Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 66 of 85
Found at i:23091003 original size:18 final size:20
Alignment explanation
Indices: 23090967--23091004 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
23090957 ACAATTTTTT
23090967 TCTTTTATTTTCTCCCTAAA
1 TCTTTTATTTTCTCCCTAAA
23090987 TCTTTTA-TTTC-CCCTAAA
1 TCTTTTATTTTCTCCCTAAA
23091005 AAAATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (20 bp):
TCTTTTATTTTCTCCCTAAA
Found at i:23091161 original size:9 final size:9
Alignment explanation
Indices: 23091149--23091210 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
23091139 AATTTATGTC
23091149 TATTATTTA
1 TATTATTTA
*
23091158 TATTATTGA
1 TATTATTTA
23091167 -ATTAAATTTCA
1 TATT--ATTT-A
23091178 TA-T-TTTA
1 TATTATTTA
*
23091185 TACTATTTA
1 TATTATTTA
23091194 TATTATTTA
1 TATTATTTA
23091203 -ATTATTTA
1 TATTATTTA
23091211 ATCGTTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
7 3 0.07
8 15 0.34
9 20 0.45
10 3 0.07
11 2 0.05
12 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (9 bp):
TATTATTTA
Found at i:23091208 original size:17 final size:17
Alignment explanation
Indices: 23091150--23091210 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
23091140 ATTTATGTCT
*
23091150 ATTATTTATATTATTGA
1 ATTATTTATATTATTTA
23091167 ATTAAATTTCATA-T-TTTA
1 ATT--ATTT-ATATTATTTA
*
23091185 TACTATTTATATTATTTA
1 -ATTATTTATATTATTTA
23091203 ATTATTTA
1 ATTATTTA
23091211 ATCGTTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
16 3 0.09
17 15 0.43
18 7 0.20
19 7 0.20
20 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTATTTATATTATTTA
Found at i:23101529 original size:19 final size:18
Alignment explanation
Indices: 23101489--23101536 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
23101479 GAAATTAAGG
23101489 GTTT-AGAG-TTTAAGAA
1 GTTTGAGAGATTTAAGAA
23101505 GTTTTGAGAGATTTAAGAGA
1 G-TTTGAGAGATTTAAGA-A
*
23101525 GTTTGAGGGATT
1 GTTTGAGAGATT
23101537 AGGGGTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 3 0.11
18 4 0.15
19 17 0.63
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (18 bp):
GTTTGAGAGATTTAAGAA
Found at i:23108136 original size:19 final size:21
Alignment explanation
Indices: 23108096--23108136 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
23108086 GGAATTTTAG
23108096 TTGATCAAGGGATTAATTAAGT
1 TTGATCAAGGGATT-ATTAAGT
23108118 TTGATCAAGGG-TT-TTAAGT
1 TTGATCAAGGGATTATTAAGT
23108137 GATAACTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 2 0.11
22 11 0.58
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (21 bp):
TTGATCAAGGGATTATTAAGT
Found at i:23109353 original size:75 final size:75
Alignment explanation
Indices: 23109230--23109474 Score: 463
Period size: 75 Copynumber: 3.3 Consensus size: 75
23109220 TGGCCAAGCT
*
23109230 ATTTGTTGTGTAGGTTTAACTCGGATGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
23109295 AGCAATTTTC
66 AGCAATTTTC
* *
23109305 ATTTGTTGTGTAGATTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAACTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
23109370 AGCAATTTTC
66 AGCAATTTTC
23109380 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
23109445 AGCAATTTTC
66 AGCAATTTTC
23109455 ATTTGTTGTGTAGGTTTAAC
1 ATTTGTTGTGTAGGTTTAAC
23109475 CCAAATGGGT
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 165 1.00
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (75 bp):
ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
AGCAATTTTC
Found at i:23111066 original size:83 final size:83
Alignment explanation
Indices: 23110927--23111087 Score: 277
Period size: 83 Copynumber: 1.9 Consensus size: 83
23110917 CCAAAAGTTC
**
23110927 TGGAATGATTGACATCCACCGCTTCTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
1 TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
23110992 TTTAATATTTTAAGTTAG
66 TTTAATATTTTAAGTTAG
* *
23111010 TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGATCATGGTTTAATCACCATTTTGGTCCC
1 TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
*
23111075 TTTACTATTTTAA
66 TTTAATATTTTAA
23111088 ATCTAGCAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (83 bp):
TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
TTTAATATTTTAAGTTAG
Found at i:23116865 original size:38 final size:38
Alignment explanation
Indices: 23116814--23116889 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
23116804 TTAATCAATA
* * *
23116814 ACGATTAACTTTTATAAATTTTATGATTTAGTCCTTTT
1 ACGATTAACTTTTACAAATTTTACGATTTAGTCATTTT
* * *
23116852 ACGATTAAGTTTTACGACTTTTACGATTTAGTCATTTT
1 ACGATTAACTTTTACAAATTTTACGATTTAGTCATTTT
23116890 TCTTTAATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.50
Consensus pattern (38 bp):
ACGATTAACTTTTACAAATTTTACGATTTAGTCATTTT
Found at i:23117885 original size:19 final size:18
Alignment explanation
Indices: 23117862--23117956 Score: 58
Period size: 18 Copynumber: 5.3 Consensus size: 18
23117852 ATGTGGTTCA
23117862 AAAAATTATAAAACTTATT
1 AAAAATTATAAAA-TTATT
*
23117881 GAAAA-TATAAAATT-TT
1 AAAAATTATAAAATTATT
23117897 AAATAATT-TAAATAATTATT
1 AAA-AATTAT-AA-AATTATT
*
23117917 TAAAATTATAATAA-TA-T
1 AAAAATTATAA-AATTATT
* *
23117934 AGAAAAATATTAAA-TATT
1 A-AAAATTATAAAATTATT
23117952 AAAAA
1 AAAAA
23117957 CTGGATATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
16 4 0.06
17 14 0.23
18 22 0.35
19 17 0.27
20 5 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAAATTATAAAATTATT
Found at i:23119935 original size:43 final size:43
Alignment explanation
Indices: 23119714--23119921 Score: 267
Period size: 43 Copynumber: 4.8 Consensus size: 43
23119704 TTTTATAAAT
* *
23119714 AAACGCCGCTATAGATCAGGACCTTTAGC-AGCGC-TTTTGCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGA-CGCTTTTTCCAC
*
23119756 AAACGCCGCTATAGATCAAGACCTTTAGCGTCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTTCCAC
* * * *
23119799 AAATGTCGCTATAGCTTAAGACCTTTAGCGACGCTTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGC-TTTTTCCAC
** * * *
23119843 AAACGTGGTTATAGATCAATACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTTCCAC
*
23119886 AAACGCCGCTATAGATCAAGACCCTTAGCGACGCTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTT
23119922 CTCGCAAAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 31 0.22
43 75 0.53
44 36 0.25
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTTCCAC
Found at i:23121389 original size:40 final size:40
Alignment explanation
Indices: 23121326--23121410 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
23121316 TAGCTTGAAT
* * *
23121326 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
* *
23121366 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACACAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
23121406 ATCAA
1 ATCAA
23121411 TGGTTCAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:23121530 original size:86 final size:86
Alignment explanation
Indices: 23121383--23121578 Score: 284
Period size: 86 Copynumber: 2.3 Consensus size: 86
23121373 TTTCAATAAT
* * * * * *
23121383 TTATATGCAAGAAATTAACACAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATCAGACTAA
1 TTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAAAAACCAGACTAA
*
23121448 TTTTTCAATATTTATAACAAC
66 ATTTTCAATATTTATAACAAC
* *
23121469 TTATAAGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAACAACCAGACTAA
1 TTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAAAAACCAGACTAA
*
23121534 ATTTTCAATTTTTATAACAAC
66 ATTTTCAATATTTATAACAAC
* *
23121555 TTATGTGCAACAAATTAGAAAAAA
1 TTATATGCAACAAATTAGCAAAAA
23121579 ATCAACAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 97 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (86 bp):
TTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAAAAACCAGACTAA
ATTTTCAATATTTATAACAAC
Found at i:23124859 original size:21 final size:21
Alignment explanation
Indices: 23124821--23124891 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
23124811 CCCTTAAATC
* *
23124821 CCTAAACCCTAAATCTCTAACT
1 CCTAACCCCT-AACCTCTAACT
* *
23124843 CTTAACCCCTAACCTCTAACC
1 CCTAACCCCTAACCTCTAACT
*
23124864 CCTAACCCCTAACCT-TAAAT
1 CCTAACCCCTAACCTCTAACT
23124884 CCTAACCC
1 CCTAACCC
23124892 TTAAACTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 11 0.26
21 23 0.55
22 8 0.19
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTAACCCCTAACCTCTAACT
Found at i:23124862 original size:14 final size:14
Alignment explanation
Indices: 23124845--23124877 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23124835 CTCTAACTCT
*
23124845 TAACCCCTAACCTC
1 TAACCCCTAACCCC
23124859 TAACCCCTAACCCC
1 TAACCCCTAACCCC
23124873 TAACC
1 TAACC
23124878 TTAAATCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.18
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:23124921 original size:14 final size:15
Alignment explanation
Indices: 23124874--23124930 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 15
23124864 CCTAACCCCT
*
23124874 AACCTTAAATCC-T-
1 AACCCTAAATCCATA
*
23124887 AACCCTTAAA-CTATA
1 AACCC-TAAATCCATA
*
23124902 ATCCCT-AATCCATA
1 AACCCTAAATCCATA
23124916 AACCCTAAATCCATA
1 AACCCTAAATCCATA
23124931 CTCACTAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
13 7 0.21
14 15 0.44
15 12 0.35
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
AACCCTAAATCCATA
Found at i:23125413 original size:41 final size:41
Alignment explanation
Indices: 23125318--23125673 Score: 350
Period size: 41 Copynumber: 8.9 Consensus size: 41
23125308 AATATTTTTT
****
23125318 GCGGCGCTTTTTCAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
23125358 GTGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
23125399 GCGACACTTTTTCAAAAATGTCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
23125440 GCAGCGCTTTTCCAAAAACGCCGCTAAAG---C---CATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * *
23125475 GCGGCGCTTTTCCAAAAACGTCGTTAAAGGCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
23125516 GCGGCGC-TTTTCGAAAAATGCCGTTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCCGAGCATTA
* * * **
23125557 GCGGCGCTTCTTCAAAAATGCCGCTATAGCCTTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* **
23125598 GTGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCTTGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * *
23125639 GTGACGCTTTCTGAAAAACGCCACTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
23125674 AAACTCAAAA
Statistics
Matches: 262, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
35 31 0.12
38 2 0.01
40 30 0.11
41 195 0.74
42 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:23125516 original size:76 final size:76
Alignment explanation
Indices: 23125394--23125546 Score: 207
Period size: 76 Copynumber: 2.0 Consensus size: 76
23125384 AAGACCCGAG
* * *
23125394 CATTAGCGACACTTTTTCAAAAATGTCGCTAAAGCCCCGAGCATTAGCAGCGCTTTTCCAAAAAC
1 CATTAGCGACACTTTTCCAAAAACGTCGCTAAAGCCCCAAGCATTAGCAGCGCTTTTCCAAAAAC
23125459 GCCGCTAAAGC
66 GCCGCTAAAGC
* * * * * * *
23125470 CATTAGCGGCGCTTTTCCAAAAACGTCGTTAAAGGCCCAAGCATTAGCGGCGCTTTTCGAAAAAT
1 CATTAGCGACACTTTTCCAAAAACGTCGCTAAAGCCCCAAGCATTAGCAGCGCTTTTCCAAAAAC
*
23125535 GCCGTTAAAGC
66 GCCGCTAAAGC
23125546 C
1 C
23125547 CCGAGCATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (76 bp):
CATTAGCGACACTTTTCCAAAAACGTCGCTAAAGCCCCAAGCATTAGCAGCGCTTTTCCAAAAAC
GCCGCTAAAGC
Found at i:23125533 original size:117 final size:116
Alignment explanation
Indices: 23125321--23125673 Score: 332
Period size: 117 Copynumber: 2.9 Consensus size: 116
23125311 ATTTTTTGCG
* *
23125321 GCGCTTTTTCAAAAACGCCGCTAAAAATAGAGCATTAGTGGCGCTTATTCAAAAACGCCGCTAAA
1 GCGC-TTTTCAAAAACGCCGCT---AA-AG-CCATTAGCGGCGCTTATTCAAAAACGCCGCTAAA
* *
23125386 GACCCGAGCATTAGCGACACTTTTTCAAAAATGTCGCTAAAGCCCCGAGCATTAGCA
60 GACCCAAGCATTAGCGACACTTTTTCAAAAATGCCGCTAAAGCCCCGAGCATTAGCA
* * *
23125443 GCGCTTTTCCAAAAACGCCGCTAAAGCCATTAGCGGCGCTT-TTCCAAAAACGTCGTTAAAGGCC
1 GCGCTTTT-CAAAAACGCCGCTAAAGCCATTAGCGGCGCTTATT-CAAAAACGCCGCTAAAGACC
* * * *
23125507 CAAGCATTAGCGGCGC-TTTTCGAAAAATGCCGTTAAAGCCCCGAGCATTAGCG
64 CAAGCATTAGCGACACTTTTTC-AAAAATGCCGCTAAAGCCCCGAGCATTAGCA
* * * *
23125560 GCGCTTCTTCAAAAATGCCGCTATAGCCTTGAGCATTAGTGGCGCTTTTTCAAAAACGCCGCTAA
1 GCGCTT-TTCAAAAACGCCGCTAAAG-C-----CATTAGCGGCGCTTATTCAAAAACGCCGCTAA
* ** * * * * * *
23125625 AGCCCCTTGCATTAGTGACGCTTTCTGAAAAACGCCACTAAAGCCCCGA
59 AGACCCAAGCATTAGCGACACTTTTTCAAAAATGCCGCTAAAGCCCCGA
23125674 AAACTCAAAA
Statistics
Matches: 193, Mismatches: 26, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
116 7 0.04
117 92 0.48
118 5 0.03
119 2 0.01
121 4 0.02
122 17 0.09
123 61 0.32
124 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (116 bp):
GCGCTTTTCAAAAACGCCGCTAAAGCCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCCA
AGCATTAGCGACACTTTTTCAAAAATGCCGCTAAAGCCCCGAGCATTAGCA
Found at i:23125792 original size:40 final size:40
Alignment explanation
Indices: 23125748--23125834 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
23125738 ATTTTTAGCA
* *
23125748 GCGTTTTCCAAAAAGCGCCGCTAATACTCGATCTTTAGTG
1 GCGTTTTCCAAAAAGCACCGATAATACTCGATCTTTAGTG
*** * *
23125788 GCGTTTTTTTAAAAGCACCGATAATGCTTGATCTTTAGTG
1 GCGTTTTCCAAAAAGCACCGATAATACTCGATCTTTAGTG
23125828 GCGTTTT
1 GCGTTTT
23125835 GTATCCAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (40 bp):
GCGTTTTCCAAAAAGCACCGATAATACTCGATCTTTAGTG
Found at i:23128927 original size:18 final size:17
Alignment explanation
Indices: 23128896--23128929 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23128886 ATTACGAAAA
*
23128896 TTTAAAAAATTAAAATT
1 TTTAAAAAACTAAAATT
23128913 TTTAAAAAACCTAAAAT
1 TTTAAAAAA-CTAAAAT
23128930 GTTATATAAA
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:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTAAAAAACTAAAATT
Found at i:23129058 original size:9 final size:9
Alignment explanation
Indices: 23129041--23129152 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
23129031 CATGGTTCAA
23129041 AAAAATTAT
1 AAAAATTAT
*
23129050 AAAACTTATT
1 AAAAATTA-T
*
23129060 GAAAA-TAT
1 AAAAATTAT
*
23129068 -AAAATTGT
1 AAAAATTAT
23129076 AAATAATTAT
1 AAA-AATTAT
23129086 AAAAAATTA-
1 -AAAAATTAT
* *
23129095 AATAATTTT
1 AAAAATTAT
*
23129104 AATAATTATT
1 AAAAATTA-T
* *
23129114 TAAAATCAT
1 AAAAATTAT
*
23129123 AATAA-TAT
1 AAAAATTAT
*
23129131 AAAAAATAT
1 AAAAATTAT
23129140 AAAATATTA-
1 AAAA-ATTAT
23129149 AAAA
1 AAAA
23129153 CTAGATATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
7 4 0.05
8 15 0.19
9 33 0.42
10 23 0.29
11 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:23129085 original size:27 final size:26
Alignment explanation
Indices: 23129042--23129133 Score: 62
Period size: 27 Copynumber: 3.4 Consensus size: 26
23129032 ATGGTTCAAA
* *
23129042 AAAATTATAAA-ACTTATTGAAAATAT
1 AAAATT-TAAATAATTATTAAAAATAT
*
23129068 AAAATTGTAAATAATTATAAAAAAT-T
1 AAAATT-TAAATAATTATTAAAAATAT
* *
23129094 AAATAATTTTAATAATTATTTAAAATCAT
1 -AA-AATTTAAATAATTATTAAAAAT-AT
*
23129123 AATAATATAAA
1 AA-AATTTAAA
23129134 AAATATAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
26 11 0.21
27 27 0.52
28 13 0.25
29 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAATTTAAATAATTATTAAAAATAT
Found at i:23129145 original size:16 final size:19
Alignment explanation
Indices: 23129115--23129152 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
23129105 ATAATTATTT
23129115 AAAATCATAATAATA-TAA
1 AAAATCATAATAATATTAA
23129133 AAAAT-ATAA-AATATTAA
1 AAAATCATAATAATATTAA
23129150 AAA
1 AAA
23129153 CTAGATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 10 0.53
18 5 0.26
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATCATAATAATATTAA
Found at i:23139620 original size:6 final size:7
Alignment explanation
Indices: 23139602--23139627 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23139592 TTTAATGTCT
23139602 TAAAAAA
1 TAAAAAA
23139609 TAAAAAA
1 TAAAAAA
23139616 TAAAAAA
1 TAAAAAA
23139623 TAAAA
1 TAAAA
23139628 TTATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:23144135 original size:29 final size:28
Alignment explanation
Indices: 23144092--23144261 Score: 99
Period size: 29 Copynumber: 5.6 Consensus size: 28
23144082 AACATCAATT
*
23144092 AAAGGATAACATTTGTGGCAAAACTTTAG
1 AAAGGA-AACCTTTGTGGCAAAACTTTAG
* ** **
23144121 ATAGGAAAGCCTTTGTGGCGAGTACTGGATG
1 AAAGGAAA-CCTTTGTGGC-AAAACTTTA-G
*
23144152 TAAAGGACAACCTTTGTGGCAAAACTTTGG
1 -AAAGGA-AACCTTTGTGGCAAAACTTTAG
* ** **
23144182 ACAGGAAAACCTTTGTGGCGAGTACTGGATG
1 AAAGG-AAACCTTTGTGGC-AAAACTTTA-G
23144213 TAAAGGATAACCTTTGTGGCAAAACTTT-G
1 -AAAGGA-AACCTTTGTGGCAAAACTTTAG
*
23144242 AAAAGAAACACATTTGTGGC
1 AAAGGAAAC-C-TTTGTGGC
23144262 TCTCTAAAAA
Statistics
Matches: 105, Mismatches: 24, Indels: 24
0.69 0.16 0.16
Matches are distributed among these distances:
27 3 0.03
28 8 0.08
29 39 0.37
30 11 0.10
31 11 0.10
32 31 0.30
33 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (28 bp):
AAAGGAAACCTTTGTGGCAAAACTTTAG
Found at i:23144171 original size:32 final size:32
Alignment explanation
Indices: 23144123--23144232 Score: 127
Period size: 32 Copynumber: 3.5 Consensus size: 32
23144113 AACTTTAGAT
*
23144123 AGGAAAGCCTTTGTGGCGAGTACTGGATGTAA
1 AGGAAAACCTTTGTGGCGAGTACTGGATGTAA
* ** * * *
23144155 AGGACAACCTTTGTGGC-AAAACT--TTGGAC
1 AGGAAAACCTTTGTGGCGAGTACTGGATGTAA
23144184 AGGAAAACCTTTGTGGCGAGTACTGGATGTAA
1 AGGAAAACCTTTGTGGCGAGTACTGGATGTAA
*
23144216 AGGATAACCTTTGTGGC
1 AGGAAAACCTTTGTGGC
23144233 AAAACTTTGA
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
29 19 0.31
30 4 0.07
31 4 0.07
32 34 0.56
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (32 bp):
AGGAAAACCTTTGTGGCGAGTACTGGATGTAA
Found at i:23144241 original size:61 final size:61
Alignment explanation
Indices: 23144091--23144241 Score: 257
Period size: 61 Copynumber: 2.5 Consensus size: 61
23144081 AAACATCAAT
* * * *
23144091 TAAAGGATAACATTTGTGGCAAAACTTTAGATAGGAAAGCCTTTGTGGCGAGTACTGGATG
1 TAAAGGATAACCTTTGTGGCAAAACTTTGGACAGGAAAACCTTTGTGGCGAGTACTGGATG
*
23144152 TAAAGGACAACCTTTGTGGCAAAACTTTGGACAGGAAAACCTTTGTGGCGAGTACTGGATG
1 TAAAGGATAACCTTTGTGGCAAAACTTTGGACAGGAAAACCTTTGTGGCGAGTACTGGATG
23144213 TAAAGGATAACCTTTGTGGCAAAACTTTG
1 TAAAGGATAACCTTTGTGGCAAAACTTTG
23144242 AAAAGAAACA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 84 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (61 bp):
TAAAGGATAACCTTTGTGGCAAAACTTTGGACAGGAAAACCTTTGTGGCGAGTACTGGATG
Found at i:23144258 original size:61 final size:61
Alignment explanation
Indices: 23144091--23144261 Score: 240
Period size: 61 Copynumber: 2.8 Consensus size: 61
23144081 AAACATCAAT
* *
23144091 TAAAGGATAACATTTGTGGCAAAACTTTAGATAGGAAAGC-CTTTGTGGCGAGTACTGGATG
1 TAAAGGATAACCTTTGTGGCAAAACTTTAGAAAGGAAA-CACTTTGTGGCGAGTACTGGATG
* * *
23144152 TAAAGGACAACCTTTGTGGCAAAACTTTGGACAGGAAA-ACCTTTGTGGCGAGTACTGGATG
1 TAAAGGATAACCTTTGTGGCAAAACTTTAGAAAGGAAACA-CTTTGTGGCGAGTACTGGATG
*
23144213 TAAAGGATAACCTTTGTGGCAAAACTTT-GAAAAGAAACACATTTGTGGC
1 TAAAGGATAACCTTTGTGGCAAAACTTTAGAAAGGAAACAC-TTTGTGGC
23144262 TCTCTAAAAA
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
60 8 0.08
61 91 0.92
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (61 bp):
TAAAGGATAACCTTTGTGGCAAAACTTTAGAAAGGAAACACTTTGTGGCGAGTACTGGATG
Found at i:23147057 original size:36 final size:37
Alignment explanation
Indices: 23146998--23147073 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 37
23146988 TCTTTGTTGA
23146998 AGGGTTCGCATGGTGGTGCGAACTAGGC-TTCGTAGG
1 AGGGTTCGCATGGTGGTGCGAACTAGGCTTTCGTAGG
* ** * * *
23147034 AGGGTTTGCATGGTTTTGTGAACTGGGCTTTTGTAGG
1 AGGGTTCGCATGGTGGTGCGAACTAGGCTTTCGTAGG
23147071 AGG
1 AGG
