Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 113 of 208
Found at i:34171651 original size:26 final size:26
Alignment explanation
Indices: 34171622--34171677 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
34171612 TTAGATTTAA
34171622 AATTTT-GAAAT-ATTTCATATATAATT
1 AATTTTAGAAATAATTT-ATAT-TAATT
*
34171648 AATTTTATAAATAATTTATATTAATT
1 AATTTTAGAAATAATTTATATTAATT
34171674 AATT
1 AATT
34171678 AAAAAGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 15 0.56
27 8 0.30
28 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
AATTTTAGAAATAATTTATATTAATT
Found at i:34172415 original size:15 final size:16
Alignment explanation
Indices: 34172395--34172438 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
34172385 ATTATATTAT
34172395 TAAATTATTTAAATA-
1 TAAATTATTTAAATAC
*
34172410 TAAATTA-TTATTATAC
1 TAAATTATTTA-AATAC
34172426 TAAATTATTTAAA
1 TAAATTATTTAAA
34172439 CATCATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 3 0.12
15 10 0.42
16 8 0.33
17 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTATTTAAATAC
Found at i:34172449 original size:31 final size:31
Alignment explanation
Indices: 34172395--34172455 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
34172385 ATTATATTAT
*
34172395 TAAATTATTTAAATATAAATTATTATTATAC
1 TAAATTATTTAAACATAAATTATTATTATAC
* *
34172426 TAAATTATTTAAACATCATTTATTATTATA
1 TAAATTATTTAAACATAAATTATTATTATA
34172456 TTTAAGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (31 bp):
TAAATTATTTAAACATAAATTATTATTATAC
Found at i:34172543 original size:17 final size:18
Alignment explanation
Indices: 34172511--34172548 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
34172501 TTTATTAGTT
*
34172511 ATTTAAAATATATATTTA
1 ATTTAAAATATATATTAA
*
34172529 ATTTATAAT-TATATTAA
1 ATTTAAAATATATATTAA
34172546 ATT
1 ATT
34172549 ATTTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTAAAATATATATTAA
Found at i:34179008 original size:40 final size:38
Alignment explanation
Indices: 34178964--34179086 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 38
34178954 CGTTTGGATA
34178964 AAAAACGCCACTAAAAAGCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCACTAAAAA-CAAGCATTAGCGGCGCTTTT-C
* * * * *
34179004 AAAAACGCCGCTAAAGATCGAGCATTAGCGACGCATTTTG
1 AAAAACGCCACTAAA-AACAAGCATTAGCGGCGC-TTTTC
* * * *
34179044 GAAAACCCCACTAAAAATAAGCATTAGTGGCG-TTTTCC
1 AAAAACGCCACTAAAAACAAGCATTAGCGGCGCTTTT-C
34179082 AAAAA
1 AAAAA
34179087 GCACCGCAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
37 4 0.06
38 4 0.06
39 12 0.18
40 40 0.62
41 5 0.08
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.20
Consensus pattern (38 bp):
AAAAACGCCACTAAAAACAAGCATTAGCGGCGCTTTTC
Found at i:34179196 original size:41 final size:41
Alignment explanation
Indices: 34179134--34179317 Score: 269
Period size: 41 Copynumber: 4.5 Consensus size: 41
34179124 AGAGTTTTGG
* *
34179134 GGGCATTTAGCTGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
34179175 GGGCCTTTAGCGGTGTTTTTGGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
34179216 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * * * *
34179257 AGGCCTTTAGCGGCGATTTAGGAAAAGCGCCGCTAATGATT
1 GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
34179298 GGGCCTTTAGTGGCATTTTT
1 GGGCCTTTAGCGGCGTTTTT
34179318 AATGCTCGGG
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:34179321 original size:27 final size:27
Alignment explanation
Indices: 34179290--34179344 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34179280 AAAGCGCCGC
* *
34179290 TAATGATTGGGCCTTTAGTGGCATTTT
1 TAATGATCGGGCCTTTAGCGGCATTTT
* *
34179317 TAATGCTCGGGCCTTTAGCGGCGTTTT
1 TAATGATCGGGCCTTTAGCGGCATTTT
34179344 T
1 T
34179345 GAAAAAGTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.16, G:0.27, T:0.42
Consensus pattern (27 bp):
TAATGATCGGGCCTTTAGCGGCATTTT
Found at i:34180646 original size:128 final size:130
Alignment explanation
Indices: 34180420--34180667 Score: 403
Period size: 137 Copynumber: 1.9 Consensus size: 130
34180410 TATATTTAAA
34180420 AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATATTAGATTTAAAA
1 AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATATTAGATTTAAAA
34180485 AAAACATTGATAAATAAATAAAAAAAAGTAACATA-TCGATATGAATAGACAACTAAAATAGTTC
66 AAAACATTG-------AATAAAAAAAAGTAACATATTC-ATATGAATAGACAACTAAAATAGTTC
34180549 TTCAAATT
123 TTCAAATT
34180557 AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATATTAGATTT-AAA
1 AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATATTAGATTTAAAA
34180621 AAAACATTG-ATAAAAAAAAGTAACATATTCATATGAATAGACAACTA
66 AAAACATTGAATAAAAAAAAGTAACATATTCATATGAATAGACAACTA
34180668 TCTATTTTAG
Statistics
Matches: 110, Mismatches: 0, Indels: 11
0.91 0.00 0.09
Matches are distributed among these distances:
128 35 0.32
129 2 0.02
136 12 0.11
137 61 0.55
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (130 bp):
AATGCTTTTATATTTAAAAATATTTAATCTAAACCATTTGATATATTTAAATATTAGATTTAAAA
AAAACATTGAATAAAAAAAAGTAACATATTCATATGAATAGACAACTAAAATAGTTCTTCAAATT
Found at i:34181102 original size:20 final size:19
Alignment explanation
Indices: 34181077--34181117 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
34181067 TAGCAGAGCA
* *
34181077 AAATAACATCATTTTATTTT
1 AAATAAAATAATTTT-TTTT
34181097 AAATAAAATAATTTTTTTT
1 AAATAAAATAATTTTTTTT
34181116 AA
1 AA
34181118 TATTTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATAAAATAATTTTTTTT
Found at i:34186469 original size:17 final size:18
Alignment explanation
Indices: 34186447--34186480 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
34186437 CGACCGTGAC
34186447 AAACGCGA-CGCGACCGA
1 AAACGCGACCGCGACCGA
34186464 AAACGCGACCGCGACCG
1 AAACGCGACCGCGACCG
34186481 TAATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.38, G:0.29, T:0.00
Consensus pattern (18 bp):
AAACGCGACCGCGACCGA
Found at i:34186723 original size:27 final size:26
Alignment explanation
Indices: 34186693--34186749 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
34186683 AATTTCGAGG
*
34186693 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAACTTTTATTAATT
* *
34186719 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACATTTTCTAACTTTTATTAATT
34186746 TTTA
1 TTTA
34186750 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAACTTTTATTAATT
Found at i:34187011 original size:43 final size:43
Alignment explanation
Indices: 34186962--34187205 Score: 305
Period size: 43 Copynumber: 5.7 Consensus size: 43
34186952 TGAGAAGTGT
* * * *
34186962 CGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGATAAAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGA-GAAAAGCGC
* *
34187005 CGCTAAAGGTCATGGTCTTTAGCGGCATTTGTGAGAAATGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
* *
34187048 CGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
* * *
34187091 CGCTAAATGTCATGGTCTATAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
* * *
34187134 CGCTAAAGGTTATGGTCTTTAGCGGC-ATTGTGACAAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
* *
34187176 CGCTAAAGGTTAT-GACTTTTAGCGGCGTTT
1 CGCTAAAGGTCATGGTC-TTTAGCGGCGTTT
34187206 ATTTCTAAAA
Statistics
Matches: 177, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.01
42 35 0.20
43 121 0.68
44 19 0.11
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
Found at i:34189648 original size:20 final size:20
Alignment explanation
Indices: 34189622--34189662 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
34189612 ATAGTGGTAC
34189622 ATATATATATATATTTATTATT
1 ATATAT-TAT-TATTTATTATT
*
34189644 ATATATTATTGTTTATTAT
1 ATATATTATTATTTATTAT
34189663 ATTGATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATATTATTATTTATTATT
Found at i:34189659 original size:17 final size:18
Alignment explanation
Indices: 34189625--34189664 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
34189615 GTGGTACATA
34189625 TATATATATATTTATTAT
1 TATATATATATTTATTAT
34189643 TATATAT-TATTGT-TTAT
1 TATATATATATT-TATTAT
34189660 TATAT
1 TATAT
34189665 TGATTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATATATATATTTATTAT
Found at i:34190080 original size:241 final size:231
Alignment explanation
Indices: 34189641--34190124 Score: 566
Period size: 241 Copynumber: 2.0 Consensus size: 231
34189631 TATATTTATT
*
34189641 ATTATATATTATTGTTTATTATATTGATTGAAATATGCTCTAAGTCCCTATACTTTTCGTACATT
1 ATTATATATTATTGTTTATTATATTGATTGAAATATGCTCTAAGTCCCTATACTTTTCGTACATA
* * * *
34189706 TGAAAGTTAGCACTTGTTCAATATTATATTATGCTATATCATACCATATAGTATACAAAATATTA
66 TGAAAGCTAGCACTTGTTCAATATTATATAATGCTATATCAAACCATATAATATACAAAATATTA
*
34189771 ATAGTCATATATGCATCAATAATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAA
131 ATAGTCATATATGCACCAATAATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAA
34189836 TCTATA-AT-ATAATAGTTATATATAATACTAGTAC
196 TCTATATATAATAATAGTTATATATAATACTAGTAC
* * * * *
34189870 ATTATATGTTATTGTTTATCATTATATTGGTTGACATATGCTTTAAGTCCCTATAC-TTTCGTTC
1 ATTATATATTATTG-TT-T-ATTATATTGATTGAAATATGCTCTAAGTCCCTATACTTTTCGTAC
* * *
34189934 ATATGAAAGCTAGC-CTT-TCTACTATATTATATAATGTTGTATCAAATCACATACTAA-ATAAC
63 ATATGAAAGCTAGCACTTGT-T-CAATATTATATAATGCTATATCAAA-C-CATA-TAATAT-AC
* * *
34189996 AAATAATATATTAATAGTTTATATGTATGCACCAATGATTGAACATTATAATATCATGTAATACT
122 --A-AA-ATATTAATAG-TCATA--TATGCACCAATAATTAAACATTATAATATCATGTAATACT
* * * * **
34190061 ATATCTTTTATTGTAATCTATATTGTAATAATAGTTATATATATTAGTACCAC
180 ATATCTTTTATTATAATCTATA-TATAATAATAGTTATATATAATACTAGTAC
34190114 ATTATATATTA
1 ATTATATATTA
34190125 CAATTAATAA
Statistics
Matches: 212, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
229 14 0.07
230 6 0.03
231 40 0.19
232 34 0.16
233 6 0.03
234 4 0.02
236 1 0.00
237 2 0.01
238 10 0.05
239 4 0.02
241 58 0.27
243 1 0.00
244 32 0.15
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (231 bp):
ATTATATATTATTGTTTATTATATTGATTGAAATATGCTCTAAGTCCCTATACTTTTCGTACATA
TGAAAGCTAGCACTTGTTCAATATTATATAATGCTATATCAAACCATATAATATACAAAATATTA
ATAGTCATATATGCACCAATAATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAA
TCTATATATAATAATAGTTATATATAATACTAGTAC
Found at i:34190202 original size:26 final size:27
Alignment explanation
Indices: 34190144--34190216 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
34190134 ATATTTTATG
*
34190144 TATTA-GTAATAATTATATATTATATTA
1 TATTATGTAAT-AGTATATATTATATTA
*
34190171 TATTAT-TAATAGTATATATTATGTTA
1 TATTATGTAATAGTATATATTATATTA
*
34190197 GT-TTATGTAGTAG-ATATATT
1 -TATTATGTAATAGTATATATT
34190217 CTAATTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 25 0.62
27 15 0.38
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (27 bp):
TATTATGTAATAGTATATATTATATTA
Found at i:34192780 original size:17 final size:18
Alignment explanation
Indices: 34192745--34192780 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34192735 ATAGCATTAA
*
34192745 AATATTTTAAATTAAATT
1 AATATTTTAAATAAAATT
34192763 AATATTTTAAA-AAAATT
1 AATATTTTAAATAAAATT
34192780 A
1 A
34192781 TTTCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTTTAAATAAAATT
Found at i:34196100 original size:21 final size:19
Alignment explanation
Indices: 34196035--34196128 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
34196025 AATTTTTGAG
34196035 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34196054 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
