Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold141
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: 2772588
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 118404 characters in sequence are not A, C, G, or T
File 14 of 18
Found at i:2183515 original size:33 final size:33
Alignment explanation
Indices: 2183473--2183538 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2183463 AAATTCCTAG
2183473 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
2183506 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
2183539 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:2183580 original size:13 final size:13
Alignment explanation
Indices: 2183562--2183613 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
2183552 AGCTTCGTAG
2183562 CGATACATTGTAT
1 CGATACATTGTAT
2183575 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2183594 CGATACATTGTAT
1 CGATACATTGTAT
2183607 CGATACA
1 CGATACA
2183614 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2183594 original size:19 final size:19
Alignment explanation
Indices: 2183570--2183655 Score: 85
Period size: 19 Copynumber: 4.7 Consensus size: 19
2183560 AGCGATACAT
2183570 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2183589 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2183602 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
* *
2183621 TGTATCGATACAATTACTGTT
1 TGTATCGATACAA-AACT-TA
2183642 TGTATCGATACAAA
1 TGTATCGATACAAA
2183656 TTGTTGAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 24 0.43
20 3 0.05
21 14 0.25
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2183603 original size:32 final size:32
Alignment explanation
Indices: 2183562--2183632 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2183552 AGCTTCGTAG
2183562 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2183594 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2183626 CGATACA
1 CGATACA
2183633 ATTACTGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2184503 original size:52 final size:49
Alignment explanation
Indices: 2184393--2185069 Score: 325
Period size: 52 Copynumber: 14.0 Consensus size: 49
2184383 TGAAAAATGA
* *
2184393 CAATGTGCTGATTCATGGCCAGCGACATTTAGACTTGAAGAA--AA-ATGC
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTT-AAGAATGAAGATGC
** * *
2184441 CAATGTGCTGAGGCAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATG---AAGATGC
** * * * * *
2184493 CAATACGCTGATTCAAAGCCAACAATATTGGACTTAAGAATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* ***
2184542 CAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTGAAAGATGATGAAGGCAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--AAGA--ATGAAGATGC
* * * * *
2184594 CAATATGGTGATTCAAGGCCAGCGATATTGGACATAAAGATGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAC-TTAAGA--ATGAAGATGC
* * * ** * *
2184646 CAATATGCTGATTTAAGGCCAGCGATACCGAACTTAA-AGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
**
2184695 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA-AGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATG---AAGATGC
* * *
2184747 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-AA-G--G-TAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* ***
2184790 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA--AAGGCAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAGA-ATGAAGATGC
* * * * *
2184839 CAATATGCTGATTTAAGACCAGCGATATTGGGC-T-----T----ATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
* * *
2184878 CAATGTGCCGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAG--AA--TG--AAGATGC
* *
2184934 CAATGTGCTGATTCAATGCCAGCGATATT-GAGC-T-----T----ATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAGAATGAAGATGC
* * *
2184973 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-AGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGA-ATGAAGATGC
* * * * *
2185021 CAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAA-AA-GAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
2185068 CA
1 CA
2185070 CCAACTTGTG
Statistics
Matches: 490, Mismatches: 87, Indels: 105
0.72 0.13 0.15
Matches are distributed among these distances:
39 60 0.12
40 3 0.01
43 33 0.07
44 1 0.00
45 2 0.00
46 5 0.01
47 15 0.03
48 65 0.13
49 106 0.22
50 7 0.01
51 7 0.01
52 152 0.31
54 1 0.00
55 2 0.00
56 31 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGAATGAAGATGC
Found at i:2184562 original size:101 final size:101
Alignment explanation
Indices: 2184438--2184874 Score: 353
Period size: 101 Copynumber: 4.4 Consensus size: 101
2184428 TGAAGAAAAA
* ** * * *
2184438 TGCCAATGTGCTGAGGCAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATACGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-GAATGATAAAGATGCCAATATGCTG
* * *
2184503 ATTCAAAGCCAACAATATTGGACTTAAGA-ATGAAGG
65 ATTCAAGGCCAGCGATATTGGACTTAAGAGATGAAGG
* * * * *** *
2184539 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTGAAAGATGATGAAGGCACCAATATGGT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AGA-ATGATAAAGATGCCAATATGCT
*
2184603 GATTCAAGGCCAGCGATATTGGACATAAAGATGATGAAGG
64 GATTCAAGGCCAGCGATATTGGAC-TTAAGA-GATGAAGG
* * ** * *
2184643 TGCCAATATGCTGATTTAAGGCCAGCGATACCGAACTTA-AA-GATAAAGATGCCAATGTGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAGAATGATAAAGATGCCAATATGCTGA
*
2184706 TTCAAGGCCAGCGACATTGGACTTAA-AGATGACAAAGG
66 TTCAAGGCCAGCGATATTGGACTTAAGAGATG---AAGG
* * * *
2184744 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AA-G-----G-TACCAATGTGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAGAATGATAAAGATGCCAATATGCTGA
* * **
2184801 TTCAAGGCCAGCGACATTGGTCTTAA-AGACAAAGG
66 TTCAAGGCCAGCGATATTGGACTTAAGAGATGAAGG
** * * * *
2184836 CACCAATATGCTGATTTAAGACCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
2184875 TGCCAATGTG
Statistics
Matches: 284, Mismatches: 43, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
92 39 0.14
95 41 0.14
96 1 0.00
98 4 0.01
99 1 0.00
100 6 0.02
101 147 0.52
102 6 0.02
103 1 0.00
104 36 0.13
105 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (101 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAGAATGATAAAGATGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTAAGAGATGAAGG
Found at i:2184624 original size:153 final size:153
Alignment explanation
Indices: 2184393--2184785 Score: 433
Period size: 153 Copynumber: 2.6 Consensus size: 153
2184383 TGAAAAATGA
* * * * * *
2184393 CAATGTGCTGATTCATGGCCAGCGACATTTAGACTTGAAGA--A-AAATG--CCAATGTGCTGAG
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGACAAAGGCACCAATATGCTGAT
* * * * *
2184453 GCAAGGCCAGCGACATTGGGCTT-AGGAATGTTAAAGATGCCAATACGCTGATTCAAAGCCAACA
65 TCAAGGCCAGCGATATTGGACTTAAAG-ATGATAAAGATGCCAATACGCTGATTCAAAGCCAACA
** * * *
2184517 ATATTGGACTT-AAGAATGAAGGTGC
129 ATACCGAACTTAAAG-ATAAAGATGC
* ** *
2184542 CAATGTGCTGATTCAAGGCCAGCGACATTGG-TTTGAAAGATGATGAAGGCACCAATATGGTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGGCACCAATATGCTGAT
* * * * * * * *
2184606 TCAAGGCCAGCGATATTGGACATAAAGATGATGAAGGTGCCAATATGCTGATTTAAGGCCAGCGA
65 TCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGATGCCAATACGCTGATTCAAAGCCAACAA
2184671 TACCGAACTTAAAGATAAAGATGC
130 TACCGAACTTAAAGATAAAGATGC
*
2184695 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATT
2184760 CAAGGCCAGCGATATTGGACTTAAAG
66 CAAGGCCAGCGATATTGGACTTAAAG
2184786 GTACCAATGT
Statistics
Matches: 202, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
147 2 0.01
148 7 0.03
149 26 0.13
150 1 0.00
151 3 0.01
153 156 0.77
154 7 0.03
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (153 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGATGATAAAGATGCCAATACGCTGATTCAAAGCCAACAAT
ACCGAACTTAAAGATAAAGATGC
Found at i:2184800 original size:43 final size:43
Alignment explanation
Indices: 2184746--2184916 Score: 161
Period size: 49 Copynumber: 3.9 Consensus size: 43
2184736 GACAAAGGCG
* *
2184746 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTA
