Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 216 of 226
Found at i:67769096 original size:25 final size:25
Alignment explanation
Indices: 67768992--67769096 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
67768982 CATTACTTTG
* *
67768992 ATAACTTACATAAGTTACATAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
67769017 ACAACTTACATAGTTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
67769042 AAAACTTACATAACTTATAC--ACGTAC
1 ATAACTTACATAA-TT-TACTTA-ATAC
*
67769068 ATAACCTACATAATTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
67769093 ATAA
1 ATAA
67769097 ATATATATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 42 0.65
26 17 0.26
27 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATTTACTTAATAC
Found at i:67774741 original size:42 final size:42
Alignment explanation
Indices: 67774682--67774860 Score: 313
Period size: 42 Copynumber: 4.3 Consensus size: 42
67774672 AACTCCAGCA
* *
67774682 GGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTTAGC
67774724 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTTAGC
67774766 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTTAGC
** *
67774808 AACGTTTTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGC
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTTAGC
67774850 GGCGTTTTTTT
1 GGCGTTTTTTT
67774861 TTTTGTAAAC
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 130 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:67780487 original size:45 final size:45
Alignment explanation
Indices: 67780399--67780498 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
67780389 ACTATCAAAG
* * * *
67780399 GATGCCATAACGTCTTTCAACTATGGTCTTAGGCCTATTTATCAT
1 GATGCCATAGCGTCTTTCAACTATGATCTTAAGCATATTTATCAT
* *
67780444 GATGCCATAGCGTCTTTCAACTATGATTTTAATCAT-TTATATCAT
1 GATGCCATAGCGTCTTTCAACTATGATCTTAAGCATATT-TATCAT
*
67780489 GATGTCATAG
1 GATGCCATAG
67780499 TATCTTTCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (45 bp):
GATGCCATAGCGTCTTTCAACTATGATCTTAAGCATATTTATCAT
Found at i:67780532 original size:45 final size:45
Alignment explanation
Indices: 67780483--67780569 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
67780473 TAATCATTTA
** *
67780483 TATCATGATGTCATAGTATCTTTCTA-TTATTGTCTTACTCATCCT
1 TATCATGATGTCATAAAATCTTT-TAGTTATGGTCTTACTCATCCT
67780528 TATCATGATGTCATAAAATCTTTTAGTTATGGTCTTACTCAT
1 TATCATGATGTCATAAAATCTTTTAGTTATGGTCTTACTCAT
67780570 TTTAGGCGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (45 bp):
TATCATGATGTCATAAAATCTTTTAGTTATGGTCTTACTCATCCT
Found at i:67781653 original size:15 final size:16
Alignment explanation
Indices: 67781633--67781665 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
67781623 GTAACATCCC
67781633 AAAAATTG-GGTTAGA
1 AAAAATTGAGGTTAGA
*
67781648 AAAAATTGAGGTTTGA
1 AAAAATTGAGGTTAGA
67781664 AA
1 AA
67781666 CCAAGAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.27
Consensus pattern (16 bp):
AAAAATTGAGGTTAGA
Found at i:67782556 original size:42 final size:42
Alignment explanation
Indices: 67782509--67782589 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
67782499 TGGTTTAGGA
* *
67782509 CCACACGACCAGGGACATGGGCGTGTG-CTCAGGCCGTGTGAG
1 CCACACGACCAAGGACATGGGCATGTGTCT-AGGCCGTGTGAG
**
67782551 CCACACGGGCAAGGACATGGGCATGTGTCTAGGCCGTGT
1 CCACACGACCAAGGACATGGGCATGTGTCTAGGCCGTGT
67782590 AACTCACTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.37, T:0.16
Consensus pattern (42 bp):
CCACACGACCAAGGACATGGGCATGTGTCTAGGCCGTGTGAG
Found at i:67782628 original size:104 final size:105
Alignment explanation
Indices: 67782448--67782689 Score: 326
Period size: 104 Copynumber: 2.3 Consensus size: 105
67782438 GTGTAGGGTT
* * *
67782448 CACACGGGCAAGGACATAGGTGTGTGTCCAGGCCGTGTAACTCACTGTTTATGGTTTAGGACCAC
1 CACACGGGCAAGGACATAGGTGTGTGTCTAGGCCGTGTAACTCACTATTTATGATTTAGGACCAC
*
67782513 ACGACCAGGGACATGGGCG-TGTG-CTCAGGCCGTGTGAGC
66 ACGACCAGGGACATGGGCGATGTGCCT-AGGCCGTGTAAGC
* ** *
67782552 CACACGGGCAAGGACATGGGCATGTGTCTAGGCCGTGTAACTCACTATTTATGATTTAGGACTAC
1 CACACGGGCAAGGACATAGGTGTGTGTCTAGGCCGTGTAACTCACTATTTATGATTTAGGACCAC
* * *
67782617 ATGGCCAGGGACATGGGTGTATGTGCCTAGGCCGTGTAAGC
66 ACGACCAGGGACATGGGCG-ATGTGCCTAGGCCGTGTAAGC
* * *
67782658 CATACGGGTAAGGACATCGGTGTGTGTCTAGG
1 CACACGGGCAAGGACATAGGTGTGTGTCTAGG
67782690 TCTTGTGAGT
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
104 74 0.62
106 43 0.36
107 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (105 bp):
CACACGGGCAAGGACATAGGTGTGTGTCTAGGCCGTGTAACTCACTATTTATGATTTAGGACCAC
ACGACCAGGGACATGGGCGATGTGCCTAGGCCGTGTAAGC
Found at i:67783684 original size:35 final size:35
Alignment explanation
Indices: 67783643--67783712 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
67783633 AGTATGCTCT
67783643 GCTTATTTGTATTTGAGTCTAGTTATACACGATGC
1 GCTTATTTGTATTTGAGTCTAGTTATACACGATGC
67783678 GCTTATTTGTATTTGAGTCTAGTTATACACGATGC
1 GCTTATTTGTATTTGAGTCTAGTTATACACGATGC
67783713 TTGGTAACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (35 bp):
GCTTATTTGTATTTGAGTCTAGTTATACACGATGC
Found at i:67784207 original size:21 final size:20
Alignment explanation
Indices: 67784173--67784226 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
67784163 GTTATAACTT
*
67784173 TATTCATTTATATAAATATTTTA
1 TATT-ATTT-TATAAA-ATTATA
*
67784196 TATTTTTTTAT-AAATTATA
1 TATTATTTTATAAAATTATA
67784215 TATTATTTTATA
1 TATTATTTTATA
67784227 TATGATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 15 0.56
20 2 0.07
21 3 0.11
22 3 0.11
23 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATTTTATAAAATTATA
Found at i:67784228 original size:21 final size:21
Alignment explanation
Indices: 67784179--67784228 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
67784169 ACTTTATTCA
*
67784179 TTTATATAAATATTTTATATTT
1 TTTATAT-AATATTATATATTT
67784201 TTT-TATAA-ATTATATATTAT
1 TTTATATAATATTATATATT-T
67784221 TTTATATA
1 TTTATATA
67784229 TGATAATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.36
20 6 0.24
21 7 0.28
22 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATAATATTATATATTT
Found at i:67795800 original size:15 final size:15
Alignment explanation
Indices: 67795780--67795826 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
67795770 TTATGGAAAG
67795780 TCAAATATATGGGTA
1 TCAAATATATGGGTA
**
67795795 TCAAATAT-TGGAAA
1 TCAAATATATGGGTA
*
67795809 GTCAAAGATATGGGTA
1 -TCAAATATATGGGTA
67795825 TC
1 TC
67795827 GAGATATTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (15 bp):
TCAAATATATGGGTA
Found at i:67795807 original size:30 final size:31
Alignment explanation
Indices: 67795773--67795836 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
67795763 TGCATATTTA
*
67795773 TGGAAAGTCAAATATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
*
67795803 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
67795834 TGG
1 TGG
67795837 CATAAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.28
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:67797473 original size:45 final size:45
Alignment explanation
Indices: 67797410--67797496 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
67797400 CAAACTTATT
* * *
67797410 GTACAGATATTTTTCATAAAGAAAATAGTACAAGATATCTTTGTA
1 GTACAGATATTGTACATAAAGAAAACAGTACAAGATATCTTTGTA
67797455 GTACAGATATTGTACATAAAGAAAACAGTACAAGATATCTTT
1 GTACAGATATTGTACATAAAGAAAACAGTACAAGATATCTTT
67797497 ATTGAAAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (45 bp):
GTACAGATATTGTACATAAAGAAAACAGTACAAGATATCTTTGTA
Found at i:67815715 original size:30 final size:30
Alignment explanation
Indices: 67815674--67815736 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
67815664 ACTTAACAAG
67815674 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
*
67815704 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
67815734 CAA
1 CAA
67815737 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:67819744 original size:20 final size:20
Alignment explanation
Indices: 67819719--67819756 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
67819709 GTTTTCAACT
67819719 TCAATGCCACTAGATTTCCA
1 TCAATGCCACTAGATTTCCA
67819739 TCAATGCCACTAGATTTC
1 TCAATGCCACTAGATTTC
67819757 AATTTTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (20 bp):
TCAATGCCACTAGATTTCCA
Found at i:67821529 original size:29 final size:29
Alignment explanation
Indices: 67821467--67821529 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
67821457 ACTAAAAAAT
* * *
67821467 AAAAAAATAGAAATCAAATTTTTTTTCCC
1 AAAAAAAGAGAAATCAAATCTTTTTTACC
* * *
67821496 TAAAAAAGGGAAATCAAATCTTTTTTATC
1 AAAAAAAGAGAAATCAAATCTTTTTTACC
67821525 AAAAA
1 AAAAA
67821530 CAACATTCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAAAAAGAGAAATCAAATCTTTTTTACC
Found at i:67823394 original size:18 final size:17
Alignment explanation
Indices: 67823362--67823398 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
67823352 AATTTATATG
*
67823362 TATATGAAGAATATTAT
1 TATATGAAAAATATTAT
67823379 TATATGTAAAAATATTAT
1 TATATG-AAAAATATTAT
67823397 TA
1 TA
67823399 CGTACATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (17 bp):
TATATGAAAAATATTAT
Found at i:67825218 original size:87 final size:87
Alignment explanation
Indices: 67825125--67825293 Score: 232
Period size: 87 Copynumber: 1.9 Consensus size: 87
67825115 AAGCAAAGAA
* * * *
67825125 TTTTTTTTTAGAAAAAGAAAT-AACGGCTATTTGTCAAATTAGCCCCCAATAATAAGGGGTAGCT
1 TTTTTTTTCAG-AAAA-AAATGAACGGCTATTTATCAAAGTAGACCCCAATAATAAGGGGTAGCT
* *
67825189 ATAATTTTGTTTGTATAAGTACAG
64 ATAATTTTGCTTATATAAGTACAG
* * *