34196073 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34196092 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
34196113 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
34196129 AGATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34196110 original size:40 final size:38
Alignment explanation
Indices: 34196035--34196135 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
34196025 AATTTTTGAG
34196035 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
34196073 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
34196113 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
34196136 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 21 0.36
39 1 0.02
40 32 0.54
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:34196147 original size:23 final size:22
Alignment explanation
Indices: 34196067--34196151 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
34196057 ATGCAATCCT
*
34196067 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
34196088 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
34196107 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
34196129 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
34196152 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:34196161 original size:22 final size:23
Alignment explanation
Indices: 34196117--34196161 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34196107 AGATATGATA
*
34196117 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
34196140 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
34196162 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:34196878 original size:22 final size:24
Alignment explanation
Indices: 34196850--34196895 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
34196840 AATACTCACC
*
34196850 CTTTTTTTT-TTTTTTTAAATATA
1 CTTTTTTTTATTATTTTAAATATA
*
34196873 CTTTTTTTTATTATTTTATATAT
1 CTTTTTTTTATTATTTTAAATAT
34196896 GTATGTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (24 bp):
CTTTTTTTTATTATTTTAAATATA
Found at i:34197652 original size:98 final size:98
Alignment explanation
Indices: 34197478--34197659 Score: 328
Period size: 98 Copynumber: 1.9 Consensus size: 98
34197468 NNNNNNNNNN
* *
34197478 GAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAA
1 GAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAA
*
34197543 GTGGATGTTCTTTTAAAGTAAAGGAAATATTCC
66 GTGGATATTCTTTTAAAGTAAAGGAAATATTCC
*
34197576 GAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAA
1 GAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAA
34197641 GTGGATATTCTTTTAAAGT
66 GTGGATATTCTTTTAAAGT
34197660 TTTATTGTAC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 80 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
GAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAA
GTGGATATTCTTTTAAAGTAAAGGAAATATTCC
Found at i:34203016 original size:132 final size:132
Alignment explanation
Indices: 34202553--34203465 Score: 1219
Period size: 132 Copynumber: 6.9 Consensus size: 132
34202543 TTGACAGCGA
34202553 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * ** ** * *
34202618 TCTACTTCCCTGTGCAGCAGTGGAATAGATTAAAGATAGCAGATCTTGCCTTCCT--GCATTGAC
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA--G-T
* *
34202681 AGCGA
128 AGTGG
* *
34202686 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * * ** ** * *
34202751 TCTATTTCCCTGGGCAGCAGTGGAATAGATTAAATATAGCAGATCTTGCCTTCCT--GCATTGAC
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA--G-T
* *
34202814 AGCGA
128 AGTGG
*
34202819 AGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
34202884 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34202949 GG
131 GG
* *
34202951 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTTCATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
34203016 TCTACTTCCCTGAGCAACAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34203081 GG
131 GG
* * * *
34203083 AGCAGATCGAAGATGGCAGATTTTACCTCACTGTGCTTATAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
34203148 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34203213 GG
131 GG
* * * ** *
34203215 AGCAGATTGAAGATTGCGGATTTTACCTCCCTGTGGTTACAGTGGAAAACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
34203280 TCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCCCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34203345 GG
131 GG
* * * * *
34203347 AGTAGATCGAAGATGGTGAATTTTACCT-CCTGTGGTTACAGTGGAGTACATTGAAGTCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
34203411 CCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 TCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
34203466 GCACTTGCAG
Statistics
Matches: 713, Mismatches: 63, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
130 1 0.00
131 73 0.10
132 400 0.56
133 236 0.33
135 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:34203082 original size:44 final size:44
Alignment explanation
Indices: 34202902--34203360 Score: 183
Period size: 44 Copynumber: 10.4 Consensus size: 44
34202892 CCTGGGCAAC
* * *
34202902 AGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
* * ** * * ** *
34202946 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCT-AAG-CAGT
** * * * **
34202991 AGTGGAGTTCATTGAAGCCA-AT-A-ATTCTA-CTTCCCTGAGCAAC
1 AGTGGAGTAGATTGAAG--ATTTCAGATTTTATC-TCCCTAAGCAGT
*
34203034 AGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
* * ** * * **
34203078 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCACTGTGCTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGC--AGT
* * * ** **
34203123 AGTGGAGTACATTGAAGCCA-AT-A-ATTCTA-CTTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAG--ATTTCAGATTTTATC-TCCCTAAGCAGT
* *
34203166 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
* * * * **
34203210 AGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAG-T
** * * * * * *
34203253 ACAGTGGAAAACATTGAAGCTAGT-A-ATTCTA-CTTCCCTAGGCAAT
1 --AGTGGAGTAGATTGAAGAT-TTCAGATTTTATC-TCCCTAAGCAGT
* * *
34203298 AGTGGAATAGATTGAAGATTTCAGATCTTATCCCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
*
34203342 AGTGGAGTAGATCGAAGAT
1 AGTGGAGTAGATTGAAGAT
34203361 GGTGAATTTT
Statistics
Matches: 296, Mismatches: 89, Indels: 60
0.67 0.20 0.13
Matches are distributed among these distances:
41 2 0.01
42 7 0.02
43 53 0.18
44 179 0.60
45 50 0.17
46 3 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
Found at i:34203759 original size:21 final size:19
Alignment explanation
Indices: 34203694--34203787 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
34203684 AATTTTTGAG
34203694 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34203713 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
34203732 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34203751 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
34203772 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
34203788 AGATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34203769 original size:40 final size:38
Alignment explanation
Indices: 34203694--34203794 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
34203684 AATTTTTGAG
34203694 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
34203732 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
34203772 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
34203795 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 21 0.36
39 1 0.02
40 32 0.54
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:34203806 original size:23 final size:22
Alignment explanation
Indices: 34203726--34203810 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
34203716 ATGCAATCCT
*
34203726 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
34203747 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
34203766 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
34203788 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
34203811 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:34203820 original size:22 final size:23
Alignment explanation
Indices: 34203776--34203820 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34203766 AGATATGATA
*
34203776 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
34203799 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
34203821 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:34205253 original size:98 final size:98
Alignment explanation
Indices: 34205139--34205335 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
34205129 TTAAAAATCA
* *
34205139 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
34205204 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
*
34205237 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
34205302 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
34205335 T
1 T
34205336 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:34207179 original size:27 final size:27
Alignment explanation
Indices: 34206944--34207172 Score: 253
Period size: 27 Copynumber: 8.5 Consensus size: 27
34206934 ATGGAACCAT
* * ** *
34206944 TTCTCTTAGAGTTCGCGATACATATTA
1 TTCTTTTAGAGTTCGCCATATGTACTA
* *
34206971 TTCCTTCAGAGTTCGCCATATGTACTA
1 TTCTTTTAGAGTTCGCCATATGTACTA
* *
34206998 TTCTTTTAGAGTTCACCATACGTACTA
1 TTCTTTTAGAGTTCGCCATATGTACTA
**
34207025 TTCTTTTAGAGTTCGCCATACATACTA
1 TTCTTTTAGAGTTCGCCATATGTACTA
* **
34207052 TTCTTTTAAAGTTCGCCATACATACTA
1 TTCTTTTAGAGTTCGCCATATGTACTA
34207079 TTCTTTTAGAGTTCGCCATATGTACTA
1 TTCTTTTAGAGTTCGCCATATGTACTA
* *
34207106 TT-TTTCCAGAGTTCTCCATATGTACTA
1 TTCTTT-TAGAGTTCGCCATATGTACTA
* * * *
34207133 TTATTTTATAGTTCGTCATATGTACCA
1 TTCTTTTAGAGTTCGCCATATGTACTA
*
34207160 TTCTTTCAGAGTT
1 TTCTTTTAGAGTT
34207173 TACCATACCT
Statistics
Matches: 173, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 167 0.97
28 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (27 bp):
TTCTTTTAGAGTTCGCCATATGTACTA
Found at i:34212387 original size:41 final size:41
Alignment explanation
Indices: 34212349--34212497 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
34212339 TTTGAAGTCT
* *
34212349 AAACAGGGGCACGTGTGTGCAATTCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
* * * *
34212390 AAACAGGGGGACATATGTACAATTCAAGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
* * *
34212431 AAACAGGGGTACGTCTGTGCAATTCAGGGGTACCGAGGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
* *
34212472 AAATAGGGGCA-TTCATGTGCAATTCA
1 AAACAGGGGCACGT-ATGTGCAATTCA
34212498 TCAATTTTTT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 90 0.99
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
Found at i:34212398 original size:20 final size:19
Alignment explanation
Indices: 34212373--34212443 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 19
34212363 GTGTGCAATT
34212373 CAGGGGTATCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
* *
34212393 CAGGGGGAC-ATATGTACAATT
1 CAGGGGTACGA-A-GTACAA-A
*
34212414 CAAGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
34212434 CAGGGGTACG
1 CAGGGGTACG
34212444 TCTGTGCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
18 1 0.03
19 4 0.10
20 20 0.50
21 12 0.30
22 2 0.05
23 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.15
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:34212782 original size:95 final size:95
