Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 59 of 109
Found at i:11709263 original size:12 final size:12
Alignment explanation
Indices: 11709246--11709271 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11709236 TGAGCTTGCG
11709246 TCTTCCTAAATC
1 TCTTCCTAAATC
11709258 TCTTCCTAAATC
1 TCTTCCTAAATC
11709270 TC
1 TC
11709272 AAACCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (12 bp):
TCTTCCTAAATC
Found at i:11709575 original size:29 final size:30
Alignment explanation
Indices: 11709543--11709612 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
11709533 TGATATCATA
*
11709543 ATAAAAATTTAAAAAATATATTTTAAAT-T
1 ATAAAAATTTAAAAAATATATTTAAAATAT
* * *
11709572 ATAATATTTTATAAAATATATTTAAAATAT
1 ATAAAAATTTAAAAAATATATTTAAAATAT
11709602 ATAAAAATTTA
1 ATAAAAATTTA
11709613 TTTTTTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 24 0.71
30 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAAAATTTAAAAAATATATTTAAAATAT
Found at i:11709998 original size:29 final size:30
Alignment explanation
Indices: 11709965--11710026 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
11709955 ATTTTTAGTT
* *
11709965 CCTAAATTTTGAGAGAA-TGTATTTTGGTC
1 CCTAAACTTTGAGAGAATTCTATTTTGGTC
11709994 CCTAAACTTTGAGAGAATTCTATTTTGGTC
1 CCTAAACTTTGAGAGAATTCTATTTTGGTC
11710024 CCT
1 CCT
11710027 TTTTTGTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (30 bp):
CCTAAACTTTGAGAGAATTCTATTTTGGTC
Found at i:11710981 original size:104 final size:104
Alignment explanation
Indices: 11710801--11711017 Score: 382
Period size: 104 Copynumber: 2.1 Consensus size: 104
11710791 TCCTGTATCA
* * *
11710801 AAAGGATGATTAATCTACCTTATAGTTCTATCACTTTCTTTATATATAAACCAAACATAATATAA
1 AAAGGATGATTAATCCACCTTACAATTCTATCACTTTCTTTATATATAAACCAAACATAATATAA
11710866 TATGATTATCATCATATTCTACCAATAATCCTATACATC
66 TATGATTATCATCATATTCTACCAATAATCCTATACATC
*
11710905 AAAGGATGATTAATCCACCTTACAATTCTATCACTTTCTTTATATATAAACCAAACATAATATAG
1 AAAGGATGATTAATCCACCTTACAATTCTATCACTTTCTTTATATATAAACCAAACATAATATAA
*
11710970 TATGATTATCATCCTATTCTACCAATAATCCTATACATC
66 TATGATTATCATCATATTCTACCAATAATCCTATACATC
11711009 AAA-GATGAT
1 AAAGGATGAT
11711018 CTTAATTTTC
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 6 0.06
104 102 0.94
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.36
Consensus pattern (104 bp):
AAAGGATGATTAATCCACCTTACAATTCTATCACTTTCTTTATATATAAACCAAACATAATATAA
TATGATTATCATCATATTCTACCAATAATCCTATACATC
Found at i:11718246 original size:13 final size:13
Alignment explanation
Indices: 11718228--11718253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11718218 AATAAAATAT
11718228 AAAATTTTGATTA
1 AAAATTTTGATTA
11718241 AAAATTTTGATTA
1 AAAATTTTGATTA
11718254 CGATGAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAATTTTGATTA
Found at i:11719175 original size:2 final size:2
Alignment explanation
Indices: 11719168--11719195 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11719158 TTAACGTCTT
11719168 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
11719196 ACATCCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11724393 original size:55 final size:55
Alignment explanation
Indices: 11724334--11724470 Score: 150
Period size: 55 Copynumber: 2.5 Consensus size: 55
11724324 AATTCGTTAA
* * *
11724334 TATAGACTTGTATTTTTTAATTTTTTTACCTACATCGATGGTTAGAGACTATCAG
1 TATAGACTTGTATATTTTAATTTTTTTACCTACACCAATGGTTAGAGACTATCAG
* * * * ** * * *
11724389 TATAGAATTGTGTACTTTAATTTTCTTACCTTTACCAATGGTTAGAGATTGTCGG
1 TATAGACTTGTATATTTTAATTTTTTTACCTACACCAATGGTTAGAGACTATCAG
*
11724444 TATAGACTTATATATTTT-ATTTTTTTA
1 TATAGACTTGTATATTTTAATTTTTTTA
11724471 TTATATTTTG
Statistics
Matches: 65, Mismatches: 17, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
54 8 0.12
55 57 0.88
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (55 bp):
TATAGACTTGTATATTTTAATTTTTTTACCTACACCAATGGTTAGAGACTATCAG
Found at i:11726308 original size:101 final size:101
Alignment explanation
Indices: 11726133--11726335 Score: 345
Period size: 101 Copynumber: 2.0 Consensus size: 101
11726123 TTCAAGTTTT
* *
11726133 TAATTTCAATCTTCAACTCTTGTATTTCTTTCTTATGCTGAACCAATTCAGAAGATGAAACACCA
1 TAATTTCAACCTTCAACTCTTGTACTTCTTTCTTATGCTGAACCAATTCAGAAGATGAAACACCA
11726198 TATTGTTTAGATGAAGTAGATATTGTACCTATGTAA
66 TATTGTTTAGATGAAGTAGATATTGTACCTATGTAA
* * *
11726234 TAATTTCAACCTTTAACTCTTGTACTT-TTTCTTTATGCTGAACCAATTTAGAAGATGAAAGACC
1 TAATTTCAACCTTCAACTCTTGTACTTCTTTC-TTATGCTGAACCAATTCAGAAGATGAAACACC
11726298 ATATTGTTTAGATGAAGTAGATATTGTACCTATGTAA
65 ATATTGTTTAGATGAAGTAGATATTGTACCTATGTAA
11726335 T
1 T
11726336 GAACACGTCT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 4 0.04
101 92 0.96
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (101 bp):
TAATTTCAACCTTCAACTCTTGTACTTCTTTCTTATGCTGAACCAATTCAGAAGATGAAACACCA
TATTGTTTAGATGAAGTAGATATTGTACCTATGTAA
Found at i:11732258 original size:62 final size:62
Alignment explanation
Indices: 11732166--11732336 Score: 204
Period size: 63 Copynumber: 2.7 Consensus size: 62
11732156 AATTAAATGA
* *
11732166 GATTATTCAAGGCATTTTTGGCCAAAATGCCTTGAATAATTCCTAAAAAATTTTATG-AGGG
1 GATTATTCAAGGTATTTTTGGCCAAAATGCCTTGAATAATTCCTAAAAAATTTTATGTAAGG
* * *** *
11732227 GATTATTGAAGGTATTTTTTGCCACAAATGCCTTGAATAA--CCTTCATTCAATTTTTTGTAAGG
1 GATTATTCAAGGTATTTTTGGCCA-AAATGCCTTGAATAATTCC-T-AAAAAATTTTATGTAAGG
11732290 GATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAATTTCCTA
1 GATTATTCAAGGTATTTTTGGCC-AAAATGCCTTGAATAA-TTCCTA
11732337 CCATTTTTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
60 2 0.02
61 22 0.24
62 24 0.26
63 39 0.42
64 2 0.02
65 1 0.01
66 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (62 bp):
GATTATTCAAGGTATTTTTGGCCAAAATGCCTTGAATAATTCCTAAAAAATTTTATGTAAGG
Found at i:11732321 original size:63 final size:62
Alignment explanation
Indices: 11732166--11732513 Score: 209
Period size: 62 Copynumber: 5.7 Consensus size: 62
11732156 AATTAAATGA
* *
11732166 GATTATTCAAGGCATTTTTGGCC-AAAATGCCTTGAATAATTCCTAAAAAATTTTATGAGGG
1 GATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAATTCCTAAAAAATTTTATGAAGG
* * * *** *
11732227 GATTATTGAAGGTATTTTTTGCCACAAATGCCTTGAATAA--CCTTCATTCAATTTTTTGTAAGG
1 GATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAATTCC-T-AAAAAATTTTATG-AAGG
** *
11732290 GATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAATTTCCT--ACCATTTT-T-TAGG
1 GATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAA-TTCCTAAAAAATTTTATGAAGG
* ** * ** * * *
11732349 GTATTATTCAAGGTGTTTTTGATCATAAACACCTTAAATAATCCCTTATAAAAA--AT-TGAATG
1 G-ATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAATTCC-TA-AAAAATTTTATGAA-G
11732411 G
62 G
* * * * * *** * *
11732412 CG-TTATTCAATGTATTTTTAGCTAAAAATGCCTTCAATAATCCCTTTCAATTTTTATGAAAG
1 -GATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAATTCCTAAAAAATTTTATGAAGG
* * *
11732474 GATTATTCAAGCG--TTTTTGGCAAAAAACGCCTTAAATAAT
1 GATTATTCAAG-GTATTTTTGGCCAAAAATGCCTTGAATAAT
11732514 CCTCTCTAAT
Statistics
Matches: 219, Mismatches: 48, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
59 7 0.03
60 37 0.17
61 49 0.22
62 73 0.33
63 49 0.22
64 1 0.00
65 1 0.00
66 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (62 bp):
GATTATTCAAGGTATTTTTGGCCAAAAATGCCTTGAATAATTCCTAAAAAATTTTATGAAGG
Found at i:11732480 original size:62 final size:62
Alignment explanation
Indices: 11732414--11732703 Score: 159
Period size: 62 Copynumber: 4.6 Consensus size: 62
11732404 TTGAATGGCG
* * *
11732414 TTATTCAATGTATTTTTAGCTAAAAATGCCTTCAATAATCCCTTTC-AATTTTTATGAAAGGA
1 TTATTCAA-GCATTTTTAGCAAAAAATGCCTTAAATAATCCCTTTCAAATTTTTATGAAAGGA
* * * * * *
11732476 TTATTCAAGCGTTTTTGGCAAAAAACGCCTTAAATAAT-CCTCTCTAATTTTTTTATTG--GGGA
1 TTATTCAAGCATTTTTAGCAAAAAATGCCTTAAATAATCCCTTTC-AA-ATTTTTA-TGAAAGGA
* * * * * *** **
11732538 TTATTCAAAGAATTTTT-GTCCAAAAAATACCTTGAATAATCTCTTACAAAAGATTA--AATTGA
1 TTATTC-AAGCATTTTTAG--CAAAAAATGCCTTAAATAATCCCTTTCAAATTTTTATGAAAGGA
* * * *
11732600 GTTATTCAAGGCATTTCTAGCTAAAAATCCCTTAAATAATCTCC-TTC-AATTTTTATGAAATGA
1 -TTATTCAA-GCATTTTTAGCAAAAAATGCCTTAAATAATC-CCTTTCAAATTTTTATGAAAGGA
* * *
11732663 TTATTCAAGACATGTTT-GCCCAAAAAACGCCTTGAATAATC
1 TTATTCAAG-CATTTTTAG--CAAAAAATGCCTTAAATAATC
11732704 TCTCACAAAA
Statistics
Matches: 169, Mismatches: 40, Indels: 37
0.69 0.16 0.15
Matches are distributed among these distances:
60 5 0.03
61 31 0.18
62 56 0.33
63 52 0.31
64 22 0.13
65 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (62 bp):
TTATTCAAGCATTTTTAGCAAAAAATGCCTTAAATAATCCCTTTCAAATTTTTATGAAAGGA
Found at i:11732653 original size:125 final size:125
Alignment explanation
Indices: 11732496--11732761 Score: 278
Period size: 125 Copynumber: 2.1 Consensus size: 125
11732486 GTTTTTGGCA
* * * *
11732496 AAAAACGCCTTAAATAATCCTCTCTAATTTTTTTATTG-GGGATTATTCAAAGA-ATTTTTGTCC
1 AAAAACACCTTAAATAATCCTCTCTAA-TTTTTTA-TGAAGGATTATTC-AAGACATGTTTGCCC
* * *
11732559 AAAAAATACCTTGAATAATCTCTTACAAAAGATTAAATTG-A-GTTATTCAAGGCATTTCTAGCT
63 AAAAAACACCTTGAATAATCTCTCACAAAA-ATTAAA-CGAAGGTTATTCAAGGCATTTCTAGCT
*
11732622 AAAAATC-CCTTAAATAAT-CTC-CTTCAA-TTTTTATGAAATGATTATTCAAGACATGTTTGCC
1 AAAAA-CACCTTAAATAATCCTCTC-T-AATTTTTTATG-AAGGATTATTCAAGACATGTTTGCC
* * * *
11732683 CAAAAAACGCCTTGAATAATCTCTCACAAAAATTGAACGAAGGTTATTCAAGGCGTTTCTGGCT
62 CAAAAAACACCTTGAATAATCTCTCACAAAAATTAAACGAAGGTTATTCAAGGCATTTCTAGCT
*
11732747 AGAAACACCTTAAAT
1 AAAAACACCTTAAAT
11732762 TATCATTATT
Statistics
Matches: 119, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
123 3 0.03
124 18 0.15
125 79 0.66
126 18 0.15
127 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (125 bp):
AAAAACACCTTAAATAATCCTCTCTAATTTTTTATGAAGGATTATTCAAGACATGTTTGCCCAAA
AAACACCTTGAATAATCTCTCACAAAAATTAAACGAAGGTTATTCAAGGCATTTCTAGCT
Found at i:11732705 original size:63 final size:63
Alignment explanation
Indices: 11732435--11732705 Score: 163
Period size: 63 Copynumber: 4.3 Consensus size: 63
11732425 ATTTTTAGCT
* * * *
11732435 AAAAATGCCTTCAATAATC-CCTTTC-AATTTTTATGAAAGGATTATTCAAG-CGTTTTTGGCA
1 AAAAACGCCTTAAATAATCTCC-TTCAAATTTTTATGAAAGGATTATTCAAGACATTTTTGCCA
* *
11732496 AAAAACGCCTTAAATAA--TCCTCTCTAATTTTTTTATTG--GGGATTATTCAAAGA-ATTTTTG
1 AAAAACGCCTTAAATAATCTCCT-TC-AA-ATTTTTA-TGAAAGGATTATTC-AAGACATTTTTG
11732556 TCCA
61 -CCA
** * *** ** * * *
11732560 AAAAATACCTTGAATAATCT-CTTACAAAAGATTA--AATTGAGTTATTCAAGGCATTTCTAGCT
1 AAAAACGCCTTAAATAATCTCCTT-CAAATTTTTATGAAAGGA-TTATTCAAGACATTT-TTGCC
11732622 A
63 A
* * *
11732623 AAAATC-CCTTAAATAATCTCCTTC-AATTTTTATGAAATGATTATTCAAGACATGTTTGCCCA
1 AAAAACGCCTTAAATAATCTCCTTCAAATTTTTATGAAAGGATTATTCAAGACATTTTTG-CCA