67825213 TTTTTTTTCTGAAAAACATGAACGGCTATTTATCAAAGTAGACCCCAATAATAATGGGTAGCTAT
1 TTTTTTTTCAGAAAAAAATGAACGGCTATTTATCAAAGTAGACCCCAATAATAAGGGGTAGCTAT
67825278 AATTTTGCTTATATAA
66 AATTTTGCTTATATAA
67825294 AAATGGGAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
86 3 0.04
87 59 0.83
88 9 0.13
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (87 bp):
TTTTTTTTCAGAAAAAAATGAACGGCTATTTATCAAAGTAGACCCCAATAATAAGGGGTAGCTAT
AATTTTGCTTATATAAGTACAG
Found at i:67828241 original size:5 final size:5
Alignment explanation
Indices: 67828231--67828257 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
67828221 TTTTTTTAAA
67828231 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
67828258 ATATTTAATA
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):
TATTT
Found at i:67834347 original size:2 final size:2
Alignment explanation
Indices: 67834335--67834367 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
67834325 AACTTATGTA
67834335 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67834368 GCTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67835314 original size:20 final size:21
Alignment explanation
Indices: 67835270--67835315 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
67835260 TCTAGAATTT
67835270 TTTTAAAAATATAAATTTTAAA
1 TTTTAAAAATAT-AATTTTAAA
67835292 TTTTAAAAAT-T-ATTTTGAAA
1 TTTTAAAAATATAATTTT-AAA
67835312 TTTT
1 TTTT
67835316 TTTTTGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 1 0.04
22 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTAAAAATATAATTTTAAA
Found at i:67836626 original size:23 final size:23
Alignment explanation
Indices: 67836599--67836644 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
67836589 TCTAATTAAA
* *
67836599 TTTTATAAATAATTAATATTTAT
1 TTTTAAAAATAATTAAAATTTAT
*
67836622 TTTTAAAAATATTTAAAATTTAT
1 TTTTAAAAATAATTAAAATTTAT
67836645 ATTTCATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTAAAAATAATTAAAATTTAT
Found at i:67844746 original size:11 final size:11
Alignment explanation
Indices: 67844732--67844770 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
67844722 CGAAAAATAA
*
67844732 ATTTCCTCTGT
1 ATTTCCTCTCT
67844743 ATTTCCTCTCT
1 ATTTCCTCTCT
*
67844754 ATTTTCCCCTCT
1 A-TTTCCTCTCT
67844766 ATTTC
1 ATTTC
67844771 GTATCTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.10, C:0.33, G:0.03, T:0.54
Consensus pattern (11 bp):
ATTTCCTCTCT
Found at i:67845559 original size:44 final size:43
Alignment explanation
Indices: 67845506--67845782 Score: 240
Period size: 44 Copynumber: 6.3 Consensus size: 43
67845496 AAGACTTGTA
* *
67845506 TCTTCGATCTA-TTTCTCCAATATATGGGAAGACAAGATCTACTT
1 TCTTCGATCTACTTTCACCAATACAT--GAAGACAAGATCTACTT
* * *
67845550 TCGTCGATCTACTTTGCCCCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTT--CACCAATACATGAAGACAAGATCTACTT
* *
67845595 TCTTCTATCTAC-TTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTTCA--CCAATACATGAAGACAAGATCTACTT
*
67845639 TCCTCGATCTAC-TTCACGCTAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTTCAC-C-AATACATGAAGACAAGATCTACTT
* * **
67845683 TCTTCGATCTGC-TTCATGACAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTTCA--CCAATACATGAAGACAAGATCTACTT
* * * * **
67845727 TCCTCGATCTAC-TTCATTGCTAATATAAGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTTCA---CCAATACATGAAGACAAGATCTACTT
67845772 TCTTCGATCTA
1 TCTTCGATCTA
67845783 TTCCACTGCT
Statistics
Matches: 201, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 125 0.62
45 64 0.32
47 9 0.04
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (43 bp):
TCTTCGATCTACTTTCACCAATACATGAAGACAAGATCTACTT
Found at i:67845698 original size:88 final size:88
Alignment explanation
Indices: 67845533--67845782 Score: 340
Period size: 88 Copynumber: 2.8 Consensus size: 88
67845523 CAATATATGG
* * * *
67845533 GAAGACAAGATCTACTTTCGTCGATCTACTTTGC-CCCCAATACATGAAGACAAGATCTGCTTTC
1 GAAGACAAGATCTGCTTTCCTCGATCTAC-TT-CACGCTAATACATGAAGACAAGATCTGCTTTC
* *
67845597 TTCTATCTACTTCACGCCAATACAT
64 TTCGATCTACTTCACGACAATACAT
*
67845622 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCTAATACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTT
* *
67845687 CGATCTGCTTCATGACAATACAT
66 CGATCTACTTCACGACAATACAT
* * * * *
67845710 GAAGACAAGATCTGTTTTCCTCGATCTACTTCATTGCTAATATAAGAAGACAAGATCTGTTTTCT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCA-CGCTAATACATGAAGACAAGATCTGCTTTCT
67845775 TCGATCTA
65 TCGATCTA
67845783 TTCCACTGCT
Statistics
Matches: 143, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 82 0.57
89 60 0.42
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (88 bp):
GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCACGACAATACAT
Found at i:67845759 original size:133 final size:131
Alignment explanation
Indices: 67845533--67845782 Score: 340
Period size: 133 Copynumber: 1.9 Consensus size: 131
67845523 CAATATATGG
* *
67845533 GAAGACAAGATCTACTTTCGTCGATCTACTTTGCCCCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTACTTTCGTCGATCTACTTTG--CACAATACATGAAGACAAGATCTGCTTTCC
* *
67845598 TCTATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCTAATA
64 TCGATCTACTTCACGCCAATACAAGAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCTAATA
67845663 CAT
129 CAT
* * *
67845666 GAAGACAAGATCTACTTTCTTCGATCTGCTTCATG-ACAATACATGAAGACAAGATCTGTTTTCC
1 GAAGACAAGATCTACTTTCGTCGATCTACTT--TGCACAATACATGAAGACAAGATCTGCTTTCC
* * * * *
67845730 TCGATCTACTTCATTGCTAATATAAGAAGACAAGATCTGTTTTCTTCGATCTA
64 TCGATCTACTTCA-CGCCAATACAAGAAGACAAGATCTGCTTTCCTCGATCTA
67845783 TTCCACTGCT
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
132 38 0.37
133 62 0.61
135 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (131 bp):
GAAGACAAGATCTACTTTCGTCGATCTACTTTGCACAATACATGAAGACAAGATCTGCTTTCCTC
GATCTACTTCACGCCAATACAAGAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCTAATACA
T
Found at i:67846197 original size:44 final size:44
Alignment explanation
Indices: 67845884--67846201 Score: 153
Period size: 44 Copynumber: 7.2 Consensus size: 44
67845874 ACTACTGCTT
*
67845884 AGGGAGATAAAATCTGTAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
* * * * * ** *
67845928 AAGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCCACTGTAACCTT
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTA-TTCCACTGTTGCC-C
* * **** ** ** ** **
67845973 AGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
*
67846017 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
* * * * **
67846061 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTATTCCACTGTTGCC-C
* * * * ** ** ** **
67846105 AGGGAGGTAAAATCTGTCATATTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
67846149 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
67846193 AGGGAGATA
1 AGGGAGATA
67846202 GAATTACTGG
Statistics
Matches: 186, Mismatches: 75, Indels: 26
0.65 0.26 0.09
Matches are distributed among these distances:
41 6 0.03
42 2 0.01
43 33 0.18
44 106 0.57
45 27 0.15
46 9 0.05
47 2 0.01
48 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
Found at i:67846240 original size:44 final size:44
Alignment explanation
Indices: 67846037--67846242 Score: 124
Period size: 43 Copynumber: 4.7 Consensus size: 44
67846027 GATCTATAAT
* **
67846037 CTTCAATCTATTCCACTGTTGCC-CAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAGAATTACTGG
* * * *
67846080 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTA-AAAT-CTGT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAGAATTACTGG
** * * * *
67846122 CATATTTGATCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATCTGTAAT--
1 C---TTCAATCTACTCCACTGTAAC--CTCAGGGAGAT-AGA-AT-TACTGG
* **
67846169 CTTCAATCTATTCCACTGTTGCC-CAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAGAATTACTGG
*
67846212 CTTCAATGTACTCCACTGTAACCTCAGGGAG
1 CTTCAATCTACTCCACTGTAACCTCAGGGAG
67846243 GTAAAATCCA
Statistics
Matches: 118, Mismatches: 28, Indels: 33
0.66 0.16 0.18
Matches are distributed among these distances:
41 3 0.03
42 7 0.06
43 45 0.38
44 44 0.37
45 13 0.11
46 2 0.02
47 2 0.02
48 1 0.01
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGTAACCTCAGGGAGATAGAATTACTGG
Found at i:67846310 original size:132 final size:132
Alignment explanation
Indices: 67845761--67846297 Score: 860
Period size: 132 Copynumber: 4.1 Consensus size: 132
67845751 ATAAGAAGAC
** * * * * * * *
67845761 AAGATCTGTTTTCTTCGATCTATTCCACTGCTGACCAGTGAGTTAGAA-TACTGACTTCAATATA
1 AAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
* * ** *
67845825 CTCCACTGCAACCTCAAGGAGGTAAAATCTGCCATCTTTGATATGCTCCACTACTGCTTAGGGAG
66 CTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
67845890 AT
131 AT
* *
67845892 AAAATCTGTAATCTTCAATCTATTCCACTGTTGCCCAAGGAGATAGAATTACTGGCTTCAATGTA
1 AAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
*
67845957 CTCCCACTGTAACCTTAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGA
66 CT-CCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGA
67846022 GAT
130 GAT
*
67846025 AAGATCTATAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
1 AAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
*** *
67846090 CTCCACTGTAACCTCAGGGAGGTAAAATCTGTCATATTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
67846155 AT
131 AT
67846157 AAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
1 AAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
67846222 CTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
67846287 AT
131 AT
67846289 AAGATCTGT
1 AAGATCTGT
67846298 TTTCTTCGAT
Statistics
Matches: 374, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
131 39 0.10