Alignment explanation
Indices: 34212617--34212807 Score: 330
Period size: 95 Copynumber: 2.0 Consensus size: 95
34212607 CAACGAAGTC
*
34212617 AATTAATCTGAAGCTTTAGCTTTTCCCCGATCTAAATCTGTACAAGGTCTATCTTTATCTAAATA
1 AATTAATCTGAAGCTTTAGCTTTTCCCCGATCTAAATCCGTACAAGGTCTATCTTTATCTAAATA
*
34212682 GAAAAATTCAGTCCATTTAATATTTTTATT
66 GAAAAATTCAGTCCATTTAATAATTTTATT
* *
34212712 AATTAATCTGAAGCTTTAGCTTTTCCTCGATCTAAATCCGTACGAGGTCTATCTTTATCTAAAT-
1 AATTAATCTGAAGCTTTAGCTTTTCCCCGATCTAAATCCGTACAAGGTCTATCTTTATCTAAATA
34212776 GAAAAAATTCAGTCCATTTAATAATTTTATT
66 G-AAAAATTCAGTCCATTTAATAATTTTATT
34212807 A
1 A
34212808 TTGAACTCAG
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
94 1 0.01
95 90 0.99
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (95 bp):
AATTAATCTGAAGCTTTAGCTTTTCCCCGATCTAAATCCGTACAAGGTCTATCTTTATCTAAATA
GAAAAATTCAGTCCATTTAATAATTTTATT
Found at i:34216889 original size:31 final size:31
Alignment explanation
Indices: 34216854--34217060 Score: 265
Period size: 31 Copynumber: 6.7 Consensus size: 31
34216844 GTATATGTTT
*
34216854 TATACATTGCCAAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
34216885 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
34216916 TATACATTACCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
34216947 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
** *
34216978 TATACATTATCGAA-TTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
34217008 TATACATTGCCGAATTTCATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
34217039 TATATATTACCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
34217061 AGCATTGGAT
Statistics
Matches: 151, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
30 32 0.21
31 119 0.79
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:34217070 original size:92 final size:93
Alignment explanation
Indices: 34216854--34217060 Score: 256
Period size: 92 Copynumber: 2.2 Consensus size: 93
34216844 GTATATGTTT
* * * * * *
34216854 TATACATTGCCAAATTTGATTTGTATATAGATATACATTGCCGAATTTGAATTGTTTATAGATAT
1 TATACATTACCGAATTTGATTTGCATATGGATATACATTACCGAATTTGAATTGTATATAGATAT
* * *
34216919 ACATTACCGAATTTGATTTGTATATGGT
66 ACATTACCGAATTTCATTCGTATATGGA
* * * * *
34216947 TATACATTGCCGAATTTGATTTGTATATGGATATACATTATCGAA-TTGATTTGTATGTAGATAT
1 TATACATTACCGAATTTGATTTGCATATGGATATACATTACCGAATTTGAATTGTATATAGATAT
*
34217011 ACATTGCCGAATTTCATTCGTATATGGA
66 ACATTACCGAATTTCATTCGTATATGGA
*
34217039 TATATATTACCGAA-TTGATTTG
1 TATACATTACCGAATTTGATTTG
34217061 AGCATTGGAT
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 8 0.08
92 52 0.51
93 41 0.41
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (93 bp):
TATACATTACCGAATTTGATTTGCATATGGATATACATTACCGAATTTGAATTGTATATAGATAT
ACATTACCGAATTTCATTCGTATATGGA
Found at i:34217240 original size:43 final size:43
Alignment explanation
Indices: 34217175--34217282 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
34217165 ACTTCTGAGG
* * *
34217175 TGAGATTTCATGTAAGATCATAGCTGGGCTATTGGCATCGATT
1 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCAGCGATA
**
34217218 TGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCAGCGATA
1 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCAGCGATA
*
34217261 CGAGATTTCCATGTAAGACCAT
1 TGAGATTT-CATGTAAGACCAT
34217283 GTCTGGGACA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 45 0.80
44 11 0.20
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCAGCGATA
Found at i:34219142 original size:12 final size:12
Alignment explanation
Indices: 34219127--34219182 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
34219117 CTTATCATTA
*
34219127 TTATTTTTATTT
1 TTATTTTTATTG
* *
34219139 TTATTCTTATTA
1 TTATTTTTATTG
* *
34219151 TTACTATTATTG
1 TTATTTTTATTG
*
34219163 TTA-GTTTATTG
1 TTATTTTTATTG
34219174 TTATTTTTA
1 TTATTTTTA
34219183 CTATTCTTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (12 bp):
TTATTTTTATTG
Found at i:34219142 original size:21 final size:21
Alignment explanation
Indices: 34219113--34219152 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34219103 GGGTGCTACA
34219113 TATTCTTA-TCATTATTATTTT
1 TATTCTTATTC-TTATTATTTT
*
34219134 TATTTTTATTCTTATTATT
1 TATTCTTATTCTTATTATT
34219153 ACTATTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTCTTATTCTTATTATTTT
Found at i:34219195 original size:29 final size:29
Alignment explanation
Indices: 34219113--34219195 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
34219103 GGGTGCTACA
* * * *
34219113 TATTCTTATCATTATTATTTTTATT--TT
1 TATTCTTATTATTACTATTATTCTTAGTT
*
34219140 TATTCTTATTATTACTATTATTGTTAGTT
1 TATTCTTATTATTACTATTATTCTTAGTT
* * *
34219169 TATTGTTATTTTTACTATTCTTCTTAG
1 TATTCTTATTATTACTATTATTCTTAG
34219196 GCTTATTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 21 0.46
29 25 0.54
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (29 bp):
TATTCTTATTATTACTATTATTCTTAGTT
Found at i:34227911 original size:42 final size:42
Alignment explanation
Indices: 34227865--34227962 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
34227855 GTGTCAATTA
34227865 AGGGTAGACCACACGGGCGTGTGCCCTGAATGCGTTAGGTGC
1 AGGGTAGACCACACGGGCGTGTGCCCTGAATGCGTTAGGTGC
*
34227907 AGGGTAGACCACACGGGCGTGTGCCCTGAATGTGTTAGGTGC
1 AGGGTAGACCACACGGGCGTGTGCCCTGAATGCGTTAGGTGC
* *
34227949 AAGGTAGCCCACAC
1 AGGGTAGACCACAC
34227963 TCGATTCACC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.21, C:0.24, G:0.36, T:0.18
Consensus pattern (42 bp):
AGGGTAGACCACACGGGCGTGTGCCCTGAATGCGTTAGGTGC
Found at i:34231359 original size:44 final size:43
Alignment explanation
Indices: 34231299--34231462 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
34231289 TTTGATATGT
*
34231299 TTTATCGTGCAAGACCACGTCTGGGACGTTGGCATCGATTTGAGA
1 TTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-AGA
* * * *
34231344 TTTACGTGTAAGACCATGTCTAGGACATTGGCATCG-TATATGA
1 TTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA-GA
** * *
34231387 TTT-CGTGTAAGACCTTGTCTGGGACAG-TGACATCGATATTTGA
1 TTTACGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT-TTAGA
* * *
34231430 -TTACATGTAAGACCACATCTGGGATGTTGGCAT
1 TTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
34231463 TGTATGAGCT
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 31 0.32
43 32 0.33
44 29 0.30
45 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAGA
Found at i:34231451 original size:43 final size:43
Alignment explanation
Indices: 34231304--34231453 Score: 144
Period size: 42 Copynumber: 3.5 Consensus size: 43
34231294 TATGTTTTAT
* *
34231304 CGTGCAAGACCACGTCTGGGAC-GTTGGCATCGAT-TTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-TGA-TTA
* * * * *
34231348 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATTT
1 CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTA
** *
34231390 CGTGTAAGACCTTGTCTGGGACAGTGACATCGATATTTGATTA
1 CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTA
* *
34231433 CATGTAAGACCACATCTGGGA
1 CGTGTAAGACCACGTCTGGGA
34231454 TGTTGGCATT
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
42 30 0.35
43 28 0.33
44 28 0.33
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTA
Found at i:34234924 original size:16 final size:16
Alignment explanation
Indices: 34234905--34234935 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34234895 CATAGTTTGC
34234905 AATACACATAGCTCGT
1 AATACACATAGCTCGT
*
34234921 AATACAGATAGCTCG
1 AATACACATAGCTCG
34234936 CATATAATGG
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:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (16 bp):
AATACACATAGCTCGT
Found at i:34237127 original size:50 final size:50
Alignment explanation
Indices: 34237047--34237150 Score: 163
Period size: 50 Copynumber: 2.1 Consensus size: 50
34237037 CCCATGGATA
* * *
34237047 GTTTGGGCACCTCAAGTGGACGGTTGGGCTCCTTCCTGCCTTACTGGACG
1 GTTTAGGCACCTCAAGTGGACGATTGGGCTCCTTCCTCCCTTACTGGACG
* *
34237097 GTTTAGGCACCTCAAGTGGACGATTGGGCTCCTTCCTCCCTTAGTGGATG
1 GTTTAGGCACCTCAAGTGGACGATTGGGCTCCTTCCTCCCTTACTGGACG
34237147 GTTT
1 GTTT
34237151 GCGCTCCTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.31
Consensus pattern (50 bp):
GTTTAGGCACCTCAAGTGGACGATTGGGCTCCTTCCTCCCTTACTGGACG
Found at i:34242319 original size:30 final size:30
Alignment explanation
Indices: 34242284--34242346 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
34242274 CACAGAGTCG
34242284 TGTAGCTAGGCCGTGTGTGTCACAC-AGCCA
1 TGTAGCTAGGCCGTGTGTGTCACACGA-CCA
34242314 TGTAGCTAGGCCGTGTGTGTCACACGACCA
1 TGTAGCTAGGCCGTGTGTGTCACACGACCA
34242344 TGT
1 TGT
34242347 GACTCCCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.25
Consensus pattern (30 bp):
TGTAGCTAGGCCGTGTGTGTCACACGACCA
Found at i:34245343 original size:10 final size:10
Alignment explanation
Indices: 34245330--34245374 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
34245320 TAAAATAAGG
34245330 TAAAAAGTGT
1 TAAAAAGTGT
34245340 TAAAAAGTG-
1 TAAAAAGTGT
34245349 TAAAAAGTGT
1 TAAAAAGTGT
*
34245359 TAAACATGTGT
1 TAAA-AAGTGT
34245370 TAAAA
1 TAAAA
34245375 TATGTTAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.28
10 14 0.44
11 9 0.28
ACGTcount: A:0.51, C:0.02, G:0.18, T:0.29
Consensus pattern (10 bp):
TAAAAAGTGT
Found at i:34245344 original size:20 final size:20
Alignment explanation
Indices: 34245319--34245397 Score: 74
Period size: 19 Copynumber: 4.0 Consensus size: 20
34245309 TATTATTTAA
34245319 TTAAAATAAGGTAAAAAGTG
1 TTAAAATAAGGTAAAAAGTG
34245339 TT-AAA-AAGTGTAAAAAGTG
1 TTAAAATAAG-GTAAAAAGTG
** *
34245358 TTAAACATGTGTTAAAATA-TG
1 TTAAA-ATAAGGTAAAA-AGTG
*
34245379 TTAACATAAGGTAAAAAGT
1 TTAAAATAAGGTAAAAAGT
34245398 ATTTTCTTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
18 3 0.07
19 16 0.35
20 13 0.28
21 12 0.26
22 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.18, T:0.29
Consensus pattern (20 bp):
TTAAAATAAGGTAAAAAGTG
Found at i:34245352 original size:9 final size:9
Alignment explanation
Indices: 34245329--34245358 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
34245319 TTAAAATAAG
34245329 GTAAAAAGT
1 GTAAAAAGT
34245338 GTTAAAAAGT
1 G-TAAAAAGT
34245348 GTAAAAAGT
1 GTAAAAAGT
34245357 GT
1 GT
34245359 TAAACATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (9 bp):
GTAAAAAGT
Found at i:34250815 original size:133 final size:130
Alignment explanation
Indices: 34250538--34250986 Score: 402
Period size: 133 Copynumber: 3.4 Consensus size: 130
34250528 ACAGGAGGAG
* * * *
34250538 TCAATCATTGTGGTCAAAAAATTAC-T-TGTCACTCTTCCAAAATACAAATACCCTAGCGAAGAA
1 TCAATCGTTGTGGTC-AAACATCACTTCTGTCACTCTCCCAAAATACAAATACCCTAGCGAAGAA
**** * ** * *
34250601 GTTGGTCGTTGTGGTCAAAACGCCACTTTCATCACTCTATCACTATAAAAATTTTCTTAGT-AGA
65 GTCAACCGTTATGGTCAAAA-GCCACTTTCATCACTCTATCAAAATATAAATTTT-TTAATGA-A
34250665 GAAA
127 GAAA
* * * *
34250669 TCAATTGTGGTGGTCACAACATCATTTCTGTCATTCTCCCAAAATACAAATACCCTAGCGAAGAA
1 TCAATCGTTGTGGTCA-AACATCACTTCTGTCACTCTCCCAAAATACAAATACCCTAGCGAAGAA
* * * **
34250734 GTCAACCATTTTGGTCAAAGAGCCACTTTCATCACTCTTTCGGAATATAAATTCTTTTAATGAAG
65 GTCAACCGTTATGGTCAAA-AGCCACTTTCATCACTCTATCAAAATATAAATT-TTTTAATGAAG
*
34250799 AAT
128 AAA
** * * * * * *
34250802 TTTATCGTTGTGGTCAAACATCACTTCTGTCACACTCTCAAAATATAAATACCATAGCAAATAAG
1 TCAATCGTTGTGGTCAAACATCACTTCTGTCACTCTCCCAAAATACAAATACCCTAGCGAAGAAG
* * ** * * *