*
11732685 AAAAACGCCTTGAATAATCTC
1 AAAAACGCCTTAAATAATCTC
11732706 TCACAAAAAT
Statistics
Matches: 157, Mismatches: 31, Indels: 42
0.68 0.13 0.18
Matches are distributed among these distances:
59 1 0.01
60 4 0.03
61 22 0.14
62 48 0.31
63 55 0.35
64 23 0.15
65 3 0.02
66 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (63 bp):
AAAAACGCCTTAAATAATCTCCTTCAAATTTTTATGAAAGGATTATTCAAGACATTTTTGCCA
Found at i:11736242 original size:23 final size:25
Alignment explanation
Indices: 11736206--11736251 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
11736196 ACTACGAATT
*
11736206 ACATTTTAGAATTT-AA-ATTACGA
1 ACATTGTAGAATTTCAATATTACGA
*
11736229 ACATTGTAGTATTTCAATATTAC
1 ACATTGTAGAATTTCAATATTAC
11736252 ACTACACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 2 0.11
25 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (25 bp):
ACATTGTAGAATTTCAATATTACGA
Found at i:11736939 original size:21 final size:19
Alignment explanation
Indices: 11736913--11736951 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
11736903 TGAATAGAAA
*
11736913 AAAAGTTATTAATAGAAAAAT
1 AAAAGTAATT-AT-GAAAAAT
11736934 AAAAGTAATTATGAAAAA
1 AAAAGTAATTATGAAAAA
11736952 ACACAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (19 bp):
AAAAGTAATTATGAAAAAT
Found at i:11740201 original size:62 final size:62
Alignment explanation
Indices: 11740088--11740204 Score: 141
Period size: 62 Copynumber: 1.9 Consensus size: 62
11740078 AAATATCTTG
* * * *
11740088 AATAATCTCCTCATAAAAATTGAAAAGAATTATTGAATGTATTTTTTGCCAGAAACACCTTA
1 AATAATCCCCTAATAAAAATTGAAAAGAATTATTCAATGTATTTTTGGCCAGAAACACCTTA
*
11740150 AATAATCCCCTAATAAAAATT-AAAGGAAATTATTCAA-G-ACTTTCTTGGCCAGAAA
1 AATAATCCCCTAATAAAAATTGAAAAG-AATTATTCAATGTA-TTT-TTGGCCAGAAA
11740205 AGTCTTGACT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
60 1 0.02
61 8 0.17
62 38 0.81
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (62 bp):
AATAATCCCCTAATAAAAATTGAAAAGAATTATTCAATGTATTTTTGGCCAGAAACACCTTA
Found at i:11740244 original size:62 final size:62
Alignment explanation
Indices: 11740178--11740319 Score: 166
Period size: 62 Copynumber: 2.3 Consensus size: 62
11740168 ATTAAAGGAA
* * *
11740178 ATTATTCAAGAC-TTTCTTGGCCAGAAAA-GTCTTGACTAA-CTCTATTCAATTTTTTTTAAGAG
1 ATTATTCAAGACGTTT-TTGGCCA-AAAATGCCTTGACTAATCTC-ATTCAATTTTTTCTAAAAG
* *
11740240 ATTATTTAA-AGCGTTTTTGGTCAAAAATGCCTTGACTAATCTCATTCAATTTTTTCTAAAAG
1 ATTATTCAAGA-CGTTTTTGGCCAAAAATGCCTTGACTAATCTCATTCAATTTTTTCTAAAAG
*
11740302 ATTATTCAAGACATTTTT
1 ATTATTCAAGACGTTTTT
11740320 TTTCAAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
61 5 0.07
62 56 0.82
63 7 0.10
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (62 bp):
ATTATTCAAGACGTTTTTGGCCAAAAATGCCTTGACTAATCTCATTCAATTTTTTCTAAAAG
Found at i:11746876 original size:19 final size:20
Alignment explanation
Indices: 11746835--11746884 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11746825 AAATAAAATT
* *
11746835 ATATTTAAATTATTTATTAA
1 ATATTTATATTATTGATTAA
11746855 ATATTTATATTATTGA-TAA
1 ATATTTATATTATTGATTAA
*
11746874 ATAATTATATT
1 ATATTTATATT
11746885 TAACTAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATATTTATATTATTGATTAA
Found at i:11747040 original size:21 final size:21
Alignment explanation
Indices: 11746997--11747057 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
11746987 AAATGAATGT
* * * *
11746997 ATAAGATAACATATTATATAA
1 ATAAAATATCATATGATAAAA
* *
11747018 ATGAATTATCATATGATAAAA
1 ATAAAATATCATATGATAAAA
11747039 ATAAAATAT-ATAATGATAA
1 ATAAAATATCAT-ATGATAA
11747058 TAGTGTGTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (21 bp):
ATAAAATATCATATGATAAAA
Found at i:11747813 original size:16 final size:16
Alignment explanation
Indices: 11747794--11747836 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
11747784 AATCATTAGT
* *
11747794 ATATATTTTTATTATA
1 ATATATTTTTAGTAAA
*
11747810 ATATTTTTTTAGTAAA
1 ATATATTTTTAGTAAA
11747826 ATATATCTTTT
1 ATATAT-TTTT
11747837 TAAATAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
ATATATTTTTAGTAAA
Found at i:11748069 original size:133 final size:130
Alignment explanation
Indices: 11747782--11748101 Score: 308
Period size: 140 Copynumber: 2.3 Consensus size: 130
11747772 TGGGATATTA
* *
11747782 AAAATCATTAGTATATATTTTTATTATAATAT--TTTTTTAGTAAAA-TATATCTTTTTAAATAG
1 AAAATCATTAG--T-TA-TTTTATTATAATATGATTTATTAGTAAAATTATATCTTTTTAAATAC
* ** **
11747844 AAAATGTATTTTTTAAAATGAAGATTAAATTAAAATTCCAACAAAGTTATCAATTTAATTTACAA
62 AAAAAGTATTTTGAAAAATGAAGATTAAATTAAAATTCCAACAAAGCCATCAATTTAATTTACAA
*
11747909 TATT
127 CATT
*
11747913 AAAATCATTAGTATTTATTTTTATTATAATATGATTTATTAGTAAAATTA-ATTTTTTTAAAATA
1 AAAATCATTAG---TTA-TTTTATTATAATATGATTTATTAGTAAAATTATATCTTTTT-AAATA
* *
11747977 CAAAAAG-ACTTTTAGAAAAATTAAGATTAAATTGAAAAATTCCAACAAAGCCATTAATTTTAAT
61 CAAAAAGTA-TTTT-GAAAAATGAAGATTAAATT--AAAATTCCAACAAAGCCATCAA-TTTAAT
*
11748041 TTATAACATT
121 TTACAACATT
*
11748051 AAAATCCATTAGTATTTATATTTTATTATACTATGATTTATTAGTAAAATT
1 AAAAT-CATTAG----T-TATTTTATTATAATATGATTTATTAGTAAAATT
11748102 TTTATATTCT
Statistics
Matches: 159, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
131 28 0.18
132 1 0.01
133 20 0.13
134 16 0.10
135 16 0.10
137 19 0.12
138 19 0.12
139 6 0.04
140 32 0.20
141 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (130 bp):
AAAATCATTAGTTATTTTATTATAATATGATTTATTAGTAAAATTATATCTTTTTAAATACAAAA
AGTATTTTGAAAAATGAAGATTAAATTAAAATTCCAACAAAGCCATCAATTTAATTTACAACATT
Found at i:11748438 original size:2 final size:2
Alignment explanation
Indices: 11748431--11748466 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
11748421 AATGAAGAGC
*
11748431 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11748467 GGTGGTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11748713 original size:20 final size:18
Alignment explanation
Indices: 11748671--11748715 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
11748661 AACAAATATC
11748671 TTAAA-TAAATATAAAAA
1 TTAAATTAAATATAAAAA
11748688 -TAAATTAAAGTATAAAAA
1 TTAAATTAAA-TATAAAAA
11748706 TTTAAATTAA
1 -TTAAATTAA
11748716 CCCATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 4 0.17
18 8 0.33
20 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAATTAAATATAAAAA
Found at i:11749742 original size:2 final size:2
Alignment explanation
Indices: 11749735--11749762 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11749725 CCTAATTATT
11749735 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
11749763 AATTGCCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11750584 original size:2 final size:2
Alignment explanation
Indices: 11750577--11750611 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
11750567 TGACATTTCT
11750577 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11750612 AATAAACACT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11756411 original size:18 final size:18
Alignment explanation
Indices: 11756388--11756520 Score: 118
Period size: 18 Copynumber: 7.6 Consensus size: 18
11756378 AATTTTACTT
11756388 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
11756406 ATAAATAA-ATAATATTA
1 ATAAATAATATTATATTA
* * *
11756423 TTTTAATAAATAATATATTA
1 -ATAAAT-AATATTATATTA
*
11756443 ATAAATATTATTATA--A
1 ATAAATAATATTATATTA
*
11756459 AT---TAATGTTATATTA
1 ATAAATAATATTATATTA
11756474 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
11756492 ATAAATAAAATTATAATATA
1 ATAAATAATATTAT-AT-TA
11756512 A-AAATAATA
1 ATAAATAATA
11756521 AATAGTTTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
13 8 0.09
15 3 0.03
16 3 0.03
17 8 0.09
18 44 0.48
19 15 0.16
20 10 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:11756568 original size:19 final size:18
Alignment explanation
Indices: 11756541--11756612 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
11756531 TTTTAAGTAT
*
11756541 TTTTTATATTAACATAATA
1 TTTTAATATTAA-ATAATA
*
11756560 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
* * *
11756578 TTATTAA-AATATAATTATT
1 TT-TTAATATTA-AATAATA
11756597 TTTTAATATT-AATAAT
1 TTTTAATATTAAATAAT
11756613 TTTGATAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 5 0.12
18 14 0.33
19 23 0.55
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:11756611 original size:20 final size:19
Alignment explanation
Indices: 11756538--11756613 Score: 59
Period size: 18 Copynumber: 4.1 Consensus size: 19
11756528 TTATTTTAAG
*
11756538 TATTTTTT-ATATTAACAT
1 TATTTTTTAATATTAAAAT
* *
11756556 AATATTTTAATATTAAATAT
1 TATTTTTTAATATTAAA-AT
* * *
11756576 TA-TTATTAA-AATATAAT
1 TATTTTTTAATATTAAAAT
11756593 TATTTTTTAATATTAATAAT
1 TATTTTTTAATATTAA-AAT
11756613 T
1 T
11756614 TTGATAATAA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
17 4 0.10
18 16 0.38
19 15 0.36
20 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTTTTAATATTAAAAT
Found at i:11756646 original size:26 final size:26
Alignment explanation
Indices: 11756607--11756670 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
11756597 TTTTAATATT
*
11756607 AATA-ATTTTGATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
* *
11756632 AATATATTTTAATAATAAATCATTTT
1 AATATATTTTAATAATAAATAATTTC
*
11756658 TA-ATATTTTAATA
1 AATATATTTTAATA
11756671 GTTACATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:11758492 original size:16 final size:18
Alignment explanation
Indices: 11758458--11758494 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
11758448 ATACTCTTAA
11758458 AAATTATATTAATAATTT
1 AAATTATATTAATAATTT
11758476 AAATTATA-TAA-AATTT
1 AAATTATATTAATAATTT
11758492 AAA
1 AAA
11758495 GAATAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTATATTAATAATTT
Found at i:11758608 original size:5 final size:5
Alignment explanation
Indices: 11758598--11758624 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11758588 TTTTAATATC
11758598 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
11758625 ATATCAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:11758954 original size:57 final size:57
Alignment explanation
Indices: 11758866--11758979 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
11758856 GGTTTCATTT
11758866 ACCTTCTCACATGGTTATTTGACATTTTGCATGAAAGAATAATGCAGAAGAATGGAC
1 ACCTTCTCACATGGTTATTTGACATTTTGCATGAAAGAATAATGCAGAAGAATGGAC
* * *
11758923 ACCTTCTCACATGGTTTTTTGACATTTTGCATTAAAGAATAATGCAGGAGAATGGAC
1 ACCTTCTCACATGGTTATTTGACATTTTGCATGAAAGAATAATGCAGAAGAATGGAC
11758980 TCACACTTCG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (57 bp):
ACCTTCTCACATGGTTATTTGACATTTTGCATGAAAGAATAATGCAGAAGAATGGAC
