 0.32
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTATATACTATAT
Found at i:11866327 original size:58 final size:58
Alignment explanation
Indices: 11866213--11866324 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 58
11866203 ATTTCAAAAG
**
11866213 ATATATATTTTAAATATTTTTATATATTTGTGATATGTAATATTAATATTTATATACT
1 ATATATATTTTAAATATTTTTATATATTTGTGATACATAATATTAATATTTATATACT
** * * *
11866271 ATATATATTTTTTATA-TTTTATAT-TTTTTTATACATAATATTAATATATATATA
1 ATATATATTTTAAATATTTTTATATATTTGTGATACATAATATTAATATTTATATA
11866325 TACCACATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 25 0.53
57 8 0.17
58 14 0.30
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (58 bp):
ATATATATTTTAAATATTTTTATATATTTGTGATACATAATATTAATATTTATATACT
Found at i:11867208 original size:27 final size:29
Alignment explanation
Indices: 11867163--11867218 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 29
11867153 TTAAGTTTAT
*
11867163 ATTATTATTTTAAACTCTTTTTAATAGAAA
1 ATTATTATTTTAAACTCTTATT-ATAGAAA
11867193 ATTATT-TTTT-AA-TCTTATTATAGAAA
1 ATTATTATTTTAAACTCTTATTATAGAAA
11867219 GTTACAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 6 0.24
28 2 0.08
29 4 0.16
30 6 0.24
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (29 bp):
ATTATTATTTTAAACTCTTATTATAGAAA
Found at i:11867315 original size:12 final size:11
Alignment explanation
Indices: 11867279--11867336 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 11
11867269 TATACATTAC
* *
11867279 TAATATATATA
1 TAATATAAATT
11867290 TATATATAAATT
1 TA-ATATAAATT
11867302 TAATATAAATTT
1 TAATATAAA-TT
*
11867314 TAATATATGCATT
1 TAATATA--AATT
11867327 TAATATAAAT
1 TAATATAAAT
11867337 GTATACATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 11 0.28
12 18 0.46
13 9 0.23
14 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (11 bp):
TAATATAAATT
Found at i:11867939 original size:25 final size:25
Alignment explanation
Indices: 11867911--11867959 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11867901 ATTGTCAGGT
*
11867911 CTAACATACATGTTTAGTTTGTAAA
1 CTAACATACATGTTCAGTTTGTAAA
11867936 CTAACATACATGTTCAGTTTGTAA
1 CTAACATACATGTTCAGTTTGTAA
11867960 TATAGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (25 bp):
CTAACATACATGTTCAGTTTGTAAA
Found at i:11868158 original size:20 final size:22
Alignment explanation
Indices: 11868112--11868163 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
11868102 ACCCTAAATT
*
11868112 TCAACCTTAAATCCCAAATCCC
1 TCAACCATAAATCCCAAATCCC
*
11868134 -AAACCATAAAT-CCAAA-CCC
1 TCAACCATAAATCCCAAATCCC
*
11868153 TCAACCCTAAA
1 TCAACCATAAA
11868164 CTACCATCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 13 0.52
21 9 0.36
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.17
Consensus pattern (22 bp):
TCAACCATAAATCCCAAATCCC
Found at i:11868179 original size:19 final size:19
Alignment explanation
Indices: 11868155--11868220 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
11868145 CCAAACCCTC
11868155 AACCCTAAACTACCATCCA
1 AACCCTAAACTACCATCCA
* *
11868174 AACCCTAAACCATCA-CCA
1 AACCCTAAACTACCATCCA
* *
11868192 GAACCCTAAGCTACTAT-CA
1 -AACCCTAAACTACCATCCA
*
11868211 AACACTAAAC
1 AACCCTAAAC
11868221 CAAACCTTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
18 11 0.30
19 26 0.70
ACGTcount: A:0.44, C:0.38, G:0.03, T:0.15
Consensus pattern (19 bp):
AACCCTAAACTACCATCCA
Found at i:11868270 original size:19 final size:18
Alignment explanation
Indices: 11868210--11868343 Score: 101
Period size: 19 Copynumber: 7.3 Consensus size: 18
11868200 AGCTACTATC
* *
11868210 AAACACTAAACCAAACCTT
1 AAACCCTAAA-CAAACCCT
*
11868229 AAAACCTAAACAAAACCCT
1 AAACCCTAAAC-AAACCCT
11868248 AAACCCTAAACAAAACCCT
1 AAACCCTAAAC-AAACCCT
* **
11868267 AAACTC-ATTCAAA-CCT
1 AAACCCTAAACAAACCCT
* *
11868283 AAACCCTAAACCAACCCA
1 AAACCCTAAACAAACCCT
* * *
11868301 AAACCTTAAGTCAAACCCC
1 AAACCCTAA-ACAAACCCT
*
11868320 AAACCCTAAACTAGACCCT
1 AAACCCTAAAC-AAACCCT
11868339 AAACC
1 AAACC
11868344 TACCCTAAAC
Statistics
Matches: 90, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
16 8 0.09
17 7 0.08
18 14 0.16
19 61 0.68
ACGTcount: A:0.49, C:0.36, G:0.01, T:0.13
Consensus pattern (18 bp):
AAACCCTAAACAAACCCT
Found at i:11871928 original size:34 final size:32
Alignment explanation
Indices: 11871902--11871966 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
11871892 ACAAATAAAA
*
11871902 AATAATAGTAATAATATATATAAAACAAATAATAA
1 AATAATA-T-ATAAAATA-ATAAAACAAATAATAA
*
11871937 TATAATATATAAAATAATAAAA-AAATAATA
1 AATAATATATAAAATAATAAAACAAATAATA
11871967 CAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 8 0.29
32 6 0.21
33 7 0.25
34 1 0.04
35 6 0.21
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (32 bp):
AATAATATATAAAATAATAAAACAAATAATAA
Found at i:11871932 original size:24 final size:25
Alignment explanation
Indices: 11871896--11871956 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
11871886 AAAAAAACAA
*
11871896 ATAAAAAATAATAGTAATA-ATATAT
1 ATAAAAAATAATAATAATATA-ATAT
*
11871921 ATAAAACA-AATAATAATATAATAT
1 ATAAAAAATAATAATAATATAATAT
11871945 ATAAAATAATAA
1 ATAAAA-AATAA
11871957 AAAAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 19 0.63
25 9 0.30
26 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAAAAAATAATAATAATATAATAT
Found at i:11871963 original size:20 final size:19
Alignment explanation
Indices: 11871928--11871978 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
11871918 TATATAAAAC
* *
11871928 AAATAATAATATAATATATA
1 AAATAATAAAAAAATA-ATA
11871948 AAATAATAAAAAAATAATA
1 AAATAATAAAAAAATAATA
*
11871967 CAA-AATAAAAAA
1 AAATAATAAAAAA