34250867 TCAACTGTTATGGTCAAAA-CATCACTTTTATGGCTCTCTCAAAATATAAATTATTTTGATGGAG
66 TCAACCGTTATGGTCAAAAGC--CACTTTCATCACTCTATCAAAATATAAATT-TTTTAATGAAG
*
34250931 AAG
128 AAA
* *
34250934 TCAATCGTTGTGGTCAAAACATCACTTCTGCCACTATCCCAAAATACAAATAC
1 TCAATCGTTGTGGTC-AAACATCACTTCTGTCACTCTCCCAAAATACAAATAC
34250987 TCAATAGAGA
Statistics
Matches: 256, Mismatches: 53, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
130 2 0.01
131 18 0.07
132 105 0.41
133 127 0.50
134 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (130 bp):
TCAATCGTTGTGGTCAAACATCACTTCTGTCACTCTCCCAAAATACAAATACCCTAGCGAAGAAG
TCAACCGTTATGGTCAAAAGCCACTTTCATCACTCTATCAAAATATAAATTTTTTAATGAAGAAA
Found at i:34250871 original size:132 final size:131
Alignment explanation
Indices: 34250536--34251082 Score: 362
Period size: 133 Copynumber: 4.2 Consensus size: 131
34250526 TTACAGGAGG
* * * * * * *
34250536 AGTCAATCATTGTGGTCAAAAAATTAC-T-TGTCACTCTTCCAAAATACAAATACCCTAGCGAAG
1 AGTCAATCGTTGTGGTC-AAACATCACTTCTGTCACACTCCCAAAATACAAATACCATAGCAAAG
**** * * * * ** * *
34250599 AAGTTGGTCGTTGTGGTCAAAACGCCACTTTCATCACTCTATCACTATAAAAATT-TTCTTAGT-
65 AAGTCAACCATTATGGTCAAAAC-ACACTTTCATCACTCTCTCAAAATATAAATTATT-TTAATG
34250662 AGAGA
128 A-AGA
* * * * ** * *
34250667 AATCAATTGTGGTGGTCACAACATCATTTCTGTCATTCTCCCAAAATACAAATACCCTAGCGAAG
1 AGTCAATCGTTGTGGTCA-AACATCACTTCTGTCACACTCCCAAAATACAAATACCATAGCAAAG
* * ** *
34250732 AAGTCAACCATTTTGGTCAAAGAGC-CACTTTCATCACTCTTTCGGAATATAAATTCTTTTAATG
65 AAGTCAACCATTATGGTCAAA-A-CACACTTTCATCACTCTCTCAAAATATAAATTATTTTAATG
34250796 AAGA
128 AAGA
* ** * * *
34250800 ATTTTATCGTTGTGGTCAAACATCACTTCTGTCACACTCTCAAAATATAAATACCATAGCAAATA
1 AGTCAATCGTTGTGGTCAAACATCACTTCTGTCACACTCCCAAAATACAAATACCATAGCAAAGA
** * ** * *
34250865 AGTCAACTGTTATGGTCAAAACATCACTTTTATGGCTCTCTCAAAATATAAATTATTTTGATGGA
66 AGTCAACCATTATGGTCAAAACA-CACTTTCATCACTCTCTCAAAATATAAATTATTTTAATGAA
34250930 GA
130 GA
*
34250932 AGTCAATCGTTGTGGTCAAAACATCACTTCTGCCACTA-TCCCAAAATACAAATACTCAATAG--
1 AGTCAATCGTTGTGGTC-AAACATCACTTCTGTCAC-ACTCCCAAAATACAAATAC-C-ATAGCA
* * * * * * * *
34250994 -AGAAGT-GACCATTGTGG-CTAAAACGCCACTTTCGTCACTCTTTCAAAATACAAATTCTATTA
62 AAGAAGTCAACCATTATGGTC-AAAAC-ACACTTTCATCACTCTCTCAAAATATAAATTATTTTA
* *
34251056 ATAAAAA
125 ATGAAGA
*
34251063 AGTCAA-CTATTGTGGTCAAA
1 AGTCAATC-GTTGTGGTCAAA
34251083 ATTCTTTTAA
Statistics
Matches: 329, Mismatches: 71, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
130 7 0.02
131 76 0.23
132 110 0.33
133 125 0.38
134 6 0.02
135 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (131 bp):
AGTCAATCGTTGTGGTCAAACATCACTTCTGTCACACTCCCAAAATACAAATACCATAGCAAAGA
AGTCAACCATTATGGTCAAAACACACTTTCATCACTCTCTCAAAATATAAATTATTTTAATGAAG
A
Found at i:34254908 original size:23 final size:23
Alignment explanation
Indices: 34254849--34254922 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
34254839 GGCACTTCGA
* *
34254849 TGCAATT-AACAGAGACACTCCGG
1 TGCAATTGAA-AGTGACACTCTGG
* * *
34254872 TGGAACTGACAGTGACACTCTGG
1 TGCAATTGAAAGTGACACTCTGG
34254895 TGCAATTGAAAGTGACACTTCT-G
1 TGCAATTGAAAGTGACAC-TCTGG
34254918 TGCAA
1 TGCAA
34254923 ATTAGTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 37 0.90
24 4 0.10
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (23 bp):
TGCAATTGAAAGTGACACTCTGG
Found at i:34259705 original size:69 final size:67
Alignment explanation
Indices: 34259608--34259739 Score: 174
Period size: 69 Copynumber: 1.9 Consensus size: 67
34259598 TCCAAATAAG
* * * * *
34259608 AAAAGGCAAAACTACATCGTTTTGATAAATGTTTACCTTTTTAAAGTTAAAAGTCAAAATCATTA
1 AAAAGACAAAACTACATCATTTTGATAAATGTTTA-CTTATT-AAGTTAAAAGGCAAAACCATTA
34259673 AGTT
64 AGTT
* * *
34259677 AAAAGACAAAATTACGTCATTTTGATAAATGTTTAGTTATTAAGTTAAAAGGCAAAACCATTA
1 AAAAGACAAAACTACATCATTTTGATAAATGTTTACTTATTAAGTTAAAAGGCAAAACCATTA
34259740 TATTGTCTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 20 0.36
68 4 0.07
69 31 0.56
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (67 bp):
AAAAGACAAAACTACATCATTTTGATAAATGTTTACTTATTAAGTTAAAAGGCAAAACCATTAAG
TT
Found at i:34267337 original size:242 final size:242
Alignment explanation
Indices: 34266911--34267398 Score: 872
Period size: 242 Copynumber: 2.0 Consensus size: 242
34266901 TACGTGCATA
*
34266911 AATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAATCTTCATATTGCAATGGAGAAAG
1 AATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAAAG
*
34266976 TCAGGAACACAAAATTACATATACATATTCATTTCAATTTAGAAGATTCACACAATGTCAGGCTA
66 TCAGAAACACAAAATTACATATACATATTCATTTCAATTTAGAAGATTCACACAATGTCAGGCTA
* * *
34267041 TAAACATGTTAAAACTTTGCAATGCTCCCTCATAATCCTGAACTAGTTCCAGTATTGCTTTCTAT
131 TAAAAATGTTAAAACTTTACAATACTCCCTCATAATCCTGAACTAGTTCCAGTATTGCTTTCTAT
34267106 TTGTTTTAATAGCTAGACTCAATCAAATTATGAACA-AGTTAATCTTT
196 TTGTTTTAATAGCTAGACTCAATCAAATTATGAACACA-TTAATCTTT
34267153 GAATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAAA
1 -AATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAAA
* *
34267218 GTC-GAAACACGACATTACATATACATATTCATTTCAATTTAGAAGATTCACACAATGTCAGGCT
65 GTCAGAAACACAAAATTACATATACATATTCATTTCAATTTAGAAGATTCACACAATGTCAGGCT
*
34267282 ATAAAAATGTTAAAACTTTACAATACTCCCTCATAATCCTGAACTTGTTCCAGTATTGCTTTCTA
130 ATAAAAATGTTAAAACTTTACAATACTCCCTCATAATCCTGAACTAGTTCCAGTATTGCTTTCTA
34267347 TTTGTTTTAATAGCTAGACTCAATCAAATTATGAACACATTAATCTTT
195 TTTGTTTTAATAGCTAGACTCAATCAAATTATGAACACATTAATCTTT
34267395 AATT
1 AATT
34267399 GCTCCATCAT
Statistics
Matches: 236, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
241 4 0.02
242 165 0.70
243 67 0.28
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (242 bp):
AATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAAAG
TCAGAAACACAAAATTACATATACATATTCATTTCAATTTAGAAGATTCACACAATGTCAGGCTA
TAAAAATGTTAAAACTTTACAATACTCCCTCATAATCCTGAACTAGTTCCAGTATTGCTTTCTAT
TTGTTTTAATAGCTAGACTCAATCAAATTATGAACACATTAATCTTT
Found at i:34274971 original size:4 final size:4
Alignment explanation
Indices: 34274962--34274999 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
34274952 AGTATGCATC
34274962 ACCT ACCT ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
1 ACCT ACCT ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
34275000 TAGACAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (4 bp):
ACCT
Found at i:34276840 original size:171 final size:168
Alignment explanation
Indices: 34276558--34276897 Score: 581
Period size: 171 Copynumber: 2.0 Consensus size: 168
34276548 AGATACTTTC
* *
34276558 AATTGAACTCCTAATACTTCTCCTAATAATAAGTAATAAATTAATCTAAATAATTAATTTGACTT
1 AATTGAACTCCTAATACCTCTCCTAATAATAAGTAATAAATTAATATAAATAATTAATTTGACTT
34276623 CTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCGCAGAAAACACAAAATA
66 CTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCGCAGAAAACACAAAATA
* * * *
34276688 TGATGTAAACCTCAAATGCATTAGAGAGAGAGAGAGAG
131 AGATGTAAACCTCAAACGCATCAGAAAGAGAGAGAGAG
34276726 AATTGAACTCCTAATACCTCTCCTAATAAAATAAGTAATAAATTAATATAAAATAATTAATTTGA
1 AATTGAACTCCTAATACCTCTCCTAAT--AATAAGTAATAAATTAATAT-AAATAATTAATTTGA
* *
34276791 CTTCTAACATAAAACCTTTCACCTAGATGAAATGAAGTATTTCAACTCTTCGCAGAAATCACAAA
63 CTTCTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCGCAGAAAACACAAA
34276856 ATAAGATGTAAACCTCAAACGCATCAGAAAGAGAGAGAGAG
128 ATAAGATGTAAACCTCAAACGCATCAGAAAGAGAGAGAGAG
34276897 A
1 A
34276898 GAGACCAGAT
Statistics
Matches: 161, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
168 26 0.16
170 19 0.12
171 116 0.72
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (168 bp):
AATTGAACTCCTAATACCTCTCCTAATAATAAGTAATAAATTAATATAAATAATTAATTTGACTT
CTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCGCAGAAAACACAAAATA
AGATGTAAACCTCAAACGCATCAGAAAGAGAGAGAGAG
Found at i:34282260 original size:87 final size:87
Alignment explanation
Indices: 34282114--34282352 Score: 356
Period size: 87 Copynumber: 2.7 Consensus size: 87
34282104 TTGAGTTCTC
* * * *
34282114 ACTCTTAATGAATTCATATCCC-AGGATTTGGATGGTCCTATTCAGACGGACTTGATATATTCAC
1 ACTCTTAATGAGTTCATATCCCAAAG-TTTGGGTGGTCCTATTAAGACGGACTTGATATATTCAC
*
34282178 TGACATGTGAGATTGAATTTATT
65 TAACATGTGAGATTGAATTTATT
* * *
34282201 ACTCTTAATTAGTTCATATCCCAAAGTTTGGGTGGTCCTATTGAGACGGACTTGATATATTCACC
1 ACTCTTAATGAGTTCATATCCCAAAGTTTGGGTGGTCCTATTAAGACGGACTTGATATATTCACT
34282266 AACATGTGAGATTGAATTTATT
66 AACATGTGAGATTGAATTTATT
* *
34282288 ACTCTTAATGAGTTCATATCCCAGAGTTTGGGTGGTCCTATTAAGATGGACTTGATGA-ATTCAC
1 ACTCTTAATGAGTTCATATCCCAAAGTTTGGGTGGTCCTATTAAGACGGACTTGAT-ATATTCAC
34282352 T
65 T
34282353 TAATTCAAAT
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
87 135 0.98
88 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (87 bp):
ACTCTTAATGAGTTCATATCCCAAAGTTTGGGTGGTCCTATTAAGACGGACTTGATATATTCACT
AACATGTGAGATTGAATTTATT
Found at i:34296826 original size:33 final size:33
Alignment explanation
Indices: 34296715--34296940 Score: 118
Period size: 33 Copynumber: 6.8 Consensus size: 33
34296705 GGATTGACGA
* * *
34296715 ATAAGACCATAATTGGGTTATGGCACTATGAACG
1 ATAAGACCATAATTGGGTTATGGCATTTTG-ATG
** *** *
34296749 -TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 ATAAGACCATAATTGGGTTATGGCA-T-TTT-GATG
*
34296784 -TAAGACCATAATTGGGTTATGGCATTCTGATG
1 ATAAGACCATAATTGGGTTATGGCATTTTGATG
* * * *
34296816 ATAAGACCATAAATGGGTTATGACA-TATGAAG
1 ATAAGACCATAATTGGGTTATGGCATTTTGATG
* ** *** * *
34296848 GTAAGACCATGTTTGGACCATGACAGTGTTTATATG
1 ATAAGACCATAATTGGGTTATGGCA-T-TTT-GATG
* * * *
34296884 -TAAGACCATAGTTGGGCTATGGTATTTTTATG
1 ATAAGACCATAATTGGGTTATGGCATTTTGATG
*
34296916 ATAAGACCATAACTGGGTTATGGCA
1 ATAAGACCATAATTGGGTTATGGCA
34296941 CTACGAATAT
Statistics
Matches: 143, Mismatches: 40, Indels: 19
0.71 0.20 0.09
Matches are distributed among these distances:
32 30 0.21
33 66 0.46
34 2 0.01
35 43 0.30
36 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (33 bp):
ATAAGACCATAATTGGGTTATGGCATTTTGATG
Found at i:34296889 original size:100 final size:101
Alignment explanation
Indices: 34296715--34296943 Score: 343
Period size: 100 Copynumber: 2.3 Consensus size: 101
34296705 GGATTGACGA
* * *
34296715 ATAAGACCATAATTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
1 ATAAGACCATAAATGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTA
*
34296780 TATGTAAGACCATAATTGGGTTATGGCATTCTGATG
66 TATGTAAGACCATAATTGGGCTATGGCATTCTGATG
* *
34296816 ATAAGACCATAAATGGGTTATGACA-TATGAAGGTAAGACCATGTTTGGACCATGACAGTGTTTA
1 ATAAGACCATAAATGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTA
* * * *
34296880 TATGTAAGACCATAGTTGGGCTATGGTATTTTTATG
66 TATGTAAGACCATAATTGGGCTATGGCATTCTGATG
* *
34296916 ATAAGACCATAACTGGGTTATGGCACTA
1 ATAAGACCATAAATGGGTTATGACACTA
34296944 CGAATATAGA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 90 0.78
101 25 0.22
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (101 bp):
ATAAGACCATAAATGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTA
TATGTAAGACCATAATTGGGCTATGGCATTCTGATG
Found at i:34298985 original size:31 final size:31
Alignment explanation
Indices: 34298950--34299015 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
34298940 CATATTTGAC
* * *
34298950 CATGCTTGCTAAAAAATTACTCCTTTTGTCA
1 CATGCTTGCAAAAAAATTACTCCATTTGCCA
34298981 CATGCTTGCAAAAAAATTACTCCATTTGCCA
1 CATGCTTGCAAAAAAATTACTCCATTTGCCA
34299012 CATG
1 CATG
34299016 TATCTATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (31 bp):