132 212 0.57
133 123 0.33
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
AAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
CTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
AT
Found at i:67846452 original size:89 final size:88
Alignment explanation
Indices: 67846289--67846669 Score: 534
Period size: 89 Copynumber: 4.3 Consensus size: 88
67846279 TTAGGGAGAT
* * *** *
67846289 AAGATCTGTTTTCTTCGATCTACTTC-ACGCC-GATACATGAAGACAAGATCTGTTTTCTTCGAT
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAG-TATGGGAAGACAAGATCTG-TTTCTTTGAT
*
67846352 CTACTTCACGCCAATACATGAAGAC
64 CTACTTCACGCCAGTACATGAAGAC
* * * *
67846377 AAGATCTGTTTTCTTCGATCTGCTTCGCCACTAGTATGGGAAGGCAAGAGCTGTTATCTTTGATC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTT-TCTTTGATC
*
67846442 TACTTTACGCCAGTACATGAAGAC
65 TACTTCACGCCAGTACATGAAGAC
* *
67846466 AAGATCTATTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTGTTCTTTGATC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT-TTCTTTGATC
67846531 TACTTCACGCCAGTACATGAAGAC
65 TACTTCACGCCAGTACATGAAGAC
67846555 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTGTCTTTGATC
1 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTT-TCTTTGATC
* *
67846620 TACTTCACGCCAGTACATGAAAAT
65 TACTTCACGCCAGTACATGAAGAC
*
67846644 AAGATCTGTTGTAC-TCGATCTACTTC
1 AAGATCTGTT-TTCTTCGATCTACTTC
67846670 ACGCCAATAC
Statistics
Matches: 263, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
88 28 0.11
89 231 0.88
90 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (88 bp):
AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTCTTTGATCT
ACTTCACGCCAGTACATGAAGAC
Found at i:67846695 original size:44 final size:44
Alignment explanation
Indices: 67846289--67846687 Score: 446
Period size: 44 Copynumber: 9.0 Consensus size: 44
67846279 TTAGGGAGAT
67846289 AAGATCTGTTTTCTTCGATCTACTTCACGCC-GATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAG-TACATGAAGAC
*
67846333 AAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * *
67846377 AAGATCTGTTTTCTTCGATCTGCTT--CGCCACTAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTA-CAT--GAAGAC
* * * *
67846422 AAGAGCTGTTATCTTTGATCTACTTTACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * * ***
67846466 AAGATCTATTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
* *
67846511 AAGATCTGTGTTCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * ***
67846555 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
* * * *
67846600 AAGATCTGTTGTCTTTGATCTACTTCACGCCAGTACATGAAAAT
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* *
67846644 AAGATCTGTTGTAC-TCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTT-TTCTTCGATCTACTTCACGCCAGTACATGAAGAC
67846688 CATATCTGCT
Statistics
Matches: 296, Mismatches: 50, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
42 7 0.02
43 2 0.01
44 177 0.60
45 101 0.34
46 2 0.01
47 7 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
Found at i:67848983 original size:18 final size:18
Alignment explanation
Indices: 67848957--67848998 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
67848947 TAGTTTGGCA
67848957 GAAAAAATCCAAAAGAAT
1 GAAAAAATCCAAAAGAAT
* **
67848975 GAAAGAATCGTAAAGAAT
1 GAAAAAATCCAAAAGAAT
67848993 GAAAAA
1 GAAAAA
67848999 GCATTTGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.07, G:0.17, T:0.12
Consensus pattern (18 bp):
GAAAAAATCCAAAAGAAT
Found at i:67853757 original size:11 final size:11
Alignment explanation
Indices: 67853743--67853781 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
67853733 CGAAAAACAA
*
67853743 ATTTCCTCTGT
1 ATTTCCTCTCT
67853754 ATTTCCTCTCT
1 ATTTCCTCTCT
*
67853765 ATTTTCCCCTCT
1 A-TTTCCTCTCT
67853777 ATTTC
1 ATTTC
67853782 GTATATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.10, C:0.33, G:0.03, T:0.54
Consensus pattern (11 bp):
ATTTCCTCTCT
Found at i:67856398 original size:14 final size:13
Alignment explanation
Indices: 67856379--67856412 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
67856369 ACATTCTGTT
67856379 AAAAAAAACAAAAC
1 AAAAAAAAC-AAAC
67856393 AAAAAAAACAAAC
1 AAAAAAAACAAAC
67856406 AAAAAAA
1 AAAAAAA
67856413 CTAGCTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:67863854 original size:18 final size:18
Alignment explanation
Indices: 67863831--67863907 Score: 84
Period size: 18 Copynumber: 4.3 Consensus size: 18
67863821 TTTTGGTTAA
*
67863831 AAATTAACCGAATTACCC
1 AAATTAACCGAATTAACC
67863849 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
**
67863867 GGATT-ACCTGAATTAACC
1 AAATTAACC-GAATTAACC
* *
67863885 GAATTACCCGAATTAACC
1 AAATTAACCGAATTAACC
*
67863903 GAATT
1 AAATT
67863908 GAATCACTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
17 3 0.06
18 47 0.90
19 2 0.04
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:67863906 original size:27 final size:27
Alignment explanation
Indices: 67863833--67863907 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
67863823 TTGGTTAAAA
*
67863833 ATTAACCGAATTACCCAAATTAACCGA
1 ATTAACCGAATTACCCGAATTAACCGA
* *
67863860 ATTAACCGGATTACCTGAATTAACCGA
1 ATTAACCGAATTACCCGAATTAACCGA
* *
67863887 ATTACCCGAATTAACCGAATT
1 ATTAACCGAATTACCCGAATT
67863908 GAATCACTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (27 bp):
ATTAACCGAATTACCCGAATTAACCGA
Found at i:67864050 original size:18 final size:18
Alignment explanation
Indices: 67864010--67864053 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
67864000 AATTTTTATG
**
67864010 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
67864028 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
67864046 CTTGGGTT
1 ATTGGGTT
67864054 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:67874430 original size:18 final size:19
Alignment explanation
Indices: 67874399--67874447 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
67874389 ATATATATAA
*
67874399 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAA-TTTTAAAAATT
*
67874419 ATTTTTAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
67874438 ATTTTGAATT
1 ATTTTGAATT
67874448 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 8 0.32
19 12 0.48
20 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:67874437 original size:28 final size:27
Alignment explanation
Indices: 67874372--67874460 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 27
67874362 GATTCAATAT
* * * *
67874372 TTTTATAATTTTTAAAAATATATATAAA
1 TTTTAAAATTTTTATAAATAT-TTTTAA
*
67874400 TTTTAGAATTTTTATAAATATTTTTAA
1 TTTTAAAATTTTTATAAATATTTTTAA
*
67874427 TTTTAAAAATTATTT-TGAATTATTTTGTAA
1 TTTT-AAAATT-TTTAT-AAATATTTT-TAA
67874457 TTTT
1 TTTT
67874461 TGTTGAGAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.16
28 25 0.49
29 11 0.22
30 7 0.14
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTTAAAATTTTTATAAATATTTTTAA
Found at i:67875985 original size:2 final size:2
Alignment explanation
Indices: 67875973--67876038 Score: 105
Period size: 2 Copynumber: 32.5 Consensus size: 2
67875963 TACCCACGTT
67875973 TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
67876016 TA TA TA TA TA TC TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
67876039 TGGTTTTCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 57 0.97
3 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:67881270 original size:7 final size:7
Alignment explanation
Indices: 67881258--67881284 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
67881248 TATCATTCCT
67881258 TTATTTA
1 TTATTTA
67881265 TTATTTA
1 TTATTTA
67881272 TTATTTA
1 TTATTTA
67881279 TTATTT
1 TTATTT
67881285 TAGTATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:67882194 original size:21 final size:21
Alignment explanation
Indices: 67882144--67882195 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
67882134 TAAAGTTTAT
* *
67882144 ATTTTCAAAAAAAATTTAAAA
1 ATTTTCTAAAAAAAGTTAAAA
* * *
67882165 A-TATATAAATAAAGTTAAAA
1 ATTTTCTAAAAAAAGTTAAAA
67882185 ATTTTCTAAAA
1 ATTTTCTAAAA
67882196 TAATAACTTT
Statistics
Matches: 22, Mismatches: 8, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTTTCTAAAAAAAGTTAAAA
Found at i:67882258 original size:3 final size:3
Alignment explanation
Indices: 67882250--67882298 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
67882240 ATCATATCTT
67882250 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
67882298 T
1 T
67882299 AATTTTACTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67889415 original size:85 final size:85
Alignment explanation
Indices: 67889268--67889438 Score: 227
Period size: 85 Copynumber: 2.0 Consensus size: 85
67889258 TAAGATTCAC
*
67889268 TTTCACCATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATGATCTTGTGACA
1 TTTCACCATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
*
67889333 TACCTACAATAACACAAGTA
66 TACCTACAACAACACAAGTA
* * * * * *
67889353 TTTCACCTTAGGTAATACAATGTCAAAGATAAGATCAAGATCCAATTTCAGATAAT-TCTGTGAC
1 TTTCACCATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCT-TGTGAC
* **
67889417 TTACCTGTAACAACACAAGTA
65 ATACCTACAACAACACAAGTA
67889438 T
1 T
67889439 GTGGAGAGTC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 1 0.01
85 73 0.99
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (85 bp):
TTTCACCATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
TACCTACAACAACACAAGTA
Found at i:67903814 original size:40 final size:40
Alignment explanation
Indices: 67903759--67903839 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
67903749 ATAGTGGAGT
67903759 AAGAAATCAAGCACATTGAATTAATAAGGATTTAAATTGA
1 AAGAAATCAAGCACATTGAATTAATAAGGATTTAAATTGA