Found at i:11763209 original size:43 final size:42
Alignment explanation
Indices: 11763162--11763248 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 42
11763152 AAATATGATA
* *
11763162 AAATAACAAATTA-TGTTTGTAATATAAAAATGTCATCTTTGTC
1 AAATAA-AAACTACTGTTTGTAACAT-AAAATGTCATCTTTGTC
* * *
11763205 AAATAAAGACTACTTTTTTTAACATAAAATGTCATCTTTGTC
1 AAATAAAAACTACTGTTTGTAACATAAAATGTCATCTTTGTC
11763247 AA
1 AA
11763249 GTTAACATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 23 0.61
43 15 0.39
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (42 bp):
AAATAAAAACTACTGTTTGTAACATAAAATGTCATCTTTGTC
Found at i:11763229 original size:204 final size:199
Alignment explanation
Indices: 11762825--11763272 Score: 458
Period size: 203 Copynumber: 2.2 Consensus size: 199
11762815 GTTTAGCTTA
* * *
11762825 ATAAAAACATCATTTTTGTCAAGTTAATATAAAATTTGACAATTAAAAATTGACAAAATTGTGTT
1 ATAAAAATATCATTTTTGTCAAGTCAATATAAAATTTGACAATTAAAAATTGACAAAACTGTGTT
* * * * *
11762890 TTTAACATAGAAATGTCATTTTTGTCAAGTAAACATAAAATTTGATAATTAAAATTTTAAATTTG
66 TTTAACATAAAAACGTCATCTTTGTCAAGCAAACATAAAATTTGATAATTAAAATTTTAAATATG
* * * * * * *
11762955 CTAAAATGACAGACTGCATTTTTTAACATAAAACATCATCTTTCTTAAGCAAAGATTATGTTTCT
131 ATAAAATAACAGAATGCATTTTGTAACATAAAACATCATCTTTCTCAAACAAAGACTATGTTTCT
11763020 TAAC
196 TAAC
* * *
11763024 ATAAAAATATCATTTTTGTCAAGTCGATATAAAATTTGACAAAATT-CAAGTTGACAAAAACTGT
1 ATAAAAATATCATTTTTGTCAAGTCAATATAAAATTTGAC--AATTAAAAATTGAC-AAAACTGT
* * * * *
11763088 AATTTTTTAATATAAAAACGTTATCTTTGTCAAGCAAAGACTAAATTTTGATAATTAAAATTTTA
63 --GTTTTTAACATAAAAACGTCATCTTTGTCAAGCAAACA-TAAAATTTGATAATTAAAATTTTA
* * * *
11763153 AATATGATAAAATAACA-AAT-TATGTTTGTAATATAAAA-ATGTCATCTTTGTCAAATAAAGAC
125 AATATGATAAAATAACAGAATGCAT-TTTGTAACATAAAACA--TCATCTTTCTCAAACAAAGAC
*
11763215 TACT-TTTTTTAAC
187 TA-TGTTTCTTAAC
* * * * * *
11763228 AT-AAAATGTCATCTTTGTCAAGTTAACATAAAAATTGATAATTAA
1 ATAAAAATATCATTTTTGTCAAGTCAATATAAAATTTGACAATTAA
11763273 CATTTTAAAT
Statistics
Matches: 202, Mismatches: 36, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
199 37 0.18
200 7 0.03
201 15 0.07
202 3 0.01
203 74 0.37
204 65 0.32
205 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (199 bp):
ATAAAAATATCATTTTTGTCAAGTCAATATAAAATTTGACAATTAAAAATTGACAAAACTGTGTT
TTTAACATAAAAACGTCATCTTTGTCAAGCAAACATAAAATTTGATAATTAAAATTTTAAATATG
ATAAAATAACAGAATGCATTTTGTAACATAAAACATCATCTTTCTCAAACAAAGACTATGTTTCT
TAAC
Found at i:11763441 original size:185 final size:189
Alignment explanation
Indices: 11763120--11763485 Score: 519
Period size: 185 Copynumber: 1.9 Consensus size: 189
11763110 ATCTTTGTCA
* * *
11763120 AGCAAAGACTAAATTTTGATAATTAAAATTTTAAATATGATAAAATAACAAATTATGTTTGTAAT
1 AGCAAAGACTAAATTTTGATAATTAAAATTTTAAATATGATAAAATAAAAAAATATATTTGT-AT
* * *
11763185 ATAAAAATGTCATCTTTGTCAAATAAAGACTACTTTTTTTAACATAAAATGTCATCTTTGTCAAG
65 AT--AAA--TCATATTTGTCAAACAAAGACTACATTTTTTAACATAAAATGTCATCTTTGTCAAG
*
11763250 TTAACATAAAAATTGATAATTAACATTTTAAATATGATAAAAAGACAAAGACTATGTTTTTAAT
126 TTAACATAAAAATTGATAATTAAAATTTTAAATATGATAAAAAGACAAAGACTATGTTTTTAAT
11763314 AGCAAAGACTAAATTTTGATAATTAAAA-TTTAAATATGATAAAATGACAAAAAATATATTT-T-
1 AGCAAAGACTAAATTTTGATAATTAAAATTTTAAATATGATAAAAT-A-AAAAAATATATTTGTA
* * *
11763376 T-T-AA-CATATTTGTTAAGCAAAGACTGCATTTTTTAACATAAAATGTCATCTTTGTCAAGTTA
64 TATAAATCATATTTGTCAAACAAAGACTACATTTTTTAACATAAAATGTCATCTTTGTCAAGTTA
* *
11763438 ACATAAAAATTTATAATTAAAATTTTAAATATGATAAAATGACAAAGA
129 ACATAAAAATTGATAATTAAAATTTTAAATATGATAAAAAGACAAAGA
11763486 TTACATTTTT
Statistics
Matches: 158, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
185 97 0.61
188 2 0.01
191 1 0.01
192 1 0.01
193 17 0.11
194 30 0.19
195 10 0.06
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (189 bp):
AGCAAAGACTAAATTTTGATAATTAAAATTTTAAATATGATAAAATAAAAAAATATATTTGTATA
TAAATCATATTTGTCAAACAAAGACTACATTTTTTAACATAAAATGTCATCTTTGTCAAGTTAAC
ATAAAAATTGATAATTAAAATTTTAAATATGATAAAAAGACAAAGACTATGTTTTTAAT
Found at i:11766478 original size:3 final size:3
Alignment explanation
Indices: 11766470--11766526 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
11766460 TACTTTAATG
11766470 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11766518 TAT TAT TAT
1 TAT TAT TAT
11766527 CGCCCAATTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11766977 original size:7 final size:7
Alignment explanation
Indices: 11766965--11766995 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
11766955 TTTTAATAAG
11766965 TTTAAAT
1 TTTAAAT
11766972 TTTAAAT
1 TTTAAAT
11766979 TTTAAAT
1 TTTAAAT
11766986 TTTAACAT
1 TTTAA-AT
11766994 TT
1 TT
11766996 GTTATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAAAT
Found at i:11767036 original size:22 final size:21
Alignment explanation
Indices: 11766994--11767036 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
11766984 ATTTTAACAT
* **
11766994 TTGTTATATTTTTATTTCAAA
1 TTGTGATATTTTTATACCAAA
11767015 TTGTGATATCTTTTATACCAAA
1 TTGTGATAT-TTTTATACCAAA
11767037 AATATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (21 bp):
TTGTGATATTTTTATACCAAA
Found at i:11773770 original size:28 final size:28
Alignment explanation
Indices: 11773738--11773799 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
11773728 TATTTTTGTT
*
11773738 TATTAAAAGCAAATGATAAAACTAAACA
1 TATTAAAAGCAAATCATAAAACTAAACA
* * * *
11773766 TATTAAAAGTAAATCCTAAAATTAGACA
1 TATTAAAAGCAAATCATAAAACTAAACA
11773794 TATTAA
1 TATTAA
11773800 TTTTTATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (28 bp):
TATTAAAAGCAAATCATAAAACTAAACA
Found at i:11774268 original size:15 final size:17
Alignment explanation
Indices: 11774243--11774280 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11774233 TATTAACCCG
11774243 AAAAAGAAATTAA-AAA
1 AAAAAGAAATTAAGAAA
11774259 AAAAAG-AATTAAGGAAA
1 AAAAAGAAATTAA-GAAA
11774276 AAAAA
1 AAAAA
11774281 AACCTGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 8 0.40
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAGAAATTAAGAAA
Found at i:11774358 original size:3 final size:3
Alignment explanation
Indices: 11774350--11774395 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
11774340 TGCATTAAAC
11774350 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11774396 CAGATCTTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11778900 original size:23 final size:23
Alignment explanation
Indices: 11778857--11778900 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
11778847 AATTACCGAC
*
11778857 CAAAAACCTATTTATTACTTCAA
1 CAAAAACCTATTTAATACTTCAA
*
11778880 CAAAAGCCTA-TTAATAGCTTC
1 CAAAAACCTATTTAATA-CTTC
11778901 TTGACCTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
CAAAAACCTATTTAATACTTCAA
Found at i:11779880 original size:2 final size:2
Alignment explanation
Indices: 11779875--11779918 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
11779865 ACACACACAC
* *
11779875 AT AT AT AT AT AT AC AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11779917 AT
1 AT
11779919 TCCAGTCTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11784496 original size:21 final size:22
Alignment explanation
Indices: 11784470--11784518 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
11784460 ATTTTTAAAT
11784470 ATTTATA-TTTAAAAAATAATA
1 ATTTATATTTTAAAAAATAATA
11784491 ATTTATATTTTAAAAAATAATA
1 ATTTATATTTTAAAAAATAATA
*
11784513 TTTTAT
1 ATTTAT
11784519 TAATTTTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATATTTTAAAAAATAATA
Found at i:11785531 original size:12 final size:13
Alignment explanation
Indices: 11785477--11785534 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
11785467 AAAAATTATG
11785477 TTAAT-AATTTAAA
1 TTAATAAATTT-AA
11785490 TTATATAAATTTTAA
1 TTA-ATAAA-TTTAA
**
11785505 AAAATAAATTTAA
1 TTAATAAATTTAA
11785518 TTAATAAA-TTAA
1 TTAATAAATTTAA
11785530 TTAAT
1 TTAAT
11785535 TTATCTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 9 0.24
13 14 0.37
14 7 0.18
15 5 0.13
16 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAATAAATTTAA
Found at i:11789826 original size:16 final size:16
Alignment explanation
Indices: 11789805--11789837 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11789795 GATATTGTTT
11789805 TAATATCATTTTCGTA
1 TAATATCATTTTCGTA
*
11789821 TAATATCATTTTTGTA
1 TAATATCATTTTCGTA
11789837 T
1 T
11789838 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (16 bp):
TAATATCATTTTCGTA
Found at i:11798855 original size:3 final size:3
Alignment explanation
Indices: 11798847--11798882 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11798837 GCTAAATTTA
11798847 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11798883 TTTAGTGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11800226 original size:14 final size:13
Alignment explanation
Indices: 11800209--11800255 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
11800199 TTTAGAATTA
11800209 TTTTTTCTTTTCTC
1 TTTTTT-TTTTCTC
11800223 TTTTTTTTTT-TAC
1 TTTTTTTTTTCT-C
11800236 TTTTTTATTTTCTC
1 TTTTTT-TTTTCTC
11800250 TTTTTT
1 TTTTTT
11800256 GAAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.03
13 11 0.37
14 17 0.57
15 1 0.03
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:11800318 original size:22 final size:20
Alignment explanation
Indices: 11800291--11800370 Score: 81
Period size: 22 Copynumber: 3.8 Consensus size: 20
11800281 CTATTTTTTA
11800291 AAAAATAAAACTAGAAAATAAT
1 AAAAATAAAA-TA-AAAATAAT
** *
11800313 AAAAATAAGTTAAAAAATAAA
1 AAAAATAAAAT-AAAAATAAT
11800334 ATAAAATAAAATAAAAA-AAT
1 A-AAAATAAAATAAAAATAAT
11800354 AAAAATAAAATGAAAAA
1 AAAAATAAAAT-AAAAA
11800371 AAAAATCTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
19 10 0.20
20 8 0.16
21 14 0.29
22 17 0.35
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAAATAAAATAAAAATAAT
Found at i:11800334 original size:17 final size:17
Alignment explanation
Indices: 11800288--11800337 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
11800278 GCTCTATTTT
11800288 TTAAAAAATAAAACT-AG
1 TTAAAAAATAAAA-TAAG
11800305 --AAAATAATAAAAATAAG
1 TTAAAA-AAT-AAAATAAG
11800322 TTAAAAAATAAAATAA
1 TTAAAAAATAAAATAA
11800338 AATAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
15 4 0.14
16 4 0.14
17 13 0.46
18 3 0.11
19 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (17 bp):
TTAAAAAATAAAATAAG
Found at i:11800336 original size:5 final size:5
Alignment explanation
Indices: 11800326--11800373 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
11800316 AATAAGTTAA
11800326 AAAAT AAAAT AAAAT AAAAT -AAA- AAAAT AAAAAT AAAAT GAAAA- AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT -AAAAT AAAA