CATGCTTGCAAAAAAATTACTCCATTTGCCA
Found at i:34309922 original size:20 final size:20
Alignment explanation
Indices: 34309897--34309948 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
34309887 AAAATAGGTG
34309897 GTCAACGTAAAAGATTTTTA
1 GTCAACGTAAAAGATTTTTA
34309917 GTCAACGTAAAAGATTTTTA
1 GTCAACGTAAAAGATTTTTA
34309937 GTCAACGTAAAA
1 GTCAACGTAAAA
34309949 TTACATTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
GTCAACGTAAAAGATTTTTA
Found at i:34314457 original size:41 final size:41
Alignment explanation
Indices: 34314401--34314480 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
34314391 CCTAATTGGA
34314401 AAAATAATTCCCTTATTCTAATAAACTACAAAAAGATAAGG
1 AAAATAATTCCCTTATTCTAATAAACTACAAAAAGATAAGG
* *
34314442 AAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAA
1 AAAATAATTCCCTTATTCTAATAAACTACAAAAAGATAA
34314481 AATAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (41 bp):
AAAATAATTCCCTTATTCTAATAAACTACAAAAAGATAAGG
Found at i:34314542 original size:19 final size:19
Alignment explanation
Indices: 34314518--34314556 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34314508 TGATTTATTC
34314518 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
34314537 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
34314556 T
1 T
34314557 TTCTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:34318299 original size:41 final size:41
Alignment explanation
Indices: 34318254--34318335 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
34318244 AACCTAATTG
*
34318254 GGAAAATAATTTTC-TTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAA-TTCCGTTATTCTAATAAACTACTAAAAGATAA
*
34318295 GGAAAATAATTCCGTTATTTTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCGTTATTCTAATAAACTACTAAAAGATAA
34318336 AATAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 3 0.08
41 35 0.92
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (41 bp):
GGAAAATAATTCCGTTATTCTAATAAACTACTAAAAGATAA
Found at i:34318397 original size:19 final size:19
Alignment explanation
Indices: 34318373--34318413 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
34318363 TGATTTATTC
34318373 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
34318392 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
34318411 TAA
1 TAA
34318414 CTTTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:34319605 original size:12 final size:12
Alignment explanation
Indices: 34319576--34319614 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
34319566 AAACAGCATG
34319576 TGAAAAAGAAAA
1 TGAAAAAGAAAA
** *
34319588 ACAAAAAGAAAT
1 TGAAAAAGAAAA
34319600 TGAAAAAGAAAA
1 TGAAAAAGAAAA
34319612 TGA
1 TGA
34319615 GAGTTAGAGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (12 bp):
TGAAAAAGAAAA
Found at i:34319662 original size:33 final size:31
Alignment explanation
Indices: 34319625--34319695 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 31
34319615 GAGTTAGAGT
34319625 GAGAAAA-AGAAAAAAGAAATTGAGATTGAAA-AA
1 GAGAAAATAG-AAAAAGAAATTGA-A--GAAAGAA
*
34319658 GAGAAAATCGAAAAAGAAATTGAAGAAAGAA
1 GAGAAAATAGAAAAAGAAATTGAAGAAAGAA
34319689 GAGAAAA
1 GAGAAAA
34319696 CGAGTTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 4 0.11
31 9 0.26
32 1 0.03
33 20 0.57
34 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (31 bp):
GAGAAAATAGAAAAAGAAATTGAAGAAAGAA
Found at i:34319694 original size:31 final size:32
Alignment explanation
Indices: 34319635--34319695 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
34319625 GAGAAAAAGA
34319635 AAAAAGAAATTGAGATTGAAAAAGAGAAAATCG
1 AAAAAGAAATTGAGA-TGAAAAAGAGAAAATCG
34319668 AAAAAGAAATTGA-A-GAAAGAAGAGAAAA
1 AAAAAGAAATTGAGATGAAA-AAGAGAAAA
34319696 CGAGTTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 9 0.33
32 1 0.04
33 13 0.48
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.11
Consensus pattern (32 bp):
AAAAAGAAATTGAGATGAAAAAGAGAAAATCG
Found at i:34321587 original size:20 final size:20
Alignment explanation
Indices: 34321562--34321606 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
34321552 GTCCTAACCG
34321562 AATTAATTAG-GTCTTAG-TTT
1 AATTAATT-GTGTCTT-GTTTT
34321582 AATTAATTGTGTCTTGTTTT
1 AATTAATTGTGTCTTGTTTT
34321602 AATTA
1 AATTA
34321607 CTTAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (20 bp):
AATTAATTGTGTCTTGTTTT
Found at i:34323823 original size:12 final size:12
Alignment explanation
Indices: 34323808--34323880 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
34323798 GCAAAAAGGG
34323808 ATTGAAAAAGAA
1 ATTGAAAAAGAA
*
34323820 ATTGAAAGAG-A
1 ATTGAAAAAGAA
34323831 A--GAAAAAGAAA
1 ATTGAAAAAG-AA
*
34323842 GAGTGGAAAAAGAA
1 -A-TTGAAAAAGAA
*
34323856 ATTGAAAAAGAG
1 ATTGAAAAAGAA
* *
34323868 TTTGCAAAAGAA
1 ATTGAAAAAGAA
34323880 A
1 A
34323881 CGAGTGAAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 6 0.13
11 3 0.06
12 28 0.60
13 1 0.02
14 2 0.04
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.23, T:0.14
Consensus pattern (12 bp):
ATTGAAAAAGAA
Found at i:34323841 original size:15 final size:15
Alignment explanation
Indices: 34323823--34323856 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34323813 AAAAGAAATT
34323823 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
34323838 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
34323853 GAAA
1 GAAA
34323857 TTGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:34325993 original size:24 final size:24
Alignment explanation
Indices: 34325957--34326014 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
34325947 TTAATATTTG
*
34325957 TTTTTAATATGTC-TAGCTACAACA
1 TTTTAAATATGTCTTAGCT-CAACA
* *
34325981 TTTTAAATGTGTCTTTAGCTGAACA
1 TTTTAAATATGTC-TTAGCTCAACA
34326006 TTTTAAATA
1 TTTTAAATA
34326015 CAGGTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 11 0.39
25 12 0.43
26 5 0.18
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (24 bp):
TTTTAAATATGTCTTAGCTCAACA
Found at i:34331296 original size:22 final size:21
Alignment explanation
Indices: 34331246--34331296 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
34331236 CTTCGTACAC
34331246 TTTTTTTTGTTCTCAATTTTT
1 TTTTTTTTGTTCTCAATTTTT
*
34331267 TTCCTTTTTT-TTCAT-AATTTCT
1 TT--TTTTTTGTTC-TCAATTTTT
34331289 TTTTTTTT
1 TTTTTTTT
34331297 CAATTACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 6 0.23
21 2 0.08
22 11 0.42
23 7 0.27
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTTTGTTCTCAATTTTT
Found at i:34338172 original size:19 final size:19
Alignment explanation
Indices: 34338148--34338193 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34338138 TACTTCACTT
*
34338148 TTTTTTTAAATATACTCAA
1 TTTTTTTAAATATACGCAA
* * *
34338167 TTTTTTTTAATATTCGCAG
1 TTTTTTTAAATATACGCAA
34338186 TTTTTTTA
1 TTTTTTTA
34338194 TACTCCCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTTTAAATATACGCAA
Found at i:34339481 original size:21 final size:21
Alignment explanation
Indices: 34339457--34339501 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34339447 AAATTCACAT
34339457 ATTTAAAACAAGACAC-AATTA
1 ATTTAAAACAAGAC-CTAATTA
**
34339478 ATTTAAATTAAGACCTAATTA
1 ATTTAAAACAAGACCTAATTA
34339499 ATT
1 ATT
34339502 CGGTTAGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (21 bp):
ATTTAAAACAAGACCTAATTA
Found at i:34343238 original size:36 final size:36
Alignment explanation
Indices: 34343186--34343256 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
34343176 CTTACCTTGC
34343186 ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCTT
1 ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCTT
* * *
34343222 ATATTTTTCCTTTTCTAGGATTTTTGGGTGGTGCT
1 ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCT
34343257 CAGCCTTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.13, C:0.14, G:0.23, T:0.51
Consensus pattern (36 bp):
ATATTTTTCCTCTTCTAGGAATTCTGGGTGGTGCTT
Found at i:34345811 original size:6 final size:6
Alignment explanation
Indices: 34345800--34345836 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
34345790 ACCTGCATCC
34345800 TTCACA TTCACA TTCACA TTCACA TTCACA TTCACA T
1 TTCACA TTCACA TTCACA TTCACA TTCACA TTCACA T
34345837 AAGAATCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (6 bp):
TTCACA
Found at i:34353922 original size:17 final size:17
Alignment explanation
Indices: 34353900--34353932 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34353890 TATATTTTTA
34353900 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
34353917 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
34353933 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:34356024 original size:14 final size:17
Alignment explanation
Indices: 34355991--34356030 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 17
34355981 TCATTGATAG
34355991 ATTATACAAAATAGATT
1 ATTATACAAAATAGATT
34356008 ATTATA-AAAATA-A-T
1 ATTATACAAAATAGATT
34356022 ATTATACAA
1 ATTATACAA
34356031 TGCAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 3 0.14
16 6 0.27
17 6 0.27
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (17 bp):
ATTATACAAAATAGATT
Found at i:34358216 original size:110 final size:108
Alignment explanation
Indices: 34358049--34358313 Score: 291
Period size: 110 Copynumber: 2.4 Consensus size: 108
34358039 AGTCTGACGG
* * * * *
34358049 GAATCATCTATCATGTTAAGTAGGATGGTTGATTGGGGGTTAACCCAATGGCATGGAATCTATGA
1 GAATCATCTATCAT-TCAAGTGGGATGGTTGATT-GGGGTTATCCCAATGGCATGGAATATAGGA
* * *
34358114 ACCCAATATGGT-TCAGGAAGGATCCACGATCCACAGTTAGAAGAA
64 ACCCAATATGATCT-AGGAAGGATCCACAATCCACAGCTAGAAGAA
* **
34358159 GAATCATCTATCAATTCAAGTGGGATGGTTGATTGGGGTTATCCCTAGTGGTGTGGAATATAGGA
1 GAATCATCTATC-ATTCAAGTGGGATGGTTGATTGGGGTTATCCC-AATGGCATGGAATATAGGA
* * * * *
34358224 TCCTAATATGATCTAGGAAGGATCTACAATCCATAGCTAGAAGAG
64 ACCCAATATGATCTAGGAAGGATCCACAATCCACAGCTAGAAGAA
* *
34358269 GAATCATCTATCGTTTCAAGTGGGATGG-TCATTTGGGGTTATCCC
1 GAATCATCTATC-ATTCAAGTGGGATGGTTGA-TTGGGGTTATCCC
34358314 CAGTATACCG
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
109 12 0.09
110 117 0.89
111 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (108 bp):
GAATCATCTATCATTCAAGTGGGATGGTTGATTGGGGTTATCCCAATGGCATGGAATATAGGAAC
CCAATATGATCTAGGAAGGATCCACAATCCACAGCTAGAAGAA
Found at i:34358343 original size:110 final size:110
Alignment explanation
Indices: 34358128--34358367 Score: 272
Period size: 110 Copynumber: 2.2 Consensus size: 110
34358118 AATATGGTTC
* * * *
34358128 AGGAAGGATCCACGATCCACAGTTAGAAGAAGAATCATCTATCAATTCAAGTGGGATGGTTGATT
1 AGGAAGGATCCACAATCCATAGCTAGAAGAAGAATCATCTATCAATTCAAGTGGGATGGTTCATT
* * **
34358193 GGGGTTATCCCTAGTGGTGTGGAATATAGGATCCTAATATGATCT
66 GGGGTTATCCCCAGTGATCCGGAATATAGGATCCTAATATGATCT
* * **
34358238 AGGAAGGATCTACAATCCATAGCTAGAAGAGGAATCATCTATCGTTTCAAGTGGGATGG-TCATT
1 AGGAAGGATCCACAATCCATAGCTAGAAGAAGAATCATCTATCAATTCAAGTGGGATGGTTCA-T
* * * *
34358302 TGGGGTTATCCCCAGT-ATACCGGGATGTAGTATCCCT-ATATGGTCT
65 TGGGGTTATCCCCAGTGAT-CCGGAATATAGGAT-CCTAATATGATCT
34358348 AGTG-AGGATCCACAATCCAT
1 AG-GAAGGATCCACAATCCAT
34358368 TGCCCGAATA
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
109 3 0.03
110 102 0.94
111 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (110 bp):
AGGAAGGATCCACAATCCATAGCTAGAAGAAGAATCATCTATCAATTCAAGTGGGATGGTTCATT
GGGGTTATCCCCAGTGATCCGGAATATAGGATCCTAATATGATCT