11871979 GTTTGGCCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 9 0.32
19 5 0.18
20 14 0.50
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAATAAAAAAATAATA
Found at i:11872398 original size:4 final size:4
Alignment explanation
Indices: 11872389--11872413 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11872379 GTCGTTTATG
11872389 CATT CATT CATT CATT CATT CATT C
1 CATT CATT CATT CATT CATT CATT C
11872414 TTCCATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:11875395 original size:21 final size:22
Alignment explanation
Indices: 11875370--11875411 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11875360 TCCACTTAGA
11875370 GAAAAGAAAAAGGGAA-AGAAT
1 GAAAAGAAAAAGGGAAGAGAAT
* *
11875391 GAAAAGGAAAAGTGAAGAGAA
1 GAAAAGAAAAAGGGAAGAGAA
11875412 AAAGAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (22 bp):
GAAAAGAAAAAGGGAAGAGAAT
Found at i:11875425 original size:5 final size:6
Alignment explanation
Indices: 11875408--11875500 Score: 64
Period size: 6 Copynumber: 14.8 Consensus size: 6
11875398 AAAAGTGAAG
** * *
11875408 AGAAAA AGAAAA AGAAAAA AGTTAA AGAAGAA AGAACAA ATAAAA AAAAAGA
1 AGAAAA AGAAAA AG-AAAA AGAAAA AGAA-AA AGAA-AA AGAAAA AGAAA-A
* *
11875460 AGAACAA AGAAAA AG--AA TGAAAA AGGAAA AGAAAA GAGAAA
1 AGAA-AA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAAA
11875501 TGAATGGGTG
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
4 3 0.04
6 33 0.49
7 31 0.46
8 1 0.01
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.04
Consensus pattern (6 bp):
AGAAAA
Found at i:11875474 original size:16 final size:16
Alignment explanation
Indices: 11875449--11875492 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
11875439 AAGAACAAAT
11875449 AAAA-AAAAAGAA-GA
1 AAAAGAAAAAGAATGA
11875463 ACAAAGAAAAAGAATGA
1 A-AAAGAAAAAGAATGA
*
11875480 AAAAGGAAAAGAA
1 AAAAGAAAAAGAA
11875493 AAGAGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 19 0.73
17 3 0.12
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAGAATGA
Found at i:11876949 original size:83 final size:83
Alignment explanation
Indices: 11876775--11876933 Score: 309
Period size: 83 Copynumber: 1.9 Consensus size: 83
11876765 ATTCTCCTAA
*
11876775 AAATTTAAGTCTACCCAAGTTTTAAGCCTAATTTACTTGGCACTCATAAAAAGATTTAAGCCTAG
1 AAATTTAAGTCTACCCAAGTTTTAAGCCTAATTTACTTGGCACTCACAAAAAGATTTAAGCCTAG
11876840 CTTAATTGGCACCCAGTG
66 CTTAATTGGCACCCAGTG
11876858 AAATTTAAGTCTACCCAAGTTTTAAGCCTAATTTACTTGGCACTCACAAAAAGATTTAAGCCTAG
1 AAATTTAAGTCTACCCAAGTTTTAAGCCTAATTTACTTGGCACTCACAAAAAGATTTAAGCCTAG
11876923 CTTAATTGGCA
66 CTTAATTGGCA
11876934 GCTATAAAGT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (83 bp):
AAATTTAAGTCTACCCAAGTTTTAAGCCTAATTTACTTGGCACTCACAAAAAGATTTAAGCCTAG
CTTAATTGGCACCCAGTG
Found at i:11876987 original size:51 final size:51
Alignment explanation
Indices: 11876911--11877013 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
11876901 TCACAAAAAG
11876911 ATTTAAGCCTAGCTTAATTGGCAGCTATAAAGTTTTAAGCCCAGATTATCT
1 ATTTAAGCCTAGCTTAATTGGCAGCTATAAAGTTTTAAGCCCAGATTATCT
11876962 ATTTAAGCCTAGCTTAATTGGCAGCTATAAAGTTTTAAGCCCAGATTATCT
1 ATTTAAGCCTAGCTTAATTGGCAGCTATAAAGTTTTAAGCCCAGATTATCT
11877013 A
1 A
11877014 ATACTAATGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (51 bp):
ATTTAAGCCTAGCTTAATTGGCAGCTATAAAGTTTTAAGCCCAGATTATCT
Found at i:11877083 original size:33 final size:33
Alignment explanation
Indices: 11877046--11877205 Score: 82
Period size: 32 Copynumber: 4.9 Consensus size: 33
11877036 AGTTTAGCTA
**
11877046 AGCTTAAGCTGACATTTAATAAAA-TTTAAGCCT
1 AGCTT-AGCTGACACCTAATAAAATTTTAAGCCT
* * *
11877079 AGCTTAGTTGACACCTAGTAAAATTTTAAGCCC
1 AGCTTAGCTGACACCTAATAAAATTTTAAGCCT
** * * * *
11877112 AATTTAG-TTAGCTCC-AATGAAGTTTTAAGCCT
1 AGCTTAGCTGA-CACCTAATAAAATTTTAAGCCT
** * *
11877144 AATTTAGCTGGCAACC-AATGAAA-TTTAAG-CT
1 AGCTTAGCTGAC-ACCTAATAAAATTTTAAGCCT
* *
11877175 AGCTTAGCTGGCAGCTAATGAAAA-TTTAAGC
1 AGCTTAGCTGACACCTAAT-AAAATTTTAAGC
11877206 GTAGTGTAGC
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
30 2 0.02
31 15 0.15
32 52 0.53
33 30 0.30
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (33 bp):
AGCTTAGCTGACACCTAATAAAATTTTAAGCCT
Found at i:11877269 original size:66 final size:64
Alignment explanation
Indices: 11877125--11877344 Score: 208
Period size: 64 Copynumber: 3.4 Consensus size: 64
11877115 TTAGTTAGCT
* * * *
11877125 CCAATGAAGTTTTAAGCCTAATTTAGCTGGCAACCAATGAAATTTAAGCTAGCTTAGCTGGCAG
1 CCAATGAAGTTTTAAGCCTAATTTAGCTAGCATCCAATGAAATTAAAGCTAGATTAGCTGGCAG
* ** * * * * * *
11877189 CTAATGAAAATTTAAGCGTAGTGTAGCTAGCATCAAAATGAAAGGTTAAATCTAGATTATCTGGC
1 CCAATGAAGTTTTAAGCCTAATTTAGCTAGCATC-CAATGAAA--TTAAAGCTAGATTAGCTGGC
11877254 A-
63 AG
* * ** *
11877255 CCAATGAAGTTTTAAGCCTAATTTAGCTAGCATCCAATGAAATTTAAGCTTAGCTTAGCTAACAC
1 CCAATGAAGTTTTAAGCCTAATTTAGCTAGCATCCAATGAAATTAAAGC-TAGATTAGCTGGCAG
** *
11877320 CCAATGAAAATTTAAGTCTAATTTA
1 CCAATGAAGTTTTAAGCCTAATTTA
11877345 ACTGGTACCC
Statistics
Matches: 122, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
63 5 0.04
64 36 0.30
65 36 0.30
66 28 0.23
67 17 0.14
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (64 bp):
CCAATGAAGTTTTAAGCCTAATTTAGCTAGCATCCAATGAAATTAAAGCTAGATTAGCTGGCAG
Found at i:11877665 original size:33 final size:33
Alignment explanation
Indices: 11877066--11877702 Score: 187
Period size: 32 Copynumber: 19.8 Consensus size: 33
11877056 GACATTTAAT
* * * * *
11877066 AAAATTTAAGCCTAGCTTAGTTGACACCTAGT-
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * * * *
11877098 AAAATTTTAAGCCCAATTTAGTTAGC-TCCAATG
1 AAAA-TTTAAGCCTAGTTTAGCTGGCACCCAATG
** * *
11877131 AAGTTTTAAGCCTAATTTAGCTGGCAACCAATG