11800374 AATCTACGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
4 10 0.26
5 20 0.51
6 9 0.23
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:11800339 original size:10 final size:11
Alignment explanation
Indices: 11800291--11800376 Score: 67
Period size: 12 Copynumber: 8.0 Consensus size: 11
11800281 CTATTTTTTA
11800291 AAAAATAAAACT
1 AAAAATAAAA-T
11800303 AGAAAAT--AAT
1 A-AAAATAAAAT
**
11800313 AAAAATAAGTT
1 AAAAATAAAAT
11800324 AAAAAATAAAAT
1 -AAAAATAAAAT
11800336 -AAAATAAAAT
1 AAAAATAAAAT
11800346 --AAA-AAAAT
1 AAAAATAAAAT
11800354 AAAAATAAAAT
1 AAAAATAAAAT
*
11800365 GAAAAAAAAAAT
1 -AAAAATAAAAT
11800377 CTACGATCGG
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
8 5 0.08
9 8 0.13
10 15 0.25
11 8 0.13
12 20 0.33
13 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:11800370 original size:41 final size:44
Alignment explanation
Indices: 11800292--11800376 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 44
11800282 TATTTTTTAA
** *
11800292 AAAATAAAACTAGAAAATAATAAAAATAAGTTAAAAAATAAAAT
1 AAAATAAAACTAGAAAATAATAAAAATAAAATAAAAAAAAAAAT
*
11800336 AAAATAAAA-TA-AAAA-AATAAAAATAAAATGAAAAAAAAAAT
1 AAAATAAAACTAGAAAATAATAAAAATAAAATAAAAAAAAAAAT
11800377 CTACGATCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 22 0.59
42 4 0.11
43 2 0.05
44 9 0.24
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.18
Consensus pattern (44 bp):
AAAATAAAACTAGAAAATAATAAAAATAAAATAAAAAAAAAAAT
Found at i:11800372 original size:23 final size:23
Alignment explanation
Indices: 11800324--11800376 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
11800314 AAAATAAGTT
11800324 AAAAAATAAAATAAAATAAAATA
1 AAAAAATAAAATAAAATAAAATA
*
11800347 AAAAAATAAAAATAAAATGAAA-A
1 AAAAAAT-AAAATAAAATAAAATA
11800370 AAAAAAT
1 AAAAAAT
11800377 CTACGATCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (23 bp):
AAAAAATAAAATAAAATAAAATA
Found at i:11801194 original size:3 final size:3
Alignment explanation
Indices: 11801186--11801328 Score: 132
Period size: 3 Copynumber: 48.0 Consensus size: 3
11801176 AAAAGAAACA
11801186 AAT AAT AAT AAT AAT AAT AAT 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
* * * * * * * * *
11801234 AAT AA- AAG AAA AAA AAC ACAA AAA AAG AA- AGAT AAA AAG AA- AAGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AA-T
* *
11801279 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAC AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11801326 AAT
1 AAT
11801329 TTATAAAAAA
Statistics
Matches: 123, Mismatches: 10, Indels: 14
0.84 0.07 0.10
Matches are distributed among these distances:
2 7 0.06
3 111 0.90
4 5 0.04
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:11801420 original size:26 final size:26
Alignment explanation
Indices: 11801390--11801475 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
11801380 AACACAAATA
*
11801390 GGCCTAATTGGGCCTAGACGTCAACG
1 GGCCTAATTGGGCCTAGACGTTAACG
* * * * *
11801416 GGCCTAACTGGGCTTAAACATTAATG
1 GGCCTAATTGGGCCTAGACGTTAACG
* * *
11801442 GGCCTAATTAGGCCCAGATGTTAACG
1 GGCCTAATTGGGCCTAGACGTTAACG
*
11801468 GGCTTAAT
1 GGCCTAAT
11801476 CGAGCCTGAA
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (26 bp):
GGCCTAATTGGGCCTAGACGTTAACG
Found at i:11804334 original size:55 final size:54
Alignment explanation
Indices: 11804257--11804525 Score: 200
Period size: 55 Copynumber: 4.9 Consensus size: 54
11804247 ATCACTCATT
* * * * *
11804257 TTCGATCTTGGCTCGGTTCAAATCATTTTTTAAACTTGTGGTTCAATCTCGATCG
1 TTCGATCTTGGCTCAGTCCAAATCATTTTCTAGACTTGTGGTTCAATC-CAATCG
* * * * * *
11804312 TTCGATCTTGACTCAGTCCAAATTATTTTCCAGACTTATGGTTCAATCCTAGTCAC
1 TTCGATCTTGGCTCAGTCCAAATCATTTTCTAGACTTGTGGTTCAATCC-AATC-G
* * * * *
11804368 TT-AATCTTGGCTCAATCCAGATCATTTTCTAGACTTGTGGTTTAATCCCAATTG
1 TTCGATCTTGGCTCAGTCCAAATCATTTTCTAGACTTGTGGTTCAAT-CCAATCG
* * * * * * * *
11804422 CTT-AATCTTGGCTTAGTCTAAATCGTTCTCCAAACTTGTGGTTCAATCCCAGTCG
1 -TTCGATCTTGGCTCAGTCCAAATCATTTTCTAGACTTGTGGTTCAAT-CCAATCG
* * * * * *
11804477 TTCGATCTTGGCTTAGTTCAAATTATTTTTTAGACTTATGATTCAATCC
1 TTCGATCTTGGCTCAGTCCAAATCATTTTCTAGACTTGTGGTTCAATCC
11804526 TGATTGCTTG
Statistics
Matches: 165, Mismatches: 44, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
54 5 0.03
55 156 0.95
56 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (54 bp):
TTCGATCTTGGCTCAGTCCAAATCATTTTCTAGACTTGTGGTTCAATCCAATCG
Found at i:11804532 original size:110 final size:111
Alignment explanation
Indices: 11804257--11804568 Score: 290
Period size: 110 Copynumber: 2.8 Consensus size: 111
11804247 ATCACTCATT
* * *
11804257 TTCGATCTTGGCTCGGTTCAAATCATTTTTTAAACTTGTGGTTCAAT-CTCGATCG-TTCGATCT
1 TTCGATCTTGGCTCAGTTCAAATCATTTTTTAGACTTGTGGTTCAATCCT-GATTGCTT-GATCT
* * * *
11804320 TGACTCAGTCCAAATTATTTTCCAGACTTATGGTTCAATCCTAGTCAC
64 TGACTCAGTCCAAATCATTCTCCAAACTTATGGTTCAATCCCAGTCAC
* * * * * * ** *
11804368 TT-AATCTTGGCTCAATCCAGATCATTTTCTAGACTTGTGGTTTAATCCCAATTGCTTAATCTTG
1 TTCGATCTTGGCTCAGTTCAAATCATTTTTTAGACTTGTGGTTCAATCCTGATTGCTTGATCTTG
* * * * * *
11804432 GCTTAGTCTAAATCGTTCTCCAAACTTGTGGTTCAATCCCAGTC-G
66 ACTCAGTCCAAATCATTCTCCAAACTTATGGTTCAATCCCAGTCAC
* * * * **
11804477 TTCGATCTTGGCTTAGTTCAAATTATTTTTTAGACTTATGATTCAATCCTGATTGCTTGATCTCA
1 TTCGATCTTGGCTCAGTTCAAATCATTTTTTAGACTTGTGGTTCAATCCTGATTGCTTGATCTTG
* * * *
11804542 ATTCAATCCAGATCATTTTCCAAACTT
66 ACTCAGTCCAAATCATTCTCCAAACTT
11804569 GCGGTTTAAT
Statistics
Matches: 153, Mismatches: 45, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
109 2 0.01
110 146 0.95
111 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (111 bp):
TTCGATCTTGGCTCAGTTCAAATCATTTTTTAGACTTGTGGTTCAATCCTGATTGCTTGATCTTG
ACTCAGTCCAAATCATTCTCCAAACTTATGGTTCAATCCCAGTCAC
Found at i:11804550 original size:165 final size:165
Alignment explanation
Indices: 11804288--11804584 Score: 400
Period size: 165 Copynumber: 1.8 Consensus size: 165
11804278 ATCATTTTTT
* *
11804288 AAACTTGTGGTTCAATCTCGATCGTTCGATCTTGACTCAGTCCAAATTATTTTCCAGACTTATGG
1 AAACTTGTGGTTCAATCCCGATCGTTCGATCTTGACTCAGTCCAAATTATTTTCCAGACTTATGA
*** * * *
11804353 TTCAATCCTAGTCACTTAATCTTGGCTCAATCCAGATCATTTTCTAGACTTGTGGTTTAATCCCA
66 TTCAATCCTAGTCACTTAATCTCAACTCAATCCAGATCATTTTCCAAACTTGCGGTTTAATCCCA
11804418 ATTGCTTAATCTTGGCTTAGTCTAAATCGTTCTCC
131 ATTGCTTAATCTTGGCTTAGTCTAAATCGTTCTCC
* * * **
11804453 AAACTTGTGGTTCAATCCC-AGTCGTTCGATCTTGGCTTAGTTCAAATTATTTTTTAGACTTATG
1 AAACTTGTGGTTCAATCCCGA-TCGTTCGATCTTGACTCAGTCCAAATTATTTTCCAGACTTATG
** * * *
11804517 ATTCAATCCT-GATTGCTTGATCTCAATTCAATCCAGATCATTTTCCAAACTTGCGGTTTAATCT
65 ATTCAATCCTAG-TCACTTAATCTCAACTCAATCCAGATCATTTTCCAAACTTGCGGTTTAATCC
11804581 CAAT
129 CAAT
11804585 CATTCGACCT
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
164 2 0.02
165 110 0.98
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (165 bp):
AAACTTGTGGTTCAATCCCGATCGTTCGATCTTGACTCAGTCCAAATTATTTTCCAGACTTATGA
TTCAATCCTAGTCACTTAATCTCAACTCAATCCAGATCATTTTCCAAACTTGCGGTTTAATCCCA
ATTGCTTAATCTTGGCTTAGTCTAAATCGTTCTCC
Found at i:11804856 original size:3 final size:3
Alignment explanation
Indices: 11804843--11804952 Score: 70
Period size: 3 Copynumber: 38.3 Consensus size: 3
11804833 GTTGATTTTT
* * * * * *
11804843 TTA TTA CTA TTA TTA TTT TTG TTA TTA GTA TTA GTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
11804891 TTA TTG TTA CTA GTA TTA -TA TTA TTA -TA TTA -TA CTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
11804934 -TA TTA -TA TTG TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
11804953 CATTTTTCTT
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
2 12 0.15
3 66 0.81
4 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11804867 original size:21 final size:21
Alignment explanation
Indices: 11804837--11804895 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
11804827 AATTACGTTG
*
11804837 ATTTTT-TTATTACTATTATT
1 ATTTTTGTTATTACTATTAGT
*
11804857 ATTTTTGTTATTAGTATTAGT
1 ATTTTTGTTATTACTATTAGT
* *
11804878 ATTATTGTTATTATTATT
1 ATTTTTGTTATTACTATT
11804896 GTTACTAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 6 0.18
21 28 0.82
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (21 bp):
ATTTTTGTTATTACTATTAGT
Found at i:11805176 original size:20 final size:20
Alignment explanation
Indices: 11805151--11805210 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
11805141 CAATCCCAGG
11805151 ATTCAAGCTTGGGTTGGTTC
1 ATTCAAGCTTGGGTTGGTTC
11805171 ATTCAAGCTTGGGTTGGTTC
1 ATTCAAGCTTGGGTTGGTTC
*
11805191 ATTCAAGCTTGGCTTGGTTC
1 ATTCAAGCTTGGGTTGGTTC
11805211 TGTATGATCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.15, C:0.17, G:0.28, T:0.40
Consensus pattern (20 bp):
ATTCAAGCTTGGGTTGGTTC
Found at i:11805838 original size:19 final size:20
Alignment explanation
Indices: 11805816--11805859 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
11805806 TTCTTTTTCC
11805816 ATTTTAATTTTAATT-TTTT
1 ATTTTAATTTTAATTATTTT
* *
11805835 A-TTTATTTTTTATTATTTT
1 ATTTTAATTTTAATTATTTT
11805854 ATTTTA
1 ATTTTA
11805860 CTGATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (20 bp):
ATTTTAATTTTAATTATTTT
Found at i:11806729 original size:8 final size:8
Alignment explanation
Indices: 11806718--11806771 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
11806708 ACTCTAAATA
11806718 CTTAAAAC
1 CTTAAAAC
11806726 CTTAAAA-
1 CTTAAAAC
11806733 CTTAAATA-
1 CTTAAA-AC
*
11806741 CTAAAAAC
1 CTTAAAAC
*
11806749 CCTAAAA-
1 CTTAAAAC
*
11806756 CTCAAAAC
1 CTTAAAAC
11806764 CTTAAAAC
1 CTTAAAAC
11806772 TATAACCCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 12 0.32
8 25 0.68
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (8 bp):
CTTAAAAC
Found at i:11806735 original size:15 final size:15
Alignment explanation
Indices: 11806718--11806773 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
11806708 ACTCTAAATA
*
11806718 CTTAAAACCTTAAAA-
1 CTTAAAA-CTAAAAAC
11806733 CTTAAATACTAAAAAC
1 CTTAAA-ACTAAAAAC
* *
11806749 CCTAAAACTCAAAAC
1 CTTAAAACTAAAAAC
11806764 CTTAAAACTA
1 CTTAAAACTA
11806774 TAACCCTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 28 0.82
16 6 0.18
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
CTTAAAACTAAAAAC
Found at i:11806738 original size:23 final size:23
Alignment explanation
Indices: 11806706--11806771 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
11806696 ATGATATCCT
*
11806706 AAACTCTAAATACTTAAAACCTTA
1 AAACT-TAAATACTTAAAACCCTA
*
11806730 AAACTTAAATACTAAAAACCCTA
1 AAACTTAAATACTTAAAACCCTA
*
11806753 AAACTCAAA-ACCTTAAAAC
1 AAACTTAAATA-CTTAAAAC