Found at i:34363817 original size:29 final size:29
Alignment explanation
Indices: 34363779--34364018 Score: 257
Period size: 29 Copynumber: 8.2 Consensus size: 29
34363769 GTATCGACGC
* *
34363779 CCATCGAATATGAAAAGGAATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTACGA
*
34363808 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTACGA
* *
34363837 CCATCGAATATGAAAAAGGATGGCTT-CAA
1 CCATCGAATATGAAAAGGGATGG-TTACGA
* * * * **
34363866 CCATTGATTAGAGAAAAGAGATGGTTTTGA
1 CCATCGAATA-TGAAAAGGGATGGTTACGA
**
34363896 CCATCGAATATGAAAAGGGATGGGGACGA
1 CCATCGAATATGAAAAGGGATGGTTACGA
* *
34363925 CCATCGAATATGGAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTACGA
* *
34363954 CCATCGAATATGAAAAGGGATGGTAACAA
1 CCATCGAATATGAAAAGGGATGGTTACGA
* * * *
34363983 CCATCGATTAAAGAAAAGGGATGGTTTCGG
1 CCATCGAAT-ATGAAAAGGGATGGTTACGA
34364013 CCATCG
1 CCATCG
34364019 TTTGGCACAC
Statistics
Matches: 175, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
29 134 0.77
30 41 0.23
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTACGA
Found at i:34363985 original size:117 final size:117
Alignment explanation
Indices: 34363779--34364018 Score: 356
Period size: 117 Copynumber: 2.1 Consensus size: 117
34363769 GTATCGACGC
***
34363779 CCATCGAATATGAAAAGGAATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGACCATCGA
1 CCATCGAATATGAAAAGGAATGGGGACGACCATCGAATATGAAAAGGGATGGTGACGACCATCGA
* * * *
34363844 ATATGAAAAAGGATGGCTTCAACCATTGATTAGAGAAAAGAGATGGTTTTGA
66 ATATGAAAAAGGATGGCTACAACCATCGATTAAAGAAAAGAGATGGTTTCGA
* *
34363896 CCATCGAATATGAAAAGGGATGGGGACGACCATCGAATATGGAAAGGGATGGTGACGACCATCGA
1 CCATCGAATATGAAAAGGAATGGGGACGACCATCGAATATGAAAAGGGATGGTGACGACCATCGA
* * *
34363961 ATATGAAAAGGGATGG-TAACAACCATCGATTAAAGAAAAGGGATGGTTTCGG
66 ATATGAAAAAGGATGGCT-ACAACCATCGATTAAAGAAAAGAGATGGTTTCGA
34364013 CCATCG
1 CCATCG
34364019 TTTGGCACAC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
116 1 0.01
117 109 0.99
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (117 bp):
CCATCGAATATGAAAAGGAATGGGGACGACCATCGAATATGAAAAGGGATGGTGACGACCATCGA
ATATGAAAAAGGATGGCTACAACCATCGATTAAAGAAAAGAGATGGTTTCGA
Found at i:34364018 original size:88 final size:88
Alignment explanation
Indices: 34363774--34364007 Score: 283
Period size: 88 Copynumber: 2.7 Consensus size: 88
34363764 ACGAAGTATC
* *
34363774 GACGCCCATCGAATATGAAAAGGAATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGACC
1 GACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGACC
34363839 ATCGAATATGAAAAAGGATGGCT
66 ATCGAATATGAAAAAGGATGGCT
* * * * * * * *
34363862 -TCAACCATTGATTAGAGAAAAGAGATGGTTTTGACCATCGAATATGAAAAGGGATGGGGACGAC
1 GACGACCATCGAATA-TGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGAC
* *
34363926 CATCGAATATGGAAAGGGATGG-T
65 CATCGAATATGAAAAAGGATGGCT
** * * *
34363949 GACGACCATCGAATATGAAAAGGGATGGTAACAACCATCGATTAAAGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCGAAT-ATGAAAAGGGATGGT
34364008 TTCGGCCATC
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
87 31 0.26
88 87 0.74
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (88 bp):
GACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACGACC
ATCGAATATGAAAAAGGATGGCT
Found at i:34371632 original size:14 final size:15
Alignment explanation
Indices: 34371613--34371650 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
34371603 TAGGATGAAA
*
34371613 GAAAAGAGAAGA-AG
1 GAAAAGAGAAAAGAG
34371627 GAAAAGA-AAAAGAG
1 GAAAAGAGAAAAGAG
34371641 GAAAAGAGAA
1 GAAAAGAGAA
34371651 CAAAGGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAAAAGAGAAAAGAG
Found at i:34381214 original size:41 final size:43
Alignment explanation
Indices: 34381179--34381314 Score: 118
Period size: 42 Copynumber: 3.2 Consensus size: 43
34381169 TATAAACGCT
34381179 GCTAAAGGCCATGTTCTTTAGCGGAGATTTGTATAAAAAGCGCC
1 GCTAAAGGCCATGTTCTTTAGCGGAGATTTGTAT-AAAAGCGCC
* * * * **
34381223 GCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAA-CGCC
1 GCTAAAGGCCATGTTCTTTAGCGGAGATTTGTATA-AAAGCGCC
* * * *
34381266 GCTAAA--CTCATGTTCTTTAGCGGCGCTTTTTCTACAAA-CGCC
1 GCTAAAGGC-CATGTTCTTTAGCGGAGATTTGTATA-AAAGCGCC
34381308 GCTAAAG
1 GCTAAAG
34381315 AACATGACTT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
42 39 0.48
43 11 0.14
44 31 0.38
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
GCTAAAGGCCATGTTCTTTAGCGGAGATTTGTATAAAAGCGCC
Found at i:34381228 original size:44 final size:43
Alignment explanation
Indices: 34381172--34381526 Score: 256
Period size: 43 Copynumber: 8.3 Consensus size: 43
34381162 TTATTTTTAT
* * * * * *
34381172 AAACGCTGCTAAAGGCCATGTTCTTTAGCGGAGATTTGTATAA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCTAC
* *
34381215 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAA-CGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCTAC
34381259 AAACGCCGCTAAA--CTCATGTTCTTTAGCGGCGCTTTTTCTAC
1 AAACGCCGCTAAAGGC-CATGTTCTTTAGCGGCGCTTTTTCTAC
** * * *
34381301 AAACGCCGCTAAAGAACATG-ACTTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTC-TTTAGCGGCGCTTTTTCTAC
* * ** * * * *
34381343 AAATGCCGTTAAAGAACATG-ACTTTTAGCGGCGCTTTTCCAAT
1 AAACGCCGCTAAAGGCCATGTTC-TTTAGCGGCGCTTTTTCTAC
* ** * * *
34381386 AAACGCCACTAAAGAACATG-ACTTTTAGCGGCGCTTTTCCAAC
1 AAACGCCGCTAAAGGCCATGTTC-TTTAGCGGCGCTTTTTCTAC
* * * *
34381429 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCTAC
* * ** * * *
34381472 AAATGCCGCTATAGATCATG-ACTTTTAGCGGCGATTTTTCTAA
1 AAACGCCGCTAAAGGCCATGTTC-TTTAGCGGCGCTTTTTCTAC
*
34381515 AAACGCCACTAA
1 AAACGCCGCTAA
34381527 TTTTGAGATT
Statistics
Matches: 264, Mismatches: 40, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
42 79 0.30
43 149 0.56
44 36 0.14
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTTCTAC
Found at i:34381287 original size:42 final size:43
Alignment explanation
Indices: 34381219--34381526 Score: 315
Period size: 43 Copynumber: 7.2 Consensus size: 43
34381209 GTATAAAAAG
* *
34381219 CGCCGCTAAAGGTCATG-TTCTTTAGCGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGATCATGACT-TTTAGCGGCGCTTTTTCCACAAA
* * *
34381262 CGCCGCTAAA-CTCATG-TTCTTTAGCGGCGCTTTTTCTACAAA
1 CGCCGCTAAAGATCATGACT-TTTAGCGGCGCTTTTTCCACAAA
* *
34381304 CGCCGCTAAAGAACATGACTTTTAGCGGCGC-TTTCCCACAAA
1 CGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
* * * *
34381346 TGCCGTTAAAGAACATGACTTTTAGCGGCGC-TTTTCCAATAAA
1 CGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTTCC-ACAAA
* *
34381389 CGCCACTAAAGAACATGACTTTTAGCGGCGC-TTTTCCAACAAA
1 CGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTTCC-ACAAA
* * * *
34381432 CGCCGCTAAAGGTCATG-TTCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTAAAGATCATGACT-TTTAGCGGCGCTTTTTCCACAAA
* * * * *
34381475 TGCCGCTATAGATCATGACTTTTAGCGGCGATTTTTCTAAAAA
1 CGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
*
34381518 CGCCACTAA
1 CGCCGCTAA
34381527 TTTTGAGATT
Statistics
Matches: 226, Mismatches: 33, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
42 84 0.37
43 135 0.60
44 7 0.03
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
Found at i:34381313 original size:85 final size:85
Alignment explanation
Indices: 34381172--34381509 Score: 351
Period size: 86 Copynumber: 4.0 Consensus size: 85
34381162 TTATTTTTAT
* ** * * * * **
34381172 AAACGCTGCTAAAGGCCATGTTCTTTAGCGGAGATTTGT-ATAAAAAGCGCCGCTAAAGGTCATG
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTT-TCCTACAAA-CGCCGCTAAAGAACATG
*
34381236 -TTCTTTAGCGGCGCTTTTTCCAC
64 ACT-TTTAGCGGCGC-TTTTCCAC
* *
34381259 AAACGCCGCTAAA-CTCATGTTCTTTAGCGGCGCTTTTTCTACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACATGAC
*
34381323 TTTTAGCGGCGCTTTCCCAC
66 TTTTAGCGGCGCTTTTCCAC
* * * * * * *
34381343 AAATGCCGTTAAAGAACATG-ACTTTTAGCGGCGCTTTTCCAATAAACGCCACTAAAGAACATGA
1 AAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACATGA
34381407 CTTTTAGCGGCGCTTTTCCAAC
65 CTTTTAGCGGCGCTTTTCC-AC
* * * * * *
34381429 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTCCCACAAATGCCGCTATAGATCATGAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACATGAC
*
34381494 TTTTAGCGGCGATTTT
66 TTTTAGCGGCGCTTTT
34381510 TCTAAAAACG
Statistics
Matches: 211, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
84 19 0.09
85 86 0.41
86 93 0.44
87 13 0.06
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (85 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACATGAC
TTTTAGCGGCGCTTTTCCAC
Found at i:34384134 original size:9 final size:9
Alignment explanation
Indices: 34384120--34384531 Score: 309
Period size: 9 Copynumber: 48.4 Consensus size: 9
34384110 TTTTTATGTA
34384120 TTATGTAAG
1 TTATGTAAG
34384129 TTATGTACTAAG
1 TTATG---TAAG
34384141 TTATGT-A-
1 TTATGTAAG
34384148 TTATGTAAG
1 TTATGTAAG
34384157 TTATGTAAG
1 TTATGTAAG
*
34384166 TTGTGT-A-
1 TTATGTAAG
*
34384173 TTATGTAAT
1 TTATGTAAG
34384182 TTATGTAAG
1 TTATGTAAG
34384191 TTATGTAAG
1 TTATGTAAG
34384200 TTATGT-A-
1 TTATGTAAG
*
34384207 TTATGTATG
1 TTATGTAAG
34384216 TTATGTAAG
1 TTATGTAAG
34384225 TTATGTAAG
1 TTATGTAAG
34384234 TTATGT-A-
1 TTATGTAAG
*
34384241 -TATTGTATG
1 TTA-TGTAAG
34384250 TTATGTAAG
1 TTATGTAAG
34384259 TTATGT-A-
1 TTATGTAAG
*
34384266 TTATGTATG
1 TTATGTAAG
34384275 TTATGTAAG
1 TTATGTAAG
34384284 TTATGT-A-
1 TTATGTAAG
* *
34384291 TCATGTATG
1 TTATGTAAG
34384300 TTATGTAAG
1 TTATGTAAG
34384309 TTATGT-A-
1 TTATGTAAG
*
34384316 -TATTGTATG
1 TTA-TGTAAG
34384325 TTATGTAAG
1 TTATGTAAG
34384334 TTATGT-A-
1 TTATGTAAG
34384341 TTATGT-A-
1 TTATGTAAG
34384348 TTATGTAAG
1 TTATGTAAG
34384357 -TACTGTAAG
1 TTA-TGTAAG
*
34384366 TAATGTAAG
1 TTATGTAAG
34384375 TTATGTAAG
1 TTATGTAAG
*
34384384 TAATGT-A-
1 TTATGTAAG
34384391 TTATGTAAG
1 TTATGTAAG
34384400 TTATGTAAG
1 TTATGTAAG
*
34384409 TAATGT-A-
1 TTATGTAAG
34384416 TTATGTAAG
1 TTATGTAAG
* *
34384425 TTGTGTATAATA
1 TTATG--TAA-G
34384437 TTAAT-TAAG
1 TT-ATGTAAG
*
34384446 TTATATAAG
1 TTATGTAAG
*
34384455 TTGTGT-A-
1 TTATGTAAG
*
34384462 TAATGTAAG
1 TTATGTAAG
*
34384471 TTA-GGAAGG
1 TTATGTAA-G
34384480 TTATGT-A-
1 TTATGTAAG
34384487 TTATGTAAG
1 TTATGTAAG
34384496 TTA--TAAG
1 TTATGTAAG
*
34384503 TTATGTAGG
1 TTATGTAAG
*
34384512 CTATGT-A-
1 TTATGTAAG
34384519 TTATGTAAG
1 TTATGTAAG
34384528 TTAT
1 TTAT
34384532 TATGTTATTA
Statistics
Matches: 323, Mismatches: 36, Indels: 88
0.72 0.08 0.20
Matches are distributed among these distances:
6 4 0.01
7 79 0.24
8 26 0.08
9 190 0.59
10 9 0.03
11 3 0.01
12 11 0.03
13 1 0.00
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:34384172 original size:25 final size:24
Alignment explanation
Indices: 34384113--34384422 Score: 240
Period size: 25 Copynumber: 12.3 Consensus size: 24
34384103 TGCTATATTT
34384113 TTATGTATTATGTAAGTTATGTACTAA
1 TTATGTATTATGTAAGTTATG---TAA
34384140 GTTATGTATTATGTAAGTTATGTAA
1 -TTATGTATTATGTAAGTTATGTAA
* *
34384165 GTTGTGTATTATGTAATTTATGTAA
1 -TTATGTATTATGTAAGTTATGTAA
*
34384190 GTTATGTAAGTTATGT-A-TTATGTATG
1 -TTATGT-A-TTATGTAAGTTATGTA-A
34384216 TTATGTAAGTTATGTAAGTTATGTATA
1 TTATGT-A-TTATGTAAGTTATGTA-A
* * *
34384243 TTGTATGTTATGTAAGTTATGT-A
1 TTATGTATTATGTAAGTTATGTAA
34384266 TTATGTATGTTATGTAAGTTATGT-A
1 TTATGTA--TTATGTAAGTTATGTAA
*
34384291 TCATGTATGTTATGTAAGTTATGTATA
1 TTATGTA--TTATGTAAGTTATGTA-A
* * *
34384318 TTGTATGTTATGTAAGTTATGT-A
1 TTATGTATTATGTAAGTTATGTAA
34384341 TTATGTATTATGTAAG-TACTGTAA