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * *
11877164 -AAATTTAAG-CTAGCTTAGCTGGCAGCTAATG
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * * **
11877195 AAAATTTAAGCGTAGTGTAGCTAGCATCAAAATG
1 AAAATTTAAGCCTAGTTTAGCTGGCA-CCCAATG
** ** * *
11877229 AAAGGTTAAATCTAGATTATCTGGCA-CCAATG
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
** * * *
11877261 AAGTTTTAAGCCTAATTTAGCTAGCATCCAATG
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * **
11877294 -AAATTTAAGCTTAGCTTAGCTAACACCCAATG
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * * *
11877326 AAAATTTAAGTCTAATTTAACTGGTACCC-A-G
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
** * * ** *
11877357 --GTTTTAAGCCCAGATTATTTGACA-CCAAT-
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * * * *
11877386 AAAGTTTTAAG-TTCAGTTTAGCTAGCACCTAGTG
1 AAA-ATTTAAGCCT-AGTTTAGCTGGCACCCAATG
* *
11877420 AAAATTT-AGGCTCAGTTTAGTTGGCACCCAA-G
1 AAAATTTAAGCCT-AGTTTAGCTGGCACCCAATG
* * ** * *
11877452 AAAAATTTAAG-TTCAGATTATTTGACCCCCAATG
1 -AAAATTTAAGCCT-AGTTTAGCTGGCACCCAATG
* * *
11877486 -AAATTTAAGCCCAGATTATCTGGCA-CCAAT-
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * * ** *
11877516 AAAGTTTTAAGCCTAATTTAGCTAGTGCTC-ATG
1 AAA-ATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * * * *
11877549 AAAA---GAGCCCAATTTGGTTGGCACCCAAT-
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* * **
11877578 AAAGTTTTAAGCCTAGTTAAGC-GGACACTTAATG
1 AAA-ATTTAAGCCTAGTTTAGCTGG-CACCCAATG
* * *
11877612 AAAATTTAAATCC-AGATTAGCTAGCACCCAATG
1 AAAATTT-AAGCCTAGTTTAGCTGGCACCCAATG
** *
11877645 AAAATTTAAGCCTAGTTTAGCTGATA-CCTATG
1 AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
* *
11877677 AAAATTTATA-CCCAATTTAGCTGGCA
1 AAAATTTA-AGCCTAGTTTAGCTGGCA
11877703 TATAAACCCA
Statistics
Matches: 427, Mismatches: 142, Indels: 72
0.67 0.22 0.11
Matches are distributed among these distances:
28 2 0.00
29 32 0.07
30 2 0.00
31 26 0.06
32 173 0.41
33 157 0.37
34 35 0.08
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (33 bp):
AAAATTTAAGCCTAGTTTAGCTGGCACCCAATG
Found at i:11879935 original size:3 final size:3
Alignment explanation
Indices: 11879929--11880025 Score: 79
Period size: 3 Copynumber: 30.7 Consensus size: 3
11879919 AAAAAAAAGG
* * *
11879929 TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TATA TGGAA TAA TATG TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A T--AA TAA TA-A TAA
* * *
11879978 TTA TAA TAAA TAA TAA TAA TAG TAA TAA T-A TAGA TAA TAA TAA AAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
11880024 TA
1 TA
11880026 TAGAGAACGA
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
2 2 0.03
3 62 0.82
4 9 0.12
5 2 0.03
6 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11883588 original size:11 final size:11
Alignment explanation
Indices: 11883553--11883587 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
11883543 GAGTAAAATC
11883553 AAAGGAAAAGA
1 AAAGGAAAAGA
*
11883564 ATAGGAAAAGA
1 AAAGGAAAAGA
11883575 AAAGG-AAAGA
1 AAAGGAAAAGA
11883585 AAA
1 AAA
11883588 ATGAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (11 bp):
AAAGGAAAAGA
Found at i:11884220 original size:28 final size:28
Alignment explanation
Indices: 11884188--11884245 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
11884178 TGAATTCTGC
11884188 CTTT-ATGTAGGAGAATTTT-AAGGTATTT
1 CTTTAATGTA-GAG-ATTTTCAAGGTATTT
* *
11884216 CTTTAATTTAGAGATTTTCATGGTATTT
1 CTTTAATGTAGAGATTTTCAAGGTATTT
11884244 CT
1 CT
11884246 AAATAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 17 0.65
29 4 0.15
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (28 bp):
CTTTAATGTAGAGATTTTCAAGGTATTT
Found at i:11885769 original size:47 final size:48
Alignment explanation
Indices: 11885718--11885816 Score: 148
Period size: 47 Copynumber: 2.1 Consensus size: 48
11885708 ATTTTACATA
* *
11885718 TTTTATTTCTAGATTTTTCACCATTTGGG-CTAGTTTAGAAAAT-TTTT
1 TTTTATTTCTAAATTCTTCACCATTTGGGTCTA-TTTAGAAAATCTTTT
*
11885765 TTTTATTTCTAAATTCTTCACCATTTGGGTCTATTTAGAAATTCTTTT
1 TTTTATTTCTAAATTCTTCACCATTTGGGTCTATTTAGAAAATCTTTT
11885813 TTTT
1 TTTT
11885817 TTTTTATCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
47 36 0.77
48 11 0.23
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (48 bp):
TTTTATTTCTAAATTCTTCACCATTTGGGTCTATTTAGAAAATCTTTT
Found at i:11886138 original size:20 final size:20
Alignment explanation
Indices: 11886107--11886157 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
11886097 TCAAAAAGAA
* *
11886107 AAAAACAAATAAA-TAAATTG
1 AAAAA-AAATAAAGAAAAATG
11886127 ATAAAAAAATAAAGAAAAATG
1 A-AAAAAAATAAAGAAAAATG
11886148 AAAAAAAATA
1 AAAAAAAATA
11886158 CCAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (20 bp):
AAAAAAAATAAAGAAAAATG
Found at i:11887147 original size:31 final size:31
Alignment explanation
Indices: 11887097--11887165 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
11887087 TTGATGGTGG
* * * * *
11887097 GGTGATCTAAATGACAGATGGTAGATTTGGT
1 GGTGGTCTAAATAAAAGATGGCAAATTTGGT
11887128 GGTGGTCTAAATAAAAGATGGCAAATTTGGT
1 GGTGGTCTAAATAAAAGATGGCAAATTTGGT
11887159 GGTGGTC
1 GGTGGTC
11887166 ATGCCAGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.30
Consensus pattern (31 bp):
GGTGGTCTAAATAAAAGATGGCAAATTTGGT
Found at i:11888069 original size:18 final size:18
Alignment explanation
Indices: 11888047--11888114 Score: 100
Period size: 18 Copynumber: 3.8 Consensus size: 18
11888037 TAATTTAAAT
*
11888047 ATTCACAAAAATTTTTAG
1 ATTCACAAGAATTTTTAG
* *
11888065 TTTCACAAGAATTTTCAG
1 ATTCACAAGAATTTTTAG
*
11888083 ATTCCCAAGAATTTTTAG
1 ATTCACAAGAATTTTTAG
11888101 ATTCACAAGAATTT
1 ATTCACAAGAATTT