23147074 CTAAAAACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 23 0.70
37 10 0.30
ACGTcount: A:0.16, C:0.12, G:0.41, T:0.32
Consensus pattern (37 bp):
AGGGTTCGCATGGTGGTGCGAACTAGGCTTTCGTAGG
Found at i:23149980 original size:20 final size:20
Alignment explanation
Indices: 23149957--23149997 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23149947 TAATGTGAAT
23149957 AGGGACACCAAAGTGTATAC
1 AGGGACACCAAAGTGTATAC
* **
23149977 AGGGGCACTGAAGTGTATAC
1 AGGGACACCAAAGTGTATAC
23149997 A
1 A
23149998 TGGGCATCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (20 bp):
AGGGACACCAAAGTGTATAC
Found at i:23150002 original size:20 final size:20
Alignment explanation
Indices: 23149967--23150031 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
23149957 AGGGACACCA
23149967 AAGTGTATACAGGGGCACTG
1 AAGTGTATACAGGGGCACTG
*
23149987 AAGTGTATACATGGGCA-TCG
1 AAGTGTATACAGGGGCACT-G
* *
23150007 AAGTGCAAACAGGGGCACTG
1 AAGTGTATACAGGGGCACTG
23150027 AAGTG
1 AAGTG
23150032 CAAATTCCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.18
Consensus pattern (20 bp):
AAGTGTATACAGGGGCACTG
Found at i:23154037 original size:27 final size:27
Alignment explanation
Indices: 23154007--23154174 Score: 162
Period size: 27 Copynumber: 6.2 Consensus size: 27
23153997 CCCTGTAGGA
* * *
23154007 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATTACCAAAATACCCTCAATGGG
** *
23154034 TAAAATTACCAAAATACCCTTGATTGG
1 TAAAATTACCAAAATACCCTCAATGGG
*
23154061 TAAAATTATCAAAATACCCTCAATGGG
1 TAAAATTACCAAAATACCCTCAATGGG
* *
23154088 TAAAATTACTAAAATACCCTCAAAGGG
1 TAAAATTACCAAAATACCCTCAATGGG
** *
23154115 TAAAATTACTGAAATACCCCCGAA-GGAG
1 TAAAATTACCAAAATACCCTC-AATGG-G
* *
23154143 -AAAATTATCGAAATACCC-CAATAGGG
1 TAAAATTACCAAAATACCCTCAAT-GGG
23154169 TAAAAT
1 TAAAAT
23154175 GACTATTATA
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 114 0.94
28 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCAATGGG
Found at i:23154147 original size:81 final size:81
Alignment explanation
Indices: 23154002--23154179 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 81
23153992 GAGACCCCTG
* ** * * ** * *
23154002 TAGGATAAAATGACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTTGATTGGTAAAAT
1 TAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCCGATAGGGAAAAT
23154067 TATCAAAATACCCTCAA
66 TATCAAAATACCC-CAA
* **
23154084 T-GGGTAAAATTACTAAAATACCCTCAAAGGGTAAAATTACTGAAATACCCCCGA-AGGAGAAAA
1 TAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCCGATAGG-GAAAA
*
23154147 TTATCGAAATACCCCAA
65 TTATCAAAATACCCCAA
23154164 TAGGGTAAAATGACTA
1 TAGGGTAAAATGACTA
23154180 TTATACCCCT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 6 0.08
81 73 0.91
82 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (81 bp):
TAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCCGATAGGGAAAAT
TATCAAAATACCCCAA
Found at i:23161499 original size:22 final size:22
Alignment explanation
Indices: 23161471--23161513 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23161461 TGATTATGAA
23161471 ACTTATAGGGGACTCTATCACC
1 ACTTATAGGGGACTCTATCACC
* *
23161493 ACTTATAGTGGATTCTATCAC
1 ACTTATAGGGGACTCTATCAC
23161514 TACACATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (22 bp):
ACTTATAGGGGACTCTATCACC
Found at i:23162078 original size:18 final size:18
Alignment explanation
Indices: 23162054--23162097 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23162044 CATAGTTTGG
**
23162054 CAAATTAATACAGTTCAC
1 CAAATTAATACAAATCAC
*
23162072 CATATTAATACAAATCAC
1 CAAATTAATACAAATCAC
23162090 CAAATTAA
1 CAAATTAA
23162098 CATAGTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAAATCAC
Found at i:23177109 original size:32 final size:31
Alignment explanation
Indices: 23177051--23177127 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 31
23177041 TTTGAAGAGT
** **
23177051 CTTTGGTGTGAACACTTGGACTTGAATCGTC
1 CTTTGGTGTGAACACCAGGAAGTGAATCGTC
*
23177082 CTTTGGGTGTGAACACCAGGAAGTGAATGGTC
1 CTTT-GGTGTGAACACCAGGAAGTGAATCGTC
**
23177114 CACTGGTGTGAACA
1 CTTTGGTGTGAACA
23177128 AAAGGAGCAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 14 0.37
32 24 0.63
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (31 bp):
CTTTGGTGTGAACACCAGGAAGTGAATCGTC
Found at i:23185687 original size:27 final size:28
Alignment explanation
Indices: 23185605--23185700 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 28
23185595 TAAACAGTAT
*
23185605 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
23185632 CAGTAATAGTGTGTGGGCCTTAGCCCAATA
1 CAGTAACA--GTGTGGGCCTTAGCCCAATA
*
23185662 CAGTAACAGTG-GGGCCTTAGCTCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
23185689 CAGTAATCAGTG
1 CAGTAA-CAGTG
23185701 CAATGCAGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
27 25 0.41
28 10 0.16
30 26 0.43
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:23186086 original size:27 final size:27
Alignment explanation
Indices: 23186047--23186284 Score: 246
Period size: 27 Copynumber: 8.8 Consensus size: 27
23186037 TATCCTATGG
*
23186047 GGGTATGTCGGTCATTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* **
23186074 GGTTACTTT-GGTCATTTTACCCTTCGG
1 GGGTA-TTTCGGTCATTTTACCCTTCAA
* * *
23186101 GGGTATTTCAGACATTTTTCCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* * *
23186128 AGCTATTTCGATCATTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* * **
23186155 GGGTATTTCGATTATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCAA
*
23186182 GGGTATTTCGGTTATTTTACCCTTC-A
1 GGGTATTTCGGTCATTTTACCCTTCAA
** **
23186208 GGGATATTTTAGTCATTTTACCCTTTGA
1 GGG-TATTTCGGTCATTTTACCCTTCAA
23186236 GGGTATTTCGGTCATTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* * *
23186263 GGGTATTTTGATTATTTTACCC
1 GGGTATTTCGGTCATTTTACCC
23186285 ATGAATCGCA
Statistics
Matches: 173, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 6 0.03
27 161 0.93
28 6 0.03
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCAA
Found at i:23191058 original size:102 final size:102
Alignment explanation
Indices: 23190806--23191312 Score: 788
Period size: 102 Copynumber: 5.0 Consensus size: 102
23190796 GAATATAAAG
* *
23190806 GGGGTTGCTAAGTGCTGATTCCCCGATTCATCGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
23190871 AAATGTGAAGGGGGTTGCTAAGTGCTGA-TCCCCCAA
66 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
* * *
23190907 GGGGTTGCTAAGTGTTGATTCCTCAATTC-TTCGGTGGTTGCTAATTGCTGATTCCACCGTATTT
1 GGGGTTGCTAAGTGCTGATTCCCCAATTCATT-GGTGGTTGCTAAGTGCTGATTCCACCGTATTT
*
23190971 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCTAA
65 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
23191009 GGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
23191074 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
*
23191111 GGGGTT-CGTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 GGGGTTGC-TAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
* * **
23191175 TAAATGTGAAAGGGGTTGCTAAGAGCAAATTCCCCCAA
65 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
* * * * *
23191213 GGGGTTGCCAAGTGCTGATTCCCTGAA-TCATTGGTGGTTGCTGAGTGCTAATTCCACCATATCT
1 GGGGTTGCTAAGTGCTGATTCCC-CAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT-T
* *
23191277 TTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
64 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
23191313 GAATCACTGG
Statistics
Matches: 374, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
100 1 0.00
101 87 0.23
102 249 0.67
103 37 0.10
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:23192241 original size:49 final size:49
Alignment explanation
Indices: 23192178--23192372 Score: 282
Period size: 49 Copynumber: 4.0 Consensus size: 49
23192168 ACATGTGAAC
* * *
23192178 ATGTGATTATGTGATTCCGTATAAGACCATAGTTGGGCTATGGCATCGGT
1 ATGTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
* *
23192228 AAGTGATATGTGATTGCGTGTAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
* * *
23192277 ATGTGATTTGTGATTATGTGTTAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
* * *
23192326 ATGTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
23192373 AGAAAACGAA
Statistics
Matches: 132, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 127 0.96
50 5 0.04
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (49 bp):
ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
Found at i:23192575 original size:27 final size:27
Alignment explanation
Indices: 23192538--23192599 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
23192528 TAATAAATAG
23192538 ATGT-GTTAATTTGCTTGGAATGAACT
1 ATGTGGTTAATTTGCTTGGAATGAACT
23192564 ATGTGGTTAATTTGCTTGGAATGAACT
1 ATGTGGTTAATTTGCTTGGAATGAACT
23192591 ATGTGGTTA
1 ATGTGGTTA
23192600 TGATGGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (27 bp):
ATGTGGTTAATTTGCTTGGAATGAACT
Found at i:23193824 original size:11 final size:13
Alignment explanation
Indices: 23193800--23193831 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23193790 TAGTTTATTA
23193800 ATATTTTAATATG
1 ATATTTTAATATG
23193813 AT-TTTTAA-ATG
1 ATATTTTAATATG
23193824 ATATTTTA
1 ATATTTTA
23193832 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:23195779 original size:213 final size:213
Alignment explanation
Indices: 23195405--23195830 Score: 780
Period size: 213 Copynumber: 2.0 Consensus size: 213
23195395 GTTGGAAGCT
*
23195405 TGTTGGAGATATATCACATTATCCATTGGTTCTATCAGAAATTTTAGATGATTTGATTCTGGTTA
1 TGTTGGAGATATATCACATTATACATTGGTTCTATCAGAAATTTTAGATGATTTGATTCTGGTTA
*
23195470 TTGTATAAGTTAAATTGGTTAATGATTAGCTCATAAATTTTTTGATTTTGATTGGTTATAAATAT
66 TTGTATAAGTTAAATTGGTTAATGATTAGCTCATAAATGTTTTGATTTTGATTGGTTATAAATAT
*
23195535 GAATGTTTGATGAAATGAAATGTCTGAAAATTAATTTGTAAACTCCGGTAATGCTCTATAACCCT
131 GAATGTTTGATGAAATGAAATGTCAGAAAATTAATTTGTAAACTCCGGTAATGCTCTATAACCCT
23195600 ATTCTGGGGAAGGATACG