1 TTATGTATTATGTAAGTTA-TGTAA
* *
34384365 GTAATGTAAGTTATGTAAGTAATGT-A
1 -TTATGT-A-TTATGTAAGTTATGTAA
*
34384391 TTATGTAAGTTATGTAAGTAATGT-A
1 TTATGT-A-TTATGTAAGTTATGTAA
34384416 TTATGTA
1 TTATGTA
34384423 AGTTGTGTAT
Statistics
Matches: 245, Mismatches: 22, Indels: 34
0.81 0.07 0.11
Matches are distributed among these distances:
22 2 0.01
23 22 0.09
24 2 0.01
25 158 0.64
26 5 0.02
27 34 0.14
28 22 0.09
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (24 bp):
TTATGTATTATGTAAGTTATGTAA
Found at i:34384191 original size:34 final size:34
Alignment explanation
Indices: 34384084--34384539 Score: 329
Period size: 34 Copynumber: 13.2 Consensus size: 34
34384074 ACTATAAATG
* *
34384084 AGTTATGTAAGTTATGATATGCTATAT-TTTTATGT-
1 AGTTATGTAAGTTATG-TAT--TATGTATGTTATGTA
* *
34384119 A-TTATGTAAGTTATGTACTAAGTTATGTATTATGTA
1 AGTTATGTAAGTTATGTATTATG-TATG--TTATGTA
*
34384155 AGTTATGTAAGTTGTGTATTATGTAAT-TTATGTA
1 AGTTATGTAAGTTATGTATTATGT-ATGTTATGTA
34384189 AGTTATGTAAGTTATGTATTATGTATGTTATGTA
1 AGTTATGTAAGTTATGTATTATGTATGTTATGTA
34384223 AGTTATGTAAGTTATGTA-TATTGTATGTTATGTA
1 AGTTATGTAAGTTATGTATTA-TGTATGTTATGTA
*
34384257 AGTTATGTATTA-TGTATGTTATGTAAGTTATGTATCATGTA
1 AGTTATGTA--AGT-TATG-TAT-TATG-TATGT-T-ATGTA
*
34384298 TGTTATGTAAGTTATGTA-TATTGTATGTTATGTA
1 AGTTATGTAAGTTATGTATTA-TGTATGTTATGTA
*
34384332 AGTTATGT-A-TTATGTATTATGTAAG-TACTGTA
1 AGTTATGTAAGTTATGTATTATGTATGTTA-TGTA
* *
34384364 AGTAATGTAAGTTATGTAAGTAATGTA--TTATGTA
1 AGTTATGTAAGTTATGT-A-TTATGTATGTTATGTA
* * *
34384398 AGTTATGTAAGTAATGTATTATGTAAGTTGTGTATA
1 AGTTATGTAAGTTATGTATTATGTATGTTATG--TA
* * * *
34384434 ATATTAAT-TAAGTTATATAAGTTGTGTA--TAATGTA
1 A-GTT-ATGTAAGTTATGT-A-TTATGTATGTTATGTA
* *
34384469 AGTTA-GGAAGGTTATGTATTATGTAAGTTA--TA
1 AGTTATGTAA-GTTATGTATTATGTATGTTATGTA
* * *
34384501 AGTTATGTAGGCTATGTATTATGTAAGTTAT-TA
1 AGTTATGTAAGTTATGTATTATGTATGTTATGTA
*
34384534 TGTTAT
1 AGTTAT
34384540 TATATAAGTT
Statistics
Matches: 346, Mismatches: 34, Indels: 84
0.75 0.07 0.18
Matches are distributed among these distances:
31 4 0.01
32 62 0.18
33 25 0.07
34 142 0.41
35 15 0.04
36 23 0.07
37 36 0.10
38 6 0.02
39 18 0.05
40 2 0.01
41 13 0.04
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.48
Consensus pattern (34 bp):
AGTTATGTAAGTTATGTATTATGTATGTTATGTA
Found at i:34384212 original size:50 final size:50
Alignment explanation
Indices: 34384138--34384558 Score: 368
Period size: 50 Copynumber: 8.6 Consensus size: 50
34384128 GTTATGTACT
* *
34384138 AAGTTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAATTTATGT
1 AAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGT
34384188 -A---A-G--TTATGTAAGTTATGT-A-TTATGTATGTTATGTAAGTTATGT
1 AAGTTATGTATTATGTAAGTTATGTAAGTTATGTA--TTATGTAAGTTATGT
* *
34384231 AAGTTATGTA-TATTGTATGTTATGTAAGTTATGTATTATGTATGTTATGT
1 AAGTTATGTATTA-TGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGT
* * *
34384281 AAGTTATGTATCATGTATGTTATGTAAGTTATGTA-TATTGTATGTTATGT
1 AAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTA-TGTAAGTTATGT
*
34384331 AAGTTATGTATTATGT-A-TTATGTAAG-TACTGTAAGTAATGTAAGTTATGT
1 AAGTTATGTATTATGTAAGTTATGTAAGTTA-TGT-A-TTATGTAAGTTATGT
* * *
34384381 AAGTAATGTATTATGTAAGTTATGTAAGTAATGTATTATGTAAGTTGTGT
1 AAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGT
* * * * *
34384431 -A--TA-ATATTAAT-TAAGTTATATAAGTTGTGTATAATGTAAGTTA-GG
1 AAGTTATGTATT-ATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGT
*
34384476 AAGGTTATGTATTATGTAAGTTA--TAAGTTATGTAGGCTATGT-A-TTATGT
1 AA-GTTATGTATTATGTAAGTTATGTAAGTTATGTA--TTATGTAAGTTATGT
* *
34384525 AAGTTATTATGTTATTATATAAGTTATGCAAGTT
1 AAG---TTATG-TATTATGTAAGTTATGTAAGTT
34384559 TATATATAAG
Statistics
Matches: 306, Mismatches: 28, Indels: 70
0.76 0.07 0.17
Matches are distributed among these distances:
41 6 0.02
42 1 0.00
43 29 0.09
44 1 0.00
45 2 0.01
46 33 0.11
47 6 0.02
48 27 0.09
49 15 0.05
50 138 0.45
51 10 0.03
52 32 0.10
53 1 0.00
54 5 0.02
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (50 bp):
AAGTTATGTATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGT
Found at i:34384471 original size:25 final size:24
Alignment explanation
Indices: 34384218--34384509 Score: 148
Period size: 25 Copynumber: 11.9 Consensus size: 24
34384208 TATGTATGTT
*
34384218 ATGTAAGTTATGTAAGTTATGTATA
1 ATGTAAGTTAT-AAAGTTATGTATA
* * * *
34384243 TTGTATGTTATGTAAGTTATGTATT
1 ATGTAAGTTAT-AAAGTTATGTATA
* * *
34384268 ATGTATGTTATGTAAGTTATGTATC
1 ATGTAAGTTAT-AAAGTTATGTATA
* *
34384293 ATGTATGTTATGTAAGTTATGTATA
1 ATGTAAGTTAT-AAAGTTATGTATA
* * * *
34384318 TTGTATGTTATGTAAGTTATGTATT
1 ATGTAAGTTAT-AAAGTTATGTATA
*
34384343 ATGT-A-TTATGTAAG-TACTGTAAGTA
1 ATGTAAGTTAT-AAAGTTA-TGT-A-TA
* * *
34384368 ATGTAAGTTATGTAAGTAATGTATT
1 ATGTAAGTTAT-AAAGTTATGTATA
* * *
34384393 ATGTAAGTTATGTAAGTAATGTATT
1 ATGTAAGTTAT-AAAGTTATGTATA
* ** * *
34384418 ATGTAAGTTGTGTA-TAATAT-TA
1 ATGTAAGTTATAAAGTTATGTATA
*
34384440 AT-TAAGTTATATAAGTTGTGTATA
1 ATGTAAGTTATA-AAGTTATGTATA
* * *
34384464 ATGTAAGTTAGGAAGGTTATGTATT
1 ATGTAAGTTA-TAAAGTTATGTATA
34384489 ATGTAAGTTAT-AAGTTATGTA
1 ATGTAAGTTATAAAGTTATGTA
34384510 GGCTATGTAT
Statistics
Matches: 226, Mismatches: 30, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
21 7 0.03
22 6 0.03
23 29 0.13
24 6 0.03
25 162 0.72
26 3 0.01
27 12 0.05
28 1 0.00
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (24 bp):
ATGTAAGTTATAAAGTTATGTATA
Found at i:34384503 original size:32 final size:32
Alignment explanation
Indices: 34384467--34384531 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
34384457 GTGTATAATG
*
34384467 TAAGTTAGGAAGGTTATGTATTATGTAAGTTA
1 TAAGTTAGGAAGGCTATGTATTATGTAAGTTA
* *
34384499 TAAGTTATGTAGGCTATGTATTATGTAAGTTA
1 TAAGTTAGGAAGGCTATGTATTATGTAAGTTA
34384531 T
1 T
34384532 TATGTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (32 bp):
TAAGTTAGGAAGGCTATGTATTATGTAAGTTA
Found at i:34384542 original size:20 final size:19
Alignment explanation
Indices: 34384513--34384551 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
34384503 TTATGTAGGC
*
34384513 TATGTATTATGTAAGTTAT
1 TATGTATTATATAAGTTAT
34384532 TATGTTATTATATAAGTTAT
1 TATG-TATTATATAAGTTAT
34384552 GCAAGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
TATGTATTATATAAGTTAT
Found at i:34384601 original size:16 final size:16
Alignment explanation
Indices: 34384577--34384617 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
34384567 AGTTTATATA
*
34384577 TTATATATTATTTAAG
1 TTATATATTATGTAAG
*
34384593 TTATGTATTATGTAAG
1 TTATATATTATGTAAG
34384609 TTTATATAT
1 -TTATATAT
34384618 AAGTTATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
TTATATATTATGTAAG
Found at i:34384629 original size:12 final size:12
Alignment explanation
Indices: 34384554--34384622 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
34384544 TAAGTTATGC
34384554 AAGTTTATATAT
1 AAGTTTATATAT
34384566 AAGTTTATATAT
1 AAGTTTATATAT
* * *
34384578 TA-TATATTATTT
1 AAGTTTA-TATAT
*
34384590 AAGTTATGTATTATGT
1 AAG-T-T-TA-TATAT
34384606 AAGTTTATATAT
1 AAGTTTATATAT
34384618 AAGTT
1 AAGTT
34384623 ATGATATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 3 0.07
12 27 0.60
13 2 0.04
14 2 0.04
15 1 0.02
16 10 0.22
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:34384704 original size:17 final size:18
Alignment explanation
Indices: 34384668--34384705 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
34384658 TGATATATTG
34384668 ATAAATTTTGAAAAAAAT
1 ATAAATTTTGAAAAAAAT
*
34384686 ATAAATTTT-AAAAATAT
1 ATAAATTTTGAAAAAAAT
34384703 ATA
1 ATA
34384706 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
ATAAATTTTGAAAAAAAT
Found at i:34384720 original size:15 final size:15
Alignment explanation
Indices: 34384680--34384722 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
34384670 AAATTTTGAA
* *
34384680 AAAAATATAAATTTT
1 AAAAATATATATATT
34384695 AAAAATATATATATT
1 AAAAATATATATATT
*
34384710 AAAAATGTATATA
1 AAAAATATATATA
34384723 AATATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAAATATATATATT
Found at i:34385256 original size:31 final size:31
Alignment explanation
Indices: 34385214--34385298 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
34385204 CATGGTTGAT
* *
34385214 TTAGCAGCAAAAAACAATAAAAGGTACCATC
1 TTAGTAGCAAAAACCAATAAAAGGTACCATC
*
34385245 TTAGTAGCAAAAACCAATAGAAGGTACCATC
1 TTAGTAGCAAAAACCAATAAAAGGTACCATC
34385276 TTAGCT-GCAAAAACCAATTAAAA
1 TTAG-TAGCAAAAACCAA-TAAAA
34385299 TCCTTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
31 43 0.90
32 5 0.10
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.19
Consensus pattern (31 bp):
TTAGTAGCAAAAACCAATAAAAGGTACCATC
Found at i:34385803 original size:32 final size:31
Alignment explanation
Indices: 34385741--34385803 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
34385731 CATTAACCAA
* *
34385741 ATACCAAATTAAAACAGTCCCAACTACAAAT
1 ATACCAAATTAAAACAGTCCAAAATACAAAT
*
34385772 ATACCAAATTTAAAAACTGTCCAAAAT-CAAAT
1 ATACCAAA-TT-AAAACAGTCCAAAATACAAAT
34385804 GTAAATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 8 0.30
32 7 0.26
33 12 0.44
ACGTcount: A:0.52, C:0.22, G:0.03, T:0.22
Consensus pattern (31 bp):
ATACCAAATTAAAACAGTCCAAAATACAAAT
Found at i:34387328 original size:47 final size:47
Alignment explanation
Indices: 34387237--34387328 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
34387227 GAAATTTGAT
* * * *
34387237 GTATAGTGCTTGTATTTTTCTTAAAATTTATAGTAGGAACTTAATCC
1 GTATAGTGCTTGTATTTTTCTTAAAATTCAAACTAGAAACTTAATCC
* *
34387284 GTATAGTGTTTGTATTTTTC-TAAAACTTCAAACTAGAAATTTAAT
1 GTATAGTGCTTGTATTTTTCTTAAAA-TTCAAACTAGAAACTTAAT
34387329 TATGTGAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 5 0.13
47 33 0.87
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (47 bp):
GTATAGTGCTTGTATTTTTCTTAAAATTCAAACTAGAAACTTAATCC
Found at i:34387813 original size:39 final size:39
Alignment explanation
Indices: 34387768--34387858 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
34387758 AACCCATATT
** *
34387768 CCTTAAACCTTAAATCATGGAACATATATAAACCCTAAA
1 CCTTAAACCTTAAATCATAAAACATATATAAACCATAAA
* * *
34387807 CCTTAAACCCTGAATCATAAAACATATATAAACTATAAA
1 CCTTAAACCTTAAATCATAAAACATATATAAACCATAAA
34387846 CCTTAAACCTTAA
1 CCTTAAACCTTAA
34387859 CCCTTAAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.26
Consensus pattern (39 bp):
CCTTAAACCTTAAATCATAAAACATATATAAACCATAAA
Found at i:34387880 original size:28 final size:28
Alignment explanation
Indices: 34387835--34387894 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
34387825 AAAACATATA
* * *
34387835 TAAACTATAAACCTTAAACCTTAACCCT
1 TAAACAATAAACCTTAAACCGTAACCCC
*
34387863 TAAACAATAAACAC-TAAATCGTAACCCC
1 TAAACAATAAAC-CTTAAACCGTAACCCC
34387891 TAAA
1 TAAA
34387895 TCCATAATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (28 bp):
TAAACAATAAACCTTAAACCGTAACCCC
Found at i:34388407 original size:114 final size:113
Alignment explanation
Indices: 34387981--34388718 Score: 471
Period size: 114 Copynumber: 6.5 Consensus size: 113
34387971 TTAAAAAAAA
* * * * * **
34387981 CGCCGCTAATGCTTGACTTTTGCGGTGTTTATTGTAAAGCGCCACTAATTTCTCTAAAGCTCCAC
1 CGCCGCTAATTCTTGACTTTTGCGGCGTTTTTTGTAAAGCACCACTAATGTCTCTAAAGCTAAAC
* * * * * *
34388046 ATAAAAACAACGTTG-TTGACATAAATCTTTT-T-GCAGCACTTCTGAGAAAG