11806772 TATAACCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.03
23 31 0.84
24 5 0.14
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (23 bp):
AAACTTAAATACTTAAAACCCTA
Found at i:11808368 original size:20 final size:20
Alignment explanation
Indices: 11808343--11808383 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11808333 GTATGTTGCT
11808343 TAACCCAAGCAATAATTTAA
1 TAACCCAAGCAATAATTTAA
11808363 TAACCCAAGCAATAATTTAA
1 TAACCCAAGCAATAATTTAA
11808383 T
1 T
11808384 TCTTACTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.27
Consensus pattern (20 bp):
TAACCCAAGCAATAATTTAA
Found at i:11810356 original size:2 final size:2
Alignment explanation
Indices: 11810349--11810378 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11810339 TTTGAGCCTA
*
11810349 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11810379 CCTTTATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11811398 original size:20 final size:20
Alignment explanation
Indices: 11811361--11811398 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11811351 TGAAAGAATA
*
11811361 AATCTTGTTGAATTTTGAAG
1 AATCTTGATGAATTTTGAAG
11811381 AATCTTGAT-AATTCTTGA
1 AATCTTGATGAATT-TTGA
11811399 TCAATTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (20 bp):
AATCTTGATGAATTTTGAAG
Found at i:11814297 original size:6 final size:7
Alignment explanation
Indices: 11814279--11814307 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11814269 AGTTTAAATG
11814279 ATTTTTT
1 ATTTTTT
11814286 ATTTTTT
1 ATTTTTT
11814293 ATTTTTT
1 ATTTTTT
11814300 ATTTTTT
1 ATTTTTT
11814307 A
1 A
11814308 AACTTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
ATTTTTT
Found at i:11815190 original size:15 final size:15
Alignment explanation
Indices: 11815169--11815201 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11815159 AATTGTATTG
*
11815169 ATTTTTTT-TTGTTA
1 ATTTTTTTGTTTTTA
11815183 ATTTTTTTGTTTTTA
1 ATTTTTTTGTTTTTA
11815198 ATTT
1 ATTT
11815202 AAATTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (15 bp):
ATTTTTTTGTTTTTA
Found at i:11816806 original size:12 final size:11
Alignment explanation
Indices: 11816783--11816833 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
11816773 AGCCAAATCA
11816783 AAAAAGAAAAG
1 AAAAAGAAAAG
11816794 AAAAAGAATAAG
1 AAAAAGAA-AAG
11816806 AAAGAA-AGAAAG
1 AAA-AAGA-AAAG
11816818 AAAAAGAGAAA-
1 AAAAAGA-AAAG
11816829 AAAAA
1 AAAAA
11816834 AATAAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
11 15 0.42
12 18 0.50
13 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:11816834 original size:12 final size:11
Alignment explanation
Indices: 11816782--11816835 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
11816772 AAGCCAAATC
11816782 AAAAAAGAAAA
1 AAAAAAGAAAA
*
11816793 GAAAAAGAATAA
1 AAAAAAGAA-AA
11816805 GAAAGAAAGAAAGA
1 -AAA-AAAGAAA-A
*
11816819 AAAAGAGAAAA
1 AAAAAAGAAAA
11816830 AAAAAA
1 AAAAAA
11816836 TAAATACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 14 0.40
12 8 0.23
13 6 0.17
14 7 0.20
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:11817121 original size:44 final size:44
Alignment explanation
Indices: 11816978--11817125 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 44
11816968 CTCCAGAAGT
* * * * *
11816978 TCAACAACATTTTTGAAAATTTAAAAA-GCTTTTCTGAGCAGAGTC
1 TCAACAAC--TTTTAAAAATTTAAAAAGGCTTCTCTAAGTAGAGGC
* * ** *
11817023 TCAACAATTTTTGAAAGCTTAAAGAGGC-TCATCTAAGTAGAGGC
1 TCAACAACTTTTAAAAATTTAAAAAGGCTTC-TCTAAGTAGAGGC
* **
11817067 TTAATGACTTTTAAAAATTTAAAAAGGCTTCTCTAAGTAGAGGC
1 TCAACAACTTTTAAAAATTTAAAAAGGCTTCTCTAAGTAGAGGC
11817111 TCAACAAC-TTTAAAA
1 TCAACAACTTTTAAAA
11817126 TTCATCATCC
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
43 22 0.27
44 50 0.62
45 9 0.11
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (44 bp):
TCAACAACTTTTAAAAATTTAAAAAGGCTTCTCTAAGTAGAGGC
Found at i:11817267 original size:50 final size:50
Alignment explanation
Indices: 11817087--11817666 Score: 367
Period size: 50 Copynumber: 11.9 Consensus size: 50
11817077 TTAAAAATTT
* *
11817087 AAAAAGGCTTCTCTAAGTAGAGGCTCAACAACTTTAAAATTCATCATCCTG
1 AAAAA-GCTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTG
* * * * * * *
11817138 GAAAAGC-TCTTTTAAGTAAATGCACAACAACTTTTAAA---A--AT-TT-
1 AAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTG
* * *
11817181 AACAAATC-TCTTCTAAGTAGAGGCTCAATAACTTTAAAATTCATCATCTTG
1 AA-AAAGCTTC-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTG
* * *
11817232 AAAAAGCTTATCTAAACAGAGGTTCAACAACTTTAAAAATTC--C-TCTTG
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCATCTTG
* * * * * *
11817280 AAAAAGCTCCT-TCAGTAAAGGTTCAACAACTTTACAATT--TCATCTTG
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTG
* * * *
11817327 AAAAAGCTCCTCTAAGCAGAGGCTCAATAACTTTAAAAATTTATCATCCTG
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCATCTTG
* *
11817378 -GAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAAT--TCATCTTG
1 AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTG
* * * * *
11817425 AAAAAGTTTCTTTCAA-CAAAGGCTCAACAATTTTAAAACTTTCAT-AT-TGG
1 AAAAAGCTTCTCT-AAGCAGAGGCTCAACAACTTTAAAA--TTCATCATCTTG
* * * * * *
11817475 AAAAAGC-TCATCTCAGTAGAGGCTCAATAATTTTAAAAAATC-TCATTTTG
1 AAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCATCTTG
* * *
11817525 AAAAAGC-TCTTCTAAACGGAGGCTCAATAACTTTAAAAATTCAT-A--TTG
1 AAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTT-AAAATTCATCATCTTG
* * * * *
11817573 AAAAAGC-TCTTCTTAGAAGAGGCTCAACAACTTTAAAATT-TTTATATTGG
1 AAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTT-G
*
11817623 AAAAAGC-TCT-TATCAGCAGAGGCTTAACAACTTTAAAATTCATC
1 AAAAAGCTTCTCTA--AGCAGAGGCTCAACAACTTTAAAATTCATC
11817667 TGTTCTCAAA
Statistics
Matches: 420, Mismatches: 73, Indels: 72
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.00
44 30 0.07
45 2 0.00
46 7 0.02
47 50 0.12
48 94 0.22
49 27 0.06
50 179 0.43
51 29 0.07
52 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (50 bp):
AAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAATTCATCATCTTG
Found at i:11817429 original size:98 final size:95
Alignment explanation
Indices: 11817098--11817660 Score: 446
Period size: 98 Copynumber: 5.8 Consensus size: 95
11817088 AAAAGGCTTC
* * * * * *
11817098 TCTAAGTAGAGGCTCAACAACTTT-AAAATTCATCATCCTGGAAAAGCTCTTTTAAGTAAATGCA
1 TCTAAGTAGAGGCTCAACAACTTTAAAAATTCATC-T--TGAAAAAGCTCTTCTAAGCAGAGGCT
* *
11817162 CAACAACTTTTAAAAATTTA-A---CAAATCTCT
63 CAACAAC-TTTAAAAATTTATATTGAAAAGCTCT
* * * *
11817192 TCTAAGTAGAGGCTCAATAACTTTAAAATTCATCATCTTGAAAAAGCT-TATCTAAACAGAGGTT
1 TCTAAGTAGAGGCTCAACAACTTTAAAAAT--TCATCTTGAAAAAGCTCT-TCTAAGCAGAGGCT
** *
11817256 CAACAACTTTAAAAATTCCTCTTGAAAAAGCTCCT
63 CAACAACTTTAAAAATTTATATTG-AAAAGCT-CT
* * * * *
11817291 TC--AGTAAAGGTTCAACAACTTTACAATTTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAA
1 TCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCTTCTAAGCAGAGGCTCAA
* *
11817354 TAACTTTAAAAATTTATCATCCTGGAAAGCT-T
66 CAACTTTAAAAATTTAT-AT--TGAAAAGCTCT
* * *
11817386 CTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGTTTCTT-TCAA-CAAAGGCT
1 -TCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAG-CTCTTCT-AAGCAGAGGCT
* * *
11817449 CAACAATTTTAAAACTTTCATATTGGAAAAAGCTCA
63 CAACAACTTTAAAAATTT-ATATT-G-AAAAGCTCT
* * * * * *
11817485 TCTCAGTAGAGGCTCAATAATTTTAAAAAATCTCATTTTGAAAAAGCTCTTCTAAACGGAGGCTC
1 TCTAAGTAGAGGCTCAACAACTTT-AAAAAT-TCATCTTGAAAAAGCTCTTCTAAGCAGAGGCTC
* *
11817550 AATAACTTTAAAAATTCATATTGAAAAAGCTCT
64 AACAACTTTAAAAATTTATATTG-AAAAGCTCT
* * * * * * * *
11817583 TCTTAGAAGAGGCTCAACAACTTTAAAATTTTTATATTGGAAAAAGCTCTTATCAGCAGAGGCTT
1 TCTAAGTAGAGGCTCAACAACTTTAAAA-ATTCATCTT-GAAAAAGCTCTTCTAAGCAGAGGCTC
11817648 AACAACTTTAAAA
64 AACAACTTTAAAA
11817661 TTCATCTGTT
Statistics
Matches: 374, Mismatches: 66, Indels: 54
0.76 0.13 0.11
Matches are distributed among these distances:
93 11 0.03
94 46 0.12
95 50 0.13
96 5 0.01
97 43 0.11
98 157 0.42
99 28 0.07
100 34 0.09
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (95 bp):
TCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCTTCTAAGCAGAGGCTCAA
CAACTTTAAAAATTTATATTGAAAAGCTCT
Found at i:11817539 original size:148 final size:145
Alignment explanation
Indices: 11817199--11817660 Score: 529
Period size: 148 Copynumber: 3.1 Consensus size: 145
11817189 TCTTCTAAGT
*
11817199 AGAGGCTCAATAACTTT-AAAATTCATCATCTTGAAAAAGCTTATCTAAACAGAGGTTCAACAAC
1 AGAGGCTCAATAACTTTAAAAATTC-TCATCTTGAAAAAGCTTATCTAAACAGAGGCTCAACAAC
* * * * * * *
11817263 TTTAAAAATTCCTCTTGAAAAAGCTCCTTCAGTAAAGGTTCAACAACTTTACAATTTCATCTT-G
65 TTTAAAAATTCATCTTGAAAAAGTTTCTTCA-AAAAGGCTCAACAACTTTAAAATTTCATATTGG
* *
11817327 AAAAAGCTCCTCTAAGC
129 AAAAAGCTCATCTCAGC
* * * * *
11817344 AGAGGCTCAATAACTTTAAAAATTTATCATCCTG-GAAAGCTTCTCTAAGCAGAGGCTCAACAAC
1 AGAGGCTCAATAACTTTAAAAA-TTCTCATCTTGAAAAAGCTTATCTAAACAGAGGCTCAACAAC
*
11817408 TTTAAAAATTCATCTTGAAAAAGTTTCTTTCAACAAAGGCTCAACAATTTTAAAACTTTCATATT
65 TTTAAAAATTCATCTTGAAAAAGTTTC-TTCAA-AAAGGCTCAACAACTTTAAAA-TTTCATATT
*
11817473 GGAAAAAGCTCATCTCAGT
127 GGAAAAAGCTCATCTCAGC
* * * * *
11817492 AGAGGCTCAATAATTTTAAAAAATCTCATTTTGAAAAAGCTCT-TCTAAACGGAGGCTCAATAAC
1 AGAGGCTCAATAACTTTAAAAATTCTCATCTTGAAAAAGCT-TATCTAAACAGAGGCTCAACAAC
* * *
11817556 TTTAAAAATTCATATTGAAAAAGCTCTTCTT-AGAAGAGGCTCAACAACTTTAAAATTTTTATAT
65 TTTAAAAATTCATCTTGAAAAAG-T-TTCTTCA-AAAAGGCTCAACAACTTTAAAA-TTTCATAT
* *
11817620 TGGAAAAAGCTCTTATCAGC
126 TGGAAAAAGCTCATCTCAGC
* *
11817640 AGAGGCTTAACAACTTTAAAA
1 AGAGGCTCAATAACTTTAAAA
11817661 TTCATCTGTT
Statistics
Matches: 269, Mismatches: 37, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
145 67 0.25
146 33 0.12
147 17 0.06
148 144 0.54
149 5 0.02
150 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (145 bp):
AGAGGCTCAATAACTTTAAAAATTCTCATCTTGAAAAAGCTTATCTAAACAGAGGCTCAACAACT
TTAAAAATTCATCTTGAAAAAGTTTCTTCAAAAAGGCTCAACAACTTTAAAATTTCATATTGGAA
AAAGCTCATCTCAGC
Found at i:11818446 original size:10 final size:10
Alignment explanation
Indices: 11818427--11818469 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
11818417 CTTAGATGAG
*
11818427 TCATTATTTT
1 TCATTTTTTT
11818437 TCATTTTTTT
1 TCATTTTTTT
*
11818447 TGATTTTTTT
1 TCATTTTTTT
*
11818457 TCTTTTTTTT
1 TCATTTTTTT
11818467 TCA
1 TCA
11818470 AGTAAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (10 bp):
TCATTTTTTT
Found at i:11831099 original size:14 final size:15
Alignment explanation
Indices: 11831080--11831127 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
11831070 TAAACCGAAA
11831080 AAAAAAATA-AAAAT
1 AAAAAAATACAAAAT
*