67903799 AAGAAATCAAGCACATTGAATTAATAAGGATTTAAATTGA
1 AAGAAATCAAGCACATTGAATTAATAAGGATTTAAATTGA
67903839 A
1 A
67903840 CTCCAAACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (40 bp):
AAGAAATCAAGCACATTGAATTAATAAGGATTTAAATTGA
Found at i:67904254 original size:19 final size:19
Alignment explanation
Indices: 67904230--67904283 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
67904220 AATCATATCT
*
67904230 TCCAAGATTGCATATCATA
1 TCCAAGATTACATATCATA
67904249 TCCAAGATTACATATCATA
1 TCCAAGATTACATATCATA
*
67904268 TCTAAGATTACATATC
1 TCCAAGATTACATATC
67904284 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (19 bp):
TCCAAGATTACATATCATA
Found at i:67904850 original size:43 final size:42
Alignment explanation
Indices: 67904744--67904910 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 42
67904734 CACTTTTACT
* ** **
67904744 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTATGGG
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTAT-GG
*
67904787 AAAAGCGCCGTTAAAGGTCATGTTCTTTAGCGGCGTTTATGG
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATGG
** * * * *
67904829 AAAAAGCGCTACTAAATGTCATGTTCTATAGTGGCGTTTGTTTGG
1 -AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCG-TT-TATGG
67904874 -AAAGCGCCGCTAAAGGTCATGTT-TTATAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGTTCTT-TAGCGGCGTTT
67904911 TTTCACATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 90 0.88
44 2 0.02
45 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATGG
Found at i:67905709 original size:31 final size:31
Alignment explanation
Indices: 67905671--67905732 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
67905661 ATGATTATTG
* *
67905671 AACTATTTGAAAA-TTTTTATTTAAGTCACTA
1 AACTATTT-AAAAGTTATTATTCAAGTCACTA
*
67905702 AACTATTTAAAAGTTATTATTCAAGTTACTA
1 AACTATTTAAAAGTTATTATTCAAGTCACTA
67905733 GTTGATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (31 bp):
AACTATTTAAAAGTTATTATTCAAGTCACTA
Found at i:67907509 original size:6 final size:6
Alignment explanation
Indices: 67907498--67907526 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
67907488 AAAACACTAT
67907498 TATGGC TATGGC TATGGC TATGGC TATGG
1 TATGGC TATGGC TATGGC TATGGC TATGG
67907527 ATTCTGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.34, T:0.34
Consensus pattern (6 bp):
TATGGC
Found at i:67907756 original size:3 final size:3
Alignment explanation
Indices: 67907748--67907777 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
67907738 AAAAATTCAA
67907748 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
67907778 CTGAACCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:67909819 original size:15 final size:15
Alignment explanation
Indices: 67909782--67909829 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
67909772 AAAATAAAAT
**
67909782 CAACTTAATATTTTC
1 CAACTTAATATTTAA
* *
67909797 CAAATTAATATCTAA
1 CAACTTAATATTTAA
67909812 CAACTTAATATTTAA
1 CAACTTAATATTTAA
67909827 CAA
1 CAA
67909830 TTTTTTTTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (15 bp):
CAACTTAATATTTAA
Found at i:67910073 original size:28 final size:29
Alignment explanation
Indices: 67910042--67910103 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
67910032 TTTTTTACCC
*
67910042 AAATAATAT-AAAAA-ATAATTCATTATGA
1 AAATAATATGAAAAACAT-ATTAATTATGA
**
67910070 AAATGGTATGAAAAACATATTAATTATGA
1 AAATAATATGAAAAACATATTAATTATGA
67910099 AAATA
1 AAATA
67910104 GACATTTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 7 0.25
29 19 0.68
30 2 0.07
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (29 bp):
AAATAATATGAAAAACATATTAATTATGA
Found at i:67911442 original size:15 final size:15
Alignment explanation
Indices: 67911415--67911475 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 15
67911405 TTAAATTTTG
*
67911415 TACTTAATATTTCAA
1 TACTTAATTTTTCAA
*
67911430 TACTCAATTTTTCAA
1 TACTTAATTTTTCAA
* * *
67911445 CACTTAATTTTTTAG
1 TACTTAATTTTTCAA
67911460 TACTTAATTTTTCAA
1 TACTTAATTTTTCAA
67911475 T
1 T
67911476 TGATCAAACA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.51
Consensus pattern (15 bp):
TACTTAATTTTTCAA
Found at i:67912847 original size:7 final size:7
Alignment explanation
Indices: 67912770--67912857 Score: 61
Period size: 7 Copynumber: 12.7 Consensus size: 7
67912760 AATCCCAAGT
67912770 CCTAAAC
1 CCTAAAC
*
67912777 CCTAGAC
1 CCTAAAC
*
67912784 CCTAGAC
1 CCTAAAC
67912791 CCTAAAC
1 CCTAAAC
*
67912798 CTTAAAC
1 CCTAAAC
* * *
67912805 CTTGAAG
1 CCTAAAC
*
67912812 TCTAAA-
1 CCTAAAC
*
67912818 CTTAAAC
1 CCTAAAC
*
67912825 TCTAAAC
1 CCTAAAC
*
67912832 CTTAAAC
1 CCTAAAC
67912839 CCTAAAC
1 CCTAAAC
**
67912846 CCCGAAC
1 CCTAAAC
67912853 CCTAA
1 CCTAA
67912858 GTTCAAGATT
Statistics
Matches: 61, Mismatches: 19, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
6 4 0.07
7 57 0.93
ACGTcount: A:0.39, C:0.35, G:0.06, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:67912884 original size:13 final size:14
Alignment explanation
Indices: 67912866--67912894 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
67912856 AAGTTCAAGA
67912866 TTTAGAGTTT-AGG
1 TTTAGAGTTTGAGG
67912879 TTTAGAGTTTGAGG
1 TTTAGAGTTTGAGG
67912893 TT
1 TT
67912895 CGGGATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (14 bp):
TTTAGAGTTTGAGG
Found at i:67912921 original size:21 final size:21
Alignment explanation
Indices: 67912897--67912945 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
67912887 TTGAGGTTCG
67912897 GGATTTAGGATTCTGGATTCA
1 GGATTTAGGATTCTGGATTCA
* * *
67912918 GGATTTGGGGTTCTTGATTCA
1 GGATTTAGGATTCTGGATTCA
67912939 GGATTTA
1 GGATTTA
67912946 AGGTAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.08, G:0.31, T:0.41
Consensus pattern (21 bp):
GGATTTAGGATTCTGGATTCA
Found at i:67913737 original size:22 final size:22
Alignment explanation
Indices: 67913707--67913758 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
67913697 TTAAAAATTG
*
67913707 AAAATAATAATTTTTTTAATTTT
1 AAAA-AATAATTTTTATAATTTT
* *
67913730 TAAAAATAGTTTTTATAATTTT
1 AAAAAATAATTTTTATAATTTT
67913752 AAAAAAT
1 AAAAAAT
67913759 TTAAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAAAATAATTTTTATAATTTT
Found at i:67914560 original size:13 final size:13
Alignment explanation
Indices: 67914542--67914585 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
67914532 TCATAGGTCA
67914542 AATAAATTATACT
1 AATAAATTATACT
**
67914555 AATAAATGCTA--
1 AATAAATTATACT
67914566 AATAAATTATACT
1 AATAAATTATACT
67914579 AATAAAT
1 AATAAAT
67914586 ATTAAATCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (13 bp):
AATAAATTATACT
Found at i:67914591 original size:24 final size:24
Alignment explanation
Indices: 67914541--67914592 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
67914531 TTCATAGGTC
*
67914541 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
67914565 AAATAAATTATACTAATAAATATT
1 AAATAAATTATACTAATAAATACT
67914589 AAAT
1 AAAT
67914593 CTTATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:67920589 original size:34 final size:34
Alignment explanation
Indices: 67920551--67920667 Score: 99
Period size: 34 Copynumber: 3.4 Consensus size: 34
67920541 GTTCTGATCT
* *
67920551 AATATGATATTTTAATTTGACATATGCTTCTGGA
1 AATATGACATTTTAATATGACATATGCTTCTGGA
* * * * *
67920585 AATATGACAATTTGATATGATATATGTTTTTGGA
1 AATATGACATTTTAATATGACATATGCTTCTGGA
* * * * * * *
67920619 AATATGACATTTTGATCTAATATATGTTTATGGT
1 AATATGACATTTTAATATGACATATGCTTCTGGA
*
67920653 AATATGACATGTTAA
1 AATATGACATTTTAA
67920668 GGATTTAAAC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (34 bp):
AATATGACATTTTAATATGACATATGCTTCTGGA
Found at i:67927338 original size:27 final size:27
Alignment explanation
Indices: 67927302--67927363 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
67927292 GATCCAAATT
*
67927302 TTTATATAAGTTATGATATGATATATA
1 TTTATGTAAGTTATGATATGATATATA
67927329 TTTATGTAAGTTATGATATGATATATA
1 TTTATGTAAGTTATGATATGATATATA
67927356 TTTATGTA
1 TTTATGTA
67927364 TTATGTAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (27 bp):
TTTATGTAAGTTATGATATGATATATA
Found at i:67928449 original size:72 final size:70
Alignment explanation
Indices: 67928368--67928586 Score: 244
Period size: 72 Copynumber: 3.1 Consensus size: 70
67928358 AAATGGTTCC
* * *
67928368 ACTTAATATCAAAATTCAATAAGTTGAACTAAATTAACATTTTTATAAATTCATAATTGAACAAA
1 ACTTAATATCAAAATTCAATAAATTGAACTAAATTAAC-TTTTTA-AAATTCATAATTAAATAAA
*
67928433 CGTTTTT
64 CGGTTTT
* ** * * *
67928440 ACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGCTTCTGAAAATGT-ATAACTAAATAAA
1 ACTTAATATCAAAATTCAATAAATTGAACTAAATTAA-CTTTTTAAAAT-TCATAATTAAATAAA
*
67928504 CGGTTTC
64 CGGTTTT
**
67928511 ACTTAATATCAAAACTT-AATAAATTGAACTAAATTAACCTTTTTAAAAACACATAATTAAATAA
1 ACTTAATATCAAAA-TTCAATAAATTGAACTAAATTAA-CTTTTT-AAAATTCATAATTAAATAA
67928575 ACGGTTTT
63 ACGGTTTT
67928583 ACTT
1 ACTT
67928587 GATAATTAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
71 54 0.45
72 66 0.55
73 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (70 bp):
ACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTAAAATTCATAATTAAATAAACG
GTTTT
Found at i:67928532 original size:71 final size:72
Alignment explanation
Indices: 67928345--67928548 Score: 220
Period size: 72 Copynumber: 2.8 Consensus size: 72
67928335 GGTTTTACTT
* * *
67928345 TGTATAAC-AGAATAAATGGTTCCACTTAATATCAAAATTCAATAAGTTGAACTAAATTAACATT
1 TGTATAACTA-AATAAACGGTTTCACTTAATATCAAAATTCAATAAATTGAACTAAATTAACATT
* *
67928409 TTTATAAA
65 CTGATAAA
* * * * * * **