196 ATTCTGGGGAAGGATACG
* * *
23195618 TGTTGGAGATATATCACATTATATATTGGTTCTATCGGAAATTTTGGATGATTTGATTCTGGTTA
1 TGTTGGAGATATATCACATTATACATTGGTTCTATCAGAAATTTTAGATGATTTGATTCTGGTTA
23195683 TTGTATAAGTTAAATTGGTTAATGATTAGCTCATAAATGTTTTGATTTTGATTGGTTATAAATAT
66 TTGTATAAGTTAAATTGGTTAATGATTAGCTCATAAATGTTTTGATTTTGATTGGTTATAAATAT
* *
23195748 GAATGTTTGTTGAAATGAAATGTCAGAAAATTAATTTGTAAACTCCGGTAATGCTTTATAACCCT
131 GAATGTTTGATGAAATGAAATGTCAGAAAATTAATTTGTAAACTCCGGTAATGCTCTATAACCCT
23195813 ATTCTGGGGAAGGATACG
196 ATTCTGGGGAAGGATACG
23195831 GGTTAGGGGT
Statistics
Matches: 205, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
213 205 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (213 bp):
TGTTGGAGATATATCACATTATACATTGGTTCTATCAGAAATTTTAGATGATTTGATTCTGGTTA
TTGTATAAGTTAAATTGGTTAATGATTAGCTCATAAATGTTTTGATTTTGATTGGTTATAAATAT
GAATGTTTGATGAAATGAAATGTCAGAAAATTAATTTGTAAACTCCGGTAATGCTCTATAACCCT
ATTCTGGGGAAGGATACG
Found at i:23199938 original size:23 final size:23
Alignment explanation
Indices: 23199909--23199954 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
23199899 CTTTCTAACT
23199909 GTAGTAAGTTTCAGGG-TATTACA
1 GTAGTAA-TTTCAGGGATATTACA
*
23199932 GTAGTAATTTTAGGGATATTACA
1 GTAGTAATTTCAGGGATATTACA
23199955 CCACCTGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (23 bp):
GTAGTAATTTCAGGGATATTACA
Found at i:23204992 original size:28 final size:28
Alignment explanation
Indices: 23204952--23205046 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
23204942 TAAACAGTAT
* *
23204952 TAGT-ACAATGTGGGCCTTAGCCCATTA
1 TAGTAACAGTGTGGGCCTTAGCCCAATA
*
23204979 TAGTAACAGTGTGGACCTTAGCCCAATA
1 TAGTAACAGTGTGGGCCTTAGCCCAATA
* *
23205007 CAGTAACAGTG-GGGACCTTAGCCTAATA
1 TAGTAACAGTGTGGG-CCTTAGCCCAATA
*
23205035 CAGTAATCAGTG
1 TAGTAA-CAGTG
23205047 CAATGCAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
27 6 0.10
28 48 0.81
29 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (28 bp):
TAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:23208282 original size:28 final size:28
Alignment explanation
Indices: 23208242--23208336 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
23208232 TAAACAGTAT
* *
23208242 TAGT-ACAATGTGGGCCTTAGCCCATTA
1 TAGTAACAGTGTGGGCCTTAGCCCAATA
*
23208269 TAGTAACAGTGTGGACCTTAGCCCAATA
1 TAGTAACAGTGTGGGCCTTAGCCCAATA
* *
23208297 CAGTAACAGTG-GGGACCTTAGCCTAATA
1 TAGTAACAGTGTGGG-CCTTAGCCCAATA
*
23208325 CAGTAATCAGTG
1 TAGTAA-CAGTG
23208337 CAATGCAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
27 6 0.10
28 48 0.81
29 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (28 bp):
TAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:23208470 original size:26 final size:26
Alignment explanation
Indices: 23208441--23208515 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
23208431 ACTCCAATAT
*
23208441 CGCAGCAAAGCTGCCAGTAATAGTGA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
23208467 CGCAGCAAAGCTGCCAGTAACAATAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
23208493 TGCAACAAAGCTGCCAGTAATAG
1 CGCAGCAAAGCTGCCAGTAATAG
23208516 AATATGTAGC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.15
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:23216665 original size:28 final size:28
Alignment explanation
Indices: 23216633--23216712 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
23216623 AAAGATAGTA
23216633 GCCTTTATGGAAAT-TAAGGAAAATGGAG
1 GCCTTTATGGAAATATAA-GAAAATGGAG
* * *
23216661 GCCTTTGTGGCAATATAAGAAAATGGAA
1 GCCTTTATGGAAATATAAGAAAATGGAG
* * * *
23216689 GACTTTGTGGCAATCTAAGAAAAT
1 GCCTTTATGGAAATATAAGAAAAT
23216713 AAAAGCCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 43 0.93
29 3 0.07
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (28 bp):
GCCTTTATGGAAATATAAGAAAATGGAG
Found at i:23216722 original size:28 final size:28
Alignment explanation
Indices: 23216661--23216738 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
23216651 GAAAATGGAG
* **
23216661 GCCTTTGTGGCAATATAAGAAAATGGAA
1 GCCTTTGTGGCAATCTAAGAAAATAAAA
*
23216689 GACTTTGTGGCAATCTAAGAAAATAAAA
1 GCCTTTGTGGCAATCTAAGAAAATAAAA
*
23216717 GCCTTTGTAGCAATCTATAGAA
1 GCCTTTGTGGCAATCTA-AGAA
23216739 TGGAAACCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 39 0.91
29 4 0.09
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (28 bp):
GCCTTTGTGGCAATCTAAGAAAATAAAA
Found at i:23217041 original size:27 final size:27
Alignment explanation
Indices: 23216969--23217055 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
23216959 GATTGGATGC
*
23216969 TATGGTAAAC-ATTGAAGGAATAGCACA
1 TATGGTAAACTATT-AAGGAATAGTACA
* * * **
23216996 TAAGGCAAACTCTGCAGGAATAGTACA
1 TATGGTAAACTATTAAGGAATAGTACA
* * *
23217023 TATGGTAAACTATTTAGGAATAGTGCG
1 TATGGTAAACTATTAAGGAATAGTACA
23217050 TATGGT
1 TATGGT
23217056 TAACACTAAG
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.26
Consensus pattern (27 bp):
TATGGTAAACTATTAAGGAATAGTACA
Found at i:23231151 original size:49 final size:49
Alignment explanation
Indices: 23231098--23231198 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
23231088 AAACATGGTA
* *
23231098 GTTATAATT-CTTTGGGAAAGAATATAACGTTTTTTAATACTTTCCATAT
1 GTTATAATTACTTTCGGAAAGAATATAACG-TGTTTAATACTTTCCATAT
* * *
23231147 GTTATAATTATTTTCGGAAAGAATATAATGTGTTTAATGCTTTCCATAT
1 GTTATAATTACTTTCGGAAAGAATATAACGTGTTTAATACTTTCCATAT
23231196 GTT
1 GTT
23231199 CTCTATAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 29 0.63
50 17 0.37
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (49 bp):
GTTATAATTACTTTCGGAAAGAATATAACGTGTTTAATACTTTCCATAT
Found at i:23233178 original size:203 final size:206
Alignment explanation
Indices: 23232805--23233206 Score: 582
Period size: 203 Copynumber: 2.0 Consensus size: 206
23232795 ATTCATTCCA
*
23232805 ATTTATGGGGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTATTGAT
1 ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTATTGAT
* *
23232870 GATCACTCCAGAAAAATGTTTGGGTTTATTTTTTGAAACAAAAAAGCAAAATTTTTGGAATCTTC
66 GATCACTCCAGAAAAATGTTAGGGTTTATTTTTTGAAACAAAAAAGCAAAATCTTTGGAATCTTC
* * *
23232935 AAATAATGGAAGACACCGTTAGAAGAACAAATCAGAAAGTCCGTGAAA-CAGTTGAGAATTGG-T
131 AAACAATGGAAGACACCATTAGAAGAACAAACCAGAAAGTCCGT-AAAGCAGTTGAGAA-TGGAT
23232998 AATGGTTATTTCG
194 AATGGTTATTTCG
* *
23233011 ATTTAT-GAGTCCATCTTCTGGCATCTCAGAAGGAGGTAATAAATATTTCCTAACTTTTACTT-A
1 ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTA-TTGA
* * ** *
23233074 TGATCACTCCA-AAAAA-GTTAGGTTTTATTTTTTGAAACAGAAAAGTGAAGTCTTTGGAATCTT
65 TGATCACTCCAGAAAAATGTTAGGGTTTATTTTTTGAAACAAAAAAGCAAAATCTTTGGAATCTT
* * * *
23233137 CAAACAGTGGAAGACACTATTAGAAGAACAAACCGGAAAGTCCGTAAAGCGGTTGAGAATGGATA
130 CAAACAATGGAAGACACCATTAGAAGAACAAACCAGAAAGTCCGTAAAGCAGTTGAGAATGGATA
23233202 ATGGT
195 ATGGT
23233207 CTTGAGTTCT
Statistics
Matches: 176, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
202 6 0.03
203 95 0.54
204 5 0.03
205 62 0.35
206 8 0.05
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (206 bp):
ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTATTGAT
GATCACTCCAGAAAAATGTTAGGGTTTATTTTTTGAAACAAAAAAGCAAAATCTTTGGAATCTTC
AAACAATGGAAGACACCATTAGAAGAACAAACCAGAAAGTCCGTAAAGCAGTTGAGAATGGATAA
TGGTTATTTCG
Found at i:23245672 original size:18 final size:19
Alignment explanation
Indices: 23245640--23245679 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
23245630 CAAGATTTAT
23245640 CATTTCATATTTCATTCCA
1 CATTTCATATTTCATTCCA
*
23245659 CATTTCAT-TTTCATTTCA
1 CATTTCATATTTCATTCCA
23245677 CAT
1 CAT
23245680 ACTTTTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (19 bp):
CATTTCATATTTCATTCCA
Found at i:23248406 original size:2 final size:2
Alignment explanation
Indices: 23248399--23248424 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23248389 GATATCATGG
23248399 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23248425 GGTATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23248539 original size:22 final size:23
Alignment explanation
Indices: 23248494--23248539 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23248484 TGAACATTAA
*
23248494 GGTATGATATGAGATGTTGTTTT
1 GGTATGATATGAGATGTTGCTTT
23248517 GGTATGATAT-AGATAG-TGCTTT
1 GGTATGATATGAGAT-GTTGCTTT
23248539 G
1 G
23248540 AAGTGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.43
Consensus pattern (23 bp):
GGTATGATATGAGATGTTGCTTT
Found at i:23270235 original size:19 final size:19
Alignment explanation
Indices: 23270213--23270250 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23270203 AATTTAATTT
*
23270213 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
23270232 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
23270251 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:23270401 original size:22 final size:22
Alignment explanation
Indices: 23270346--23270432 Score: 129
Period size: 22 Copynumber: 3.7 Consensus size: 22
23270336 ATATACCGAC
23270346 ATTACAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
23270372 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
23270395 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
23270417 ATTACAATATTCATAC
1 ATTACAATATTCATAC
23270433 TAAATATAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
22 38 0.63
23 2 0.03
24 1 0.02
26 3 0.05
27 16 0.27
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:23270512 original size:27 final size:27
Alignment explanation
Indices: 23270480--23270551 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
23270470 AAAATATTGC
* * *
23270480 AATTTTATATGAATATTGTAATTTTGT
1 AATTTTGTATGAATATTGTAATATTAT
23270507 AATTTTGTATGAATATTGTAATATTAT
1 AATTTTGTATGAATATTGTAATATTAT
23270534 AATTTTGTATGAATATTG
1 AATTTTGTATGAATATTG
23270552 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
AATTTTGTATGAATATTGTAATATTAT