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTA
* *
2184789 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGCA
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT------AAAGGTA
* * * * *
2184838 CCAATATGCTGATTTAAGACCAGCGATATTGGGCTT--A--TG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTA
* *
2184877 CCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTTAAAG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
2184917 ACAAGGTGCC
Statistics
Matches: 102, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
39 30 0.29
41 2 0.02
43 33 0.32
49 37 0.36
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (43 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTA
Found at i:2184829 original size:95 final size:95
Alignment explanation
Indices: 2184593--2185058 Score: 464
Period size: 95 Copynumber: 5.0 Consensus size: 95
2184583 GATGAAGGCA
* * * * * **
2184593 CCAATATGGTGATTCAAGGCCAGCGATATTGGACATAAAGATGATGAAGGTGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGAT
* ** *
2184658 TTAAGGCCAGCGATACCGAACTTAAAGATAAAGATG
66 TCAAGGCCAGCGATATTGGACTTAAAG-----G-TG
* *
2184694 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGAT
*
2184759 TCAAGGCCAGCGATATTGGACTTAAAGGTA
66 TCAAGGCCAGCGATATTGGACTTAAAGGTG
**
2184789 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGGCACCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGAT
* * *
2184851 TTAAGACCAGCGATATTGGGCTT--A--TG
66 TCAAGGCCAGCGATATTGGACTTAAAGGTG
* * *
2184877 CCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATA--TGCCAATGT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG---A--TGACAA-AGGTGCCAATAT
*
2184940 GCTGATTCAATGCCAGCGATATT-GAGCTT--A--TG
60 GCTGATTCAAGGCCAGCGATATTGGA-CTTAAAGGTG
*
2184972 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGTTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGAT
*
2185033 TCAAGGCCAGCGATATTGGGCTTAAA
66 TCAAGGCCAGCGATATTGGACTTAAA
2185059 AGAAGACGCC
Statistics
Matches: 317, Mismatches: 33, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
87 34 0.11
88 37 0.12
89 3 0.01
90 2 0.01
92 42 0.13
93 2 0.01
94 5 0.02
95 103 0.32
96 5 0.02
97 1 0.00
101 81 0.26
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (95 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAGGTG
Found at i:2184900 original size:39 final size:39
Alignment explanation
Indices: 2184838--2184913 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
2184828 GACAAAGGCA
* * *
2184838 CCAATATGCTGATTTAAGACCAGCGATATTGGGCTTATG
1 CCAATATGCCGATTCAAGACCAGCGACATTGGGCTTATG
* * *
2184877 CCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTTA
1 CCAATATGCCGATTCAAGACCAGCGACATTGGGCTTA
2184914 AAGACAAGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
CCAATATGCCGATTCAAGACCAGCGACATTGGGCTTATG
Found at i:2184999 original size:183 final size:179
Alignment explanation
Indices: 2184691--2185056 Score: 497
Period size: 183 Copynumber: 2.0 Consensus size: 179
2184681 AAAGATAAAG
*
2184691 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 ATGCCAATGTGCCGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA-GCGCCAATATGCT
2184756 GATTCAAGGCCAGCGATATTGGACTTAAAGGTACCAATGTGCTGATTCAAGGCCAGCGACATTGG
65 GATTCAAGGCCAGCGATATTGGACTT-AA-GTACCAATGTGCTGATTCAAGGCCAGCGACATTGG
*
2184821 TCTTAAAGACAAAGGCACCAATATGCTGATTTAAGACCAGCGATATTGGGCTT
128 TCTTAAAGAC-AAGGCACCAATATGCTGATTCAAGACCAGCGATATTGGGCTT
* * *
2184874 ATGCCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATA-TGCCAAT
1 ATGCCAATGTGCCGATTCAAGGCCAGCGACATTGGACTTAAAG---A--TGACAA-AGCGCCAAT
* * *
2184938 GTGCTGATTCAATGCCAGCGATATT-GAGCTT-A-TGCCAATGTGCTGATTCAAGGCCAGCGACA
60 ATGCTGATTCAAGGCCAGCGATATTGGA-CTTAAGTACCAATGTGCTGATTCAAGGCCAGCGACA
** * *
2185000 TTGGTCTTAAAGACAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTT
124 TTGGTCTTAAAGACAAGGCACCAATATGCTGATTCAAGACCAGCGATATTGGGCTT
2185056 A
1 A
2185057 AAAGAAGACG
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
182 38 0.23
183 84 0.51
185 1 0.01
186 3 0.02
187 32 0.20
188 5 0.03
189 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (179 bp):
ATGCCAATGTGCCGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT
TAAAGACAAGGCACCAATATGCTGATTCAAGACCAGCGATATTGGGCTT
Found at i:2185135 original size:28 final size:30
Alignment explanation
Indices: 2185066--2185143 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 30
2185056 AAAAGAAGAC
2185066 GCCACCAACTTGTGTGGACTTTTGAAAGGGTT
1 GCCACCAACTTGTGT-G-CTTTTGAAAGGGTT
*
2185098 G-TACCAACTTGTGTGCTTTTG-AA-GGTT
1 GCCACCAACTTGTGTGCTTTTGAAAGGGTT
* *
2185125 GCCACTAACTTGTGGGCTT
1 GCCACCAACTTGTGTGCTT
2185144 AAAAGGAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
28 16 0.39
29 6 0.15
30 1 0.02
31 12 0.29
32 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (30 bp):
GCCACCAACTTGTGTGCTTTTGAAAGGGTT
Found at i:2185171 original size:33 final size:33
Alignment explanation
Indices: 2185134--2185562 Score: 368
Period size: 33 Copynumber: 13.3 Consensus size: 33
2185124 TGCCACTAAC
* *
2185134 TTGTGGGCTTAAAAGGAGAAAGATGCCACGGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
*
2185167 TTGTGGACTTAAAA-GAAACAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGAAA-AAGATGCCACGGAG
* * * *
2185200 TTGTGGGCTTTAAAAGGGGAAAAGGTGCCA-TGAG
1 TTGTGGAC-TTAAAA-GGAAAAAGATGCCACGGAG
* *
2185234 TCGTGGACTTAAAAGGAAAAAGATGCTACGGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
* *
2185267 TTGTGGACTTAAAAGGAACAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
* * * * *
2185300 TTGTGGGCTTTAAAAGGGGAAAGGGTGCCACAGAG
1 TTGTGGAC-TTAAAA-GGAAAAAGATGCCACGGAG
* *
2185335 TCGTGGACTTAAAAGGAAAAAGATGCCACAGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
*
2185368 TTGTGGACTTAAAAGG-----G-TACCACGGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
*
2185395 TTGTGGACTTAAAAGGGAAAAAGATGCCACGAAG
1 TTGTGGACTTAAAA-GGAAAAAGATGCCACGGAG
* *
2185429 TTATGGACTTAAAAGG-AAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
* * ** *
2185461 TGGTGGGCTTTGAA-G-AAAAGATGCCACTGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
* * * *
2185492 TCGTGGACTT---TGGAAAGAGATGCCACTGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
* ** *
2185522 TCGTGGACTTTGAA-G-AAAAGATGCCACTGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
*
2185553 TCGTGGACTT
1 TTGTGGACTT
2185563 TAGGACAAAA
Statistics
Matches: 330, Mismatches: 47, Indels: 40
0.79 0.11 0.10
Matches are distributed among these distances:
27 22 0.07
28 3 0.01
29 1 0.00
30 25 0.08
31 48 0.15
32 38 0.12
33 112 0.34
34 48 0.15
35 30 0.09
36 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (33 bp):
TTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
Found at i:2185240 original size:67 final size:65
Alignment explanation
Indices: 2185134--2185562 Score: 355
Period size: 61 Copynumber: 6.7 Consensus size: 65
2185124 TGCCACTAAC
*
2185134 TTGTGGGCTTAAAA-GGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGAAACAAGGTGCCACGG
1 TTGTGGACTTAAAAGGGA-AAAGATGCCACGGAGTTGTGGACTTAAAAGAAA-AAGGTGCCACGG
2185198 AG
64 AG
* * * * * *
2185200 TTGTGGGCTTTAAAAGGGGAAAAGGTGCCA-TGAGTCGTGGACTTAAAAGGAAAAAGATGCTACG
1 TTGTGGAC-TTAAAA-GGGAAAAGATGCCACGGAGTTGTGGACTTAAAA-GAAAAAGGTGCCACG
2185264 GAG
63 GAG
* * * *
2185267 TTGTGGACTTAAAA-GGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGGAAAGGGTGCCAC
1 TTGTGGACTTAAAAGGGAA-AAGATGCCACGGAGTTGTGGAC-TTAAAA--GAAAAAGGTGCCAC
*
2185331 AGAG
62 GGAG
* * * *
2185335 TCGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAG-----GGTACCACGGAG
1 TTGTGGACTTAAAAGGGAAAAGATGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAG
* * *
2185395 TTGTGGACTTAAAAGGGAAAAAGATGCCACGAAGTTATGGACTTAAAAGGAAAAGGTGCCACGGA
1 TTGTGGACTTAAAAGGG-AAAAGATGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGA
2185460 G
65 G
* * ** * * ** * * *
2185461 TGGTGGGCTTTGAA--GAAAAGATGCCACTGAGTCGTGGACTT--TGGAAAGAGATGCCACTGAG