67928417 T-TCATAATTGAACAAACGTTTTTACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGC-T
1 TGT-ATAACTAAATAAACGGTTTCACTTAATATCAAAATTCAATAAATTGAACTAAATTAA-CAT
67928480 TCTGA-AAA
64 TCTGATAAA
67928488 TGTATAACTAAATAAACGGTTTCACTTAATATCAAAACTT-AATAAATTGAACTAAATTAAC
1 TGTATAACTAAATAAACGGTTTCACTTAATATCAAAA-TTCAATAAATTGAACTAAATTAAC
67928549 CTTTTTAAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
70 1 0.01
71 51 0.48
72 53 0.50
73 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (72 bp):
TGTATAACTAAATAAACGGTTTCACTTAATATCAAAATTCAATAAATTGAACTAAATTAACATTC
TGATAAA
Found at i:67932193 original size:25 final size:25
Alignment explanation
Indices: 67932159--67932206 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
67932149 GGGCAACATT
*
67932159 TTGTTAAATGAAATTATAAAAATAA
1 TTGTTAAATGAAATAATAAAAATAA
67932184 TTGTTAAATGAAATAATAAAAAT
1 TTGTTAAATGAAATAATAAAAAT
67932207 TGAGCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
TTGTTAAATGAAATAATAAAAATAA
Found at i:67932635 original size:40 final size:40
Alignment explanation
Indices: 67932591--67932731 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
67932581 AAAATGATAC
* *
67932591 TTTGCGGCGCTTTTCTCATAGCGTCGCTAATGCTTGACCT
1 TTTGCAGCGTTTTTCTCATAGCGTCGCTAATGCTTGACCT
* * *
67932631 TTTGCAGCGTTTTTTTCATAGCGCCGCTAATACTTGACCT
1 TTTGCAGCGTTTTTCTCATAGCGTCGCTAATGCTTGACCT
* * * * *
67932671 TTTGCGGCATTTTTCTCATAAACGTCGTTAATGCTAGACCT
1 TTTGCAGCGTTTTTCTCAT-AGCGTCGCTAATGCTTGACCT
*
67932712 TTTGCAACGTTTTTCTCATA
1 TTTGCAGCGTTTTTCTCATA
67932732 AACGCCACTA
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 52 0.62
41 32 0.38
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (40 bp):
TTTGCAGCGTTTTTCTCATAGCGTCGCTAATGCTTGACCT
Found at i:67937141 original size:10 final size:11
Alignment explanation
Indices: 67937116--67937145 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
67937106 AATTCATATG
67937116 TAAAATAATAA
1 TAAAATAATAA
67937127 TAAAATAAT-A
1 TAAAATAATAA
67937137 TAAAATAAT
1 TAAAATAAT
67937146 CAGTGTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:67937828 original size:20 final size:20
Alignment explanation
Indices: 67937799--67937840 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
67937789 TACGGGATCG
67937799 CACTTCGGTGCCTCTGTTTA
1 CACTTCGGTGCCTCTGTTTA
* *
67937819 CACTTTGGTGTCTCTGTTTA
1 CACTTCGGTGCCTCTGTTTA
67937839 CA
1 CA
67937841 GTAAGGTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.43
Consensus pattern (20 bp):
CACTTCGGTGCCTCTGTTTA
Found at i:67937848 original size:20 final size:20
Alignment explanation
Indices: 67937805--67937850 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
67937795 ATCGCACTTC
**
67937805 GGTGCCTCTGTTTACACTTT
1 GGTGCCTCTGTTTACACTAA
* *
67937825 GGTGTCTCTGTTTACAGTAA
1 GGTGCCTCTGTTTACACTAA
67937845 GGTGCC
1 GGTGCC
67937851 CCTGATTGCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (20 bp):
GGTGCCTCTGTTTACACTAA
Found at i:67950560 original size:21 final size:21
Alignment explanation
Indices: 67950534--67950573 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
67950524 GTTTTATATT
*
67950534 ATTTTTACTTGTTTTAAGTTA
1 ATTTTTACTTATTTTAAGTTA
*
67950555 ATTTTTAGTTATTTTAAGT
1 ATTTTTACTTATTTTAAGT
67950574 AATAGATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (21 bp):
ATTTTTACTTATTTTAAGTTA
Found at i:67951607 original size:70 final size:72
Alignment explanation
Indices: 67951489--67951634 Score: 224
Period size: 70 Copynumber: 2.1 Consensus size: 72
67951479 CATCACTACG
* * *
67951489 ACTTCTTTTGCATTGCAAACTTAATTACTAAATTAGTTATTTTATTTTATTTAGTTAA-TTGTTT
1 ACTTATTTTGCATGGCAAACTTAATTACTAAATTAGATATTTTATTTTATTTAGTTAATTTGTTT
67951553 -TTTTTT
66 ATTTTTT
* * *
67951559 ACTTATTTTGTATGGCAGACTTAATTACTAAATTAGATATTTTATTTTATTTAGTTAATTTTTTT
1 ACTTATTTTGCATGGCAAACTTAATTACTAAATTAGATATTTTATTTTATTTAGTTAATTTGTTT
67951624 ATTTTTT
66 ATTTTTT
67951631 ACTT
1 ACTT
67951635 TGTTAATAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 53 0.78
71 5 0.07
72 10 0.15
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (72 bp):
ACTTATTTTGCATGGCAAACTTAATTACTAAATTAGATATTTTATTTTATTTAGTTAATTTGTTT
ATTTTTT
Found at i:67951639 original size:24 final size:26
Alignment explanation
Indices: 67951596--67951679 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
67951586 CTAAATTAGA
67951596 TATTTTA--TTTTATTTAGTTAAT-T
1 TATTTTATTTTTTATTTAGTTAATAT
67951619 T-TTTTATTTTTTACTTT-GTTAATAAT
1 TATTTTATTTTTTA-TTTAGTTAAT-AT
* *
67951645 TATTTTATTTTTT-CTTAGCTAATTAT
1 TATTTTATTTTTTATTTAGTTAA-TAT
67951671 TATATTTAT
1 TAT-TTTAT
67951680 ATTAATTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
22 5 0.10
23 1 0.02
24 11 0.22
25 5 0.10
26 11 0.22
27 17 0.34
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (26 bp):
TATTTTATTTTTTATTTAGTTAATAT
Found at i:67951678 original size:27 final size:27
Alignment explanation
Indices: 67951614--67951679 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
67951604 TTTATTTAGT
* * *
67951614 TAATTTTTTTATTTTTTACTTTGTTAA
1 TAATTATTTTATTTTTTACTTAGCTAA
67951641 TAATTATTTTATTTTTT-CTTAGCTAA
1 TAATTATTTTATTTTTTACTTAGCTAA
*
67951667 TTATTATATTTAT
1 TAATTAT-TTTAT
67951680 ATTAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (27 bp):
TAATTATTTTATTTTTTACTTAGCTAA
Found at i:67959492 original size:50 final size:50
Alignment explanation
Indices: 67959377--67959625 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
67959367 GATAATAACA
* * ** * *
67959377 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
67959428 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
67959478 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
67959528 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
67959583 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
67959626 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:67959563 original size:100 final size:104
Alignment explanation
Indices: 67959376--67959625 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
67959366 TGATAATAAC
** * *
67959376 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
67959441 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
67959478 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
67959542 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
67959583 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
67959626 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:67959741 original size:13 final size:13
Alignment explanation
Indices: 67959720--67959750 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
67959710 GCTTAGATCA
*
67959720 TCATCAAATAAAT
1 TCATAAAATAAAT
67959733 TCATAAAATAAAT
1 TCATAAAATAAAT
67959746 TCATA
1 TCATA
67959751 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:67959997 original size:30 final size:30
Alignment explanation
Indices: 67959963--67960020 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
67959953 CCTTGACTCT
*
67959963 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
67959993 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
67960021 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:67965654 original size:50 final size:50
Alignment explanation
Indices: 67965539--67965787 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
67965529 GATAATAACA
* * ** * *
67965539 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
67965590 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
67965640 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
67965690 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
67965745 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
67965788 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:67965725 original size:100 final size:104
Alignment explanation
Indices: 67965538--67965787 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
67965528 TGATAATAAC
** * *
67965538 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
67965603 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
67965640 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
67965704 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
67965745 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
67965788 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:67965903 original size:13 final size:13
Alignment explanation
Indices: 67965882--67965912 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
67965872 GCTTAGATCA
*
67965882 TCATCAAATAAAT
1 TCATAAAATAAAT
67965895 TCATAAAATAAAT
1 TCATAAAATAAAT
67965908 TCATA
1 TCATA
67965913 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:67966160 original size:30 final size:30
Alignment explanation
Indices: 67966125--67966182 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
67966115 CCTTGACTCT
67966125 AACTTTTACAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
67966155 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
67966183 AAGGCTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:67969143 original size:17 final size:16
Alignment explanation
Indices: 67969093--67969150 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
67969083 TAATCACGGT
67969093 AATATTAAATT-AATA
1 AATATTAAATTAAATA
* *
67969108 TAATATT-TATCAAAATA
1 -AATATTAAAT-TAAATA
67969125 AATATTAAATTAAATTA
1 AATATTAAATTAAA-TA
67969142 AATATTAAA
1 AATATTAAA
67969151 CCTTATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
15 2 0.06
16 15 0.44
17 17 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATTAAATTAAATA
Found at i:67969510 original size:9 final size:9
Alignment explanation