11888115 GATTCGCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (18 bp):
ATTCACAAGAATTTTTAG
Found at i:11888226 original size:16 final size:16
Alignment explanation
Indices: 11888201--11888289 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
11888191 GAAGTTTTAG
*
11888201 ATTCATAAGAATTCAA
1 ATTCACAAGAATTCAA
* *
11888217 ATTCACAAGATTTCAG
1 ATTCACAAGAATTCAA
* * *
11888233 TTTTACAAGAATT-TA
1 ATTCACAAGAATTCAA
*
11888248 ATTCTCAA-AATTTCAA
1 ATTCACAAGAA-TTCAA
* ** *
11888264 AATCGTAAGAATTCAG
1 ATTCACAAGAATTCAA
11888280 ATTCACAAGA
1 ATTCACAAGA
11888290 TTCTAGAGAT
Statistics
Matches: 51, Mismatches: 19, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
14 2 0.04
15 7 0.14
16 40 0.78
17 2 0.04
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (16 bp):
ATTCACAAGAATTCAA
Found at i:11888325 original size:3 final size:3
Alignment explanation
Indices: 11888317--11888369 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
11888307 TAAAAGTCAT
11888317 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
11888365 TTA TT
1 TTA TT
11888370 TGTAAACTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11888710 original size:14 final size:14
Alignment explanation
Indices: 11888673--11888712 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
11888663 ACTCAAAGAT
*
11888673 AAAAATTCTCATTC
1 AAAAATTCTTATTC
*
11888687 AAAGATTCTTATTC
1 AAAAATTCTTATTC
11888701 AAAAATTCTTAT
1 AAAAATTCTTAT
11888713 AGATTCTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (14 bp):
AAAAATTCTTATTC
Found at i:11888747 original size:14 final size:14
Alignment explanation
Indices: 11888728--11888791 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
11888718 CTCATTTAAA
11888728 ATTTAAAGATTCTC
1 ATTTAAAGATTCTC
11888742 ATTTAAA-A--CT-
1 ATTTAAAGATTCTC
* *
11888752 TTTTAAAGATTCTA
1 ATTTAAAGATTCTC
11888766 ATTTAAA-ATT-TC
1 ATTTAAAGATTCTC
11888778 --TTAAAGATTCTC
1 ATTTAAAGATTCTC
11888790 AT
1 AT
11888792 ATGAAATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
10 11 0.28
11 6 0.15
12 3 0.08
13 6 0.15
14 13 0.33
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (14 bp):
ATTTAAAGATTCTC
Found at i:11888788 original size:69 final size:71
Alignment explanation
Indices: 11888687--11888963 Score: 303
Period size: 69 Copynumber: 3.9 Consensus size: 71
11888677 ATTCTCATTC
* * *
11888687 AAAGATTCTTATTCAAAAATTCTTATAGATTCTCATTTAAAA-T-TTAAAGATTCTCATTTAAAA
1 AAAGATTCTTATTTAAAATTTCTTAAAGATTCTCATTTAAAACTCTTAAAGATTCTCATTTAAAA
11888750 CTTTTT
66 CTTTTT
* * * * *
11888756 AAAGATTCTAATTTAAAATTTCTTAAAGATTCTCATATGAAA-T-TCAAAGATTTTCATTTAAAA
1 AAAGATTCTTATTTAAAATTTCTTAAAGATTCTCATTTAAAACTCTTAAAGATTCTCATTTAAAA
*
11888819 CTTCTT
66 CTTTTT
* * * *
11888825 AAAGATTTTTATTTAAAATTTATTAAAAATTCTCATTTAAAACTTCTTATAGATTCTCATTTAAA
1 AAAGATTCTTATTTAAAATTTCTTAAAGATTCTCATTTAAAAC-TCTTAAAGATTCTCATTTAAA
*
11888890 A-TTTGCT
65 ACTTT-TT
* * * * * * *
11888897 AAAAATTATCATTTAAAACTTCTTAAAGAATCTTATTTAAAACTCCTTAAAGATTCCCATTTAAA
1 AAAGATTCTTATTTAAAATTTCTTAAAGATTCTCATTTAAAACT-CTTAAAGATTCTCATTTAAA
11888962 AC
65 AC
11888964 ATTAAAAATG
Statistics
Matches: 172, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
69 96 0.56
71 4 0.02
72 72 0.42
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (71 bp):
AAAGATTCTTATTTAAAATTTCTTAAAGATTCTCATTTAAAACTCTTAAAGATTCTCATTTAAAA
CTTTTT
Found at i:11888963 original size:24 final size:24
Alignment explanation
Indices: 11888687--11888963 Score: 289
Period size: 24 Copynumber: 11.8 Consensus size: 24
11888677 ATTCTCATTC
* * *
11888687 AAAGATTCTTATTCAAAAATTCTT
1 AAAGATTCTCATTTAAAACTTCTT
*
11888711 ATAGATTCTCATTTAAAA--T-TT
1 AAAGATTCTCATTTAAAACTTCTT
*
11888732 AAAGATTCTCATTTAAAACTTTTT
1 AAAGATTCTCATTTAAAACTTCTT
* *
11888756 AAAGATTCTAATTTAAAATTTCTT
1 AAAGATTCTCATTTAAAACTTCTT
* *
11888780 AAAGATTCTCATATGAAA-TTC--
1 AAAGATTCTCATTTAAAACTTCTT
*
11888801 AAAGATTTTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAACTTCTT
* * * *
11888825 AAAGATTTTTATTTAAAATTTATT
1 AAAGATTCTCATTTAAAACTTCTT
*
11888849 AAAAATTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAACTTCTT
* *
11888873 ATAGATTCTCATTTAAAATTTGC-T
1 AAAGATTCTCATTTAAAACTT-CTT
* *
11888897 AAAAATTATCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAACTTCTT
* * *
11888921 AAAGAATCTTATTTAAAACTCCTT
1 AAAGATTCTCATTTAAAACTTCTT
*
11888945 AAAGATTCCCATTTAAAAC
1 AAAGATTCTCATTTAAAAC
11888964 ATTAAAAATG
Statistics
Matches: 209, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
21 34 0.16
22 4 0.02
23 5 0.02
24 165 0.79
25 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAGATTCTCATTTAAAACTTCTT
Found at i:11890162 original size:19 final size:20
Alignment explanation
Indices: 11890140--11890179 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
11890130 TCAATTTGAG
11890140 TTTTTC-TTTTTTC-TTTTT
1 TTTTTCATTTTTTCATTTTT
11890158 TTTTTCATTTTTTCATTTTT
1 TTTTTCATTTTTTCATTTTT
11890178 TT
1 TT
11890180 CACATTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 7 0.35
20 7 0.35
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCATTTTTTCATTTTT
Found at i:11890185 original size:19 final size:19
Alignment explanation
Indices: 11890146--11890186 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11890136 TGAGTTTTTC
* **
11890146 TTTTTTCTTTTTTTTTTCA
1 TTTTTTCATTTTTTTCACA
11890165 TTTTTTCATTTTTTTCACA
1 TTTTTTCATTTTTTTCACA
11890184 TTT
1 TTT
11890187 CACATTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTCATTTTTTTCACA
Found at i:11894404 original size:48 final size:48
Alignment explanation
Indices: 11894291--11894388 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 48
11894281 ATTTTACAAG
* *