Found at i:23270682 original size:27 final size:27
Alignment explanation
Indices: 23270644--23270711 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
23270634 NNNNNNNNNN
23270644 GGAGGCGCCAATGGTGGTGCC-TACCTG
1 GGAGGCGCCAATGGTGGTGCCAT-CCTG
*
23270671 GGAGGCGCCAATGGTGGTGCCATTCTG
1 GGAGGCGCCAATGGTGGTGCCATCCTG
*
23270698 AGAGGCGCCAATGG
1 GGAGGCGCCAATGG
23270712 GCCGGGCCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.41, T:0.18
Consensus pattern (27 bp):
GGAGGCGCCAATGGTGGTGCCATCCTG
Found at i:23271133 original size:27 final size:27
Alignment explanation
Indices: 23271061--23271122 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
23271051 GGTCTAGTAA
*
23271061 TGGCGCCTCTCTATAAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
*
23271088 TGGTGCCTCTCTATGAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
23271115 TGGCGCCT
1 TGGCGCCT
23271123 ACCTGATAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.31
Consensus pattern (27 bp):
TGGCGCCTCTCTATGAGGCACCTTCAT
Found at i:23280223 original size:14 final size:14
Alignment explanation
Indices: 23280204--23280232 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23280194 TACAATATAT
23280204 ATAAGAATTATACG
1 ATAAGAATTATACG
23280218 ATAAGAATTATACG
1 ATAAGAATTATACG
23280232 A
1 A
23280233 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:23290462 original size:213 final size:214
Alignment explanation
Indices: 23290086--23290512 Score: 847
Period size: 213 Copynumber: 2.0 Consensus size: 214
23290076 AAAATATTAT
23290086 TTTTATTTAAATTTAATTATAAAATAAATATTAAAATAAAAATAATTATTCGAATTTAGGGTCAG
1 TTTTATTTAAATTTAATTATAAAATAAATATTAAAATAAAAATAATTATTCGAATTTAGGGTCAG
23290151 TCTTATCTAAATCCAACTTAACCGGATCCAATGAAGCTTCAGAATGTTGTTTTGCAAAAGGGCAA
66 TCTTATCTAAATCCAACTTAACCGGATCCAATGAAGCTTCAGAATGTTGTTTTGCAAAAGGGCAA
23290216 TGAAGGTGGATTTCTTGCATGTTAAATGAATGGATGTTTTTTTTTGGGGGTATAAATTGAGACAC
131 TGAAGGTGGATTTCTTGCATGTTAAATGAATGGATGTTTTTTTTTGGGGGTATAAATTGAGACAC
23290281 CATGGCTGAAATTTTAGAA
196 CATGGCTGAAATTTTAGAA
23290300 TTTTATTT-AATTTAATTATAAAATAAATATTAAAATAAAAATAATTATTCGAATTTAGGGTCAG
1 TTTTATTTAAATTTAATTATAAAATAAATATTAAAATAAAAATAATTATTCGAATTTAGGGTCAG
23290364 TCTTATCTAAATCCAACTTAACCGGATCCAATGAAGCTTCAGAATGTTGTTTTGCAAAAGGGCAA
66 TCTTATCTAAATCCAACTTAACCGGATCCAATGAAGCTTCAGAATGTTGTTTTGCAAAAGGGCAA
23290429 TGAAGGTGGATTTCTTGCATGTTAAATGAATGGATGTTTTTTTTTGGGGGTATAAATTGAGACAC
131 TGAAGGTGGATTTCTTGCATGTTAAATGAATGGATGTTTTTTTTTGGGGGTATAAATTGAGACAC
23290494 CATGGCTGAAATTTTAGAA
196 CATGGCTGAAATTTTAGAA
23290513 CAGGTTCAAT
Statistics
Matches: 213, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
213 205 0.96
214 8 0.04
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.37
Consensus pattern (214 bp):
TTTTATTTAAATTTAATTATAAAATAAATATTAAAATAAAAATAATTATTCGAATTTAGGGTCAG
TCTTATCTAAATCCAACTTAACCGGATCCAATGAAGCTTCAGAATGTTGTTTTGCAAAAGGGCAA
TGAAGGTGGATTTCTTGCATGTTAAATGAATGGATGTTTTTTTTTGGGGGTATAAATTGAGACAC
CATGGCTGAAATTTTAGAA
Found at i:23290795 original size:14 final size:14
Alignment explanation
Indices: 23290776--23290804 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23290766 ATTTGATAGG
23290776 TGATTGTTATAATT
1 TGATTGTTATAATT
23290790 TGATTGTTATAATT
1 TGATTGTTATAATT
23290804 T
1 T
23290805 ATTTATTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TGATTGTTATAATT
Found at i:23294137 original size:33 final size:34
Alignment explanation
Indices: 23294095--23294238 Score: 114
Period size: 33 Copynumber: 4.3 Consensus size: 34
23294085 TGTTTATATG
*
23294095 TAAGACCATAGCTGGGCTATGGCATTCTAATA-A
1 TAAGACCATAGCTGGGCTATGACATTCTAATACA
* * * * *
23294128 TAAGACCATAACTGGGTTATGACACTATAA-ACG
1 TAAGACCATAGCTGGGCTATGACATTCTAATACA
* * * * * * **
23294161 TAAGACCATGGTTGGACCATGACATTGTTTATATG
1 TAAGACCATAGCTGGGCTATGACATT-CTAATACA
* *
23294196 TAAGACCATAGCTGGGCTATGGCATTCTGATA-A
1 TAAGACCATAGCTGGGCTATGACATTCTAATACA
23294229 TAAGACCATA
1 TAAGACCATA
23294239 ACTGAGTTAT
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
32 1 0.01
33 54 0.64
34 6 0.07
35 23 0.27
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (34 bp):
TAAGACCATAGCTGGGCTATGACATTCTAATACA
Found at i:23302041 original size:2 final size:2
Alignment explanation
Indices: 23302034--23302071 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
23302024 CTCACACGCT
23302034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23302072 AAGTCAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23309883 original size:22 final size:22
Alignment explanation
Indices: 23309858--23309904 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
23309848 AAAATCTAAG
23309858 TGATTTTTGGGAAAATTAAATT
1 TGATTTTTGGGAAAATTAAATT
23309880 TGA-TTTTGGGAAAATTAAATT
1 TGATTTTTGGGAAAATTAAATT
23309901 TGAT
1 TGAT
23309905 CTAGTGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (22 bp):
TGATTTTTGGGAAAATTAAATT
Found at i:23309916 original size:20 final size:21
Alignment explanation
Indices: 23309866--23309918 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
23309856 AGTGATTTTT
* *
23309866 GGGAAAATTAAATTTGATTTT
1 GGGAAAATTAAATTTGATCTA
23309887 GGGAAAATTAAATTTGATCTA
1 GGGAAAATTAAATTTGATCTA
*
23309908 GTG-AAATTAAA
1 GGGAAAATTAAA
23309919 GTAATCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (21 bp):
GGGAAAATTAAATTTGATCTA
Found at i:23310382 original size:17 final size:16
Alignment explanation
Indices: 23310349--23310403 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
23310339 ATTTTAATAG
23310349 TTTAATAATTAATTTAA
1 TTTAATAATT-ATTTAA
23310366 TTTAATAATTATCTTAA
1 TTTAATAATTAT-TTAA
*
23310383 --TAAT-ATTTTATTAA
1 TTTAATAATTAT-TTAA
23310397 TTTAATA
1 TTTAATA
23310404 TTAAAGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 8 0.25
15 4 0.12
16 6 0.19
17 14 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAATAATTATTTAA
Found at i:23310386 original size:20 final size:20
Alignment explanation
Indices: 23310332--23310386 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 20
23310322 ATTCCAAAAA
* *
23310332 TAAT-ATTATTTTAATAGTT
1 TAATAATTATATTAATAATT
23310351 TAATAATTA-ATT--TAATT
1 TAATAATTATATTAATAATT
*
23310368 TAATAATTATCTTAATAAT
1 TAATAATTATATTAATAAT
23310387 ATTTTATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 6 0.21
20 8 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATAATTATATTAATAATT
Found at i:23310426 original size:31 final size:29
Alignment explanation
Indices: 23310391--23310448 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
23310381 AATAATATTT
*
23310391 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
23310422 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
23310449 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:23310507 original size:62 final size:59
Alignment explanation
Indices: 23310421--23310534 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
23310411 GATTATCTTA
* * * * *
23310421 ATATTAAATTAAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGATTTG
1 ATATTAAAATAAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGATTTG
*
23310483 ATATTAAAATGAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 ATATTAAAATAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
23310535 TTAAAGTGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 22 0.48
60 1 0.02
61 1 0.02
62 22 0.48
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (59 bp):
ATATTAAAATAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGATTTG
Found at i:23312957 original size:21 final size:21
Alignment explanation
Indices: 23312931--23312976 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23312921 ACTCCTCTAA
*
23312931 AGAATCTAATAAAGATGTCTC
1 AGAATCTAATAAAGATATCTC
** *
23312952 AGAATCTTCTAATGATATCTC
1 AGAATCTAATAAAGATATCTC
23312973 AGAA
1 AGAA
23312977 AGAGAGGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (21 bp):
AGAATCTAATAAAGATATCTC
Found at i:23316121 original size:60 final size:59
Alignment explanation
Indices: 23315973--23316143 Score: 233
Period size: 60 Copynumber: 2.9 Consensus size: 59
23315963 TCATCTTCCC
* * * ** *
23315973 AAAACAAAA-AAGACATTGTGTCAAACTCTCCACTTTCTTTCAAC-ACTCCG-TATGTG
1 AAAAAAAAAGAAGACATTGTGTCAAACTCTCCACTTCCTTTCAACAAATGTGCCATGTG
23316029 AAAAAAAAAGAAGACATTGTGTCAAACTCTCCACTTCCTTTCAACAAATGTGCCA-GTG
1 AAAAAAAAAGAAGACATTGTGTCAAACTCTCCACTTCCTTTCAACAAATGTGCCATGTG
*
23316087 AAAAAAAAAGAGAAGATATTGTGTCAAACTCTCCACTTCCTTTCAACAAATGTGCCA
1 -AAAAAAAA-AGAAGACATTGTGTCAAACTCTCCACTTCCTTTCAACAAATGTGCCA
23316144 CCTAACTCAC
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
56 8 0.08
57 34 0.33
58 6 0.06
59 9 0.09
60 46 0.45
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (59 bp):
AAAAAAAAAGAAGACATTGTGTCAAACTCTCCACTTCCTTTCAACAAATGTGCCATGTG
Found at i:23317143 original size:25 final size:25
Alignment explanation
Indices: 23317087--23317141 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
23317077 ATTAAAAATA
*
23317087 GATAAAGTTTGTACTATTTTACTTT
1 GATAAAGTTTGTACTAATTTACTTT
23317112 GATAAAGTTTGTACTAATTTACTTT
1 GATAAAGTTTGTACTAATTTACTTT
23317137 G-TAAA
1 GATAAA
23317142 AGGAGATTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (25 bp):
GATAAAGTTTGTACTAATTTACTTT
Found at i:23325183 original size:22 final size:21
Alignment explanation
Indices: 23325154--23325196 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
23325144 AAGTCCTTCA
23325154 TTTTAATATTAAAATAAATTT
1 TTTTAATATTAAAATAAATTT
* *
23325175 TTTTGAATATTTAAATTAATTT
1 TTTT-AATATTAAAATAAATTT
23325197 GCATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTAATATTAAAATAAATTT
Found at i:23325206 original size:23 final size:21
Alignment explanation
Indices: 23325155--23325208 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
23325145 AGTCCTTCAT
*
23325155 TTTAATATTAAAATAAATTTT
1 TTTAATATTAAAATAAATTTA