Indices: 67969490--67969520 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
67969480 AAAATATCAT
67969490 ATTAATTTTA
1 ATTAA-TTTA
67969500 ATTAATTTA
1 ATTAATTTA
67969509 ATTAATTTA
1 ATTAATTTA
67969518 ATT
1 ATT
67969521 TTACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:67980233 original size:366 final size:367
Alignment explanation
Indices: 67979524--67980255 Score: 1331
Period size: 366 Copynumber: 2.0 Consensus size: 367
67979514 CGATAATACT
* *
67979524 ATATATAAATAGAAAATAGAAACTTAAATATACGACAAATAATAAATAAAAGGTCACTCCATTTC
1 ATATATAAATAGAAAATAGAAAATTAAATATACGACAAATAATAAATAAAAGGCCACTCCATTTC
67979589 GGCAAAAGACCCACACCCAAGTTCCATAGCTTTGGGTCCGCTATCCCGATCATGATTTTCCTACC
66 GGCAAAAGACCCACACCCAAGTTCCATAGCTTTGGGTCCGCTATCCCGATCATGATTTTCCTACC
*
67979654 CCTAGAGGGAAAGGTCCTTCCCTTTTGGGCCGGTTGTGGGCGAGGAGGGATTCGAACCCCCGACA
131 CCCAGAGGGAAAGGTCCTTCCCTTTTGGGCCGGTTGTGGGCGAGGAGGGATTCGAACCCCCGACA
*
67979719 CCATGGTTCATAGCCACATGCTTTAATCCTTTGAACTACAGGCCCCACCTCGTCTCCACTGGATA
196 CCATGGTTCATAGCCACATGCTCTAATCCTTTGAACTACAGGCCCCACCTCGTCTCCACTGGATA
*
67979784 TGTTCGCTCCCCCTTAGTAGGTACACCTCTTGCGATTTGAAATTAATGAAACCACATTGCATTTT
261 TGTTCACTCCCCCTTAGTAGGTACACCTCTTGCGATTTGAAATTAATGAAACCACATTGCATTTT
67979849 GATTGAACAAAGTTTTATTGATCCTTCAAATCAGCCAAAATA
326 GATTGAACAAAGTTTTATTGATCCTTCAAATCAGCCAAAATA
67979891 ATATATAAATAGAAAATAGAAAATTAAATATACGAC-AATAATAAATAAAAGGCCACTCCATTTC
1 ATATATAAATAGAAAATAGAAAATTAAATATACGACAAATAATAAATAAAAGGCCACTCCATTTC
67979955 GGCAAAAGACCCACACCCAAGTTCCATAGCTTTGGGTCCGCTATCCCGATCATGATTTTCCTACC
66 GGCAAAAGACCCACACCCAAGTTCCATAGCTTTGGGTCCGCTATCCCGATCATGATTTTCCTACC
* * *
67980020 CCCATAGGGAAAGGTCCTTCCCTTTTGGGCCGGTTGTGGGTGAGGAGGGATTTGAACCCCCGACA
131 CCCAGAGGGAAAGGTCCTTCCCTTTTGGGCCGGTTGTGGGCGAGGAGGGATTCGAACCCCCGACA
* * * *
67980085 CCATGGTTCGTAGCCACATGCTCTAATCCTTTGAGCTACAGGCCCCACCTCGTCTCCATTGGATT
196 CCATGGTTCATAGCCACATGCTCTAATCCTTTGAACTACAGGCCCCACCTCGTCTCCACTGGATA
*
67980150 TGTTCACTCCTCCTTAGTAGGTACACCTCTTGCGATTTGAAATTAATGAAACCACATTGCATTTT
261 TGTTCACTCCCCCTTAGTAGGTACACCTCTTGCGATTTGAAATTAATGAAACCACATTGCATTTT
*
67980215 GATTGAACAAAGTTTTATTGATCCTTCAAGTCAGCCAAAAT
326 GATTGAACAAAGTTTTATTGATCCTTCAAATCAGCCAAAAT
67980256 GCGTGCTTTG
Statistics
Matches: 351, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
366 316 0.90
367 35 0.10
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (367 bp):
ATATATAAATAGAAAATAGAAAATTAAATATACGACAAATAATAAATAAAAGGCCACTCCATTTC
GGCAAAAGACCCACACCCAAGTTCCATAGCTTTGGGTCCGCTATCCCGATCATGATTTTCCTACC
CCCAGAGGGAAAGGTCCTTCCCTTTTGGGCCGGTTGTGGGCGAGGAGGGATTCGAACCCCCGACA
CCATGGTTCATAGCCACATGCTCTAATCCTTTGAACTACAGGCCCCACCTCGTCTCCACTGGATA
TGTTCACTCCCCCTTAGTAGGTACACCTCTTGCGATTTGAAATTAATGAAACCACATTGCATTTT
GATTGAACAAAGTTTTATTGATCCTTCAAATCAGCCAAAATA
Found at i:67983594 original size:27 final size:27
Alignment explanation
Indices: 67983562--67983665 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
67983552 GGCAACCCAT
67983562 GTAGTCTGCTGGGACAGTAAACATGGG
1 GTAGTCTGCTGGGACAGTAAACATGGG
* **
67983589 GTAGTCCG-TCGGGACAGTAAACACAGG
1 GTAGTCTGCT-GGGACAGTAAACATGGG
* ** * *
67983616 GTAGCCTATTGGGACAATAAATATGGG
1 GTAGTCTGCTGGGACAGTAAACATGGG
*
67983643 GTAGTCTGCCT-GGACAGCAAACA
1 GTAGTCTG-CTGGGACAGTAAACA
67983666 CAGGAATAAA
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
26 1 0.02
27 55 0.95
28 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (27 bp):
GTAGTCTGCTGGGACAGTAAACATGGG
Found at i:67994407 original size:18 final size:18
Alignment explanation
Indices: 67994383--67994426 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
67994373 TTTCAATTTT
*
67994383 TTTAAATAATAATTATAAA
1 TTTAAATAAT-ATAATAAA
*
67994402 -TTAAATACTATAATAAA
1 TTTAAATAATATAATAAA
67994419 TTTAAATA
1 TTTAAATA
67994427 TAAATTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTAAATAATATAATAAA
Found at i:67995306 original size:2 final size:2
Alignment explanation
Indices: 67995299--67995341 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
67995289 ATGAAATTAG
67995299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67995341 A
1 A
67995342 AGGTTATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67996171 original size:105 final size:104
Alignment explanation
Indices: 67995956--67996180 Score: 265
Period size: 104 Copynumber: 2.2 Consensus size: 104
67995946 GTGTAAGGTT
* * * * * * *
67995956 CACATGGGCAAGGATACGGGTGTGTGTCTAGGCCGTGTAACTCTCTGTTTGTGACTTAAGACCAC
1 CACATGGGCAAGGACACGGGCGTGTGTCTAAGCCATGTAAATCACTGTTTATGACTTAAGACCAC
* *
67996021 ACGGCCAAGGACATGGGCATGTACCCAGGCCGTATGAGT
66 ACGGCCAAAGACATGGGCATGTACCCAGGCCGTATGAGC
* * * *
67996060 CACATGGGTAAGGACACGGGCGTGTGTCTAAGCCATGTAAATCACTTTTTATG-CTTTAGAACTA
1 CACATGGGCAAGGACACGGGCGTGTGTCTAAGCCATGTAAATCACTGTTTATGACTTAAG-ACCA
* * *
67996124 CACAGG-CAGAAGACATGGGCATGTGCCTAGGCCGTGTGAGC
65 CAC-GGCCA-AAGACATGGGCATGTACCCAGGCCGTATGAGC
67996165 CACATGGGCAAGGACA
1 CACATGGGCAAGGACA
67996181 TGGATGTGTG
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
103 5 0.05
104 52 0.51
105 44 0.44
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (104 bp):
CACATGGGCAAGGACACGGGCGTGTGTCTAAGCCATGTAAATCACTGTTTATGACTTAAGACCAC
ACGGCCAAAGACATGGGCATGTACCCAGGCCGTATGAGC
Found at i:67996190 original size:105 final size:104
Alignment explanation
Indices: 67995956--67996192 Score: 271
Period size: 105 Copynumber: 2.3 Consensus size: 104
67995946 GTGTAAGGTT
* * * * * *
67995956 CACATGGGCAAGGATACGGGTGTGTGTCTAGGCCGTGTAACTCTCTGTTTGTGACTTAAGACCAC
1 CACATGGGCAAGGACACGGGTGTGTGTCTAAGCCATGTAAATCACTGTTTATGACTTAAGACCAC
* *
67996021 ACGGCCAAGGACATGGGCATGTACCCAGGCCGTATGAGT
66 ACGGCCAAAGACATGGGCATGTACCCAGGCCGTATGAGC
* * * * *
67996060 CACATGGGTAAGGACACGGGCGTGTGTCTAAGCCATGTAAATCACTTTTTATG-CTTTAGAACTA
1 CACATGGGCAAGGACACGGGTGTGTGTCTAAGCCATGTAAATCACTGTTTATGACTTAAG-ACCA
* * *
67996124 CACAGG-CAGAAGACATGGGCATGTGCCTAGGCCGTGTGAGC
65 CAC-GGCCA-AAGACATGGGCATGTACCCAGGCCGTATGAGC
* *
67996165 CACATGGGCAAGGACATGGATGTGTGTC
1 CACATGGGCAAGGACACGGGTGTGTGTC
67996193 CAGGCCGTGT
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
103 5 0.05
104 52 0.47
105 53 0.48
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (104 bp):
CACATGGGCAAGGACACGGGTGTGTGTCTAAGCCATGTAAATCACTGTTTATGACTTAAGACCAC
ACGGCCAAAGACATGGGCATGTACCCAGGCCGTATGAGC
Found at i:67999218 original size:20 final size:21
Alignment explanation
Indices: 67999183--67999231 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
67999173 GCTAAGTCAG
67999183 ATTAAA-AAAATAAATA-AAA
1 ATTAAAGAAAATAAATATAAA
*
67999202 ATTAAAGAAAGTAAATATAAA
1 ATTAAAGAAAATAAATATAAA
*
67999223 ATAAAAGAA
1 ATTAAAGAA
67999232 GGATAGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 11 0.42
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (21 bp):
ATTAAAGAAAATAAATATAAA
Found at i:68001071 original size:20 final size:19
Alignment explanation
Indices: 68001013--68001071 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
68001003 ATATTCAATA
*
68001013 AATTTGAGTTTATGTGTATG
1 AATTTGAGTTTA-GTGTTTG
*
68001033 AATTT-AGTATTAATGGTTTG
1 AATTTGAGT-TTAGT-GTTTG
68001053 AATTTAGAGTTTAGTGTTT
1 AATTT-GAGTTTAGTGTTT
68001072 TGATTTTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 4 0.12
20 21 0.66
21 4 0.12
22 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (19 bp):
AATTTGAGTTTAGTGTTTG
Found at i:68001191 original size:20 final size:21
Alignment explanation
Indices: 68001152--68001191 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
68001142 ATGTGTACAA
* *
68001152 ATAAGAAAATTTACGTTTGAC
1 ATAAGAAAATTTAAGGTTGAC
68001173 ATAA-AAAATTTAAGGTTGA
1 ATAAGAAAATTTAAGGTTGA
68001192 ATCTCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
ATAAGAAAATTTAAGGTTGAC
Found at i:68005888 original size:2 final size:2
Alignment explanation
Indices: 68005881--68005906 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68005871 GTAATTACAA
68005881 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
68005907 TTTGCAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68006527 original size:5 final size:5
Alignment explanation
Indices: 68006495--68006543 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
68006485 AATTGTTAGC
68006495 AATAGT AATA- AATA- AATA- AATA- AATAT AATAT AATAT AATAT AATAT
1 AATA-T AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
68006542 AA
1 AA
68006544 AAAGTGGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 16 0.38
5 22 0.52
6 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (5 bp):
AATAT
Found at i:68007537 original size:12 final size:12
Alignment explanation
Indices: 68007520--68007544 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68007510 TAAAATTCAT
68007520 AAAATTATAAAA
1 AAAATTATAAAA
68007532 AAAATTATAAAA
1 AAAATTATAAAA
68007544 A
1 A
68007545 TTTTATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:68007544 original size:21 final size:23
Alignment explanation
Indices: 68007511--68007560 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 23
68007501 AAAATCATTT
68007511 AAAATTCATAAAA-TTA-TAAAA
1 AAAATTCATAAAATTTATTAAAA
68007532 AAAATT-ATAAAAATTTTATTAAAA
1 AAAATTCAT-AAAA-TTTATTAAAA
68007556 AAAAT
1 AAAAT
68007561 ACAAATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.08
21 10 0.40
23 3 0.12
24 10 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATTCATAAAATTTATTAAAA
Found at i:68008716 original size:86 final size:86
Alignment explanation
Indices: 68008571--68008742 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
68008561 CAGTCTTGCA
*
68008571 AAGGTATCAAAAAGAAATCTTGAACCACTTGACAAGGTAAATACTCTGCCACGTCCCAACCACAA