11894291 TTTT-ATTTCTAGATTTTTCACCATTTGGGCCAATTTAGAAATTTTCT
1 TTTTGATTTCTAAATTTTTCACCATTTGAGCCAATTTAGAAATTTTCT
***
11894338 TTTTGATTTCTAAATTTTTCACCATTTGAGTTTATTTAGAAATTTT-T
1 TTTTGATTTCTAAATTTTTCACCATTTGAGCCAATTTAGAAATTTTCT
11894385 TTTT
1 TTTT
11894389 CGTTTTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
47 9 0.20
48 36 0.80
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.56
Consensus pattern (48 bp):
TTTTGATTTCTAAATTTTTCACCATTTGAGCCAATTTAGAAATTTTCT
Found at i:11894467 original size:40 final size:39
Alignment explanation
Indices: 11894391--11894472 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
11894381 TTTTTTTTCG
11894391 TTTTTTTATTTTTTGAAAGAAAATAATATGAAAATTATTA
1 TTTTTTTATTTTTTGAAAGAAAATAATAT-AAAATTATTA
* *
11894431 TTTTTTTATTTTTTGAATTGAAAATAAT-TATTAATTATTA
1 TTTTTTTATTTTTTGAA-AGAAAATAATATA-AAATTATTA
11894471 TT
1 TT
11894473 ATTGAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.03
40 28 0.74
41 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (39 bp):
TTTTTTTATTTTTTGAAAGAAAATAATATAAAATTATTA
Found at i:11894713 original size:22 final size:25
Alignment explanation
Indices: 11894688--11894739 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
11894678 AAAAAATAAT
* *
11894688 AAATAAATAAA-T-AAATTGAAA-A
1 AAATAAACAAATTAAAATGGAAAGA
11894710 AAATAAACAAATTAAAATGGAAAGA
1 AAATAAACAAATTAAAATGGAAAGA
11894735 AAATA
1 AAATA
11894740 CCATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.40
23 1 0.04
24 8 0.32
25 6 0.24
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (25 bp):
AAATAAACAAATTAAAATGGAAAGA
Found at i:11894715 original size:18 final size:17
Alignment explanation
Indices: 11894687--11894726 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11894677 CAAAAAATAA
* *
11894687 TAAATAAATAAATAAAT
1 TAAAAAAATAAACAAAT
11894704 TGAAAAAAATAAACAAAT
1 T-AAAAAAATAAACAAAT
11894722 TAAAA
1 TAAAA
11894727 TGGAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAAAAATAAACAAAT
Found at i:11906104 original size:134 final size:136
Alignment explanation
Indices: 11905957--11906229 Score: 505
Period size: 134 Copynumber: 2.0 Consensus size: 136
11905947 TTTAGCATTA
11905957 ATTCTAACATTTATGATTCATCAGGCAGCCACTTATTTTGGTGTGTTCCGCCTTCCGGATTTATT
1 ATTCTAACATTTATGATTCATCAGGCAGCCACTTATTTTGGTGTGTTCCGCCTTCCGGATTTATT
*
11906022 TAATATAAAAACTTAGTCCGTCGTCGTAGTGCCATCTGCTATATATATATATGTA-A-ATAAAGT
66 TAATATAAAAACTTAGTCCGTCGTCGTAGTGCCATCTGCTATATATATATATATATATATAAAGT
11906085 ATATCT
131 ATATCT
* *
11906091 ATTCTGACATTTATGATTCATCAGGCAGCCACTTATTTTGGTGTGTTCTGCCTTCCGGATTTATT
1 ATTCTAACATTTATGATTCATCAGGCAGCCACTTATTTTGGTGTGTTCCGCCTTCCGGATTTATT
11906156 TAATATAAAAACTTAGTCCGTCGTCGTAGTGCCATCTGCTATATATATATATATATATATAAAGT
66 TAATATAAAAACTTAGTCCGTCGTCGTAGTGCCATCTGCTATATATATATATATATATATAAAGT
11906221 ATATCT
131 ATATCT
11906227 ATT
1 ATT
11906230 GGTGGGACAA
Statistics
Matches: 134, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
134 117 0.87
135 1 0.01
136 16 0.12
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (136 bp):
ATTCTAACATTTATGATTCATCAGGCAGCCACTTATTTTGGTGTGTTCCGCCTTCCGGATTTATT
TAATATAAAAACTTAGTCCGTCGTCGTAGTGCCATCTGCTATATATATATATATATATATAAAGT
ATATCT
Found at i:11908012 original size:15 final size:14
Alignment explanation
Indices: 11907982--11908032 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
11907972 TTGAATTTTT
11907982 ATTTTATTTATAAA
1 ATTTTATTTATAAA
*
11907996 ATTTTATGTTATTAA
1 ATTTTAT-TTATAAA
11908011 ATTTTAATTT-TAAA
1 ATTTT-ATTTATAAA
11908025 A-TTTATTT
1 ATTTTATTT
11908033 TGAAGAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 11 0.33
15 13 0.39
16 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
ATTTTATTTATAAA
Found at i:11908266 original size:3 final size:3
Alignment explanation
Indices: 11908258--11908318 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
11908248 TGGCTTTAAA
*
11908258 AAT AAT AAT AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11908305 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
11908319 AAGGTAGATG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11911220 original size:116 final size:117
Alignment explanation
Indices: 11911082--11911315 Score: 407
Period size: 117 Copynumber: 2.0 Consensus size: 117
11911072 ATATAAATGA
* *
11911082 ACTTGAAATTAATACTACTGATTAGACTATTCTTGAATTACTTCTTTTTAGTTTTA-TTTTTTTA
1 ACTTGAAATTAATACCACTGATTAGACTATTCTTGAATTACTTCTTTTTAATTTTATTTTTTTTA
*
11911146 TGAAAAATAATCTCATAATTTGAAATTATATTACATAATTCACAATGGAGAT
66 TAAAAAATAATCTCATAATTTGAAATTATATTACATAATTCACAATGGAGAT
** *
11911198 ACTTGAAATTAATACCGTTGATTAGACTATTCTTGAATTATTTCTTTTTAATTTTATTTTTTTTA
1 ACTTGAAATTAATACCACTGATTAGACTATTCTTGAATTACTTCTTTTTAATTTTATTTTTTTTA
11911263 TAAAAAATAATCTCATAATTTGAAATTATATTACATAATTCACAATGGAGAT
66 TAAAAAATAATCTCATAATTTGAAATTATATTACATAATTCACAATGGAGAT
11911315 A
1 A
11911316 TGAATTGAAA
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 51 0.46
117 60 0.54
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (117 bp):
ACTTGAAATTAATACCACTGATTAGACTATTCTTGAATTACTTCTTTTTAATTTTATTTTTTTTA
TAAAAAATAATCTCATAATTTGAAATTATATTACATAATTCACAATGGAGAT
Found at i:11912727 original size:20 final size:19
Alignment explanation
Indices: 11912702--11912749 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
11912692 CATCAGTAAT
*
11912702 TGTTATATGATAACTATATA
1 TGTTATATG-TAAATATATA
11912722 TGTTATAATGTAAATATATA
1 TGTTAT-ATGTAAATATATA
11912742 TGATTATA
1 TG-TTATA
11912750 ACTTGTGCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (19 bp):
TGTTATATGTAAATATATA
Found at i:11914202 original size:2 final size:2
Alignment explanation