1 TTGTGGACTTAAAAGGGAAAAGATGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAG
* ** * *
2185522 TCGTGGACTTTGAA--GAAAAGATGCCACTGAGTCGTGGACTT
1 TTGTGGACTTAAAAGGGAAAAGATGCCACGGAGTTGTGGACTT
2185563 TAGGACAAAA
Statistics
Matches: 305, Mismatches: 43, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
60 25 0.08
61 81 0.27
63 22 0.07
64 5 0.02
65 10 0.03
66 44 0.14
67 53 0.17
68 59 0.19
69 6 0.02
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (65 bp):
TTGTGGACTTAAAAGGGAAAAGATGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAG
Found at i:2185273 original size:100 final size:99
Alignment explanation
Indices: 2185136--2185502 Score: 444
Period size: 100 Copynumber: 3.7 Consensus size: 99
2185126 CCACTAACTT
* *
2185136 GTGGGCTTAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGAAACAAGGTGCCACGGAGT
1 GTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG-AACAAGGTGCCACGGAGT
*
2185201 TGTGGGCTTTAAAAGGGGAAAAGGTGCCATGAGTC
65 TGTGGGCTTTAAAAGGGGAAAAGGTGCCAAGAGTC
*
2185236 GTGGACTTAAAAGGAAAAAGATGCTACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGT
1 GTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA-GAACAAGGTGCCACGGAGT
*
2185301 TGTGGGCTTTAAAAGGGGAAAGGGTGCCACAGAGTC
65 TGTGGGCTTTAAAAGGGGAAAAGGTGCCA-AGAGTC
* *
2185337 GTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAG-----GGTACCACGGAGTT
1 GTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGAACAAGGTGCCACGGAGTT
* * * * *
2185397 GTGGAC-TTAAAAGGGAAAAAGATGCCACGAAGTT
66 GTGGGCTTTAAAAGGGGAAAAGGTGCCAAG-AGTC
* * * * ** * * *
2185431 ATGGACTTAAAAGG-AAAAGGTGCCACGGAGTGGTGGGCTTTGAAGAA-AAGATGCCACTGAGTC
1 GTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGAACAAGGTGCCACGGAGTT
*
2185494 GTGGACTTT
66 GTGGGCTTT
2185503 GGAAAGAGAT
Statistics
Matches: 234, Mismatches: 25, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
93 26 0.11
94 34 0.15
95 18 0.08
97 16 0.07
98 2 0.01
100 89 0.38
101 49 0.21
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (99 bp):
GTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGAACAAGGTGCCACGGAGTT
GTGGGCTTTAAAAGGGGAAAAGGTGCCAAGAGTC
Found at i:2185390 original size:27 final size:27
Alignment explanation
Indices: 2185360--2185411 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
2185350 GAAAAAGATG
2185360 CCACAGAGTTGTGGACTTAAAAGGGTA
1 CCACAGAGTTGTGGACTTAAAAGGGTA
*
2185387 CCACGGAGTTGTGGACTTAAAAGGG
1 CCACAGAGTTGTGGACTTAAAAGGG
2185412 AAAAAGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (27 bp):
CCACAGAGTTGTGGACTTAAAAGGGTA
Found at i:2185486 original size:31 final size:30
Alignment explanation
Indices: 2185444--2185690 Score: 277
Period size: 31 Copynumber: 8.1 Consensus size: 30
2185434 GACTTAAAAG
* * * *
2185444 GAAAAGGTGCCACGGAGTGGTGGGCTTTGAA
1 GAAAAGATGCCACTGAGTCGTGGACTTTG-A
2185475 GAAAAGATGCCACTGAGTCGTGGACTTTG-
1 GAAAAGATGCCACTGAGTCGTGGACTTTGA
2185504 GAAAGAGATGCCACTGAGTCGTGGACTTTGAA
1 GAAA-AGATGCCACTGAGTCGTGGACTTTG-A
2185536 GAAAAGATGCCACTGAGTCGTGGACTTT-A
1 GAAAAGATGCCACTGAGTCGTGGACTTTGA
* *
2185565 GGACAAA-ATGCCACTGAATCGTGGGCTTTGA
1 -GA-AAAGATGCCACTGAGTCGTGGACTTTGA
* *
2185596 GAAGAGATTGCCACTGAGTCGTGGACTTTGG
1 GAAAAGA-TGCCACTGAGTCGTGGACTTTGA
* * *
2185627 GACAAA-ATGCCTCTGAGTTGTGGGCTTTGA
1 GA-AAAGATGCCACTGAGTCGTGGACTTTGA
* *
2185657 GAAGAGATTGCCACTGAGTCGTGGACTTTAA
1 GAAAAGA-TGCCACTGAGTCGTGGACTTTGA
2185688 GAA
1 GAA
2185691 GGTATTTGAA
Statistics
Matches: 185, Mismatches: 20, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
29 9 0.05
30 72 0.39
31 98 0.53
32 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (30 bp):
GAAAAGATGCCACTGAGTCGTGGACTTTGA
Found at i:2185541 original size:61 final size:61
Alignment explanation
Indices: 2185451--2185686 Score: 327
Period size: 61 Copynumber: 3.9 Consensus size: 61
2185441 AAGGAAAAGG
* *
2185451 TGCCACGGAGTGGTGGGCTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTT-GGA-AAGAGA
1 TGCCACTGAGTCGTGGGCTTTG-AGAAAAGATTGCCACTGAGTCGTGGACTTTAGGACAA-A-A
*
2185512 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTTAGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTG-AGAAAAGATTGCCACTGAGTCGTGGACTTTAGGACAAAA
* * *
2185573 TGCCACTGAATCGTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAGAAAAGATTGCCACTGAGTCGTGGACTTTAGGACAAAA
* * *
2185634 TGCCTCTGAGTTGTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTA
1 TGCCACTGAGTCGTGGGCTTTGAGAAAAGATTGCCACTGAGTCGTGGACTTTA
2185687 AGAAGGTATT
Statistics
Matches: 161, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
60 7 0.04
61 148 0.92
62 4 0.02
63 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGGCTTTGAGAAAAGATTGCCACTGAGTCGTGGACTTTAGGACAAAA
Found at i:2189822 original size:52 final size:51
Alignment explanation
Indices: 2189737--2189860 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
2189727 ATATGAAAAG
* *
2189737 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
2189788 CTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
2189840 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2189861 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:2189887 original size:13 final size:13
Alignment explanation
Indices: 2189869--2189893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2189859 CAAAGATCAG
2189869 TGTATCGATACAA
1 TGTATCGATACAA
2189882 TGTATCGATACA
1 TGTATCGATACA
2189894 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2189975 original size:13 final size:13
Alignment explanation
Indices: 2189957--2189981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2189947 AAAAAAAATA
2189957 TGTATCGATACAT
1 TGTATCGATACAT
2189970 TGTATCGATACA
1 TGTATCGATACA
2189982 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2190430 original size:13 final size:13
Alignment explanation
Indices: 2190412--2190454 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
2190402 GCCTTTGCAC
*
2190412 TTTTTTTTGTGTG
1 TTTTTTTTTTGTG
*
2190425 TTTTTTTTTTTTG
1 TTTTTTTTTTGTG
2190438 TTTTGTTTTTTGTG
1 TTTT-TTTTTTGTG
2190452 TTT
1 TTT
2190455 ACTTTTGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTGTG
Found at i:2192778 original size:22 final size:22
Alignment explanation
Indices: 2192753--2192821 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
2192743 ATGCTGATTC
2192753 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
2192775 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
2192796 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
2192818 AAGG
1 AAGG
2192822 TGAAGGTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:2192847 original size:49 final size:49
Alignment explanation
Indices: 2192629--2192915 Score: 318
Period size: 49 Copynumber: 5.8 Consensus size: 49
2192619 GTGATAAAGA
* * * *
2192629 TGCCAATATG-TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCT-GATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * *
2192683 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
2192736 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2192779 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2192828 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2192877 TGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2192916 GAAGGGTTGC
Statistics
Matches: 205, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
43 41 0.20
48 1 0.00
49 87 0.42
52 34 0.17
53 6 0.03
54 1 0.00
55 34 0.17
56 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:2193046 original size:30 final size:30
Alignment explanation
Indices: 2192936--2193363 Score: 310
Period size: 30 Copynumber: 14.5 Consensus size: 30
2192926 CACCGACTTG
* * * *
2192936 TGTGGGCTTTGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2192966 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2192993 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
*
2193021 TGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* * * *
2193051 TGTGGGCTTTTGAACAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2193081 TGTGGGCTTTTATGAAAAATATGCCACTAACT