1 AAGGTATCAAAAAGAAATCTTGAACCACTTGACAAGGTAAATACTCTACCACGTCCCAACCACAA
68008636 TAGGACAATCACGTAAAACAT
66 TAGGACAATCACGTAAAACAT
* *
68008657 AAGGTATCGAAAAGAAGTCTTGAACCACTTGACAAGGTAAATACTCTACCACGTCCCAACCACAA
1 AAGGTATCAAAAAGAAATCTTGAACCACTTGACAAGGTAAATACTCTACCACGTCCCAACCACAA
68008722 TAGGACAATCACGTAAAACAT
66 TAGGACAATCACGTAAAACAT
68008743 GAATGTTAGC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (86 bp):
AAGGTATCAAAAAGAAATCTTGAACCACTTGACAAGGTAAATACTCTACCACGTCCCAACCACAA
TAGGACAATCACGTAAAACAT
Found at i:68011398 original size:20 final size:20
Alignment explanation
Indices: 68011335--68011398 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
68011325 TAAAGCCCTT
* *
68011335 TTAAAATTTA-AAAATCAT-
1 TTAAAATTCATAAAATTATA
68011353 TTAAAATTCATAAAATTATA
1 TTAAAATTCATAAAATTATA
** *
68011373 AAAAAATT-ATAAATATTTTA
1 TTAAAATTCATAAA-ATTATA
68011393 TTAAAA
1 TTAAAA
68011399 AAATACAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 9 0.25
19 12 0.33
20 15 0.42
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAATTCATAAAATTATA
Found at i:68014935 original size:38 final size:37
Alignment explanation
Indices: 68014879--68014967 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
68014869 ACTACTCCGA
* * * *
68014879 CCACCTTACACACTGCAATTTGGCTATGGTAGGCTCAT
1 CCACCCTACACACCGCAA-TGGGCTATAGTAGGCTCAT
* *
68014917 CCACCCTGCACACCGCAATGGGCTATAGTAGGCTCGT
1 CCACCCTACACACCGCAATGGGCTATAGTAGGCTCAT
68014954 CCACCCTACACACC
1 CCACCCTACACACC
68014968 ATGATAGTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 29 0.66
38 15 0.34
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (37 bp):
CCACCCTACACACCGCAATGGGCTATAGTAGGCTCAT
Found at i:68018509 original size:18 final size:18
Alignment explanation
Indices: 68018488--68018528 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
68018478 ATTTTTTATT
68018488 ATTTTGATACATATTTGA
1 ATTTTGATACATATTTGA
* *
68018506 ATTTCGATACATATTTTA
1 ATTTTGATACATATTTGA
68018524 ATTTT
1 ATTTT
68018529 TTATATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (18 bp):
ATTTTGATACATATTTGA
Found at i:68019785 original size:3 final size:3
Alignment explanation
Indices: 68019777--68019892 Score: 153
Period size: 3 Copynumber: 37.7 Consensus size: 3
68019767 CTAACCCCGT
68019777 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
68019825 TTA TTA TTA TTA TTA TTA TTA TCA TTC TTG TTA TTGCA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA
*
68019873 TTA CTT- TTC TTA TTA TTA TT
1 TTA -TTA TTA TTA TTA TTA TT
68019893 TACCCACTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 10
0.86 0.05 0.08
Matches are distributed among these distances:
2 2 0.02
3 94 0.92
4 3 0.03
5 1 0.01
6 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:68020036 original size:2 final size:2
Alignment explanation
Indices: 68019999--68020023 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68019989 ATATACTTTA
68019999 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
68020024 CTTACTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68024120 original size:5 final size:5
Alignment explanation
Indices: 68024112--68024173 Score: 74
Period size: 5 Copynumber: 12.2 Consensus size: 5
68024102 AATATTCCAA
*
68024112 AAAAG AAAAG AAAAAG AAAA- AAATG AAAA- AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
68024161 AATAACG AAAAG A
1 AA-AA-G AAAAG A
68024174 TAAGGGAGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 7 0.14
5 31 0.62
6 9 0.18
7 3 0.06
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:68024139 original size:9 final size:9
Alignment explanation
Indices: 68024110--68024159 Score: 64
Period size: 9 Copynumber: 5.2 Consensus size: 9
68024100 AAAATATTCC
68024110 AAAAAAGAAA
1 AAAAAAG-AA
68024120 AGAAAAAGAA
1 A-AAAAAGAA
*
68024130 AAAAATGAA
1 AAAAAAGAA
68024139 AAAAAAGAA
1 AAAAAAGAA
68024148 AAGAAAAGAA
1 AA-AAAAGAA
68024158 AA
1 AA
68024160 GAATAACGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 17 0.47
10 13 0.36
11 6 0.17
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:68025523 original size:86 final size:86
Alignment explanation
Indices: 68025378--68025849 Score: 730
Period size: 86 Copynumber: 5.5 Consensus size: 86
68025368 AAGAAATTAC
*
68025378 CAGATCTTGCCTTCCTGCATTGACAGCGAAACAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
*
68025443 AGTAGAGCTGGTTGAAGACAA
66 AGCAGAGCTGGTTGAAGACAA
* *
68025464 CAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGATTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
*
68025529 AGCAGAGCTGGTTGAATACAA
66 AGCAGAGCTGGTTGAAGACAA
* ** * *
68025550 CAGATCTTGTCTTTATGCATTGACAGTGAAGCAGATCGAAGACAAACCTTACCTCTCTCGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
*
68025615 AGCAGAGCTGGTTGAAGATAA
66 AGCAGAGCTGGTTGAAGACAA
*
68025636 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTTGGTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
*
68025701 AGTAGAGC-GAGTTGAAGACAA
66 AGCAGAGCTG-GTTGAAGACAA
* *
68025722 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTTGTTTGT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
* *
68025787 AGCAGAGCTGGTTGAAGATAG
66 AGCAGAGCTGGTTGAAGACAA
* * * * *
68025808 CAAATCTTGCCTTCCTGTACTAACGGCGAAGCAGATCGAAGA
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
68025850 AGCCAGTCTT
Statistics
Matches: 353, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
85 1 0.00
86 351 0.99
87 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (86 bp):
CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCTCTCTCGGTTGT
AGCAGAGCTGGTTGAAGACAA
Found at i:68025910 original size:89 final size:89
Alignment explanation
Indices: 68025801--68026116 Score: 490
Period size: 89 Copynumber: 3.6 Consensus size: 89
68025791 GAGCTGGTTG
* * *
68025801 AAGATAGCAAATCTTGCCTTCCTGTACTAACGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAGCTAGTCTTGCCTTC
* *
68025866 CTGCACAGACAGTGGAGCAGACTA
66 CTGCACTGACAGCGGAGCAGACTA
*
68025890 AAGATAGTAGATCTTGCCTTCCTGTA-TCGACGGCGAAGCAGATCGAAGAAGCTAGTCTTGCCTT
1 AAGATAGCAGATCTTGCCTTCCTGTACT-GACGGCGAAGCAGATCGAAGAAGCTAGTCTTGCCTT
* *
68025954 CCTACACTGACAGCGGAGCAAACTA
65 CCTGCACTGACAGCGGAGCAGACTA
* * * *
68025979 AAGATAGCAGATCTTGCCTTTCTGTACCGACGGCGAAGCAGATCGAAGAAACTAGTCTTGCTTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAGCTAGTCTTGCCTTC
68026044 CTGCACTGACAGCGGAGCAGACTA
66 CTGCACTGACAGCGGAGCAGACTA
* *
68026068 AAGATATCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGA
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGA
68026117 TTACAGATCT
Statistics
Matches: 206, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
88 1 0.00
89 205 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.22
Consensus pattern (89 bp):
AAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAGCTAGTCTTGCCTTC
CTGCACTGACAGCGGAGCAGACTA
Found at i:68026135 original size:45 final size:45
Alignment explanation
Indices: 68025722--68026127 Score: 297
Period size: 45 Copynumber: 9.2 Consensus size: 45
68025712 TTGAAGACAA
* *
68025722 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--A-
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAG
* * * * * * * *
68025764 CAAACCTTGCCTCTCTTGT-TTG-TAGC-AGAGCTGGTTGAAGATAG
1 CAGATCTTGCCT-TCCTGTACTGACAGCGA-AGCAGATCGAAGATAG
* * *
68025808 CAAATCTTGCCTTCCTGTACTAACGGCGAAGCAGATCGAAGA-AG
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAG
* * * * *
68025852 CCAG-TCTTGCCTTCCTGCACAGACAGTGGAGCAGA-CTAAAGATAG
1 -CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGATAG
* *
68025897 TAGATCTTGCCTTCCTGTA-TCGACGGCGAAGCAGATCGAAGA-AG
1 CAGATCTTGCCTTCCTGTACT-GACAGCGAAGCAGATCGAAGATAG
** * * *
68025941 CTAG-TCTTGCCTTCCTACACTGACAGCGGAGCA-AACTAAAGATAG
1 C-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGATAG
* * * *
68025986 CAGATCTTGCCTTTCTGTACCGACGGCGAAGCAGATCGAAGA-AA
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAG
* * * * *
68026030 CTAG-TCTTGCTTTCCTGCACTGACAGCGGAGCAGA-CTAAAGATAT
1 C-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGATAG
68026075 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATTA-
1 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGA-TAG
68026120 CAGATCTT
1 CAGATCTT
68026128 ATCTTCCTAA
Statistics
Matches: 278, Mismatches: 60, Indels: 49
0.72 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 12 0.04
42 13 0.05
43 14 0.05
44 109 0.39
45 122 0.44
46 7 0.03
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (45 bp):
CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAG
Found at i:68026263 original size:44 final size:45
Alignment explanation
Indices: 68026213--68026397 Score: 130
Period size: 44 Copynumber: 4.2 Consensus size: 45
68026203 CTGGTAGTTC
*
68026213 TATCTCCCTGGGCAACAGTGGAATAGATCGAAGACTA-CAGATCT
1 TATCTCCCTGAGCAACAGTGGAATAGATCGAAGACTAGCAGATCT
* ** ** * * *
68026257 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGA-TAGCGGATTT
1 TATCTCCCTGAGCAACAGTGGAATAGATCGAAGACTAGCAGATCT
* * * * * * *
68026301 TACCTCCCTGAG-ATTACAATGGAGTACATTGAAG-CTAGTAGTTC-
1 TATCTCCCTGAGCA--ACAGTGGAATAGATCGAAGACTAGCAGATCT
* * * *
68026345 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTA-CAGATCT
1 TATCTCCCTGAGCAACAGTGGAATAGATCGAAGACTAGCAGATCT
68026389 TATCTCCCT
1 TATCTCCCT
68026398 AAGTAGTAAT
Statistics
Matches: 103, Mismatches: 31, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
43 22 0.21
44 63 0.61
45 18 0.17
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
TATCTCCCTGAGCAACAGTGGAATAGATCGAAGACTAGCAGATCT
Found at i:68026275 original size:130 final size:131