Indices: 11914192--11914222 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11914182 AAGTTGGTCC
*
11914192 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11914223 GTTAAATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11915123 original size:994 final size:982
Alignment explanation
Indices: 11913478--11915280 Score: 2270
Period size: 994 Copynumber: 1.8 Consensus size: 982
11913468 ATGATCTTAT
* ** *
11913478 TATTTAAATTCAAATAAAACTTTATCGAAAATTGAAAATTTTATATAAATTTTGAATTTAAATAT
1 TATTTAAATTCAAATAAAACTCTATAAAAAATTGAAAATTTTACATAAATTTTGAATTTAAATAT
*
11913543 ATTAAATCATAATTTATCTTTTTTTTTTCAAATTTAATCATAGCTTTACACACACACACACACAC
66 ATTAAATCATAATTTATCTTTTTTCTTTCAAATTTAATCA-A---TTA-ACACACACACACACAC
11913608 ACACATATATATATATATATTATGTGTCTATGTAAGCTTAATAAATTTTTATTTGTTGAAATCAA
126 ACACATATATATATATATATTATGTGTCTATGTAAGCTTAATAAATTTTTATTTGTTGAAATCAA
* * *
11913673 AATCTCAAGATAAAAATAAATAACTCATAAAATAAGAGTATCACCCCCTAACTAATTTTATTTAT
191 AATCTCAAAATAAAAATAAAGAACTCATAAAAT-AGAGTATCACCCCCTAACTAATGTTATTTAT
* ** **
11913738 TCGTTATTATTAGAATTAGAAATTGAAGAATATAATCTTTTTTTTATTTGATGATTATGATTTTA
255 TCGTTATTATTAGAATTAGAAATTGAAGAATACAATCTTTTTTTTATTTGACAATTATGATTAAA
* * *
11913803 TGAGTTTTGACAGAAATGGATAAAAATTAAAAAGAATAATAATCACATCATTCTCATGAACAAGT
320 TGAGTTTTGACAGAAATGGATAAAAATTAAAAAGAATAATAACCACATCATACTCATAAACAAGT
*
11913868 AAATTCATTTTATGCCTTTATTTTTCTTTTATTTCTTTTATTATTATTTTTTTAGTTTTAAAAAT
385 AAATTCATTTTATGCC-----TTTTCTATTATTTCTTTTATTATTATTTTTTTAGTTTTAAAAAT
11913933 AAGTTTGTGATGATGTTAGATTGTTTTTTTTTTTTTTATAATATTGATTTTTTCTTTTTTAGATT
445 AAGTTTGTGATGATGTTAGATTGTTTTTTTTTTTTTTAT-ATATTGATTTTTTCTTTTTTAGATT
* * *
11913998 TCAATAATGAAAGAAAAATGAGCGTACATTTATATTGGTTTCAACTAGATAATAGGAATAGTTCA
509 TCAATAATGAAAGAAAAATGAGAGCACATTTATATGGGTTTCAACTAGATAATAGGAATAGTTCA
* * * * * *
11914063 TTATTTTTGTCCTATTCCATTTCTGTTTTTTTCCTTTATTTGTTTGTTTCTTCCAACCTCTTATT
574 TTATTTTTATCATATTCCATTTCTGTTATTTTCCTCTATTTGTTTGTTTCTTCAAACCTATTATT
* *
11914128 TGGTTTTATTTACATTATATGATATATACATTTAGATTTGATTTATTCTAAAA-AAAGTTGGTCC
639 TGGTTTTATTTACATTATATGATATATACATCTAAATTTGATTTATTCTAAAATAAA-TTGGTCC
* *
11914192 ATATGTATATATATATATATATATATATATAGTTAAATTGGATATTTACTATACACAAGTATAAG
703 ATATG------T-T-TATATATATAT-T-TAGTTAAATTGGATATTTACTACACACAAGTACAAG
* * *
11914257 AGATTTAAATTATATATACATTCTCAATTTGTATTTTTAGTCAAATCAAAATCTATAGAATATTG
758 AAATCTAAATTATATATA-ATTCTCAATTTGTATATTTAGTCAAATCAAAATCTATAGAATATTG
11914322 AAAATTTTACATAAATTTTAAATTTAAATATATTAAATTATAAATTACCTTTATTTTTTAATTTA
822 AAAATTTTACATAAATTTTAAATTTAAATATATTAAATTATAAATTACCTTTATTTTTTAATTTA
11914387 ATCATAATTCCAAATATATATAAGCTTAATAAACTTTTATTTGCTTTCAAATAATTTTATTTAAT
887 ATCATAATTCCAAATATATATAAGCTTAATAAACTTTTATTTGCTTTCAAATAATTTTATTTAAT
11914452 AAATTATATAAATTTAATATTTTTGGGTAAC
952 AAATTATATAAATTTAATATTTTTGGGTAAC
* *
11914483 TATTTAAATTCAAATCAAACTCTATAAAAAATT-ATAGATTTTACATAAATTTTGAATTTAAATA
1 TATTTAAATTCAAATAAAACTCTATAAAAAATTGA-AAATTTTACATAAATTTTGAATTTAAATA
* * * * * * *
11914547 TATTAAATGATAATTTATCTTTTTATCTTT-AAATTTAATC-A-T-A-ACTC-TACATATATATA
65 TATTAAATCATAATTTATCTTTTT-TCTTTCAAATTTAATCAATTAACACACACACACACACACA
* * * * * * * *
11914606 TATATATATATCTATA-TGTGTGTGTGTGTGAGTTTAATAAATTTTTATTTGTTGAAATCACAAT
129 CATATATATATATATATTATGTGTCTATGTAAGCTTAATAAATTTTTATTTGTTGAAATCAAAAT
* ***
11914670 CTCAAAATAAAAATAAAGAACTCATAAAGT-GAGTACATCACCTTTTAA-TCAATGTTATTTTAT
194 CTCAAAATAAAAATAAAGAACTCATAAAATAGAGT--ATCACCCCCTAACT-AATGTTA-TTTAT
*
11914733 TTGTTATTATTAGAATTAGAAATTGAAGAATACAATCTTTTTTTTTTATTTGACAATTATGA-TA
255 TCGTTATTATTAGAATTAGAAATTGAAGAATACAATC--TTTTTTTTATTTGACAATTATGATTA
* * * *
11914797 AATGAGTTTTGATAGAAATTGA-CAAAATCTAAAAAGAATAATAACCACATCATACTCATAAATA
318 AATGAGTTTTGACAGAAATGGATAAAAAT-TAAAAAGAATAATAACCACATCATACTCATAAACA
* * *
11914861 AGTAAATTCATTTTATG-C-TTT-TATTATTTTTTTTATTTTTA-TTTTTTAGTTTTACAAATAA
382 AGTAAATTCATTTTATGCCTTTTCTATTATTTCTTTTATTATTATTTTTTTAGTTTTAAAAATAA
* *
11914922 GTTTGTGATGGTGTTGGATT-TTTTTATAATATTGATTTTT-T-T-TTG-TTTTTT-TGTTTTTA
447 GTTTGTGATGATGTTAGATTGTTTTT-T--T-TT--TTTTTATATATTGATTTTTTCT-TTTTTA
* * * *
11914981 GATTTCAATAATGAAA-AGAAAATGAGAGCATATTTGGT-TGGGTTTCAACTAGGTAATAGGTAT
505 GATTTCAATAATGAAAGA-AAAATGAGAGCACATTT-ATATGGGTTTCAACTAGATAATAGGAAT
* * *
11915044 AGTTCATTACTTTTTTTATATTATATTTCCTTTTTTTGTTATTTTCCTCTATTTGTTTGTTTCTT
568 AGTTCATTA----TTTT-TATCATA-TTCC-ATTTCTGTTATTTTCCTCTATTTGTTTGTTTCTT
** * *
11915109 CAAAGTTATTATTTGGTTTTATTTGCATTATATGATATATGCATCTAAATTTGATTTATTCTAAA
626 CAAACCTATTATTTGGTTTTATTTACATTATATGATATATACATCTAAATTTGATTTATTCTAAA
* * *
11915174 ATAAATTGGTTCATATGTTTATATATATATTTAGTTAAATTGGATATTTACTACGCATAAGTACA
691 ATAAATTGGTCCATATGTTTATATATATATTTAGTTAAATTGGATATTTACTACACACAAGTACA
* *
11915239 AGAAATCTGAATTATTTATAATTCTCAATTTGTATATTTAGT
756 AGAAATCTAAATTATATATAATTCTCAATTTGTATATTTAGT
11915281 TTATATTCTA
Statistics
Matches: 692, Mismatches: 80, Indels: 74
0.82 0.09 0.09
Matches are distributed among these distances:
983 21 0.03
984 46 0.07
985 1 0.00
986 18 0.03
987 112 0.16
988 22 0.03
989 5 0.01
990 2 0.00
991 5 0.01
992 13 0.02
993 5 0.01
994 183 0.26
995 70 0.10
996 71 0.10
997 22 0.03
999 1 0.00
1003 1 0.00
1004 1 0.00
1005 89 0.13
1006 4 0.01
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (982 bp):
TATTTAAATTCAAATAAAACTCTATAAAAAATTGAAAATTTTACATAAATTTTGAATTTAAATAT
ATTAAATCATAATTTATCTTTTTTCTTTCAAATTTAATCAATTAACACACACACACACACACACA
TATATATATATATATTATGTGTCTATGTAAGCTTAATAAATTTTTATTTGTTGAAATCAAAATCT
CAAAATAAAAATAAAGAACTCATAAAATAGAGTATCACCCCCTAACTAATGTTATTTATTCGTTA
TTATTAGAATTAGAAATTGAAGAATACAATCTTTTTTTTATTTGACAATTATGATTAAATGAGTT
TTGACAGAAATGGATAAAAATTAAAAAGAATAATAACCACATCATACTCATAAACAAGTAAATTC
ATTTTATGCCTTTTCTATTATTTCTTTTATTATTATTTTTTTAGTTTTAAAAATAAGTTTGTGAT