66 A-GAAAACGACGTCGTTTG-CTTAAAACTTTTGTGGC-GC-TTTC-GAGAAAG
* * * * * * * * *
34388096 CGCCGCTAAATCTTGACTTCTGTGGC-ATTTTTATAAATACGCCACTAATGTGC-CTAAACCTTA
1 CGCCGCTAATTCTTGACTTTTGCGGCGTTTTTTGTAAA-GCACCACTAATGT-CTCTAAAGCTAA
** ** * * *
34388159 ACA-ATAAAATATTTTCGTTTGCTTAAAAACTTTTGCGGTGCTATT-GCGAAAG
64 ACAGA-AAACGA-CGTCGTTTGCTT-AAAACTTTTGTGGCGCT-TTCGAGAAAG
** * * * * *
34388211 CATCGCTAATTCTTGA-TTTCTGCGGCGTTTTTAGGAATGCCCCACTAATGTCTCTAAATCTAAA
1 CGCCGCTAATTCTTGACTTT-TGCGGCGTTTTTTGTAAAGCACCACTAATGTCTCTAAAGCT-AA
* * * * * *
34388275 AAAGAAAACGTCATCGTTTGCCTAAAACTATTGTGGCACTTTCGAGAAAG
64 ACAGAAAACGACGTCGTTTGCTTAAAACTTTTGTGGCGCTTTCGAGAAAG
** *
34388325 CGCCGCTAAGGCTTGACTTTTGCGGCGTTTTTTGTAAAGCACCATTAATGTCTCTAAAGCTAAAC
1 CGCCGCTAATTCTTGACTTTTGCGGCGTTTTTTGTAAAGCACCACTAATGTCTCTAAAGCTAAAC
* * * ***
34388390 AGAAGAACGACGCCGTTTGCTTAAAACTTTT-TACGGTGC-TCCCTTAAAG
66 AGAA-AACGACGTCGTTTGCTTAAAACTTTTGT--GGCGCTTTCGAGAAAG
* * * * * * *
34388439 TGCCGCTAATTATTGACATCTGCGGCGTTTTTTGTAAAGCGCCACTAATGTGTCTAAAGCTCAAC
1 CGCCGCTAATTCTTGACTTTTGCGGCGTTTTTTGTAAAGCACCACTAATGTCTCTAAAGCTAAAC
* * *
34388504 AAGAAAACGACGTCGTTTGATAAAAACTTTTGTGGCGCTTTGGAGAAAG
66 -AGAAAACGACGTCGTTTGCTTAAAACTTTTGTGGCGCTTTCGAGAAAG
* * * * * * * * *
34388553 CACCGTTAATTCATGA-TATTCTGTGGC-ATTTCTGTATAAACGCCACTAATGTCTCTAAACCTA
1 CGCCGCTAATTCTTGACT-TT-TGCGGCGTTTTTTGTA-AAGCACCACTAATGTCTCTAAAGCTA
* * * * *
34388616 AA-AGAAAACGACGTCGTCTGCTTAACAGTTTTGCGGCGCTTTTGTA-AAAG
63 AACAGAAAACGACGTCGTTTGCTTAAAACTTTTGTGGCGCTTTCG-AGAAAG
* * *
34388666 CGCCGCTAATTTTTGACTTTTGCGACGTTTTGCT-TAAAGCACCACTAATGTCT
1 CGCCGCTAATTCTTGACTTTTGCGGCGTTTT-TTGTAAAGCACCACTAATGTCT
34388719 TTGAAGCTCA
Statistics
Matches: 473, Mismatches: 121, Indels: 61
0.72 0.18 0.09
Matches are distributed among these distances:
112 19 0.04
113 73 0.15
114 214 0.45
115 137 0.29
116 24 0.05
117 5 0.01
118 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (113 bp):
CGCCGCTAATTCTTGACTTTTGCGGCGTTTTTTGTAAAGCACCACTAATGTCTCTAAAGCTAAAC
AGAAAACGACGTCGTTTGCTTAAAACTTTTGTGGCGCTTTCGAGAAAG
Found at i:34396419 original size:16 final size:16
Alignment explanation
Indices: 34396395--34396425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34396385 TCCATCATTT
34396395 TTTGCATTTCTTTTTG
1 TTTGCATTTCTTTTTG
*
34396411 TTTGTATTTCTTTTT
1 TTTGCATTTCTTTTT
34396426 ATGTAATATG
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:0.06, C:0.10, G:0.10, T:0.74
Consensus pattern (16 bp):
TTTGCATTTCTTTTTG
Found at i:34397186 original size:17 final size:17
Alignment explanation
Indices: 34397149--34397196 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
34397139 TACTCTCCCA
34397149 TTTACTTTCCCCCAAAAT
1 TTTACTTT-CCCCAAAAT
34397167 TTTACTTT-CCCAAAACTT
1 TTTACTTTCCCCAAAA--T
*
34397185 TTTATTTTCCCC
1 TTTACTTTCCCC
34397197 CTAAACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 7 0.27
18 16 0.62
19 3 0.12
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTACTTTCCCCAAAAT
Found at i:34407094 original size:59 final size:60
Alignment explanation
Indices: 34407023--34407139 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
34407013 ATCATTTTAA
* * * * *
34407023 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAAATAAATTTAATATTAAATCT
* *
34407082 TATTAAAATAATAGAATGTTTATCTATAAGATAAGCATTAAAATAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC--TAAGATAAACATTAAAATAAATTTAATATTAA
34407140 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.41
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAAATAAATTTAATATTAAATCT
Found at i:34407138 original size:17 final size:19
Alignment explanation
Indices: 34407118--34407160 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
34407108 TAAGATAAGC
34407118 ATTAAAATAA-A-TTTAAT
1 ATTAAAATAACACTTTAAT
*
34407135 ATTAAGATAATCACTTTAAT
1 ATTAAAATAA-CACTTTAAT
34407155 ATTAAA
1 ATTAAA
34407161 TTAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
19 1 0.05
20 11 0.52
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAAAATAACACTTTAAT
Found at i:34416866 original size:51 final size:50
Alignment explanation
Indices: 34416794--34416907 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 50
34416784 AGATCAATTT
* * *
34416794 CATTTTCAGTTTAGGGGAAACCACAT-TCATTTCCAAATG-GTTCTATTTCTC
1 CATTTTCA-TTTTGGGAAAACCA-ATATCATTTCCAAATGATTTC-ATTTCTC
* *
34416845 CATTTTCATTTTGGAGAAAACCATTATCATTTCCAAATTATTTCATTTCTC
1 CATTTTCATTTTGG-GAAAACCAATATCATTTCCAAATGATTTCATTTCTC
34416896 CATTTTCATTTT
1 CATTTTCATTTT
34416908 TATTTTGGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
50 6 0.11
51 46 0.84
52 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (50 bp):
CATTTTCATTTTGGGAAAACCAATATCATTTCCAAATGATTTCATTTCTC
Found at i:34416906 original size:57 final size:57
Alignment explanation
Indices: 34416845--34416960 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 57
34416835 TCTATTTCTC
* * *
34416845 CATTTTCATTTTGGAGAAAACCATTATCATTTCCAAAT-TATT-TCATTTCTCCATTTT
1 CATTTTCATTTTGGAG-AAACCATAATAATTTCCAAATGT-TTCGCATTTCTCCATTTT
* *
34416902 CATTTTTATTTTGGAGAAACCATAATAATTTTCAAATGTTTCGCATTTCTCCATTTT
1 CATTTTCATTTTGGAGAAACCATAATAATTTCCAAATGTTTCGCATTTCTCCATTTT
34416959 CA
1 CA
34416961 CCATTTCGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
56 20 0.38
57 32 0.62
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (57 bp):
CATTTTCATTTTGGAGAAACCATAATAATTTCCAAATGTTTCGCATTTCTCCATTTT
Found at i:34428980 original size:4 final size:4
Alignment explanation
Indices: 34428971--34428995 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34428961 GTTTAACAAC
34428971 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
34428996 ATATGATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:34430837 original size:3 final size:3
Alignment explanation
Indices: 34430819--34430866 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
34430809 AATCCTTTTC
* *
34430819 TAT TGT TAT T-T TAT TAT TAT TAC 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
34430866 T
1 T
34430867 GTTGTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34431058 original size:28 final size:28
Alignment explanation
Indices: 34431030--34431084 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
34431020 TATATAGTTT
34431030 AAATGATTTTATTTTATA-ATACATTTTTA
1 AAAT-ATTTTATTTTATATATAC-TTTTTA
*
34431059 AAATTTTTTATTTTATATATACTTTT
1 AAATATTTTATTTTATATATACTTTT
34431085 ATGCTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (28 bp):
AAATATTTTATTTTATATATACTTTTTA
Found at i:34431866 original size:73 final size:73
Alignment explanation
Indices: 34431726--34431866 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
34431716 TTTTCAAACT
* * * * *
34431726 CAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGACATGATCCCTT
1 CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCATAACTTACTGGACATGATACATT
34431791 TTTTTCCC
66 TTTTTCCC
*
34431799 CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCATAACTTACTAGG-CGTGATACAT
1 CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCATAACTTACT-GGACATGATACAT
34431863 TTTT
65 TTTT
34431867 CTAAATTCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 59 0.97
74 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (73 bp):
CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCATAACTTACTGGACATGATACATT
TTTTTCCC
Found at i:34432191 original size:105 final size:106
Alignment explanation
Indices: 34432009--34432211 Score: 338
Period size: 105 Copynumber: 1.9 Consensus size: 106
34431999 AAAAATAATA
*
34432009 AAGGCAATATTTTGCATTTGGGAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTT
1 AAGGCAATATTTTGCATTTGGGAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
*
34432074 CGTTCGACCAAATAGCCAAATATCCT-TTAAATTTCAGAGT
66 CGTTCGACCAAATAGCCAAAAATCCTCTTAAATTTCAGAGT
* *
34432114 AAGGCAATATTTTGCGTTT-GGAATTTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
1 AAGGCAATATTTTGCATTTGGGAA-TTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
*
34432178 TCGTTTGACCAAATAGCCAAAAATCCTCTTAAAT
65 TCGTTCGACCAAATAGCCAAAAATCCTCTTAAAT
34432212 CTTAATCCAT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
104 4 0.04
105 81 0.89
106 6 0.07
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (106 bp):
AAGGCAATATTTTGCATTTGGGAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
CGTTCGACCAAATAGCCAAAAATCCTCTTAAATTTCAGAGT
Found at i:34449440 original size:117 final size:121
Alignment explanation
Indices: 34449289--34449576 Score: 485
Period size: 117 Copynumber: 2.4 Consensus size: 121
34449279 CAAACTTTAG
* *
34449289 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTACAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTACAGTA
*
34449354 TTATATATTATGATTTTAGTAAATTCATA-TAAGAAT-T-TAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATTAAGAATATCTAATATTAAGAATTTT
* *
34449407 ATTAAATTATATATATTT-TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTACAGTA
*
34449471 TTATATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATTAAGAATATCTAATATTAAGAATTTT
*
34449527 ATTAAATTAAATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
34449577 ATATGATTAA
Statistics
Matches: 158, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
117 70 0.44
118 24 0.15
119 1 0.01
120 32 0.20
121 31 0.20
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (121 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTACAGTA
TTATATATTATGATTTTAGTAAATTAATATTAAGAATATCTAATATTAAGAATTTT
Found at i:34449500 original size:22 final size:21
Alignment explanation
Indices: 34449451--34449502 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
34449441 AATAATTATG
*
34449451 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
34449471 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
34449494 TTAATATTA
1 TTAATATTA
34449503 AGAATATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:34449649 original size:121 final size:117
Alignment explanation
Indices: 34449289--34449632 Score: 328
Period size: 117 Copynumber: 2.9 Consensus size: 117
34449279 CAAACTTTAG
* * * * * *
34449289 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTACAGTA
1 ATTAAATTAAATATATTT-TTAAATTATATTTAATAATAATTATGTTAAA-TATATATTATAG-A
* * **
34449354 TTATATATTATGATTTTAGTAAAT-TCATA-TAAGAAT-T-TAATATTAAGAATTTT
63 TTATATATTATGATATTAAT-AATCT-ATATTAAGAATATATAATAACAAGAATTTT
* *
34449407 ATTAAATTATATATATTTTTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATTAAATTAAATATATTTTTAAATTATATTTAATAATAATTATGTTAAA-TATATATTATAG-AT
* * * * **
34449472 TATATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTAAGAATTTT
64 TATATATTATGATATTAATAATCT-ATATTAAGAATATATAATAACAAGAATTTT
*
34449527 ATTAAATTAAATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA-ATATGATTA-A-AT
1 ATTAAATTAAATATATTT-TTAAATTATATTTAATAATAATTATGTTAAATATAT-ATTATAGAT
* *
34449589 TATTTATTACTGATATTAATAATCT-TATTAA-AATTTAATAATAA
64 TATATATTA-TGATATTAATAATCTATATTAAGAATAT-ATAATAA
34449633 TAACAATAAT
Statistics
Matches: 203, Mismatches: 15, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
115 4 0.02
116 14 0.07
117 77 0.38
118 36 0.18
119 6 0.03
120 35 0.17
121 31 0.15
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (117 bp):
ATTAAATTAAATATATTTTTAAATTATATTTAATAATAATTATGTTAAATATATATTATAGATTA
TATATTATGATATTAATAATCTATATTAAGAATATATAATAACAAGAATTTT
Done.