1 TGTGGGC-TTT-TGAAAAAGATGCCACTGACT
* * *
2193113 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2193143 TGTGGGC---TG-AAAAGAGTGCTA-TAGAGT
1 TGTGGGCTTTTGAAAAAGA-TGCCACT-GACT
* ** * *
2193170 TGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTT----TTGAAAAAGA-TGCCACTGACT
* * *
2193205 TGTGGAC-TTTGGAAAAGATGCCACCGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
** * * *
2193234 TGTGGGCTTCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2193264 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* * *
2193291 TGTGGGCTTTCGAAAAAAATGCCACCGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
*
2193321 TGTGGGC-TTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
*
2193350 TGTGGACTTTTGAA
1 TGTGGGCTTTTGAA
2193364 GGGTGATGAA
Statistics
Matches: 322, Mismatches: 54, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
26 5 0.02
27 56 0.17
28 33 0.10
29 46 0.14
30 131 0.41
31 6 0.02
32 23 0.07
34 2 0.01
35 20 0.06
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAAGATGCCACTGACT
Found at i:2193115 original size:62 final size:60
Alignment explanation
Indices: 2192936--2193363 Score: 337
Period size: 57 Copynumber: 7.2 Consensus size: 60
2192926 CACCGACTTG
* * * **
2192936 TGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGT-TGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATATGCCACTGACT
* *
2192993 TGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATATGCCACTGACT
* *
2193051 TGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTTATGAAAAATATGCCACTAACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGC-TTT-TGAAAAATATGCCACTGACT
* * *
2193113 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGC---TGAAAAGA-GTGCTA-TAGAGT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAA-ATATGCCACT-GACT
* ** * ** * * * * *
2193170 TGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGAC-TTTGGAAAAGATGCCACCGACT
1 TGTGGGCTT----TTG-AAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATATGCCACTGACT
** * * **
2193234 TGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGT-TGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATATGCCACTGACT
* *** ** *
2193291 TGTGGGCTTTCGAAAAAAATGCCACCGACTTGTGGGC-TTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATATGCCACTGACT
*
2193350 TGTGGACTTTTGAA
1 TGTGGGCTTTTGAA
2193364 GGGTGATGAA
Statistics
Matches: 301, Mismatches: 50, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
55 22 0.07
56 5 0.02
57 77 0.26
58 27 0.09
59 48 0.16
60 22 0.07
61 4 0.01
62 75 0.25
63 1 0.00
64 20 0.07
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (60 bp):
TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATATGCCACTGACT
Found at i:2193136 original size:92 final size:86
Alignment explanation
Indices: 2192936--2193150 Score: 270
Period size: 92 Copynumber: 2.4 Consensus size: 86
2192926 CACCGACTTG
* * * *
2192936 TGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGC
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGGTGCCACTAACTTGTGGGC
** *
2193000 TTTTAAAGGTTGCCACTGACT
66 TTTTAAAAATTGCCACTAACT
***
2193021 TGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGG
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-A-AGGGTGCCACTAACTTGTGG
2193086 GCTTTTATGAAAAATATGCCACTAACT
64 GC-TTT-T-AAAAAT-TGCCACTAACT
*
2193113 TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCT
2193151 GAAAAGAGTG
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
85 32 0.29
86 4 0.04
87 1 0.01
88 20 0.18
89 3 0.03
90 1 0.01
91 4 0.04
92 44 0.40
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (86 bp):
TGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGGTGCCACTAACTTGTGGGC
TTTTAAAAATTGCCACTAACT
Found at i:2193236 original size:29 final size:29
Alignment explanation
Indices: 2193187--2193359 Score: 170
Period size: 29 Copynumber: 5.9 Consensus size: 29
2193177 TTACAAAAGA
* * *
2193187 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
2193217 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2193246 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
2193275 -AAGGTTGCCACTGACTTGTGGGCTTTCGA
1 AAAAGATGCCACTGACTTGTGGGCTTT-GG
* * *
2193304 AAAAAATGCCACCGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2193333 AAAAAATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
2193360 TGAAGGGTGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.17
28 2 0.02
29 51 0.42
30 47 0.39
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:2194773 original size:1 final size:1
Alignment explanation
Indices: 2194769--2194895 Score: 83
Period size: 1 Copynumber: 127.0 Consensus size: 1
2194759 CCGGACCCCC
* * * * * * ** * *
2194769 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTTCCTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** ** **
2194834 TATTTTTTTTTTGTTTTTGTTTTTTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2194896 GGAGGACGCC
Statistics
Matches: 94, Mismatches: 32, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 94 1.00
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:2194790 original size:18 final size:17
Alignment explanation
Indices: 2194769--2194892 Score: 121
Period size: 16 Copynumber: 7.4 Consensus size: 17
2194759 CCGGACCCCC
2194769 TTTTTTGTTTTTGTTTGT
1 TTTTTTGTTTTT-TTTGT
* *
2194787 TTTTTTATTGTTTTTGT
1 TTTTTTGTTTTTTTTGT
2194804 TTTTTT-TTTTCCTTTTGT
1 TTTTTTGTTTT--TTTTGT
*
2194822 TTTTTTGTTTTTTAT-T
1 TTTTTTGTTTTTTTTGT
*
2194838 TTTTTT-TTGTTTTTGT
1 TTTTTTGTTTTTTTTGT
*
2194854 TTTTTT-TTTTTTTTGG
1 TTTTTTGTTTTTTTTGT
** *
2194870 TTTTTCATTTTTTTCGT
1 TTTTTTGTTTTTTTTGT
2194887 TTTTTT
1 TTTTTT
2194893 TTTGGAGGAC
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
15 6 0.07
16 30 0.34
17 27 0.30
18 22 0.25
19 4 0.04
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.85
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTGT
Found at i:2194855 original size:50 final size:49
Alignment explanation
Indices: 2194769--2194896 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 49
2194759 CCGGACCCCC
*
2194769 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTTCCTTTT-GT
1 TTTTTTGTTTTT-TAT-TTTTTTT-TTGTTTTTGTTTTTTTTTTT--TTTTGGT
2194822 TTTTTTGTTTTTTATTTTTTTTTTGTTTTTGTTTTTTTTTTTTTTTGGT
1 TTTTTTGTTTTTTATTTTTTTTTTGTTTTTGTTTTTTTTTTTTTTTGGT
**
2194871 TTTTCATT-TTTTTCGTTTTTTTTTTG
1 TTTT--TTGTTTTTTATTTTTTTTTTG
2194897 GAGGACGCCG
Statistics
Matches: 69, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
48 4 0.06
49 6 0.09
50 36 0.52
51 9 0.13
52 2 0.03
53 12 0.17
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.84
Consensus pattern (49 bp):
TTTTTTGTTTTTTATTTTTTTTTTGTTTTTGTTTTTTTTTTTTTTTGGT
Found at i:2194874 original size:32 final size:31
Alignment explanation
Indices: 2194770--2194892 Score: 106
Period size: 33 Copynumber: 3.7 Consensus size: 31
2194760 CGGACCCCCT
*
2194770 TTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTT
1 TTTTT-TTTTT-TTTGTTTTTTTATT-TTTTT-TG
*
2194805 TTTTTTTTTCCTTTTGTTTTTTTGTTTTTTATT-
1 TTTTTTTTT--TTTTGTTTTTTTATTTTTT-TTG
2194838 TTTTTTTTGTTTTTGTTTTTTT-TTTTTTTTGG
1 TTTTTTTT-TTTTTGTTTTTTTATTTTTTTT-G
*
2194870 TTTTTCATTTTTTTCGTTTTTTT
1 TTTTT--TTTTTTTTGTTTTTTT
2194893 TTTGGAGGAC
Statistics
Matches: 78, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
30 2 0.03
31 6 0.08
32 17 0.22
33 20 0.26
34 13 0.17
35 19 0.24
36 1 0.01
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.85
Consensus pattern (31 bp):
TTTTTTTTTTTTTGTTTTTTTATTTTTTTTG
Found at i:2204598 original size:10 final size:10
Alignment explanation
Indices: 2204583--2204609 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2204573 ATGTATCAAG
2204583 CAAAAACAAA
1 CAAAAACAAA
2204593 CAAAAACAAA
1 CAAAAACAAA
2204603 CAAAAAC
1 CAAAAAC
2204610 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:2208843 original size:31 final size:33
Alignment explanation
Indices: 2208771--2208848 Score: 124