GATGTTAGATTGTTTTTTTTTTTTTTATATATTGATTTTTTCTTTTTTAGATTTCAATAATGAAA
GAAAAATGAGAGCACATTTATATGGGTTTCAACTAGATAATAGGAATAGTTCATTATTTTTATCA
TATTCCATTTCTGTTATTTTCCTCTATTTGTTTGTTTCTTCAAACCTATTATTTGGTTTTATTTA
CATTATATGATATATACATCTAAATTTGATTTATTCTAAAATAAATTGGTCCATATGTTTATATA
TATATTTAGTTAAATTGGATATTTACTACACACAAGTACAAGAAATCTAAATTATATATAATTCT
CAATTTGTATATTTAGTCAAATCAAAATCTATAGAATATTGAAAATTTTACATAAATTTTAAATT
TAAATATATTAAATTATAAATTACCTTTATTTTTTAATTTAATCATAATTCCAAATATATATAAG
CTTAATAAACTTTTATTTGCTTTCAAATAATTTTATTTAATAAATTATATAAATTTAATATTTTT
GGGTAAC
Found at i:11922616 original size:15 final size:15
Alignment explanation
Indices: 11922596--11922643 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 15
11922586 AGGACTGATT
11922596 ACATTGATAGACTAA
1 ACATTGATAGACTAA
11922611 ACATTGAAAGATAGACTAA
1 ACATT----GATAGACTAA
*
11922630 ACATTGAAAGACTA
1 ACATTGATAGACTA
11922644 TGTTGAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 13 0.46
19 15 0.54
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (15 bp):
ACATTGATAGACTAA
Found at i:11922625 original size:19 final size:19
Alignment explanation
Indices: 11922601--11922640 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11922591 TGATTACATT
11922601 GATAGACTAAACATTGAAA
1 GATAGACTAAACATTGAAA
11922620 GATAGACTAAACATTGAAA
1 GATAGACTAAACATTGAAA
11922639 GA
1 GA
11922641 CTATGTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (19 bp):
GATAGACTAAACATTGAAA
Found at i:11928690 original size:18 final size:18
Alignment explanation
Indices: 11928667--11928713 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11928657 CACAGTAGTT
* *
11928667 TACATACCCTGTATGATA
1 TACATACCCTATAGGATA
* *
11928685 TACATACCTTATAGGGTA
1 TACATACCCTATAGGATA
11928703 TACATACCCTA
1 TACATACCCTA
11928714 GAATGCCATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (18 bp):
TACATACCCTATAGGATA
Found at i:11935764 original size:3 final size:3
Alignment explanation
Indices: 11935758--11935804 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
11935748 ACTTTTGTTG
11935758 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11935805 TCTGTCTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11936641 original size:12 final size:12
Alignment explanation
Indices: 11936626--11936650 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11936616 TATTTTATTT
11936626 TTATATATTTTC
1 TTATATATTTTC
11936638 TTATATATTTTC
1 TTATATATTTTC
11936650 T
1 T
11936651 ATTTCATTTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATATTTTC
Found at i:11940710 original size:121 final size:121
Alignment explanation
Indices: 11940496--11940732 Score: 429
Period size: 121 Copynumber: 2.0 Consensus size: 121
11940486 CGACAACAAC
*
11940496 TTGAGTTGAAAGAAGCAACCCATGAAGGTATCTAACTATCAATTTGATCTGATATAGTTTCTTGA
1 TTGAGTTGAAAGAAGCAACCCATGAAGGTATCTAACTATCAATTTGATCTGATATAATTTCTTGA
11940561 AAGAATATGGAAGAACCTCCTCTCCCTTCCTACCTCAACCCCAATAAACAGTTAAA
66 AAGAATATGGAAGAACCTCCTCTCCCTTCCTACCTCAACCCCAATAAACAGTTAAA
* * *
11940617 TTGAGTTGAAAGAAGCAACTCATGAAGGTATCTATCTATCATTTTGATCTGATATAATTTCTTGA
1 TTGAGTTGAAAGAAGCAACCCATGAAGGTATCTAACTATCAATTTGATCTGATATAATTTCTTGA
*
11940682 AAGAATATGGAAGAAGCTCCTCTCCCTTCCTACCTCAACCCCAATAAACAG
66 AAGAATATGGAAGAACCTCCTCTCCCTTCCTACCTCAACCCCAATAAACAG
11940733 GTAAGAGAAG
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (121 bp):
TTGAGTTGAAAGAAGCAACCCATGAAGGTATCTAACTATCAATTTGATCTGATATAATTTCTTGA
AAGAATATGGAAGAACCTCCTCTCCCTTCCTACCTCAACCCCAATAAACAGTTAAA
Found at i:11943183 original size:21 final size:21
Alignment explanation
Indices: 11943149--11943191 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11943139 ACAGTGGTGC
* *
11943149 TGAAATTAGTTATTGAAATGA
1 TGAAAATAGGTATTGAAATGA
*
11943170 TGAAAATAGGTATTGTAATGA
1 TGAAAATAGGTATTGAAATGA
11943191 T
1 T
11943192 AAGATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (21 bp):
TGAAAATAGGTATTGAAATGA
Found at i:11943361 original size:10 final size:10
Alignment explanation
Indices: 11943340--11943372 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
11943330 CATTTATTAA
11943340 ATTAATAAATT
1 ATTAA-AAATT
11943351 ATTAAAAATT
1 ATTAAAAATT
11943361 ATT-AAAATT
1 ATTAAAAATT
11943370 ATT
1 ATT
11943373 TTTACATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 8 0.36
11 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:11944930 original size:20 final size:20
Alignment explanation
Indices: 11944905--11944960 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
11944895 ATATAATATC
11944905 ATGCAAATATGTTAATTATT
1 ATGCAAATATGTTAATTATT
*
11944925 ATGCAATAATATG--AAATATT
1 ATGC-A-AATATGTTAATTATT
* *
11944945 ATGTAAATATATTAAT
1 ATGCAAATATGTTAAT
11944961 AATCATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
18 5 0.18
19 1 0.04
20 15 0.54
21 1 0.04
22 6 0.21
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGCAAATATGTTAATTATT
Found at i:11945111 original size:24 final size:24
Alignment explanation
Indices: 11945083--11945143 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
11945073 AATATCATTC
*
11945083 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATCATATCATGCAAT
*
11945106 AAAATATAATATCATATCATGTAAT
1 -AAATATAATATCATATCATGCAAT
*
11945131 AAATATAAAATCA
1 AAATATAATATCA
11945144 GGCAATAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 24 0.73
25 9 0.27
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (24 bp):
AAATATAATATCATATCATGCAAT
Found at i:11945264 original size:33 final size:32
Alignment explanation
Indices: 11945221--11945290 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
11945211 TAAATAAATT
* *
11945221 AATAATCATGCAATTAACA-ATGTAATTCATGCA