* *
23325176 TTTGAATATTTAAATTAATTTGCA
1 TTT-AATATTAAAATAAATTT--A
23325200 TTTAATATT
1 TTTAATATT
23325209 GATTTGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.11
22 15 0.56
23 6 0.22
24 3 0.11
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAATATTAAAATAAATTTA
Found at i:23325215 original size:17 final size:17
Alignment explanation
Indices: 23325183--23325223 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
23325173 TTTTTTGAAT
23325183 ATTTAA-ATTAATTTGC
1 ATTTAATATTAATTTGC
*
23325199 ATTTAATATTGATTTGC
1 ATTTAATATTAATTTGC
23325216 ATTTAATA
1 ATTTAATA
23325224 AGAATAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (17 bp):
ATTTAATATTAATTTGC
Found at i:23325344 original size:19 final size:18
Alignment explanation
Indices: 23325312--23325347 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23325302 ACACTTAAAT
23325312 ATTATTTTGAAAATTTTG
1 ATTATTTTGAAAATTTTG
*
23325330 ATTACTTTTGTAAATTTT
1 ATTA-TTTTGAAAATTTT
23325348 ATTTTGATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTATTTTGAAAATTTTG
Found at i:23327294 original size:30 final size:30
Alignment explanation
Indices: 23327225--23327296 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
23327215 ACCTAGGAAA
*
23327225 TGGTAGTGGAGGACATGGCGGAGGACAAGG
1 TGGTAGTGGTGGACATGGCGGAGGACAAGG
* * *
23327255 CGGCAGTGGTGGACATGGTGGAGGACAAGG
1 TGGTAGTGGTGGACATGGCGGAGGACAAGG
23327285 TGGTAGTGGTGG
1 TGGTAGTGGTGG
23327297 TGGAAGTGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.51, T:0.17
Consensus pattern (30 bp):
TGGTAGTGGTGGACATGGCGGAGGACAAGG
Found at i:23327306 original size:30 final size:30
Alignment explanation
Indices: 23327272--23327335 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
23327262 GGTGGACATG
* *
23327272 GTGGAGGACAAGGTGGTAGTGGTGGTGGAA
1 GTGGAGGACAAGCTGGTAGTGGCGGTGGAA
*
23327302 GTGGAGGACACGCTGGTAGTGGCGGTGGAA
1 GTGGAGGACAAGCTGGTAGTGGCGGTGGAA
23327332 GTGG
1 GTGG
23327336 TGGCGGAGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.08, G:0.53, T:0.19
Consensus pattern (30 bp):
GTGGAGGACAAGCTGGTAGTGGCGGTGGAA
Found at i:23327329 original size:42 final size:42
Alignment explanation
Indices: 23327283--23327365 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
23327273 TGGAGGACAA
* * *
23327283 GGTGGTAGTGGTGGTGGAAGTGGAGGACACGCTGGTAGTGGC
1 GGTGGAAGTGGTGGCGGAAGCGGAGGACACGCTGGTAGTGGC
* * *
23327325 GGTGGAAGTGGTGGCGGAGGCGGAGGACAGGGTGGTAGTGG
1 GGTGGAAGTGGTGGCGGAAGCGGAGGACACGCTGGTAGTGG
23327366 TGGCGGAGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.17, C:0.08, G:0.57, T:0.18
Consensus pattern (42 bp):
GGTGGAAGTGGTGGCGGAAGCGGAGGACACGCTGGTAGTGGC
Found at i:23327370 original size:24 final size:24
Alignment explanation
Indices: 23327343--23327395 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
23327333 TGGTGGCGGA
* *
23327343 GGCGGAGGACAGGGTGGTAGTGGT
1 GGCGGAGGACAGGGCGGTAGTGGC
*
23327367 GGCGGAGGACATGGCGGTAGTGGC
1 GGCGGAGGACAGGGCGGTAGTGGC
23327391 GGCGG
1 GGCGG
23327396 TAGTGGTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.15, C:0.13, G:0.58, T:0.13
Consensus pattern (24 bp):
GGCGGAGGACAGGGCGGTAGTGGC
Found at i:23327425 original size:30 final size:30
Alignment explanation
Indices: 23327391--23327530 Score: 91
Period size: 30 Copynumber: 4.5 Consensus size: 30
23327381 CGGTAGTGGC
*
23327391 GGCGGTAGTGGTGGACATGGTGGAGGACAA
1 GGCGGTAGTGGCGGACATGGTGGAGGACAA
*** ** *
23327421 GGCGGTAGTGGCGGTGGTGGCAGAGGACAT
1 GGCGGTAGTGGCGGACATGGTGGAGGACAA
* * * * *
23327451 GGTGGCAGTGGCGGACATGGTGGTGGTAGTAGTGGT
1 GGCGGTAGTGGCGGACATGGTGGAGG-A-CA----A
* *
23327487 GGCGGTAGTGGTGGGCATGGTGGAGGACAA
1 GGCGGTAGTGGCGGACATGGTGGAGGACAA
*
23327517 GGAGGTAGTGGCGG
1 GGCGGTAGTGGCGG
23327531 TGGTGGCGGA
Statistics
Matches: 79, Mismatches: 25, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
30 53 0.67
31 1 0.01
32 1 0.01
34 1 0.01
35 1 0.01
36 22 0.28
ACGTcount: A:0.18, C:0.10, G:0.54, T:0.19
Consensus pattern (30 bp):
GGCGGTAGTGGCGGACATGGTGGAGGACAA
Found at i:23327431 original size:96 final size:93
Alignment explanation
Indices: 23327343--23327563 Score: 280
Period size: 96 Copynumber: 2.3 Consensus size: 93
23327333 TGGTGGCGGA
* *
23327343 GGCGGAGGACAGGGTGGTAGTGGTGGCGGAGGACATGGCGGTAGTGGCGGCGGTAGTGGTGGACA
1 GGCGGAGGACATGGTGGTAGTGGTGGCGGAGG---TGGCAGTAGTGGCGGCGGTAGTGGTGGACA
*
23327408 TGGTGGAGGACAAGGCGGTAGTGGCGGTGGT
63 TGGTGGAGGACAAGGAGGTAGTGGCGGTGGT
* * * * * * *
23327439 GGCAGAGGACATGGTGGCAGTGGCGGACATGGTGGTGGTAGTAGTGGTGGCGGTAGTGGTGGGCA
1 GGCGGAGGACATGGTGGTAGTGGTGG-C--GGAGGTGGCAGTAGTGGCGGCGGTAGTGGTGGACA
23327504 TGGTGGAGGACAAGGAGGTAGTGGCGGTGGT
63 TGGTGGAGGACAAGGAGGTAGTGGCGGTGGT
* *
23327535 GGCGGAGGTCATGGTGGTAGCGGTGGCGG
1 GGCGGAGGACATGGTGGTAGTGGTGGCGG
23327564 CAGTGGTGGG
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
93 2 0.02
95 1 0.01
96 99 0.93
97 1 0.01
99 4 0.04
ACGTcount: A:0.16, C:0.11, G:0.55, T:0.18
Consensus pattern (93 bp):
GGCGGAGGACATGGTGGTAGTGGTGGCGGAGGTGGCAGTAGTGGCGGCGGTAGTGGTGGACATGG
TGGAGGACAAGGAGGTAGTGGCGGTGGT
Found at i:23327449 original size:42 final size:42
Alignment explanation
Indices: 23327370--23327455 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
23327360 TAGTGGTGGC
* ** *
23327370 GGAGGACATGGCGGTAGTGGCGGCGGTAGTGGTGGACATGGT
1 GGAGGACAAGGCGGTAGTGGCGGCGGTAGCAGAGGACATGGT
* *
23327412 GGAGGACAAGGCGGTAGTGGCGGTGGTGGCAGAGGACATGGT
1 GGAGGACAAGGCGGTAGTGGCGGCGGTAGCAGAGGACATGGT
23327454 GG
1 GG
23327456 CAGTGGCGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.19, C:0.12, G:0.53, T:0.16
Consensus pattern (42 bp):
GGAGGACAAGGCGGTAGTGGCGGCGGTAGCAGAGGACATGGT
Found at i:23327528 original size:72 final size:71
Alignment explanation
Indices: 23327452--23327731 Score: 278
Period size: 72 Copynumber: 4.1 Consensus size: 71
23327442 AGAGGACATG
** * *
23327452 GTGGCAGTGGCGGAC-ATGGTGGTGGTAGTAGTGGTGGCGGTAGTGGTGGGCATGGTGGAGGACA
1 GTGGCAGTGGCGG-CGA-GGTCATGGTAGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACA
23327516 AGGAGGTA
64 AGGAGGTA
* * *
23327524 GTGGCGGTGGTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACAA
1 GTGGCAGTGGCGGC-GAGGTCATGGTAGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACAA
*
23327589 GGCGGTA
65 GGAGGTA
* * * *
23327596 GT-G--GT----G-GTGG---TGGTAGTAGCGGTGGCGGTAGTGGCGGGCATGGTGGAGGGCAAG
1 GTGGCAGTGGCGGCGAGGTCATGGTAGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACAAG
23327650 GAGGTA
66 GAGGTA
** * * *
23327656 GTGGTGGTGGTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAA
1 GTGGCAGTGGCGGC-GAGGTCATGGTAGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACAA
*
23327721 GGCGGTA
65 GGAGGTA
23327728 GTGG
1 GTGG
23327732 TGGTGGTGGT
Statistics
Matches: 173, Mismatches: 21, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
60 47 0.27
61 1 0.01
63 5 0.03
65 1 0.01
67 1 0.01
69 5 0.03
71 2 0.01
72 110 0.64
73 1 0.01
ACGTcount: A:0.15, C:0.10, G:0.55, T:0.20
Consensus pattern (71 bp):
GTGGCAGTGGCGGCGAGGTCATGGTAGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACAAG
GAGGTA
Found at i:23327578 original size:30 final size:30
Alignment explanation
Indices: 23327544--23327641 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
23327534 TGGCGGAGGT
*
23327544 CATGGTGGTAGCGGTGGCGGCAGTGGTGGG
1 CATGGTGGTAGCGGTGGCGGTAGTGGTGGG
**
23327574 CATGGTGG-AG-GACAAGGCGGTAGTGGTGGTG
1 CATGGTGGTAGCG--GTGGCGGTAGTGGTGG-G
* * *
23327605 -GTGGTAGTAGCGGTGGCGGTAGTGGCGGG
1 CATGGTGGTAGCGGTGGCGGTAGTGGTGGG
23327634 CATGGTGG
1 CATGGTGG
23327642 AGGGCAAGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
28 1 0.02
29 3 0.06
30 44 0.85
31 3 0.06
32 1 0.02
ACGTcount: A:0.13, C:0.11, G:0.55, T:0.20
Consensus pattern (30 bp):
CATGGTGGTAGCGGTGGCGGTAGTGGTGGG
Found at i:23327612 original size:15 final size:15
Alignment explanation
Indices: 23327589--23327632 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
23327579 TGGAGGACAA
*
23327589 GGCGGTAGTGGTGGT
1 GGCGGTAGTGGCGGT
* *
23327604 GGTGGTAGTAGCGGT
1 GGCGGTAGTGGCGGT
23327619 GGCGGTAGTGGCGG
1 GGCGGTAGTGGCGG
23327633 GCATGGTGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.09, C:0.09, G:0.59, T:0.23
Consensus pattern (15 bp):
GGCGGTAGTGGCGGT
Found at i:23327624 original size:132 final size:132
Alignment explanation
Indices: 23327468--23327741 Score: 503
Period size: 132 Copynumber: 2.1 Consensus size: 132
23327458 GTGGCGGACA
* *
23327468 TGGTGGTGGTAGTAGTGGTGGCGGTAGTGGTGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
1 TGGTGGTGGTAGTAGCGGTGGCGGTAGTGGCGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
*
23327533 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACAAGGCGGTAGT
66 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
23327598 GG
131 GG
* *
23327600 TGGTGGTGGTAGTAGCGGTGGCGGTAGTGGCGGGCATGGTGGAGGGCAAGGAGGTAGTGGTGGTG
1 TGGTGGTGGTAGTAGCGGTGGCGGTAGTGGCGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
23327665 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
66 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
23327730 GG
131 GG
23327732 TGGTGGTGGT
1 TGGTGGTGGT
23327742 GGAGGACATG
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 137 1.00
ACGTcount: A:0.15, C:0.09, G:0.55, T:0.21
Consensus pattern (132 bp):
TGGTGGTGGTAGTAGCGGTGGCGGTAGTGGCGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
GG
Found at i:23327725 original size:30 final size:30
Alignment explanation
Indices: 23327691--23327773 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
23327681 TGGTAGCGGT
23327691 GGCGGCAGTGGTAGG-CATGGTGGAGGACAA
1 GGCGGCAGTGGT-GGTCATGGTGGAGGACAA
* ** *
23327721 GGCGGTAGTGGTGGTGGTGGTGGAGGACAT
1 GGCGGCAGTGGTGGTCATGGTGGAGGACAA
* * *
23327751 GGTGGCAGTGGCGGACATGGTGG
1 GGCGGCAGTGGTGGTCATGGTGG
23327774 TGGTAGTAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