Period size: 35 Copynumber: 2.4 Consensus size: 33
2208761 CATTTAATAG
2208771 TGTATCGATACATCTGGGCAAACTTGCCTGCATAA
1 TGTATCGATACATCTGGGCAAACTTGCCTGC--AA
2208806 TGTATCGATACATCTGGGCAAA-TTGCCTGC-A
1 TGTATCGATACATCTGGGCAAACTTGCCTGCAA
2208837 TGTATCGATACA
1 TGTATCGATACA
2208849 AAGATCAGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
31 13 0.30
34 8 0.19
35 22 0.51
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (33 bp):
TGTATCGATACATCTGGGCAAACTTGCCTGCAA
Found at i:2208875 original size:13 final size:13
Alignment explanation
Indices: 2208857--2208915 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
2208847 CAAAGATCAG
2208857 TGTATCGATACAA
1 TGTATCGATACAA
2208870 TGTATCGATAC-A
1 TGTATCGATACAA
2208882 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
2208891 TGTATCGATACAA
1 TGTATCGATACAA
2208904 TGTATCGATACA
1 TGTATCGATACA
2208916 TTTGAGTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 4 0.10
13 25 0.64
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2208900 original size:34 final size:34
Alignment explanation
Indices: 2208857--2208936 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
2208847 CAAAGATCAG
2208857 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
2208891 TGTATCGATACAATGTATCGATACATTTGAGTAA
1 TGTATCGATACAATGTATCGATACATTTGAGTAA
2208925 TGTATCGATACA
1 TGTATCGATACA
2208937 TTTTTTGGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (34 bp):
TGTATCGATACAATGTATCGATACATTTGAGTAA
Found at i:2208997 original size:13 final size:13
Alignment explanation
Indices: 2208979--2209003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2208969 AAAAAAAATA
2208979 TGTATCGATACAT
1 TGTATCGATACAT
2208992 TGTATCGATACA
1 TGTATCGATACA
2209004 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2209452 original size:13 final size:13
Alignment explanation
Indices: 2209434--2209472 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
2209424 GCCTTTGCAC
2209434 TTTTTTTTGTGTG
1 TTTTTTTTGTGTG
* *
2209447 TTTTTTTTTTGTT
1 TTTTTTTTGTGTG
2209460 TTGTTTTTTGTGT
1 TT-TTTTTTGTGT
2209473 TTACTTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (13 bp):
TTTTTTTTGTGTG
Found at i:2209452 original size:15 final size:16
Alignment explanation
Indices: 2209434--2209468 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2209424 GCCTTTGCAC
2209434 TTTTTTTTG-TGTGTT
1 TTTTTTTTGTTGTGTT
*
2209449 TTTTTTTTGTTTTGTT
1 TTTTTTTTGTTGTGTT
2209465 TTTT
1 TTTT
2209469 GTGTTTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (16 bp):
TTTTTTTTGTTGTGTT
Found at i:2215395 original size:24 final size:24
Alignment explanation
Indices: 2215350--2215396 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2215340 TTTTATTTAG
* *
2215350 AAGTTAGAAAAAATAGTAAAAAAC
1 AAGTTACAAAAAACAGTAAAAAAC
* *
2215374 AAGTTACAAAACACAGTTAAAAA
1 AAGTTACAAAAAACAGTAAAAAA
2215397 TCAAAGCCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.17
Consensus pattern (24 bp):
AAGTTACAAAAAACAGTAAAAAAC
Found at i:2215881 original size:20 final size:20
Alignment explanation
Indices: 2215856--2216012 Score: 94
Period size: 20 Copynumber: 7.8 Consensus size: 20
2215846 TTTGCATAAT
2215856 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
2215876 TTGTATTGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* *
2215896 TTATATAGATACATTG-T-A
1 TTGTATCGATACATTGTTCA
* * *
2215914 TCG-ATAC-ATTC-TGGGTTTACCTA
1 TTGTAT-CGATACAT-TG-TT--C-A
*
2215937 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
* *
2215958 TTCTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
2215978 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
2215998 ATGTATCGATACATT
1 TTGTATCGATACATT
2216013 TAGGCATTTT
Statistics
Matches: 104, Mismatches: 19, Indels: 28
0.69 0.13 0.19
Matches are distributed among these distances:
16 1 0.01
17 6 0.06
18 2 0.02
19 3 0.03
20 78 0.75
21 2 0.02
22 1 0.01
23 3 0.03
24 2 0.02
25 5 0.05
26 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:2218602 original size:28 final size:27
Alignment explanation
Indices: 2218543--2218614 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
2218533 TCACAATCGG
* *
2218543 GGATACTCCAACCCTGTTATTTCATTGG
1 GGATACTCCAACCCCGTTATTTCA-TGA
2218571 GGATACTCCAACCCCGTTATTTTCGA-GA
1 GGATACTCCAACCCCGTTA-TTTC-ATGA
2218599 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
2218615 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 35 0.88
29 4 0.10
30 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTCATGA
Found at i:2218659 original size:79 final size:78
Alignment explanation
Indices: 2218571--2218905 Score: 300
Period size: 79 Copynumber: 4.2 Consensus size: 78
2218561 ATTTCATTGG
* *
2218571 GGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAATATTAA
1 GGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAACATCAA
*
2218636 TTTCTCATAATCGG
66 TTT-TCATAATCGA
* * *
2218650 GGATACTCCAACCCCGTTATTTTCGCGAGGATACTCCAACCCCGGCCTTT-TTTCTAAAGCATCA
1 GGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCC-GACTTTATTTCTAAAACATCA
**
2218714 ATTTTTCATAGGCGA
65 A-TTTTCATAATCGA
* * * * ** ** *
2218729 GGATACTCTAATCTCGTTATTTTTGATG-GGATACTTTAACCCCGGTTTTATTT-TCAAAACACC
1 GGATACTCCAACCCCGTTATTTTCGA-GAGGATACTCCAACCCCGACTTTATTTCT-AAAACATC
* *
2218792 GATTTTCCACAATCGA
64 AATTTT-CATAATCGA
* * * * * * *
2218808 GGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCTCGATTTTA-TTCTCAAAACGTCG
1 GGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCT-AAAACATCA
* *
2218872 ATTTCCTATAATCAA
65 ATTTTC-ATAATCGA
*
2218887 GGGATACTCCAGCCCCGTT
1 -GGATACTCCAACCCCGTT
2218906 GTCATCTTTA
Statistics
Matches: 206, Mismatches: 40, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
78 13 0.06
79 168 0.82
80 25 0.12
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTTCTAAAACATCAA
TTTTCATAATCGA
Found at i:2221259 original size:13 final size:13
Alignment explanation
Indices: 2221243--2221272 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2221233 ATACATTGTT
*
2221243 CATTGTATTGATA
1 CATTGTATCGATA
2221256 CATTGTATCGATA
1 CATTGTATCGATA
2221269 CATT
1 CATT
2221273 CTAGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2222046 original size:13 final size:13
Alignment explanation
Indices: 2222030--2222058 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2222020 ATACATTGTT
2222030 CATTGTATCGATA
1 CATTGTATCGATA
2222043 CATTGTATCGATA
1 CATTGTATCGATA
2222056 CAT
1 CAT
2222059 ACTGGGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2224290 original size:79 final size:79
Alignment explanation
Indices: 2224201--2224498 Score: 370
Period size: 79 Copynumber: 3.8 Consensus size: 79
2224191 TTTTCATCTC
* * *
2224201 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-TCAATTTTTCATAATCTAGGATACT-TAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACT-GATTTTTCATAATCGAGGATACTCTAA
2224264 ATCCCGTTATTTTCGA
65 A-CCCGTTATTTTCGA
** * * * * * * *
2224280 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTTCATAATCGAGGATACTCTAAA
*
2224345 CCCGTTATTTTCAA
66 CCCGTTATTTTCGA
* * *
2224359 GGGGATACTCCAACCCTGATTTTATTTTCAAAACACTGA-TTTTCTATAATC-AGAGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTTC-ATAATCGAG-GATACTCTA
*
2224422 AACCTGTTATTTTCGA
64 AACCCGTTATTTTCGA
*
2224438 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCATAATCGAGGATACTC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTTCATAATCGAGGATACTC
2224499 CAGCCCCGTT
Statistics
Matches: 186, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
78 5 0.03
79 171 0.92
80 10 0.05
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTTCATAATCGAGGATACTCTAAA
CCCGTTATTTTCGA
Found at i:2232499 original size:2 final size:2
Alignment explanation
Indices: 2232492--2232522 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2232482 ACCGTTGTTT
2232492 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2232523 TGTTACAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2245582 original size:16 final size:18