1 AATAAACATGCAATTAA-ATATATAA-TCATGCA
11945254 AATAAACATGCAATTAAATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
11945286 AATAA
1 AATAA
11945291 TAATATGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (32 bp):
AATAAACATGCAATTAAATATATAATCATGCA
Found at i:11945268 original size:21 final size:21
Alignment explanation
Indices: 11945226--11945268 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11945216 AAATTAATAA
* *
11945226 TCATGCAATTAACAATGTAAT
1 TCATGCAATAAACAATGCAAT
11945247 TCATGCAAATAAAC-ATGCAAT
1 TCATGC-AATAAACAATGCAAT
11945268 T
1 T
11945269 AAATATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (21 bp):
TCATGCAATAAACAATGCAAT
Found at i:11945357 original size:24 final size:24
Alignment explanation
Indices: 11945330--11945490 Score: 126
Period size: 24 Copynumber: 7.0 Consensus size: 24
11945320 AATTAAATAT
11945330 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* * *
11945354 ATAATCAAGCAATTAAATATTTTA
1 ATAATCATGCAAATAAATATATTA
*
11945378 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
* * * *
11945400 TATAATTATACAAATAATTATACTA
1 -ATAATCATGCAAATAAATATATTA
* * *
11945425 ATAATCGTGCAAATATAT-TAGTAA
1 ATAATCATGCAAATAAATATA-TTA
11945449 ATAA-CA--CAAATAAATATA-T-
1 ATAATCATGCAAATAAATATATTA
11945468 -TAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
11945491 GGCAAATCAA
Statistics
Matches: 104, Mismatches: 21, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
18 3 0.03
19 2 0.02
21 20 0.19
22 4 0.04
23 17 0.16
24 57 0.55
25 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:11945513 original size:16 final size:17
Alignment explanation
Indices: 11945470--11945533 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
11945460 AAATATATTA
11945470 ATCATGCAAATAAATAT
1 ATCATGCAAATAAATAT
* * *
11945487 ATTAGGCAAATCAAT-T
1 ATCATGCAAATAAATAT
11945503 ATCATGCAAATATAATATT
1 ATCATGCAAATA-AATA-T
11945522 ATGCATGCAAAT
1 AT-CATGCAAAT
11945534 TTATGCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
16 10 0.27
17 15 0.41
19 3 0.08
20 9 0.24
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (17 bp):
ATCATGCAAATAAATAT
Found at i:11946138 original size:29 final size:29
Alignment explanation
Indices: 11946083--11946139 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
11946073 AAAATCTCAC
** *
11946083 TTTTTTTAATTTTTTACCCTTTTACTTTT
1 TTTTTTTAATTTTTTACCAATTGACTTTT
11946112 TTTTTTTAATTTTTTACCAATTGACTTT
1 TTTTTTTAATTTTTTACCAATTGACTTT
11946140 GAGTCTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.18, C:0.12, G:0.02, T:0.68
Consensus pattern (29 bp):
TTTTTTTAATTTTTTACCAATTGACTTTT
Found at i:11946553 original size:42 final size:41
Alignment explanation
Indices: 11946459--11946703 Score: 226
Period size: 42 Copynumber: 5.8 Consensus size: 41
11946449 TTAAAGAATT
* * * *
11946459 TCCCCCACAATCGAGGCTTTGAAATTTTTGAAAAATAAAATGA
1 TCCCTCACAATTGAGGCTTTG-AACTTTTG-AAAATAAAATGC
** *
11946502 T-TTTCCACAACTGAGGCTTTAGAACTTTTGAAAATAAAATGC
1 TCCCT-CACAATTGAGGCTTT-GAACTTTTGAAAATAAAATGC
*
11946544 TCCCTCACAATTGAGGTTTTGAAACTTTTGAAAAATAAAAT-C
1 TCCCTCACAATTGAGGCTTTG-AACTTTTG-AAAATAAAATGC
* * **
11946586 TTCCTCACAATTAAGGCTTTGGAACTTTTGAAAATAAAACAC
1 TCCCTCACAATTGAGGCTTT-GAACTTTTGAAAATAAAATGC
* *
11946628 TCCCTCATAATTGAGGCTTTGAAATTTTGAAAAATAAAATGC
1 TCCCTCACAATTGAGGCTTTGAACTTTTG-AAAATAAAATGC
* **
11946670 T-CTTCTACAGCTGAGGCTTTGAAACTTTTGAAAA
1 TCCCTC-ACAATTGAGGCTTTG-AACTTTTGAAAA
11946704 ACAAAATGAG
Statistics
Matches: 166, Mismatches: 26, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
41 21 0.13
42 104 0.63
43 40 0.24
44 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (41 bp):
TCCCTCACAATTGAGGCTTTGAACTTTTGAAAATAAAATGC
Found at i:11946623 original size:84 final size:84
Alignment explanation
Indices: 11946459--11946703 Score: 316
Period size: 84 Copynumber: 2.9 Consensus size: 84
11946449 TTAAAGAATT
* * * *
11946459 TCCCCCACAATCGAGGCTTTGAAATTTTTGAAAAATAAAATGATT-TTCCACAACTGAGGCTTTA
1 TCCCTCACAATTGAGGCTTTGAAA-TTTTGAAAAATAAAATGCTTCTT-CACAACTGAGGCTTTG
**
11946523 GAACTTTTGAAAATAAAATGC
64 GAACTTTTGAAAATAAAACAC
* * * *
11946544 TCCCTCACAATTGAGGTTTTGAAACTTTTGAAAAATAAAAT-CTTCCTCACAATTAAGGCTTTGG
1 TCCCTCACAATTGAGGCTTTGAAA-TTTTGAAAAATAAAATGCTTCTTCACAACTGAGGCTTTGG
11946608 AACTTTTGAAAATAAAACAC
65 AACTTTTGAAAATAAAACAC
* * *
11946628 TCCCTCATAATTGAGGCTTTGAAATTTTGAAAAATAAAATGC-TCTTCTACAGCTGAGGCTTTGA
1 TCCCTCACAATTGAGGCTTTGAAATTTTGAAAAATAAAATGCTTCTTC-ACAACTGAGGCTTTGG
11946692 AACTTTTGAAAA
65 AACTTTTGAAAA
11946704 ACAAAATGAG
Statistics
Matches: 139, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
83 20 0.14
84 81 0.58
85 38 0.27
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (84 bp):
TCCCTCACAATTGAGGCTTTGAAATTTTGAAAAATAAAATGCTTCTTCACAACTGAGGCTTTGGA
ACTTTTGAAAATAAAACAC
Found at i:11947540 original size:23 final size:24
Alignment explanation
Indices: 11947502--11947546 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
11947492 AGACTTTTCT
* *
11947502 TCATGTCTTTTTTTCAGCTTCTCA
1 TCATGTCTTTTCTTCAACTTCTCA
11947526 TCATGT-TTTTCTTCAACTTCT
1 TCATGTCTTTTCTTCAACTTCT
11947547 TTAGAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.13, C:0.24, G:0.07, T:0.56
Consensus pattern (24 bp):
TCATGTCTTTTCTTCAACTTCTCA
Found at i:11948511 original size:17 final size:17
Alignment explanation
Indices: 11948491--11948528 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11948481 TTCTTTCTTT
* *
11948491 TTTTCCACATTTTCTCA
1 TTTTACACATTTTATCA
11948508 TTTTACACATTTTATCA
1 TTTTACACATTTTATCA
11948525 TTTT
1 TTTT
11948529 TTATGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTACACATTTTATCA
Done.