11831094 AAAAAAATATAATAAT
1 AAAAAAATACAA-AAT
11831110 AATAATAAATACAAAAT
1 AA-AA-AAATACAAAAT
11831127 A
1 A
11831128 GTGTTTACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.31
15 2 0.07
16 5 0.17
17 6 0.21
18 7 0.24
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAAATACAAAAT
Found at i:11831099 original size:16 final size:16
Alignment explanation
Indices: 11831078--11831127 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
11831068 GTTAAACCGA
11831078 AAAAAAAAATAAAAAT
1 AAAAAAAAATAAAAAT
* *
11831094 AAAAAAATATAATAAT
1 AAAAAAAAATAAAAAT
* *
11831110 AATAATAAATACAAAAT
1 AAAAAAAAATA-AAAAT
11831127 A
1 A
11831128 GTGTTTACAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAAAAATAAAAAT
Found at i:11835006 original size:22 final size:21
Alignment explanation
Indices: 11834981--11835031 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
11834971 TGATAAAATT
11834981 TGTTTTTATTATAACGT-TTATA
1 TGTTTTTA-T-TAACGTATTATA
* *
11835003 TGTTTATATTAACGTATTTTA
1 TGTTTTTATTAACGTATTATA
11835024 TGTTTTTA
1 TGTTTTTA
11835032 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (21 bp):
TGTTTTTATTAACGTATTATA
Found at i:11843890 original size:67 final size:69
Alignment explanation
Indices: 11843819--11843961 Score: 209
Period size: 71 Copynumber: 2.1 Consensus size: 69
11843809 ACTAATTTGT
* *
11843819 AATTACAAATATGATTTAATGATTATAAAATGGA-CAA-TTATTTATGTATTTATTTAATGCATT
1 AATTACAAATATGATTTAATGATTACAAAATGAATCAATTTATTTATGTATTTATTTAATGCATT
11843882 TATG
66 TATG
* * *
11843886 AATTACAAATATGATTTAATGATTACAAAATGAATGAATTTTTATTTATTTGTTTATTTAATGCA
1 AATTACAAATATGATTTAATGATTACAAAATGAATCAA--TTTATTTATGTATTTATTTAATGCA
11843951 TTTATG
64 TTTATG
11843957 AATTA
1 AATTA
11843962 AGAAAAATGT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 32 0.48
68 2 0.03
71 33 0.49
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (69 bp):
AATTACAAATATGATTTAATGATTACAAAATGAATCAATTTATTTATGTATTTATTTAATGCATT
TATG
Found at i:11847911 original size:18 final size:18
Alignment explanation
Indices: 11847878--11847921 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
11847868 AATGTGATGC
11847878 AAATAAAAAAAAGTTA-A
1 AAATAAAAAAAAGTTAGA
*
11847895 AAATAAACAATAAGTTAGA
1 AAATAAA-AAAAAGTTAGA
11847914 AAATAAAA
1 AAATAAAA
11847922 TTAACTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 8 0.33
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (18 bp):
AAATAAAAAAAAGTTAGA
Found at i:11856737 original size:40 final size:41
Alignment explanation
Indices: 11856653--11856744 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 41
11856643 TAAAGTAATC
* * *
11856653 ATAAATTAAATTTTGTCACTGAAAAACCTAATATTCTATTA
1 ATAAATTAAATTTTATCACTAAAAAACCTAATATTCTATCA
** * *
11856694 ATAAATTAAATTTTATCA-TAAAAAATTTGATATTTTATCA
1 ATAAATTAAATTTTATCACTAAAAAACCTAATATTCTATCA
11856734 ATAAATTAAAT
1 ATAAATTAAAT
11856745 GACCGCTGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 27 0.61
41 17 0.39
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (41 bp):
ATAAATTAAATTTTATCACTAAAAAACCTAATATTCTATCA
Found at i:11856967 original size:62 final size:62
Alignment explanation
Indices: 11856890--11857012 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 62
11856880 TTAAAAGTAT
* *
11856890 TCTTAATACTTTAA-TTTTATACTAAATTTATTTAATTTTATTAATTAAGAGAAATTATCAAC
1 TCTTAATACTTTAATTTTTATACTAAATTTATTCAATTTTATTAATTAA-AAAAATTATCAAC
* * * * *
11856952 TCTTAATATTTTAATTTTTATATTTAATTTGTTCAATTTTATTGATTAAAAAAATTATCAA
1 TCTTAATACTTTAATTTTTATACTAAATTTATTCAATTTTATTAATTAAAAAAATTATCAA
11857013 ATACATTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
62 24 0.45
63 29 0.55
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (62 bp):
TCTTAATACTTTAATTTTTATACTAAATTTATTCAATTTTATTAATTAAAAAAATTATCAAC
Found at i:11864411 original size:354 final size:353
Alignment explanation
Indices: 11863086--11864675 Score: 1824
Period size: 354 Copynumber: 4.5 Consensus size: 353
11863076 TATAACAAAT
* * * *
11863086 TATTGAAGGTGTGTCATAATAAAAGACGCATTTAATAATTCGAGAAAATTTTCTTAGGAAAATTA
1 TATTGAAGGCGTGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTT-TTAGGAAAATTA
* * * * * *
11863151 TTAAAGGCGTTGTTATTTGTAACCGCCTTCAATAATTATATACAAACTATGATAAAAATTATTAA
65 TTGAA-G-ATCGTTATTTGCAACCGCCTTCAATAATTATATACAAACTGTGATAAGAATTATTAA
* *
11863216 AGGCATCTTTCTTGGATATA-AGCCTTT-AATAACAGTGTTAGAATTTGTGTGACGGTATATAGA
128 AGGCATCTTTCTTGGATATACA--CTTTCAATAATAGTGTTAGAATTTGTGTGACGGTATATAAA
* * * * * *
11863279 AGGTATTTTACAGTAGAAGACACCTTTAATAATTCCCAAAATATTTAGTGAGAAAATTTTGAAGA
191 AGGCATTTTACAGTAGAAGACGCCTTCAATAATTCTCAAAATATTTAGTGAGAAAATTTTAAAGG
* *
11863344 CGTCTGTTATTAACAAATGCCTTCAATAATGGATTACTAAGTTTAAAGGTATATTGAAGGTATCT
256 CGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTA-CT
* *
11863409 TTTTTAATAAACGCCTTCCATTACCATCGTGGTA
320 TTTTTAATAAACACCTTCCATTACCATCATGGTA
* * ** * *
11863443 TATTGAAGGTGTGTCATAATAAAATACGCCTTTAATAATTTGAAAAAAAATTTTTAGAAAAATTA
1 TATTGAAGGCGTGTCATAATAAAAGACGCCTTTAATAATCCG-AAAAAATTTTTTAGGAAAATTA
* * * * *
11863508 TTGAA-AGCGTTGATATTTGCAACCGCCTTCAGTAATTATTTATAAACTGTGAT-AGAAACTATT
65 TTGAAGATCG-T--TATTTGCAACCGCCTTCAATAATTATATACAAACTGTGATAAG-AATTATT
*
11863571 AAAGGCATCTTTCTTGGATATACACCTTCAATAATAGTGTTAGAATTTGTGTGACGGTATATAAA
126 AAAGGCATCTTTCTTGGATATACACTTTCAATAATAGTGTTAGAATTTGTGTGACGGTATATAAA
*
11863636 AGGCATTTTACAGTAGAAGACGACTTCAATAATTCTC--AA-A---A-T------ATTTTAAAGG
191 AGGCATTTTACAGTAGAAGACGCCTTCAATAATTCTCAAAATATTTAGTGAGAAAATTTTAAAGG
* * * **
11863688 CATCTGTTAATAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGTTT
256 CGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGT-ACT
* * *
11863753 TTTTTAATAAACACCTTTCATTACCATCGTGATA
320 TTTTTAATAAACACCTTCCATTACCATCATGGTA
* * * * *
11863787 TATTAAAGGCATGTCATAATAAAAGACGTCTTTAATAATCCGAGAAAATTTTTTAAGAAAATTAT
1 TATTGAAGGCGTGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTAGGAAAATTAT
* * * * * * *
11863852 TAAAAGTATTGTTATCTGCAACTGTCTTCAGTAATTATCTACAAACTGTGAT-AGAAATTATTAA
66 T-GAAG-ATCGTTATTTGCAACCGCCTTCAATAATTATATACAAACTGTGATAAG-AATTATTAA
** * * * * **
11863916 AGGTGTCTTTCTTGAATATACGCTTTCAATAACAGTGTTAGAATTTATGTGACAATATATAGAAA
128 AGGCATCTTTCTTGGATATACACTTTCAATAATAGTGTTAGAATTTGTGTGACGGTATATA-AAA
* * * * * * * *
11863981 -GCATTTTACAATAGAAGATGCTTTTAATAATTCTAAAAATATTTAGTGAAAAAATGTTGAAGGC
192 GGCATTTTACAGTAGAAGACGCCTTCAATAATTCTCAAAATATTTAGTGAGAAAATTTTAAAGGC
* * *
11864045 GTCTGCTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGATACATA
257 GTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTAC-TT
*
11864110 TTTTAATAAACGCCTTCCATTACCATCATGGTA
321 TTTTAATAAACACCTTCCATTACCATCATGGTA
* * * **
11864143 TATTGAAGGCGTGTCATAATAAAATATGCCTTTAATAATCCGAAAAATTTTTTTTAAAAAAATTA
1 TATTGAAGGCGTGTCATAATAAAAGACGCCTTTAATAATCCGAAAAA-ATTTTTTAGGAAAATTA
* * *
11864208 TTGAAGA-CGTTATTTGTAACCGCCTTTAATAATTATCTACAAACTGTGATAAGAATTATTAAAG
65 TTGAAGATCGTTATTTGCAACCGCCTTCAATAATTATATACAAACTGTGATAAGAATTATTAAAG
* * * *
11864272 GCATCTTTCTTAGATATACACTTTCAATAATAGTGTTAAAATTTTTGTGACGGTATATAAAAGGT
130 GCATCTTTCTTGGATATACACTTTCAATAATAGTGTTAGAATTTGTGTGACGGTATATAAAAGGC
** * * *
11864337 ATTTTGTAGTAGAAGACCCCTTCAATAATTCTCAAAATTTTTAGTGAGAAAATTTTAAAGGCGTA
195 ATTTTACAGTAGAAGACGCCTTCAATAATTCTCAAAATATTTAGTGAGAAAATTTTAAAGGCGTC
*
11864402 TGTTATTAACAAACGCCTTTAGTAATGGATTACTAAGTTTAAAGGTATATTGAATGCGT-CTTTT
260 TGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-G-GTACTTTT
* * * *
11864466 TGAATAAACACTTTCCATAATCATCATGGTA
323 TTAATAAACACCTTCCATTACCATCATGGTA
* * * *
11864497 TATTGAAGGCGTATCATAATAAAAGACACCTTTACTAATCCAAAAAAATTTTTTAGGAAAATTAT
1 TATTGAAGGCGTGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTAGGAAAATTAT
* *
11864562 TGAAGGCATTGTT-TTCTGCAACCGCCTTCACTAATTATATACAAACTGTGATAAGAATTATTAA
66 TGAA-G-ATCGTTATT-TGCAACCGCCTTCAATAATTATATACAAACTGTGATAAGAATTATTAA
* * * *
11864626 AGACGTCTTTCTTGGATATACGCCTTT-AATAACTA-TGTTAAAATTTGTGT
128 AGGCATCTTTCTTGGATATAC-ACTTTCAATAA-TAGTGTTAGAATTTGTGT
11864676 AGCGATATGT
Statistics
Matches: 1044, Mismatches: 152, Indels: 75
0.82 0.12 0.06
Matches are distributed among these distances:
343 147 0.14
344 138 0.13
345 3 0.00
346 3 0.00
349 1 0.00
350 2 0.00
351 1 0.00
353 22 0.02
354 274 0.26
355 11 0.01
356 227 0.22
357 206 0.20
358 9 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (353 bp):
TATTGAAGGCGTGTCATAATAAAAGACGCCTTTAATAATCCGAAAAAATTTTTTAGGAAAATTAT
TGAAGATCGTTATTTGCAACCGCCTTCAATAATTATATACAAACTGTGATAAGAATTATTAAAGG
CATCTTTCTTGGATATACACTTTCAATAATAGTGTTAGAATTTGTGTGACGGTATATAAAAGGCA
TTTTACAGTAGAAGACGCCTTCAATAATTCTCAAAATATTTAGTGAGAAAATTTTAAAGGCGTCT
GTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTACTTTTTTA
ATAAACACCTTCCATTACCATCATGGTA
Found at i:11879205 original size:2 final size:2
Alignment explanation
Indices: 11879198--11879227 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11879188 CAATTAGAGG
*
11879198 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11879228 TTTCAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11879837 original size:2 final size:2
Alignment explanation
Indices: 11879830--11879856 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11879820 TTGAAAATAG
11879830 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11879857 TTGAGATGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11880527 original size:21 final size:21
Alignment explanation
Indices: 11880501--11880542 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11880491 TGACCTATGC
11880501 TACGTAGAAAACAAAAGCCAG
1 TACGTAGAAAACAAAAGCCAG
11880522 TACGTAGAAAACAAAAGCCAG
1 TACGTAGAAAACAAAAGCCAG
11880543 AATTTGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (21 bp):
TACGTAGAAAACAAAAGCCAG
Found at i:11885305 original size:23 final size:23
Alignment explanation
Indices: 11885279--11885325 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11885269 ATATCACCTT
* *
11885279 TTAAAGGTGATTATATAAATAAA
1 TTAAAAGTAATTATATAAATAAA
*
11885302 TTAAAAGTAATTATATGAATAAA
1 TTAAAAGTAATTATATAAATAAA
11885325 T
1 T
11885326 AGAATTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (23 bp):
TTAAAAGTAATTATATAAATAAA
Found at i:11887006 original size:24 final size:24
Alignment explanation
Indices: 11886978--11887024 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
11886968 TACCTTATAA
11886978 TTATAATTATAAGTGTTAAATACC
1 TTATAATTATAAGTGTTAAATACC
11887002 TTATAATTATAAGTGTTAAATAC
1 TTATAATTATAAGTGTTAAATAC
11887025 AGTAAAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (24 bp):
TTATAATTATAAGTGTTAAATACC
Found at i:11898472 original size:20 final size:20