Alignment explanation
Indices: 2245545--2245584 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
2245535 TAAAAAATAA
*
2245545 AATTTTTATAATTAAATT
1 AATTTTTATAATTAAATG
2245563 AATTTTTA-AA-TAAATG
1 AATTTTTATAATTAAATG
2245579 AATTTT
1 AATTTT
2245585 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 2 0.10
18 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTTTTATAATTAAATG
Found at i:2245606 original size:16 final size:16
Alignment explanation
Indices: 2245585--2245618 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2245575 AATGAATTTT
2245585 ATTTTTA-TATTTTTAA
1 ATTTTTATTA-TTTTAA
2245601 ATTTTTATTATTTTAA
1 ATTTTTATTATTTTAA
2245617 AT
1 AT
2245619 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTATTATTTTAA
Found at i:2245802 original size:23 final size:22
Alignment explanation
Indices: 2245776--2245824 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
2245766 TAGAATAAAA
2245776 ATAAT-TATTAAAAATATTAATTT
1 ATAATATATTAAAAA-ATT-ATTT
*
2245799 ATAAATATATTAATAAATTATTT
1 AT-AATATATTAAAAAATTATTT
2245822 ATA
1 ATA
2245825 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 8 0.35
24 6 0.26
25 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATTAAAAAATTATTT
Found at i:2245840 original size:23 final size:22
Alignment explanation
Indices: 2245806--2245852 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
2245796 TTTATAAATA
2245806 TATTAATAAATTATTTATATTT
1 TATTAATAAATTATTTATATTT
* *
2245828 TATTTATATAATTATTTTTATTT
1 TATTAATA-AATTATTTATATTT
2245851 TA
1 TA
2245853 AAATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTAATAAATTATTTATATTT
Found at i:2245861 original size:23 final size:22
Alignment explanation
Indices: 2245809--2245882 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
2245799 ATAAATATAT
**
2245809 TAATAAATTATTTATATTTTATT
1 TAAT-AATTATTTATATTTTAAA
*
2245832 TATATAATTATTTTTATTTTAAAA
1 TA-ATAATTATTTATATTTT-AAA
* *
2245856 TAATAA-TAATTACA-TTTAAA
1 TAATAATTATTTATATTTTAAA
2245876 TAATAAT
1 TAATAAT
2245883 AATCTATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.21
21 3 0.07
22 5 0.12
23 20 0.48
24 5 0.12
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATAATTATTTATATTTTAAA
Found at i:2246209 original size:32 final size:31
Alignment explanation
Indices: 2246153--2246214 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
2246143 GGGAATGGAG
* *
2246153 AGAAAAAGAGGGGGAAAAAAAAAGAAAAAGA
1 AGAAAAAGAGAGAGAAAAAAAAAGAAAAAGA
*
2246184 AGAAAAAGGAGAGAGAAAAAGAAAGAAAAAG
1 AGAAAAA-GAGAGAGAAAAAAAAAGAAAAAG
2246215 TGAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (31 bp):
AGAAAAAGAGAGAGAAAAAAAAAGAAAAAGA
Found at i:2246214 original size:10 final size:10
Alignment explanation
Indices: 2246166--2246214 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
2246156 AAAAGAGGGG
*
2246166 GAAAAAAAAA
1 GAAAAAGAAA
2246176 GAAAAAG-AA
1 GAAAAAGAAA
2246185 GAAAAAGGAGAGA
1 GAAAAA-GA-A-A
2246198 GAAAAAGAAA
1 GAAAAAGAAA
2246208 GAAAAAG
1 GAAAAAG
2246215 TGAAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 8 0.24
10 15 0.44
11 1 0.03
12 3 0.09
13 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:2246629 original size:23 final size:23
Alignment explanation
Indices: 2246605--2246689 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
2246595 AATATAAATT
*
2246605 TAAACTTAAATTAAAAATCTATT
1 TAAACTTAAATTAAAAATCTATC
* * *
2246628 TAAA-TCTAAATT-CAAACCCATC
1 TAAACT-TAAATTAAAAATCTATC
2246650 TAAACTTAAATTAAAAAT-TCATC
1 TAAACTTAAATTAAAAATCT-ATC
* *
2246673 TAAACCTAAACTAAAAA
1 TAAACTTAAATTAAAAA
2246690 CTCGCATAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
22 17 0.35
23 32 0.65
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAACTTAAATTAAAAATCTATC
Found at i:2247436 original size:20 final size:21
Alignment explanation
Indices: 2247398--2247436 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2247388 GAATTGAATA
*
2247398 AAATAAAAAAATATTAATTTT
1 AAATAAAAAAATATCAATTTT
*
2247419 AAATTAAAAAA-ATCAATT
1 AAATAAAAAAATATCAATT
2247437 AAATCAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAAAAAAATATCAATTTT
Found at i:2247529 original size:21 final size:21
Alignment explanation
Indices: 2247505--2247547 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2247495 TCGATCAATT
*
2247505 TTAATATTAAATTTAATTAAA
1 TTAATATTAAATTTAAATAAA
* *
2247526 TTAATTTTTAATTTAAATAAA
1 TTAATATTAAATTTAAATAAA
2247547 T
1 T
2247548 GAAAGCGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATATTAAATTTAAATAAA
Found at i:2248284 original size:13 final size:13
Alignment explanation
Indices: 2248266--2248291 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2248256 TACAGCAAGT
2248266 ATGTATCGATACA
1 ATGTATCGATACA
2248279 ATGTATCGATACA
1 ATGTATCGATACA
2248292 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2250538 original size:21 final size:21
Alignment explanation
Indices: 2250505--2250549 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2250495 TTGCAAGTTG
*
2250505 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2250527 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2250547 AAA
1 AAA
2250550 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2252373 original size:15 final size:15
Alignment explanation
Indices: 2252353--2252383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2252343 TAAAAATGTC
*
2252353 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2252368 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2252383 C
1 C
2252384 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2254479 original size:13 final size:13
Alignment explanation
Indices: 2254461--2254499 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2254451 ACATTTTTCT
2254461 TTGTATCGATACA
1 TTGTATCGATACA
2254474 TTGTATCGATACA
1 TTGTATCGATACA
2254487 TTGTATCGATACA
1 TTGTATCGATACA
2254500 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2256963 original size:13 final size:13
Alignment explanation
Indices: 2256945--2256970 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2256935 TACAGCAAGT
2256945 ATGTATCGATACA
1 ATGTATCGATACA
2256958 ATGTATCGATACA
1 ATGTATCGATACA
2256971 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2257898 original size:20 final size:18
Alignment explanation
Indices: 2257861--2257952 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 18
2257851 ATAAAAAATG
* *
2257861 ATTTT-ATTAATTATTTT
1 ATTTTAATTAAATAATTT
2257878 ATTTTAATTTTAAATAATTT
1 ATTTTAA--TTAAATAATTT
*
2257898 A-TTTAA--AAATGATTT
1 ATTTTAATTAAATAATTT
* *
2257913 -TTTT-ATTAATTATTTT
1 ATTTTAATTAAATAATTT
2257929 ATTTTAATTTTAAATAATTT
1 ATTTTAA--TTAAATAATTT
2257949 ATTT
1 ATTT
2257953 AAAGGGATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 17
0.70 0.10 0.21
Matches are distributed among these distances:
14 1 0.02
15 11 0.19
16 6 0.11
17 9 0.16
18 2 0.04
19 5 0.09
20 23 0.40
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (18 bp):
ATTTTAATTAAATAATTT
Found at i:2258184 original size:15 final size:16
Alignment explanation
Indices: 2258140--2258199 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 16
2258130 CCCGATTTTA
* *
2258140 AATACAATATTAAATT
1 AATATAATATTAATTT
2258156 AATA-AATATT-ATTT
1 AATATAATATTAATTT
2258170 AATATAAT-TTAATTT
1 AATATAATATTAATTT
* *
2258185 AAAATAAAATTAATT
1 AATATAATATTAATT
2258200 AAAAATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 9 0.24
15 19 0.50
16 10 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATAATATTAATTT
Found at i:2258766 original size:19 final size:20
Alignment explanation
Indices: 2258742--2258780 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2258732 TAATGATGAT
2258742 AAGATGAATA-TATTAAAAA
1 AAGATGAATATTATTAAAAA
*
2258761 AAGATGATTATTATTAAAAA
1 AAGATGAATATTATTAAAAA
2258781 TAGTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
AAGATGAATATTATTAAAAA