Alignment explanation
Indices: 68026107--68026414 Score: 510
Period size: 132 Copynumber: 2.4 Consensus size: 131
68026097 ACAGCGAAGC
* *
68026107 AGATCGAAGATTACAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCGGATTTT
1 AGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGCGGATTTT
* * *
68026172 ACCTCCCT-GATTACAGTTGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAA
66 ACCTCCCTAGATTACAATGGAGTACATTGAAGCTAGTAGTTCTATCTCCCTGGGCAACAGTGGAA
68026236 T
131 T
*
68026237 AGATCGAAGACTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGCGGATTTT
1 AGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGCGGATTTT
*
68026302 ACCTCCCTGAGATTACAATGGAGTACATTGAAGCTAGTAGTTCTATCTCCCTGGGCAGCAGTGGA
66 ACCTCCCT-AGATTACAATGGAGTACATTGAAGCTAGTAGTTCTATCTCCCTGGGCAACAGTGGA
68026367 AT
130 AT
* * *
68026369 AGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAATGGAGCAG
1 AGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
68026415 ATCACATCAA
Statistics
Matches: 165, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
130 70 0.42
132 95 0.58
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (131 bp):
AGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGCGGATTTT
ACCTCCCTAGATTACAATGGAGTACATTGAAGCTAGTAGTTCTATCTCCCTGGGCAACAGTGGAA
T
Found at i:68027015 original size:82 final size:82
Alignment explanation
Indices: 68026381--68027014 Score: 1047
Period size: 82 Copynumber: 7.7 Consensus size: 82
68026371 ATTGAAGATT
* * *
68026381 ACAGATCTTATCTCCCTAAGTAGTAATGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
68026446 GCGGAGCAGAC-GAAACC
66 GCGGAGTAGACAG-AACC
*
68026463 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
68026528 GTGGAGTAGACAGAACC
66 GCGGAGTAGACAGAACC
68026545 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
* *
68026610 GTGGAGTAGACAGAACT
66 GCGGAGTAGACAGAACC
* *
68026627 ACAGATCTTATCTCTCTAAGCAGTAGTGGAGCATATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
68026692 GTGGAGTAGACAGAACC
66 GCGGAGTAGACAGAACC
*
68026709 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCAAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
*
68026774 GCGGAGCAGACAGAACC
66 GCGGAGTAGACAGAACC
68026791 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATC-AGATCTTATCTCCCTAAGCAGT
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG-TCTTATCTCCCTAAGCAGT
*
68026855 AGCGGAGCAGACAGAACC
65 AGCGGAGTAGACAGAACC
* * * *
68026873 ACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTGTCTCCCTAAGTAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
* *
68026938 GCGGAGTAGACAAAATC
66 GCGGAGTAGACAGAACC
*
68026955 ACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGCATCAAGTCTTATCTCCCTAAG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAG
68027015 TGGTAGTGGA
Statistics
Matches: 521, Mismatches: 28, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
81 2 0.00
82 516 0.99
83 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
GCGGAGTAGACAGAACC
Found at i:68028768 original size:3 final size:3
Alignment explanation
Indices: 68028745--68028855 Score: 125
Period size: 3 Copynumber: 34.7 Consensus size: 3
68028735 NCCCGTTTAT
68028745 TTA TTA TTTA TTAA TTAA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TT-A TT-A TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
68028794 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTGCA TTTA TTA TTA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA TTA -TTA
*
68028842 TTC TTA TTA TTA TT
1 TTA TTA TTA TTA TT
68028856 TACCCACTTA
Statistics
Matches: 97, Mismatches: 3, Indels: 16
0.84 0.03 0.14
Matches are distributed among these distances:
2 2 0.02
3 76 0.78
4 16 0.16
5 1 0.01
6 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:68028999 original size:2 final size:2
Alignment explanation
Indices: 68028962--68028986 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68028952 ATGTACTTTA
68028962 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
68028987 CTTACTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68030109 original size:16 final size:18
Alignment explanation
Indices: 68030088--68030122 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
68030078 CAAATATATT
68030088 ATAAAAATA-A-ATTTTA
1 ATAAAAATATATATTTTA
68030104 ATAAAAATATATATTTTA
1 ATAAAAATATATATTTTA
68030122 A
1 A
68030123 AAATTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAAATATATATTTTA
Found at i:68032148 original size:27 final size:26
Alignment explanation
Indices: 68032116--68032181 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
68032106 AAAATATATT
68032116 TTTTAATATTTTGTATGCTTTAAATAA
1 TTTTAATATTTT-TATGCTTTAAATAA
**
68032143 TTTTAATAATTTTTATTTTTTAAATAA
1 TTTTAAT-ATTTTTATGCTTTAAATAA
68032170 TTTT-ATATTTTT
1 TTTTAATATTTTT
68032182 TGAATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 6 0.17
26 2 0.06
27 23 0.64
28 5 0.14
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (26 bp):
TTTTAATATTTTTATGCTTTAAATAA
Found at i:68032165 original size:17 final size:19
Alignment explanation
Indices: 68032143--68032182 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
68032133 CTTTAAATAA
68032143 TTTT-AATAATTTT-TATT
1 TTTTAAATAATTTTATATT
68032160 TTTTAAATAATTTTATATT
1 TTTTAAATAATTTTATATT
68032179 TTTT
1 TTTT
68032183 GAATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAAATAATTTTATATT
Found at i:68032189 original size:26 final size:27
Alignment explanation
Indices: 68032116--68032192 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
68032106 AAAATATATT
**
68032116 TTTTAAT-ATTTTGTATGCTTTAAATAA
1 TTTTAATAATTTT-TATATTTTAAATAA
*
68032143 TTTTAATAATTTTTATTTTTTAAATAA
1 TTTTAATAATTTTTATATTTTAAATAA
*
68032170 TTTT-ATATTTTTTGA-ATTTTAAA
1 TTTTAATAATTTTT-ATATTTTAAA
68032193 AAAATGAAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
26 15 0.34
27 24 0.55
28 5 0.11
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTAATAATTTTTATATTTTAAATAA
Found at i:68035128 original size:30 final size:30
Alignment explanation
Indices: 68035015--68035130 Score: 124
Period size: 30 Copynumber: 3.9 Consensus size: 30
68035005 CACCGTCGGA
* * *
68035015 CCATGCAGAAGTCGCAAAAGCGTCGACTGT
1 CCATGCAAAAGTCGCAGAAGCGCCGACTGT
* * *
68035045 CCATGCAAAAGACGCAGAAGTGCTGACTGT
1 CCATGCAAAAGTCGCAGAAGCGCCGACTGT
* * *
68035075 CCATGAAAAAGTTGCAGAAGCGCCGACTAT
1 CCATGCAAAAGTCGCAGAAGCGCCGACTGT
** *
68035105 CCATGCCGAAGCCGCAGAAGCGCCGA
1 CCATGCAAAAGTCGCAGAAGCGCCGA
68035131 TAATTGAGGA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.32, C:0.28, G:0.27, T:0.14
Consensus pattern (30 bp):
CCATGCAAAAGTCGCAGAAGCGCCGACTGT
Found at i:68035719 original size:30 final size:30
Alignment explanation
Indices: 68035684--68035817 Score: 110
Period size: 30 Copynumber: 4.5 Consensus size: 30
68035674 GCGCTTTTAA
68035684 GGCTTCTACATGGATAGTCGGTGCTTCTGC
1 GGCTTCTACATGGATAGTCGGTGCTTCTGC
* ** * * * *
68035714 AGCTTCGGCATGGACAGTCAGCGCTTCCGC
1 GGCTTCTACATGGATAGTCGGTGCTTCTGC
* *
68035744 GACTTCTACATGGATAGTCAGG-GCTTCTAC
1 GGCTTCTACATGGATAGTC-GGTGCTTCTGC
* * * * *
68035774 GGCTTCTGCATGG-TCTGTCGATACTTCTGT
1 GGCTTCTACATGGAT-AGTCGGTGCTTCTGC
68035804 GGCTTCTACATGGA
1 GGCTTCTACATGGA
68035818 CCATGAGCGT
Statistics
Matches: 77, Mismatches: 23, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
29 2 0.03
30 74 0.96
31 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (30 bp):
GGCTTCTACATGGATAGTCGGTGCTTCTGC
Found at i:68035810 original size:60 final size:60
Alignment explanation
Indices: 68035684--68035817 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 60
68035674 GCGCTTTTAA
* *
68035684 GGCTTCTACATGGATAGTCGGTGCTTCTGCAGCTTCGGCATGGACAGTCAGCGCTTCCGC
1 GGCTTCTACATGGATAGTCGGTGCTTCTACAGCTTCGGCATGGACAGTCAGCACTTCCGC
* * * * * * * *
68035744 GACTTCTACATGGATAGTCAGG-GCTTCTACGGCTTCTGCATGGTCTGTC-GATACTTCTGT
1 GGCTTCTACATGGATAGTC-GGTGCTTCTACAGCTTCGGCATGGACAGTCAG-CACTTCCGC
68035804 GGCTTCTACATGGA
1 GGCTTCTACATGGA
68035818 CCATGAGCGT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
59 1 0.02
60 58 0.95
61 2 0.03
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (60 bp):
GGCTTCTACATGGATAGTCGGTGCTTCTACAGCTTCGGCATGGACAGTCAGCACTTCCGC
Found at i:68036070 original size:20 final size:20
Alignment explanation
Indices: 68036045--68036088 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
68036035 AACGTGAGGG
68036045 ATGAAAACCTTCTTGTGAAA
1 ATGAAAACCTTCTTGTGAAA
*
68036065 ATG-AAATCTTCTTGTGAAA
1 ATGAAAACCTTCTTGTGAAA
68036084 ATGAA
1 ATGAA
68036089 GAGTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
ATGAAAACCTTCTTGTGAAA
Found at i:68036210 original size:44 final size:44
Alignment explanation
Indices: 68036147--68036322 Score: 307
Period size: 44 Copynumber: 4.0 Consensus size: 44
68036137 AGAAATGCAA
* *
68036147 GGCACCAGAAGCTTCTTTCACTTTTCTGTTAGTGGAATAATTGT
1 GGCACCAGAAGCTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
*
68036191 GGCACCAGAAGTTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
1 GGCACCAGAAGCTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
68036235 GGCACCAGAAGCTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
1 GGCACCAGAAGCTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
* *
68036279 GGCACTAAAAGCTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
1 GGCACCAGAAGCTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
68036323 AGGTGCAATA
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 126 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (44 bp):
GGCACCAGAAGCTTCTTTCATTTTTCTGTTAGTGGACTAATTGT
Done.