Alignment explanation
Indices: 11898444--11898487 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
11898434 TTAATGGATT
* *
11898444 ATCTGTATATATGCATATAG
1 ATCTATATATATGCATAAAG
*
11898464 ATCTATATATATGTATAAAG
1 ATCTATATATATGCATAAAG
11898484 ATCT
1 ATCT
11898488 TTAGAAGGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (20 bp):
ATCTATATATATGCATAAAG
Found at i:11899919 original size:9 final size:9
Alignment explanation
Indices: 11899905--11899964 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
11899895 TCATATGAGT
11899905 ATATATTTA
1 ATATATTTA
11899914 ATATATTTA
1 ATATATTTA
**
11899923 ATACGTTTA
1 ATATATTTA
*
11899932 ATATATTTT
1 ATATATTTA
*
11899941 TTATATTTA
1 ATATATTTA
* *
11899950 TTTTAATTTA
1 ATAT-ATTTA
11899960 ATATA
1 ATATA
11899965 AACATATAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
9 33 0.82
10 7 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
ATATATTTA
Found at i:11899992 original size:37 final size:37
Alignment explanation
Indices: 11899951--11900069 Score: 211
Period size: 37 Copynumber: 3.2 Consensus size: 37
11899941 TTATATTTAT
* *
11899951 TTTAATTTAATATAAACATATAAAAATTATTTTAATA
1 TTTAATTTAATATAAACATATAAAGATTATTTCAATA
11899988 TTTAATTTAATATAAACATATAAAGATTATTTCAATA
1 TTTAATTTAATATAAACATATAAAGATTATTTCAATA
*
11900025 TTTAATTTAATAGAAACATATAAAGATTATTTCAATA
1 TTTAATTTAATATAAACATATAAAGATTATTTCAATA
11900062 TTTAATTT
1 TTTAATTT
11900070 TTAATTATGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 79 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (37 bp):
TTTAATTTAATATAAACATATAAAGATTATTTCAATA
Found at i:11903387 original size:30 final size:30
Alignment explanation
Indices: 11903360--11903491 Score: 103
Period size: 30 Copynumber: 4.5 Consensus size: 30
11903350 CCATAAAATA
11903360 TCAAACCCTAAAATCGAAACCTTTAAAACT
1 TCAAACCCTAAAATCGAAACCTTTAAAACT
* * ** *
11903390 TTAAAGCCTAAAATCGAAACC--CCAAACC
1 TCAAACCCTAAAATCGAAACCTTTAAAACT
* * *
11903418 TCAAACCTTAAAATTGAAACC-CTAAAACCT
1 TCAAACCCTAAAATCGAAACCTTTAAAA-CT
* * *
11903448 T-AAACACATAAAATCAAAACC-TTAAACCT
1 TCAAAC-CCTAAAATCGAAACCTTTAAAACT
11903477 TCCAAACCCTAAAAT
1 T-CAAACCCTAAAAT
11903492 AAAAAACCTA
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
28 21 0.27
29 10 0.13
30 44 0.56
31 4 0.05
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.20
Consensus pattern (30 bp):
TCAAACCCTAAAATCGAAACCTTTAAAACT
Found at i:11903424 original size:58 final size:59
Alignment explanation
Indices: 11903360--11903548 Score: 156
Period size: 57 Copynumber: 3.2 Consensus size: 59
11903350 CCATAAAATA
* * *
11903360 TCAAACCCTAAAATCGAAACCTTTAAAACTTTAAAGC-C-TAAAATCGAAACCCCAAACC-
1 TCAAACCCTAAAATCGAAACC-CTAAAACCTTAAA-CACATAAAATCAAAACCCCAAACCT
* * **
11903418 TCAAACCTTAAAATTGAAACCCTAAAACCTTAAACACATAAAATCAAAACCTTAAACCT
1 TCAAACCCTAAAATCGAAACCCTAAAACCTTAAACACATAAAATCAAAACCCCAAACCT
** * * ** * * *
11903477 TCCAAACCCTAAAATAAAAAACCT-AATCCCCAAAC-CCT-AAATCAAAACCCTAAACTT
1 T-CAAACCCTAAAATCGAAACCCTAAAACCTTAAACACATAAAATCAAAACCCCAAACCT
11903534 TCCAAACCCTAAAAT
1 T-CAAACCCTAAAAT
11903549 TCAAGCCGTA
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
56 1 0.01
57 44 0.40
58 38 0.35
59 9 0.08
60 18 0.16
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.20
Consensus pattern (59 bp):
TCAAACCCTAAAATCGAAACCCTAAAACCTTAAACACATAAAATCAAAACCCCAAACCT
Found at i:11903437 original size:14 final size:14
Alignment explanation
Indices: 11903347--11903444 Score: 61
Period size: 14 Copynumber: 6.8 Consensus size: 14
11903337 TCAAAGCACT
* *
11903347 AAACCATAAAATATC
1 AAACCCTAAAAT-TG
*
11903362 AAACCCTAAAATCG
1 AAACCCTAAAATTG
* *
11903376 AAACCTTTAAAACTTT
1 AAACC-CTAAAA-TTG
* *
11903392 AAAGCCTAAAATCG
1 AAACCCTAAAATTG
* ** *
11903406 AAACCCCAAACCTC
1 AAACCCTAAAATTG
*
11903420 AAACCTTAAAATTG
1 AAACCCTAAAATTG
11903434 AAACCCTAAAA
1 AAACCCTAAAA
11903445 CCTTAAACAC
Statistics
Matches: 59, Mismatches: 22, Indels: 5
0.69 0.26 0.06
Matches are distributed among these distances:
14 33 0.56
15 21 0.36
16 5 0.08
ACGTcount: A:0.51, C:0.26, G:0.04, T:0.19
Consensus pattern (14 bp):
AAACCCTAAAATTG
Found at i:11903512 original size:28 final size:30
Alignment explanation
Indices: 11903478--11903548 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 30
11903468 CTTAAACCTT
11903478 CCAAACCCTAAAATAAAAAACCT-AA-TCC
1 CCAAACCCTAAAATAAAAAACCTAAACTCC
* * **
11903506 CCAAACCCT-AAATCAAAACCCTAAACTTT
1 CCAAACCCTAAAATAAAAAACCTAAACTCC
11903535 CCAAACCCTAAAAT
1 CCAAACCCTAAAAT
11903549 TCAAGCCGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.31
28 11 0.31
29 10 0.28
30 4 0.11
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (30 bp):
CCAAACCCTAAAATAAAAAACCTAAACTCC
Found at i:11905459 original size:21 final size:21
Alignment explanation
Indices: 11905435--11905475 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11905425 TTTCTCTGTG
*
11905435 TAAAAAAAATGTTTTTCCTTC
1 TAAAAAAAATATTTTTCCTTC
11905456 TAAAAAAAATATTTTTCCTT
1 TAAAAAAAATATTTTTCCTT
11905476 TTTTTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAAAAAAATATTTTTCCTTC
Found at i:11907335 original size:35 final size:36
Alignment explanation
Indices: 11907295--11907369 Score: 143
Period size: 35 Copynumber: 2.1 Consensus size: 36
11907285 TTCATTTGAC
11907295 TTAAATTTTCTATGAATTGATGCCTCTA-TTATTTT
1 TTAAATTTTCTATGAATTGATGCCTCTATTTATTTT
11907330 TTAAATTTTCTATGAATTGATGCCTCTATTTATTTT
1 TTAAATTTTCTATGAATTGATGCCTCTATTTATTTT
11907366 TTAA
1 TTAA
11907370 TAATGGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
35 28 0.72
36 11 0.28
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.55
Consensus pattern (36 bp):
TTAAATTTTCTATGAATTGATGCCTCTATTTATTTT
Found at i:11920439 original size:19 final size:20
Alignment explanation
Indices: 11920407--11920445 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11920397 CTTTTTCTTC
11920407 CTTTTTTACAATTTT-TTTT
1 CTTTTTTACAATTTTATTTT
**
11920426 CTTTTTTATTATTTTATTTT
1 CTTTTTTACAATTTTATTTT
11920446 TTAATGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (20 bp):
CTTTTTTACAATTTTATTTT
Found at i:11923321 original size:6 final size:6
Alignment explanation
Indices: 11923310--11923373 Score: 85
Period size: 6 Copynumber: 10.2 Consensus size: 6
11923300 TTCTTCTTCA
11923310 TTTTAT TTTTAT TTTTATT TTTTAT ATTTTACAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA-T TTTTAT -TTTT--AT TTTTAT TTTTAT TTTTAT
11923361 TTTTAT TTTTAT T
1 TTTTAT TTTTAT T
11923374 ATTTTATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.09
6 32 0.60
7 10 0.19
8 4 0.08
9 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:11923393 original size:26 final size:23
Alignment explanation
Indices: 11923313--11923396 Score: 86
Period size: 21 Copynumber: 3.6 Consensus size: 23
11923303 TTCTTCATTT
11923313 TATTTT-TATTTTTATT-TTTTA
1 TATTTTATATTTTTATTATTTTA
*
11923334 TATTTTACATTTTTATTTTATTTT-
1 TATTTTATATTTTTA--TTATTTTA
11923358 TATTTT-TATTTTTATTATTTTA
1 TATTTTATATTTTTATTATTTTA
11923380 TATATGTATATATTTTT
1 TAT-T-T-TATATTTTT
11923397 TTCTTTTCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
21 13 0.25
22 10 0.19
23 8 0.15
24 9 0.17
25 5 0.10
26 7 0.13
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (23 bp):
TATTTTATATTTTTATTATTTTA
Found at i:11923397 original size:39 final size:39
Alignment explanation
Indices: 11923313--11923414 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 39
11923303 TTCTTCATTT
* * *
11923313 TATTTTTATTTTTATTTTT-TATATTTTACATTTTTATTT
1 TATTTTTATTTTTATTTTTAT-TATTTTACATATGTATTA
*
11923352 TATTTTTATTTTTATTTTTATTATTTTATATATGTA-TA
1 TATTTTTATTTTTATTTTTATTATTTTACATATGTATTA
11923390 TATTTTT-TTCTTT-TCTTTTATTATT
1 TATTTTTATT-TTTAT-TTTTATTATT
11923415 ATTTTTTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
37 3 0.05
38 21 0.38
39 31 0.55
40 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (39 bp):
TATTTTTATTTTTATTTTTATTATTTTACATATGTATTA
Found at i:11923516 original size:22 final size:21
Alignment explanation
Indices: 11923488--11923547 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
11923478 ATTTATGTAA
11923488 TTATCTGTT-ATTTAATTTTAAT
1 TTATCTGTTAATTT--TTTTAAT
*
11923510 TTATCTGTTAATTTTTTTTAT
1 TTATCTGTTAATTTTTTTAAT
*
11923531 TTATCTGATTTATTTTT
1 TTATCTG-TTAATTTTT
11923548 GTTTGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.38
22 17 0.50
23 4 0.12
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATCTGTTAATTTTTTTAAT
Found at i:11924032 original size:20 final size:19
Alignment explanation
Indices: 11923982--11924025 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11923972 AACTTCCGGT
* *
11923982 GAAAAACCCAGATTCCAAC
1 GAAAAACCCAGATTTCGAC
11924001 GAAAAACCCAGATTTCGAC
1 GAAAAACCCAGATTTCGAC
11924020 GAAAAA
1 GAAAAA
11924026 ATCCAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.25, G:0.14, T:0.11
Consensus pattern (19 bp):
GAAAAACCCAGATTTCGAC
Found at i:11924395 original size:15 final size:14
Alignment explanation
Indices: 11924372--11924420 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
11924362 GTTTATTTAA
*
11924372 TATTCTTTTTATCTT
1 TATTTTTTTTAT-TT
11924387 TATTTTTTTTATTT
1 TATTTTTTTTATTT
*
11924401 TTTTTATTTTTA-TT
1 TATTT-TTTTTATTT
11924415 TATTTT
1 TATTTT
11924421 CACTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 12 0.40
15 17 0.57
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (14 bp):
TATTTTTTTTATTT
Found at i:11924404 original size:10 final size:9
Alignment explanation
Indices: 11924385--11924420 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
11924375 TCTTTTTATC
11924385 TTTATTTTT
1 TTTATTTTT
11924394 TTTATTTTT
1 TTTATTTTT
11924403 TTTATTTTT
1 TTTATTTTT
11924412 ATTTATTTT
1 -TTTATTTT
11924421 CACTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTATTTTT
Found at i:11924404 original size:24 final size:24
Alignment explanation
Indices: 11924363--11924420 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
11924353 TTAGATTAGG
11924363 TTTATTTAATATTCTTTTTATCTTTA
1 TTTATTT--TATTCTTTTTATCTTTA
* * *
11924389 TTTTTTTTATTTTTTTTATTTTTA
1 TTTATTTTATTCTTTTTATCTTTA
11924413 TTTATTTT
1 TTTATTTT
11924421 CACTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 22 0.79
26 6 0.21
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTATTTTATTCTTTTTATCTTTA
Found at i:11924427 original size:16 final size:15
Alignment explanation
Indices: 11924393--11924438 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
11924383 TCTTTATTTT
* *
11924393 TTTTATTTTTTTTAT
1 TTTTATTTTTTTCAC
11924408 TTTTATTTATTTTCAC