Found at i:2258793 original size:20 final size:20
Alignment explanation
Indices: 2258752--2258793 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2258742 AAGATGAATA
*
2258752 TATTAAAAAAAGATGATTAT
1 TATTAAAAAAAGATGATAAT
*
2258772 TATTAAAAATAGTAT-ATAAT
1 TATTAAAAAAAG-ATGATAAT
2258792 TA
1 TA
2258794 AATTAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
TATTAAAAAAAGATGATAAT
Found at i:2258825 original size:28 final size:28
Alignment explanation
Indices: 2258794--2258862 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
2258784 TATATAATTA
*
2258794 AATTAATATATTTAAAAAATTAATAAAT
1 AATTAATATATTTAAAAAATTAACAAAT
* * *
2258822 AATTAAAAT-TATTAAAATATTAACATAT
1 AATTAATATAT-TTAAAAAATTAACAAAT
* *
2258850 CATTTATATATTT
1 AATTAATATATTT
2258863 GTTTAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
27 1 0.03
28 30 0.94
29 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
AATTAATATATTTAAAAAATTAACAAAT
Found at i:2259410 original size:21 final size:21
Alignment explanation
Indices: 2259386--2259431 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2259376 GTTAAAAATG
2259386 TTAAATTGAAAATTAAATTAA
1 TTAAATTGAAAATTAAATTAA
***
2259407 TTAAATTTTTAATTAAATTAA
1 TTAAATTGAAAATTAAATTAA
2259428 TTAA
1 TTAA
2259432 TCGATGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAATTGAAAATTAAATTAA
Found at i:2262177 original size:30 final size:31
Alignment explanation
Indices: 2262143--2262206 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
2262133 AAAGTTTGCA
*
2262143 AAATGGCCCTCAAA-AAATAT-AAAATGCATG
1 AAATGACCCTCAAATAAA-ATCAAAATGCATG
* *
2262173 AAATGACCTTTAAATAAAATCAAAATGCATG
1 AAATGACCCTCAAATAAAATCAAAATGCATG
2262204 AAA
1 AAA
2262207 AACATTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.53, C:0.14, G:0.11, T:0.22
Consensus pattern (31 bp):
AAATGACCCTCAAATAAAATCAAAATGCATG
Found at i:2263072 original size:11 final size:10
Alignment explanation
Indices: 2263057--2263104 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
2263047 GTTGAACAAG
2263057 ATGAAAATAA
1 ATGAAAATAA
*
2263067 AGTGAAAAAAA
1 A-TGAAAATAA
2263078 ATAGAAAATGAA
1 AT-GAAAAT-AA
*
2263090 ATGAAACTAA
1 ATGAAAATAA
2263100 ATGAA
1 ATGAA
2263105 TATCCAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.28
11 19 0.59
12 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.17
Consensus pattern (10 bp):
ATGAAAATAA
Found at i:2264151 original size:29 final size:32
Alignment explanation
Indices: 2264088--2264151 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 32
2264078 TAGTGGAATG
2264088 TTAGTGGATTTTGCTGGAAAATTAAAAATGGGC
1 TTAGTGGATTTTGCTGGAAAATT-AAAATGGGC
* *
2264121 TTAGTGGA-TTTG-TTGAAAATT-ATATGGGC
1 TTAGTGGATTTTGCTGGAAAATTAAAATGGGC
2264150 TT
1 TT
2264152 TAAAGTCCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.31
31 8 0.28
32 4 0.14
33 8 0.28
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.39
Consensus pattern (32 bp):
TTAGTGGATTTTGCTGGAAAATTAAAATGGGC
Found at i:2265684 original size:93 final size:92
Alignment explanation
Indices: 2265555--2265846 Score: 268
Period size: 93 Copynumber: 3.2 Consensus size: 92
2265545 GAGTGAATCC
* * * * *
2265555 ATTAGTCAAGAAAATGTTCCAGATAAAACTACTGGTCGAAAGATGACTAAGACGAAATCTATTAG
1 ATTAGTCAAGAAGATGATCAAGATAAAACCATTGGTCGAAAGATGACTAAGACGAAATCTATTAG
* * *
2265620 TCAAAAGTAACAACTAGGACTGAAACCT
66 TCAAAAGAAATAACTAGG-CTAAAACCT
* * * * *
2265648 ATTAGTCAAGAAGATGATCAAGACAAAACCATTGGTCAAAAAGATAACTAGGGCGAAA-CTTATT
1 ATTAGTCAAGAAGATGATCAAGATAAAACCATTGGTC-GAAAGATGACTAAGACGAAATC-TATT
* * *
2265712 AGTCAAAAAAAATGACTAGGGC-AAAACTT
64 AGTCAAAAGAAATAACTA-GGCTAAAACCT
* * * * * * *
2265741 ATTAGTCGAGAAGATGATCGAGATGAAACCATTGGTTGAAAAGATGACT-AGAAGAACT-TTTTA
1 ATTAGTCAAGAAGATGATCAAGATAAAACCATTGGTCG-AAAGATGACTAAGACGAAATCTATTA
* * *
2265804 GTCTAAAGAAATAATTAGGGTAAAACCT
65 GTCAAAAGAAATAACTAGGCTAAAACCT
*
2265832 ATTAGTCAAAAAGAT
1 ATTAGTCAAGAAGAT
2265847 AACTGGGACA
Statistics
Matches: 157, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
90 2 0.01
91 36 0.23
92 4 0.03
93 78 0.50
94 35 0.22
95 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (92 bp):
ATTAGTCAAGAAGATGATCAAGATAAAACCATTGGTCGAAAGATGACTAAGACGAAATCTATTAG
TCAAAAGAAATAACTAGGCTAAAACCT
Found at i:2265730 original size:32 final size:32
Alignment explanation
Indices: 2265685--2265747 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
2265675 ACCATTGGTC
* *
2265685 AAAAAGATAACTAGGGCGAAACTTATTAGTCA
1 AAAAAAATAACTAGGGCAAAACTTATTAGTCA
*
2265717 AAAAAAATGACTAGGGCAAAACTTATTAGTC
1 AAAAAAATAACTAGGGCAAAACTTATTAGTC
2265748 GAGAAGATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (32 bp):
AAAAAAATAACTAGGGCAAAACTTATTAGTCA
Found at i:2265861 original size:31 final size:32
Alignment explanation
Indices: 2265825--2265897 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 32
2265815 TAATTAGGGT
*
2265825 AAAACCTATTAGTC-AAAAAGATAACTGGGAC
1 AAAACCTATTAGTCAAAAAAGATAACTAGGAC
* *
2265856 AAAACC-ATCAGTCAAAAAAGATAATTAGGAC
1 AAAACCTATTAGTCAAAAAAGATAACTAGGAC
2265887 AAAACCTATTA
1 AAAACCTATTA
2265898 ATGAAAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 6 0.17
31 27 0.75
32 3 0.08
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.19
Consensus pattern (32 bp):
AAAACCTATTAGTCAAAAAAGATAACTAGGAC
Found at i:2265861 original size:91 final size:93
Alignment explanation
Indices: 2265555--2265885 Score: 258
Period size: 93 Copynumber: 3.6 Consensus size: 93
2265545 GAGTGAATCC
* * * * * * * * * *
2265555 ATTAGTCAAGAAAATGTTCCAGATAAAACTACTGGTC-GAAAGATGACTAAGACGAAA-TCTATT
1 ATTAGTCAAGAAGATGATCGAGACAAAACCATTGGTCAAAAAGATAACTAGGAAGAAACT-TATT
** * * *
2265618 AGTCAAAAGTAACAACTAGGACTGAAACCT
65 AGTCAAAAAAAATAACTAGGGC-AAAACCT
* **
2265648 ATTAGTCAAGAAGATGATCAAGACAAAACCATTGGTCAAAAAGATAACTAGGGCGAAACTTATTA
1 ATTAGTCAAGAAGATGATCGAGACAAAACCATTGGTCAAAAAGATAACTAGGAAGAAACTTATTA
* *
2265713 GTCAAAAAAAATGACTAGGGCAAAACTT
66 GTCAAAAAAAATAACTAGGGCAAAACCT
* ** ** * *
2265741 ATTAGTCGAGAAGATGATCGAGATGAAACCATTGGTTGAAAAGATGACTA-GAAG-AACTTTTTA
1 ATTAGTCAAGAAGATGATCGAGACAAAACCATTGGTCAAAAAGATAACTAGGAAGAAACTTATTA
* * * *
2265804 GTCTAAAGAAATAATTAGGGTAAAACCT
66 GTCAAAAAAAATAACTAGGGCAAAACCT
* * * ** *
2265832 ATTAGTCAAAAAGAT-AACTGGGACAAAACCATCAGTCAAAAAAGATAATTAGGA
1 ATTAGTCAAGAAGATGATC-GAGACAAAACCATTGGTC-AAAAAGATAACTAGGA
2265886 CAAAACCTAT
Statistics
Matches: 188, Mismatches: 45, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
90 2 0.01
91 55 0.29
92 12 0.06
93 81 0.43
94 37 0.20
95 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (93 bp):
ATTAGTCAAGAAGATGATCGAGACAAAACCATTGGTCAAAAAGATAACTAGGAAGAAACTTATTA
GTCAAAAAAAATAACTAGGGCAAAACCT
Found at i:2265905 original size:31 final size:31
Alignment explanation
Indices: 2265814--2265897 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
2265804 GTCTAAAGAA
** *
2265814 ATAATTAGGGTAAAACCTATTAGTCAAAAAG
1 ATAATTAGGACAAAACCTATTAGTAAAAAAG
* * *
2265845 ATAACTGGGACAAAACC-ATCAGTCAAAAAAG
1 ATAATTAGGACAAAACCTATTAGT-AAAAAAG
2265876 ATAATTAGGACAAAACCTATTA
1 ATAATTAGGACAAAACCTATTA
2265898 ATGAAAAATG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
30 5 0.12
31 34 0.81
32 3 0.07
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (31 bp):
ATAATTAGGACAAAACCTATTAGTAAAAAAG
Found at i:2266017 original size:93 final size:92
Alignment explanation
Indices: 2265914--2266107 Score: 214
Period size: 92 Copynumber: 2.1 Consensus size: 92
2265904 AATGATGACC
* * * * * * *
2265914 AAGGCGAAACCCATTGGTTGAGAATATGA-CAAGGACGAAACCATCAGTCAAAAATATGATTAAA
1 AAGGTGAAACCCATTAGCTGAAAAGATGATCAA-GACGAAACCATC-GTCAAAAAGATGA-CAAA
* *
2265978 -GTAAAACCTATTAGTCAAA-AGGAACGACT
63 GGTAAAACCTATTAGTCAAAGA-AAACAACT
* *
2266007 AAGGTGAAACCTATTAGCTGAAAAGATGATCGAGACGAAACCATCGTCAAAAAGATGACAAAGGT
1 AAGGTGAAACCCATTAGCTGAAAAGATGATCAAGACGAAACCATCGTCAAAAAGATGACAAAGGT
* *
2266072 GAAATCTATTAGTCAAAGAAAACAACT
66 AAAACCTATTAGTCAAAGAAAACAACT
2266099 AAGGTGAAA
1 AAGGTGAAA