29 2 0.05
30 40 0.95
ACGTcount: A:0.17, C:0.11, G:0.54, T:0.18
Consensus pattern (30 bp):
GGCGGCAGTGGTGGTCATGGTGGAGGACAA
Found at i:23327732 original size:72 final size:72
Alignment explanation
Indices: 23327606--23327755 Score: 228
Period size: 72 Copynumber: 2.1 Consensus size: 72
23327596 GTGGTGGTGG
* * * *
23327606 TGGTAGTAGCGGTGGCGGTAGTGGCGGGCATGGTGGAGGGCAAGGAGGTAGTGGTGGTGGTGGCG
1 TGGTGGTAGCGGTGGCGGCAGTGGCAGGCATGGTGGAGGACAAGGAGGTAGTGGTGGTGGTGGCG
*
23327671 GAGGTCA
66 GAGGACA
* * *
23327678 TGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGTGGTGGTGGTGGTG
1 TGGTGGTAGCGGTGGCGGCAGTGGCAGGCATGGTGGAGGACAAGGAGGTAGTGGTGGTGGTGGCG
23327743 GAGGACA
66 GAGGACA
23327750 TGGTGG
1 TGGTGG
23327756 CAGTGGCGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.15, C:0.09, G:0.55, T:0.20
Consensus pattern (72 bp):
TGGTGGTAGCGGTGGCGGCAGTGGCAGGCATGGTGGAGGACAAGGAGGTAGTGGTGGTGGTGGCG
GAGGACA
Found at i:23327755 original size:18 final size:18
Alignment explanation
Indices: 23327732--23327777 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
23327722 GCGGTAGTGG
23327732 TGGTGGTGGTGGAGGACA
1 TGGTGGTGGTGGAGGACA
** *
23327750 TGGTGGCAGTGGCGGACA
1 TGGTGGTGGTGGAGGACA
23327768 TGGTGGTGGT
1 TGGTGGTGGT
23327778 AGTAGTGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.13, C:0.09, G:0.54, T:0.24
Consensus pattern (18 bp):
TGGTGGTGGTGGAGGACA
Found at i:23327761 original size:132 final size:132
Alignment explanation
Indices: 23327468--23327773 Score: 463
Period size: 132 Copynumber: 2.3 Consensus size: 132
23327458 GTGGCGGACA
* * * * *
23327468 TGGTGGTGGTAGTAGTGGTGGCGGTAGTGGTGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
1 TGGTGGTGGTAGGAGCGATGGCGGCAGTGGCGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
*
23327533 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTGGGCATGGTGGAGGACAAGGCGGTAGT
66 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
23327598 GG
131 GG
* * * * *
23327600 TGGTGGTGGTAGTAGCGGTGGCGGTAGTGGCGGGCATGGTGGAGGGCAAGGAGGTAGTGGTGGTG
1 TGGTGGTGGTAGGAGCGATGGCGGCAGTGGCGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
23327665 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
66 GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
23327730 GG
131 GG
* *
23327732 TGGTGGTGGT-GGAG-GACATGGTGGCAGTGGCGGACATGGTGG
1 TGGTGGTGGTAGGAGCG--ATGGCGGCAGTGGCGGGCATGGTGG
23327774 TGGTAGTAGT
Statistics
Matches: 162, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
130 1 0.01
131 3 0.02
132 158 0.98
ACGTcount: A:0.15, C:0.09, G:0.55, T:0.20
Consensus pattern (132 bp):
TGGTGGTGGTAGGAGCGATGGCGGCAGTGGCGGGCATGGTGGAGGACAAGGAGGTAGTGGCGGTG
GTGGCGGAGGTCATGGTGGTAGCGGTGGCGGCAGTGGTAGGCATGGTGGAGGACAAGGCGGTAGT
GG
Found at i:23328284 original size:21 final size:21
Alignment explanation
Indices: 23328260--23328325 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
23328250 GTGGAGGACA
23328260 TGGAGGTAGTGGTGGTGGTAG
1 TGGAGGTAGTGGTGGTGGTAG
* * *
23328281 TGGAGG-ACATGGCGGTGGTGG
1 TGGAGGTA-GTGGTGGTGGTAG
* * *
23328302 TGGGGGTAGTGGTGGCGGCAG
1 TGGAGGTAGTGGTGGTGGTAG
23328323 TGG
1 TGG
23328326 CAGACATGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.06, G:0.59, T:0.23
Consensus pattern (21 bp):
TGGAGGTAGTGGTGGTGGTAG
Found at i:23328284 original size:30 final size:30
Alignment explanation
Indices: 23328250--23328313 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
23328240 NNNNNACATG
*
23328250 GTGGAGGACATGGAGGTAGTGGTGGTGGTA
1 GTGGAGGACATGGAGGTAGTGGTGGGGGTA
* *
23328280 GTGGAGGACATGGCGGTGGTGGTGGGGGTA
1 GTGGAGGACATGGAGGTAGTGGTGGGGGTA
23328310 GTGG
1 GTGG
23328314 TGGCGGCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.05, G:0.58, T:0.22
Consensus pattern (30 bp):
GTGGAGGACATGGAGGTAGTGGTGGGGGTA
Found at i:23328349 original size:33 final size:33
Alignment explanation
Indices: 23328312--23328376 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
23328302 TGGGGGTAGT
23328312 GGTGGCGGCAGTGGCAGACATGGTGGAGGACAA
1 GGTGGCGGCAGTGGCAGACATGGTGGAGGACAA
* * ** *
23328345 GGTGGTGGTAGTGGTGGATATGGTGGAGGACA
1 GGTGGCGGCAGTGGCAGACATGGTGGAGGACA
23328377 CGAAGGTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.51, T:0.18
Consensus pattern (33 bp):
GGTGGCGGCAGTGGCAGACATGGTGGAGGACAA
Found at i:23328465 original size:72 final size:70
Alignment explanation
Indices: 23328306--23328514 Score: 238
Period size: 72 Copynumber: 2.9 Consensus size: 70
23328296 TGGTGGTGGG
* * *
23328306 GGTAGTGGTGGCGGCAGTGGCAGACATGGTGGAGGACAAGGTGGTGGTAGTGGTGGATATGGTGG
1 GGTAGTGGTGGCGGCAGAGG--GACATGGTGGAGGACAAGGTGGTAGTGGTGGTGG-TA--GTGG
*
23328371 AGGACACGAA
61 AAGACACGAA
*
23328381 GGTAGTGGTGGCGGCAGCAAGGGACATGGTGGAGGACAAGGTGGTAGTGGTGGTGGCAGTGGAAG
1 GGTAGTGGTGGCGGCAG--AGGGACATGGTGGAGGACAAGGTGGTAGTGGTGGTGGTAGTGGAAG
**
23328446 ACACGGT
64 ACACGAA
* * * *
23328453 GGTAGTGGTGGCGGTAGTGGTGGATATGGTGGAGGACAAGGCGGTAGTGGTGGTGGTAGTGG
1 GGTAGTGGTGGCGGCAG-AG-GGACATGGTGGAGGACAAGGTGGTAGTGGTGGTGGTAGTGG
23328515 TAGTGGAGGA
Statistics
Matches: 118, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
71 1 0.01
72 65 0.55
74 1 0.01
75 49 0.42
77 2 0.02
ACGTcount: A:0.21, C:0.09, G:0.51, T:0.20
Consensus pattern (70 bp):
GGTAGTGGTGGCGGCAGAGGGACATGGTGGAGGACAAGGTGGTAGTGGTGGTGGTAGTGGAAGAC
ACGAA
Found at i:23328469 original size:42 final size:40
Alignment explanation
Indices: 23328423--23328520 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 40
23328413 AGGACAAGGT
* *
23328423 GGTAGTGGTGGTGGCAGTGGAAGACACGGTGGTAGTGGTGGC
1 GGTAGTGGTGGTGG--GTGGAAGACAAGGCGGTAGTGGTGGC
* * *
23328465 GGTAGTGGTGGATATGGTGGAGGACAAGGCGGTAGTGGTGGT
1 GGTAGTGGTGG-T-GGGTGGAAGACAAGGCGGTAGTGGTGGC
*
23328507 GGTAGTGGTAGTGG
1 GGTAGTGGTGGTGG
23328521 AGGACATGGC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 43 0.91
43 1 0.02
44 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.53, T:0.23
Consensus pattern (40 bp):
GGTAGTGGTGGTGGGTGGAAGACAAGGCGGTAGTGGTGGC
Found at i:23328484 original size:30 final size:30
Alignment explanation
Indices: 23328409--23328472 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
23328399 AAGGGACATG
* * *
23328409 GTGGAGGACAAGGTGGTAGTGGTGGTGGCA
1 GTGGAAGACACGGTGGTAGTGGTGGCGGCA
*
23328439 GTGGAAGACACGGTGGTAGTGGTGGCGGTA
1 GTGGAAGACACGGTGGTAGTGGTGGCGGCA
23328469 GTGG
1 GTGG
23328473 TGGATATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.08, G:0.53, T:0.20
Consensus pattern (30 bp):
GTGGAAGACACGGTGGTAGTGGTGGCGGCA
Found at i:23328496 original size:30 final size:30
Alignment explanation
Indices: 23328462--23328660 Score: 96
Period size: 30 Copynumber: 6.4 Consensus size: 30
23328452 TGGTAGTGGT
23328462 GGCGGTAGTGGTGGATATGGTGGAGGACAA
1 GGCGGTAGTGGTGGATATGGTGGAGGACAA
* *
23328492 GGCGGTAGTGGTGGTGGTAGTGGTAGTGGAGGACAT
1 GGCGGTAGTGGT-G-GATA-T-G--GTGGAGGACAA
* ** *
23328528 GGCGGTAGTGGCGGGCATGGTGGAGGAAAA
1 GGCGGTAGTGGTGGATATGGTGGAGGACAA
* * *** * *
23328558 GGAGGCAGTGGTGGCGGTGGAGGAGGACAT
1 GGCGGTAGTGGTGGATATGGTGGAGGACAA
* * * * * **
23328588 GGTGGCAGTGGTGGACATGGAGATAGTG--GT
1 GGCGGTAGTGGTGGATATGGTG-GAG-GACAA
** * *
23328618 GGTAGTAGTGGGGGATATGGCGGAGGACAA
1 GGCGGTAGTGGTGGATATGGTGGAGGACAA
23328648 GGCGGTAGTGGTG
1 GGCGGTAGTGGTG
23328661 ACAACAACGG
Statistics
Matches: 127, Mismatches: 32, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
28 1 0.01
29 2 0.02
30 88 0.69
31 3 0.02
32 5 0.04
33 2 0.02
34 4 0.03
35 1 0.01
36 21 0.17
ACGTcount: A:0.21, C:0.08, G:0.53, T:0.19
Consensus pattern (30 bp):
GGCGGTAGTGGTGGATATGGTGGAGGACAA
Found at i:23328547 original size:18 final size:18
Alignment explanation
Indices: 23328481--23328538 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
23328471 GGTGGATATG
*
23328481 GTGGAGGACAAGGCGGTA
1 GTGGAGGACATGGCGGTA
* *** * *
23328499 GTGGTGGTGGTAGTGGTA
1 GTGGAGGACATGGCGGTA
23328517 GTGGAGGACATGGCGGTA
1 GTGGAGGACATGGCGGTA
23328535 GTGG
1 GTGG
23328539 CGGGCATGGT
Statistics
Matches: 27, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.19, C:0.07, G:0.53, T:0.21
Consensus pattern (18 bp):
GTGGAGGACATGGCGGTA
Found at i:23328581 original size:21 final size:21
Alignment explanation
Indices: 23328557--23328598 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23328547 GTGGAGGAAA
*
23328557 AGGAGG-CAGTGGTGGCGGTGG
1 AGGAGGACA-TGGTGGCAGTGG
23328578 AGGAGGACATGGTGGCAGTGG
1 AGGAGGACATGGTGGCAGTGG
23328599 TGGACATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.19, C:0.10, G:0.57, T:0.14
Consensus pattern (21 bp):
AGGAGGACATGGTGGCAGTGG
Found at i:23347760 original size:20 final size:21
Alignment explanation
Indices: 23347718--23347758 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23347708 TAAAAAAAAA
23347718 CATAAAATTCTTAAATTTTTT
1 CATAAAATTCTTAAATTTTTT
23347739 CATAAAATTC-TATAATTTTT
1 CATAAAATTCTTA-AATTTTT
23347759 CAGAAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (21 bp):
CATAAAATTCTTAAATTTTTT
Found at i:23347765 original size:20 final size:21
Alignment explanation
Indices: 23347721--23347765 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
23347711 AAAAAAACAT
*
23347721 AAAATTCTTAAATTTTTTCAT
1 AAAATTCTTAAATTTTTTCAG
23347742 AAAATTC-TATAA-TTTTTCAG
1 AAAATTCTTA-AATTTTTTCAG
23347762 AAAA
1 AAAA
23347766 ACTCTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
AAAATTCTTAAATTTTTTCAG
Found at i:23347766 original size:21 final size:20
Alignment explanation
Indices: 23347721--23347776 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
23347711 AAAAAAACAT
*
23347721 AAAATTCT-TAAATTTTTTCAT
1 AAAATTCTAT-AA-TTTTTCAA
23347742 AAAATTCTATAATTTTTCAGA
1 AAAATTCTATAATTTTTCA-A
* *
23347763 AAAACTCTAAAATT
1 AAAATTCTATAATT
23347777 CCTAATAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 7 0.23
21 22 0.73
22 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAATTCTATAATTTTTCAA
Found at i:23351497 original size:23 final size:23
Alignment explanation
Indices: 23351471--23351527 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
23351461 CACTCTTTGT
*
23351471 TTATCCGCTTCAGCGTTGTTCTA
1 TTATCCGCTTCAGCGGTGTTCTA
* **
23351494 TTATCCACTTTGGCGGTGTTCTA
1 TTATCCGCTTCAGCGGTGTTCTA
*
23351517 TTATTCGCTTC
1 TTATCCGCTTC
23351528 GACGATGTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.46
Consensus pattern (23 bp):
TTATCCGCTTCAGCGGTGTTCTA
Found at i:23351536 original size:23 final size:23
Alignment explanation
Indices: 23351487--23351536 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
23351477 GCTTCAGCGT
* * *
23351487 TGTTCTATTATCCACTTTGGCGG
1 TGTTCTATTATCCACTTCGACGA
* *
23351510 TGTTCTATTATTCGCTTCGACGA
1 TGTTCTATTATCCACTTCGACGA
23351533 TGTT
1 TGTT
23351537 TTGTTCTGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (23 bp):
TGTTCTATTATCCACTTCGACGA
Found at i:23354963 original size:12 final size:12
Alignment explanation
Indices: 23354946--23354993 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
23354936 GATTTGTGTA
23354946 TGCCGGTGTCGG
1 TGCCGGTGTCGG
*
23354958 TGCCGGTGCCGG
1 TGCCGGTGTCGG
* **
23354970 TGCTGGTGAGGG
1 TGCCGGTGTCGG
*
23354982 TGACGGTGTCGG
1 TGCCGGTGTCGG
23354994 GCTTGTGCTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.04, C:0.21, G:0.52, T:0.23
Consensus pattern (12 bp):
TGCCGGTGTCGG
Found at i:23354969 original size:18 final size:18
Alignment explanation
Indices: 23354946--23354993 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
23354936 GATTTGTGTA
*
23354946 TGCCGGTGTCGGTGCCGG
1 TGCCGGTGTCGGTGACGG
*
23354964 TGCCGGTG-CTGGTGAGGG
1 TGCCGGTGTC-GGTGACGG
*
23354982 TGACGGTGTCGG
1 TGCCGGTGTCGG
23354994 GCTTGTGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.04, C:0.21, G:0.52, T:0.23
Consensus pattern (18 bp):
TGCCGGTGTCGGTGACGG
Found at i:23355842 original size:18 final size:18
Alignment explanation
Indices: 23355802--23355858 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
23355792 TCTCTCAACA
*
23355802 AAAATTCCAAAATAATTTTT
1 AAAATTCC-AAAT-ATTTAT
*
23355822 AAAATTCTAAATATTTAT
1 AAAATTCCAAATATTTAT
23355840 AAAAATTCCAAAT-TTTAT
1 -AAAATTCCAAATATTTAT
23355858 A
1 A
23355859 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 1 0.03
18 10 0.30
19 15 0.45
20 7 0.21
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTCCAAATATTTAT
Found at i:23355852 original size:26 final size:25
Alignment explanation
Indices: 23355823--23355872 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
23355813 ATAATTTTTA
23355823 AAATTCTAAATATTTATAAAAATTCC
1 AAATTCTAAATATTTA-AAAAATTCC
* * *
23355849 AAATTTTATATTTTTAAAAAATTC
1 AAATTCTAAATATTTAAAAAATTC
23355873 TAAAAGTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATTCTAAATATTTAAAAAATTCC
Found at i:23356924 original size:550 final size:551
Alignment explanation
Indices: 23355876--23356978 Score: 2199
Period size: 550 Copynumber: 2.0 Consensus size: 551
23355866 AAAATTCTAA
23355876 AAGTTTCAAAAAAAATTCTAAAAAATATATAAAGAAATTTAAAAAAACAAAAATTTTCTAGAATA
1 AAGTTTCAAAAAAAATTCTAAAAAATATATAAAGAAATTTAAAAAAACAAAAATTTTCTAGAATA
23355941 ATAATTTGGGAGACTTAAATAAATTAATTAATGATTAAAGTTTATCATACTAAAGTAAATTTTTT
66 ATAATTTGGGAGACTTAAATAAATTAATTAATGATTAAAGTTTATCATACTAAAGTAAATTTTTT
23356006 ATTTTGCTTTAAAAAAGTTTTCAAATATATATGGTTTCAAATTTATGTGCTCCAACATTGAATTA
131 ATTTTGCTTTAAAAAAGTTTTCAAATATATATGGTTTCAAATTTATGTGCTCCAACATTGAATTA
23356071 GTTATTTTGTAATAAAATTTTAATTTATCATGTTTAATTTTTTTAATTTAACTCGAACGTTTCAC
196 GTTATTTTGTAATAAAATTTTAATTTATCATGTTTAATTTTTTTAATTTAACTCGAACGTTTCAC
23356136 TCGATTCGACTCAATTCGAATTTTATTTCACTCGATTTGATTCGAAAAAAAATTTAAATCGAGCT
261 TCGATTCGACTCAATTCGAATTTTATTTCACTCGATTTGATTCGAAAAAAAATTTAAATCGAGCT
23356201 AAGATGATAAAATAGGAATTGTCAATTCGATTAACTCAAAATTTTTTCACTCGATTCGATCGATC
326 AAGATGATAAAATAGGAATTGTCAATTCGATTAACTCAAAATTTTTTCACTCGATTCGATCGATC
23356266 CTCACCCCTAATTGCGTTTGTGGATTGAATGAGACGGGTACGATACTTGTTTGTGAAAATAACAC
391 CTCACCCCTAATTGCGTTTGTGGATTGAATGAGACGGGTACGATACTTGTTTGTGAAAATAACAC
23356331 TAAAAATAATGAAGGCATTTTCTTAACAATCATTCAAGGAAGGAGGACCATATATGGTAGGCTTT
456 TAAAAATAATGAAGGCATTTTCTTAACAATCATTCAAGGAAGGAGGACCATATATGGTAGGCTTT
23356396 CTTATTCACTTTTCTACTTGAGAAGTTTTCT
521 CTTATTCACTTTTCTACTTGAGAAGTTTTCT
23356427 AAGTTTC-AAAAAAATTCTAAAAAATATATAAAGAAATTTAAAAAAACAAAAATTTTCTAGAATA
1 AAGTTTCAAAAAAAATTCTAAAAAATATATAAAGAAATTTAAAAAAACAAAAATTTTCTAGAATA
23356491 ATAATTTGGGAGACTTAAATAAATTAATTAATGATTAAAGTTTATCATACTAAAGTAAATTTTTT
66 ATAATTTGGGAGACTTAAATAAATTAATTAATGATTAAAGTTTATCATACTAAAGTAAATTTTTT
23356556 ATTTTGCTTTAAAAAAGTTTTCAAATATATATGGTTTCAAATTTATGTGCTCCAACATTGAATTA
131 ATTTTGCTTTAAAAAAGTTTTCAAATATATATGGTTTCAAATTTATGTGCTCCAACATTGAATTA
23356621 GTTATTTTGTAATAAAATTTTAATTTATCATGTTTAATTTTTTTAATTTAACTCGAACGTTTCAC
196 GTTATTTTGTAATAAAATTTTAATTTATCATGTTTAATTTTTTTAATTTAACTCGAACGTTTCAC
23356686 TCGATTCGACTCAATTCGAATTTTATTTCACTCGATTTGATTCGAAAAAAAATTTAAATCGAGCT
261 TCGATTCGACTCAATTCGAATTTTATTTCACTCGATTTGATTCGAAAAAAAATTTAAATCGAGCT
23356751 AAGATGATAAAATAGGAATTGTCAATTCGATTAACTCAAAATTTTTTCACTCGATTCGATCGATC
326 AAGATGATAAAATAGGAATTGTCAATTCGATTAACTCAAAATTTTTTCACTCGATTCGATCGATC
23356816 CTCACCCCTAATTGCGTTTGTGGATTGAATGAGACGGGTACGATACTTGTTTGTGAAAATAACAC
391 CTCACCCCTAATTGCGTTTGTGGATTGAATGAGACGGGTACGATACTTGTTTGTGAAAATAACAC
23356881 TAAAAATAATGAAGGCATTTTCTTAACAATCATTCAAGGAAGGAGGACCATATATGGTAGGCTTT
456 TAAAAATAATGAAGGCATTTTCTTAACAATCATTCAAGGAAGGAGGACCATATATGGTAGGCTTT
23356946 CTTATTCACTTTTCTACTTGAGAAGTTTTCT
521 CTTATTCACTTTTCTACTTGAGAAGTTTTCT
23356977 AA
1 AA
23356979 TGCTTTGGGA
Statistics
Matches: 552, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
550 545 0.99
551 7 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (551 bp):
AAGTTTCAAAAAAAATTCTAAAAAATATATAAAGAAATTTAAAAAAACAAAAATTTTCTAGAATA
ATAATTTGGGAGACTTAAATAAATTAATTAATGATTAAAGTTTATCATACTAAAGTAAATTTTTT
ATTTTGCTTTAAAAAAGTTTTCAAATATATATGGTTTCAAATTTATGTGCTCCAACATTGAATTA
GTTATTTTGTAATAAAATTTTAATTTATCATGTTTAATTTTTTTAATTTAACTCGAACGTTTCAC
TCGATTCGACTCAATTCGAATTTTATTTCACTCGATTTGATTCGAAAAAAAATTTAAATCGAGCT
AAGATGATAAAATAGGAATTGTCAATTCGATTAACTCAAAATTTTTTCACTCGATTCGATCGATC
CTCACCCCTAATTGCGTTTGTGGATTGAATGAGACGGGTACGATACTTGTTTGTGAAAATAACAC
TAAAAATAATGAAGGCATTTTCTTAACAATCATTCAAGGAAGGAGGACCATATATGGTAGGCTTT
CTTATTCACTTTTCTACTTGAGAAGTTTTCT
Found at i:23360638 original size:9 final size:9
Alignment explanation
Indices: 23360624--23360650 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23360614 CACTGAAGAT
23360624 TCACTCAAA
1 TCACTCAAA
23360633 TCACTCAAA
1 TCACTCAAA
23360642 TCACTCAAA
1 TCACTCAAA
23360651 GTGCTTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (9 bp):
TCACTCAAA
Found at i:23362032 original size:6 final size:6
Alignment explanation
Indices: 23362021--23362064 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
23362011 AAATATTAAG
*
23362021 AAAATA AAAATA AACATA AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
23362065 CAAATAGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:23363678 original size:19 final size:18
Alignment explanation
Indices: 23363656--23363714 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
23363646 ATTAAAGCAG
23363656 AATAAAACAAATAAAGAAT
1 AATAAAA-AAATAAAGAAT
* *
23363675 AATAATAAGAATAGAGGAAT
1 AATAA-AAAAATA-AAGAAT
* *
23363695 AATATAAAAATAAAGGAT
1 AATAAAAAAATAAAGAAT
23363713 AA
1 AA
23363715 ACAAGAAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 6 0.19
19 15 0.47
20 11 0.34
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.19
Consensus pattern (18 bp):
AATAAAAAAATAAAGAAT
Found at i:23363751 original size:15 final size:16
Alignment explanation
Indices: 23363733--23363763 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23363723 GAATAATAAG
23363733 CAAAT-AAATAAAAAT
1 CAAATAAAATAAAAAT
23363748 CAAATAAAATAAAAAT
1 CAAATAAAATAAAAAT
23363764 AAAAATAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
CAAATAAAATAAAAAT
Found at i:23363985 original size:5 final size:5
Alignment explanation
Indices: 23363975--23364005 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
23363965 GGAGAAGGGA
*
23363975 AGGTG ATGTG AGGTG AGGTG AGGTG AGGTG A
1 AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG A
23364006 AAAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.55, T:0.23
Consensus pattern (5 bp):
AGGTG
Found at i:23369128 original size:41 final size:41
Alignment explanation
Indices: 23369071--23369192 Score: 244
Period size: 41 Copynumber: 3.0 Consensus size: 41
23369061 AAGTTTGACC
23369071 AAGTCTAAGCAATGCTCAAACTTGGTTATAGGAAGTGACTT
1 AAGTCTAAGCAATGCTCAAACTTGGTTATAGGAAGTGACTT
23369112 AAGTCTAAGCAATGCTCAAACTTGGTTATAGGAAGTGACTT
1 AAGTCTAAGCAATGCTCAAACTTGGTTATAGGAAGTGACTT
23369153 AAGTCTAAGCAATGCTCAAACTTGGTTATAGGAAGTGACT
1 AAGTCTAAGCAATGCTCAAACTTGGTTATAGGAAGTGACT
23369193 CAGTCATCAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (41 bp):
AAGTCTAAGCAATGCTCAAACTTGGTTATAGGAAGTGACTT
Found at i:23375697 original size:17 final size:16
Alignment explanation
Indices: 23375675--23375718 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
23375665 CATATTATAT
23375675 TATTTATATTATTGAA
1 TATTTATATTATTGAA
*
23375691 TTGTTTAGTA-TATTGAA
1 -TATTTA-TATTATTGAA
23375708 TATTTATATTA
1 TATTTATATTA
23375719 AAATTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 2 0.09
16 7 0.30
17 12 0.52
18 2 0.09
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (16 bp):
TATTTATATTATTGAA
Found at i:23378492 original size:3 final size:3
Alignment explanation
Indices: 23378484--23378513 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23378474 AGCTAACGAG
23378484 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23378514 CAATGTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.