1 TTTTATTT-TTTTCAC
11924424 TTTTATTTTGTTTCA
1 TTTTATTTT-TTTCA
11924439 TTATTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTTCAC
Found at i:11924427 original size:24 final size:24
Alignment explanation
Indices: 11924377--11924427 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
11924367 TTTAATATTC
* *
11924377 TTTTTATCTTTATTTTTTTTATTT
1 TTTTTATCTTTATTTTTTTCATCT
*
11924401 TTTTTATTTTTATTTATTTTCA-CT
1 TTTTTATCTTTATTT-TTTTCATCT
11924425 TTT
1 TTT
11924428 ATTTTGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTATCTTTATTTTTTTCATCT
Found at i:11924518 original size:59 final size:59
Alignment explanation
Indices: 11924464--11924863 Score: 492
Period size: 59 Copynumber: 6.7 Consensus size: 59
11924454 TAAATAAAAA
*
11924464 TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAATAAATTT
1 TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAATTT
* * *
11924524 TCAAAAAAAGGT-TTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTT
1 TCAAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
* * *
11924582 T-AAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCGTTGAAAATCAAAGTT
1 TCAAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAATTT
*
11924642 TC-CAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTT
1 TCAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAA--TTT
* * *
11924703 TC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
1 TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA-TTT
* * * *
11924762 TCAAAAAAAATAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAGATTAAAGTT
1 TCAAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
* *
11924823 TC-AAAAGAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
11924864 TCCTGCACAA
Statistics
Matches: 303, Mismatches: 24, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
57 35 0.12
58 27 0.09
59 100 0.33
60 45 0.15
61 54 0.18
62 42 0.14
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (59 bp):
TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTT
Found at i:11928830 original size:204 final size:204
Alignment explanation
Indices: 11928480--11928888 Score: 782
Period size: 204 Copynumber: 2.0 Consensus size: 204
11928470 TGTGGGGCAA
*
11928480 AATGCCAAGTTACATCAAATGATCTTTTGGTCTTGAACTTTTTTAATATATGTTTTGAGCCTATT
1 AATGCCAAGTTACATCAAATGATCTTTTGGTCTTGAACCTTTTTAATATATGTTTTGAGCCTATT
11928545 ATATCCATTTTTTTATGACCCCTCACCTTGACCTACATTATAACCTTGAAAAGTCCATTTGGATC
66 ATATCCATTTTTTTATGACCCCTCACCTTGACCTACATTATAACCTTGAAAAGTCCATTTGGATC
* *
11928610 AAGTGTGAATACTCAACTTGAAGGATCATATGTTAAGCGAAGGTATACTCATGATAAAGCAATGG
131 AAGTGTGAATACTCAACTTGAAAGATCATATGTTAAGCGAAGGTATACTCATGATAAAGCAATGA
11928675 AATCATGCT
196 AATCATGCT
11928684 AATGCCAAGTTACATCAAATGATCTTTTGGTCTTGAACCTTTTTAATATATGTTTTGAGCCTATT
1 AATGCCAAGTTACATCAAATGATCTTTTGGTCTTGAACCTTTTTAATATATGTTTTGAGCCTATT
11928749 ATATCCATTTTTTTATGACCCCTCACCTTGACCTACATTATAACCTTGAAAAGTCCATTTGGATC
66 ATATCCATTTTTTTATGACCCCTCACCTTGACCTACATTATAACCTTGAAAAGTCCATTTGGATC
*
11928814 AAGTGTGAATACTCAACTTGAAAGATCATATGTTAAGCGAAGGTATACTCATGATGAAGCAATGA
131 AAGTGTGAATACTCAACTTGAAAGATCATATGTTAAGCGAAGGTATACTCATGATAAAGCAATGA
11928879 AATCATGCT
196 AATCATGCT
11928888 A
1 A
11928889 CATTGCTCTA
Statistics
Matches: 201, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 201 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (204 bp):
AATGCCAAGTTACATCAAATGATCTTTTGGTCTTGAACCTTTTTAATATATGTTTTGAGCCTATT
ATATCCATTTTTTTATGACCCCTCACCTTGACCTACATTATAACCTTGAAAAGTCCATTTGGATC
AAGTGTGAATACTCAACTTGAAAGATCATATGTTAAGCGAAGGTATACTCATGATAAAGCAATGA
AATCATGCT
Found at i:11928991 original size:16 final size:16
Alignment explanation
Indices: 11928980--11929010 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11928970 TGAATGAATG
11928980 AATGAAAAAATGAGAA
1 AATGAAAAAATGAGAA
*
11928996 AATGAAAAAAAGAGA
1 AATGAAAAAATGAGA
11929011 TTCAACTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (16 bp):
AATGAAAAAATGAGAA
Found at i:11930298 original size:41 final size:41
Alignment explanation
Indices: 11930235--11930511 Score: 414
Period size: 41 Copynumber: 6.8 Consensus size: 41
11930225 ATGATTGTCA
*
11930235 AGGAGTAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
11930276 AGGAACAATTTACTTTCCAAAGTCATGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
11930317 ATGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
11930358 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGCTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
11930399 AGGAGCAATTTACTTTT-CAAAGTCGTGGTACCTTTGTTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
11930440 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
11930481 AGGAGCAATTTATTTTCCAAAGTCATGGTGC
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTGC
11930512 AATTTATTTT
Statistics
Matches: 214, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 4 0.02
41 206 0.96
42 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:11930519 original size:25 final size:25
Alignment explanation
Indices: 11930485--11930536 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11930475 GTTTAGAGGA
11930485 GCAATTTATTTTCCAAAGTCATGGT
1 GCAATTTATTTTCCAAAGTCATGGT
11930510 GCAATTTATTTTCCAAAGTCATGGT
1 GCAATTTATTTTCCAAAGTCATGGT
11930535 GC
1 GC
11930537 CTCTGTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (25 bp):
GCAATTTATTTTCCAAAGTCATGGT
Found at i:11930550 original size:66 final size:67
Alignment explanation
Indices: 11930444--11930578 Score: 220
Period size: 66 Copynumber: 2.0 Consensus size: 67
11930434 GTTTAGAGGA
* *
11930444 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCC-AAAGTCATG
1 GCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCATG
11930508 GT
66 GT
*
11930510 GCAATTTA-TTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCGT
1 GCAATTTACTTTT-CAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCAT
11930574 GGT
65 GGT
11930577 GC
1 GC
11930579 CTCTTTTTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
65 4 0.06
66 48 0.75
67 12 0.19
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (67 bp):
GCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCATG
GT
Found at i:11930582 original size:42 final size:41
Alignment explanation
Indices: 11930510--11930895 Score: 576
Period size: 41 Copynumber: 9.3 Consensus size: 41
11930500 AAGTCATGGT
*
11930510 GCAATTTA-TTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGA
1 GCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGA
* * *
11930551 GCAATTTACTTTCCAAAAGTCGTGGTGCCTCTTTTTAAAGGA
1 GCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGA
*
11930593 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAA
1 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
*
11930634 GCAATTTACTTTTCAAAGTCGCGGTGCCTCTGTTTAGAGGA
1 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
* *
11930675 GCAATTTACTTTTAAAAAGTCGTGGTGCCTCTGTTTAGAGAA
1 GCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGA
**
11930717 GCAATTTACTTTTCAAAGTCACGGTGCCTCTGTTTAGAGGA
1 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
*
11930758 GCAATTTACTTTTCAAAAGTCGTGGTACCTCTGTTTAGAGGA
1 GCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGA
* * *
11930800 GCAATTTACTTTCCCAAAGTCATGGTGCCTCTGTTCAGAGGA
1 GCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGA
*
11930842 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAAGA
1 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
*
11930883 GCAATTTATTTTT
1 GCAATTTACTTTT
11930896 TTTCAAAGTT
Statistics
Matches: 311, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
41 160 0.51
42 150 0.48
43 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (41 bp):
GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
Found at i:11930631 original size:149 final size:148
Alignment explanation
Indices: 11930362--11930653 Score: 489
Period size: 149 Copynumber: 2.0 Consensus size: 148
11930352 ATTTAGAGGA
* *
11930362 GCAATTTATTTTCCAAAGTCGTGGTGCCTCTGCTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 GCAATTTATTTTCCAAAGTCATGGTGCCTCTGCTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
* *
11930427 TACCTTTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
66 TACCTTTGTTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTT
11930492 A-TTTTCCAAAGTCATGGT
131 ACTTTT-CAAAGTCATGGT
*
11930510 GCAATTTATTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCGTG
1 GCAATTTATTTTCCAAAGTCATGGTGCCTCTGCTTAGAGGAGCAATTTACTTTCC-AAAGTCGTG
*
11930575 GTGCCTCTT-TTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAAT
65 GTACCT-TTGTTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAAT
11930639 TTACTTTTCAAAGTC
129 TTACTTTTCAAAGTC
11930654 GCGGTGCCTC
Statistics
Matches: 135, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
148 52 0.39
149 77 0.57
150 6 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (148 bp):
GCAATTTATTTTCCAAAGTCATGGTGCCTCTGCTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
TACCTTTGTTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTT
ACTTTTCAAAGTCATGGT
Found at i:11930694 original size:83 final size:82
Alignment explanation
Indices: 11930510--11930895 Score: 569
Period size: 83 Copynumber: 4.7 Consensus size: 82
11930500 AAGTCATGGT
* * * **
11930510 GCAATTTA-TTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCGT
1 GCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTC-AAAGTCAC
* *
11930574 GGTGCCTCTTTTTAAAGGA
64 GGTGCCTCTGTTTAGAGGA
*
11930593 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCGCGG
1 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCACGG
11930658 TGCCTCTGTTTAGAGGA
66 TGCCTCTGTTTAGAGGA
*
11930675 GCAATTTACTTTTAAAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCACG
1 GCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCACG
11930740 GTGCCTCTGTTTAGAGGA
65 GTGCCTCTGTTTAGAGGA
* * * *
11930758 GCAATTTACTTTTCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAGTCAT
1 GCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTT-TCAAAGTCAC
*
11930823 GGTGCCTCTGTTCAGAGGA
64 GGTGCCTCTGTTTAGAGGA
*
11930842 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA-AGAGCAATTTATTTTT
1 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGA-AGCAATTTACTTTT
11930896 TTTCAAAGTT
Statistics
Matches: 280, Mismatches: 18, Indels: 11
0.91 0.06 0.04
Matches are distributed among these distances:
82 37 0.13
83 199 0.71
84 44 0.16
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (82 bp):
GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTCACGG
TGCCTCTGTTTAGAGGA
Done.