2266108 TCTATTAGTT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
91 3 0.04
92 44 0.52
93 36 0.42
94 2 0.02
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (92 bp):
AAGGTGAAACCCATTAGCTGAAAAGATGATCAAGACGAAACCATCGTCAAAAAGATGACAAAGGT
AAAACCTATTAGTCAAAGAAAACAACT
Found at i:2266127 original size:92 final size:93
Alignment explanation
Indices: 2265947--2266115 Score: 236
Period size: 92 Copynumber: 1.8 Consensus size: 93
2265937 ATATGACAAG
* * * *
2265947 GACGAAACCATCAGTCAAAAATATGATTAAAGTAAAACCTATTAGTCAAAAGGAACGACTAAGGT
1 GACGAAACCATCAGTCAAAAAGATGATCAAAGTAAAACCTATTAGTCAAAAGAAACAACTAAGGT
2266012 GAAACCTATTAGCTGAAAAGATGATCGA
66 GAAACCTATTAGCTGAAAAGATGATCGA
* *
2266040 GACGAAACCATC-GTCAAAAAGATGA-CAAAGGTGAAATCTATTAGTC-AAAGAAAACAACTAAG
1 GACGAAACCATCAGTCAAAAAGATGATCAAA-GTAAAACCTATTAGTCAAAAG-AAACAACTAAG
*
2266102 GTGAAATCTATTAG
64 GTGAAACCTATTAG
2266116 TTAATAAGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 7 0.10
92 48 0.72
93 12 0.18
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (93 bp):
GACGAAACCATCAGTCAAAAAGATGATCAAAGTAAAACCTATTAGTCAAAAGAAACAACTAAGGT
GAAACCTATTAGCTGAAAAGATGATCGA
Found at i:2266140 original size:92 final size:93
Alignment explanation
Indices: 2265951--2266140 Score: 208
Period size: 92 Copynumber: 2.1 Consensus size: 93
2265941 GACAAGGACG
* * * *
2265951 AAACCATCAGTCAAAAATATGATTAAAGTAAAACCTATTAGTCAAAAGGAACGACTAAGGTGAAA
1 AAACCATCAGTCAAAAAGATGATCAAAGTAAAACCTATTAGTCAAAAGAAACAACTAAGGTGAAA
* * * *
2266016 CCTATTAGCTGAAAAGATGATCGAGACG
66 CCTATTAGCTGAAAAGATGACCAACACA
* *
2266044 AAACCATC-GTCAAAAAGATGA-CAAAGGTGAAATCTATTAGTC-AAAGAAAACAACTAAGGTGA
1 AAACCATCAGTCAAAAAGATGATCAAA-GTAAAACCTATTAGTCAAAAG-AAACAACTAAGGTGA
* * *
2266106 AATCTATTAG-TTAATAAGATGACCAACATA
64 AACCTATTAGCTGAA-AAGATGACCAACACA
2266136 AAACC
1 AAACC
2266141 TTTGGTTAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
91 10 0.12
92 63 0.78
93 8 0.10
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (93 bp):
AAACCATCAGTCAAAAAGATGATCAAAGTAAAACCTATTAGTCAAAAGAAACAACTAAGGTGAAA
CCTATTAGCTGAAAAGATGACCAACACA
Found at i:2268853 original size:11 final size:11
Alignment explanation
Indices: 2268837--2268871 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
2268827 TCTTCACTCT
2268837 AATCAATTCCA
1 AATCAATTCCA
2268848 AATCAATTCCA
1 AATCAATTCCA
*
2268859 AATCACTTCCA
1 AATCAATTCCA
2268870 AA
1 AA
2268872 ATAACTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.26
Consensus pattern (11 bp):
AATCAATTCCA
Found at i:2273280 original size:20 final size:20
Alignment explanation
Indices: 2273241--2273314 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
2273231 GTCAAAAAAT
**
2273241 TGTATCGATACATAAGTAAA
1 TGTATCGATACATTTGTAAA
*
2273261 TGTATCGATACATTTCTAAA
1 TGTATCGATACATTTGTAAA
* * **
2273281 TATATCAATACAATTTGT-TT
1 TGTATCGATAC-ATTTGTAAA
2273301 TGTATCGATACATT
1 TGTATCGATACATT
2273315 CTGGGTTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
19 3 0.07
20 35 0.81
21 5 0.12
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTGTAAA
Found at i:2276882 original size:23 final size:21
Alignment explanation
Indices: 2276837--2276882 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
2276827 ATTTTGGTCA
*
2276837 TTATTTGTTTATGATTTCCTT
1 TTATTTGTTTATAATTTCCTT
*
2276858 TTATCTTGTTTACTAATTTCTTT
1 TTAT-TTGTTTA-TAATTTCCTT
2276881 TT
1 TT
2276883 TTTATGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
23 10 0.48
ACGTcount: A:0.15, C:0.11, G:0.07, T:0.67
Consensus pattern (21 bp):
TTATTTGTTTATAATTTCCTT
Found at i:2280664 original size:47 final size:45
Alignment explanation
Indices: 2280573--2280664 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 45
2280563 GAGTTCCCTT
*
2280573 CAAAAAAAAGAGTCAAAAGCAAAAGCATGAAAAATGAAAAAAAAAA
1 CAAAAAAAAGAGTCAAAAGCAAAAGCA-GAAAAAAGAAAAAAAAAA
* *
2280619 CAAAAAAGAA-AGTGCAAAGGCAAAAGCA-AAAAAAGAACAACAAAAA
1 CAAAAAA-AAGAGT-CAAAAGCAAAAGCAGAAAAAAGAA-AAAAAAAA
2280665 TCGAAAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 8 0.20
46 17 0.43
47 15 0.38
ACGTcount: A:0.71, C:0.11, G:0.14, T:0.04
Consensus pattern (45 bp):
CAAAAAAAAGAGTCAAAAGCAAAAGCAGAAAAAAGAAAAAAAAAA
Found at i:2280888 original size:12 final size:12
Alignment explanation
Indices: 2280871--2280896 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2280861 TTTCTAGCAT
2280871 AAAAAAACAAAA
1 AAAAAAACAAAA
2280883 AAAAAAACAAAA
1 AAAAAAACAAAA
2280895 AA
1 AA
2280897 CCTTGGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:2285440 original size:21 final size:20
Alignment explanation
Indices: 2285389--2285442 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2285379 CATTTGAGAC
* *
2285389 ATGTATCGATACATTCACTT
1 ATGTATCGATACATCCACTA
*
2285409 ATGTATTGATACATCCACTA
1 ATGTATCGATACATCCACTA
2285429 ATTGTATCGATACA
1 A-TGTATCGATACA
2285443 AATCGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATCCACTA
Found at i:2286516 original size:22 final size:22
Alignment explanation
Indices: 2286491--2286534 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2286481 TCACTTTAGA
* *
2286491 TGAAAATATGTATAGTCACCCT
1 TGAAAAGATATATAGTCACCCT
2286513 TGAAAAGATATATAGTCACCCT
1 TGAAAAGATATATAGTCACCCT
2286535 CTTTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (22 bp):
TGAAAAGATATATAGTCACCCT
Found at i:2290522 original size:6 final size:6
Alignment explanation
Indices: 2290511--2290543 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2290501 CACATATATT
*
2290511 TAAATA TAAATA TAAATA TAAATA TAAAAA TAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAA
2290544 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
TAAATA
Found at i:2292993 original size:6 final size:6
Alignment explanation
Indices: 2292975--2293010 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
2292965 AGAACCCAAA
*
2292975 ATGCAC A-GCAC ATGCAC ATGCAC ATGAAC ATGCAC A
1 ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC A
2293011 AATAAACCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.39, C:0.31, G:0.17, T:0.14
Consensus pattern (6 bp):
ATGCAC
Found at i:2294545 original size:8 final size:8
Alignment explanation
Indices: 2294532--2294619 Score: 64
Period size: 8 Copynumber: 11.8 Consensus size: 8
2294522 ATATAAAATA
2294532 AATATATT
1 AATATATT
2294540 AATATATT
1 AATATATT
2294548 AA-AT-TT
1 AATATATT
* *
2294554 ACATAAATA
1 A-ATATATT
2294563 AAT-TATT
1 AATATATT
2294570 AATATATT
1 AATATATT
2294578 AA-A-ATT
1 AATATATT
* *
2294584 TATATATA
1 AATATATT
2294592 AATAT-TT
1 AATATATT
*
2294599 AATATTTT
1 AATATATT
*
2294607 AA-ATATA
1 AATATATT
2294614 AATATA
1 AATATA
2294620 ATATAAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
6 7 0.11
7 21 0.34
8 32 0.52
9 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (8 bp):
AATATATT
Found at i:2294551 original size:21 final size:21
Alignment explanation
Indices: 2294494--2294624 Score: 59
Period size: 19 Copynumber: 6.6 Consensus size: 21
2294484 AAAATATTAC
* *
2294494 TATATAAATATGTTAAA-AAA
1 TATATTAATATATTAAATAAA
*
2294514 TA-ATATAA-ATATAAAATAAA
1 TATAT-TAATATATTAAATAAA
*
2294534 TATATTAATATATTAAAT--T
1 TATATTAATATATTAAATAAA
* * * *
2294553 TACATAAATAAATT--ATTAA
1 TATATTAATATATTAAATAAA
*
2294572 TATATTAAAAT-TTATATATAAA
1 TATATTAATATATTA-A-ATAAA
*
2294594 TAT-TTAATATTTTAAATATAA
1 TATATTAATATATTAAATA-AA
2294615 -ATA-TAATATA
1 TATATTAATATA
2294625 AATTATTAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
17 2 0.02
18 2 0.02
19 26 0.32
20 23 0.28
21 19 0.23
22 10 0.12
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
TATATTAATATATTAAATAAA
Found at i:2294590 original size:14 final size:15
Alignment explanation
Indices: 2294530--2294612 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 15
2294520 AAATATAAAA
2294530 TAAATATATTAATATAT
1 TAAATAT-TT-ATATAT
* *
2294547 T-AA-ATTTACATAAA
1 TAAATATTTATAT-AT
*
2294561 TAAATTATTAATATAT
1 TAAA-TATTTATATAT
2294577 TAAA-ATTTATATA-
1 TAAATATTTATATAT
*
2294590 TAAATATTTAATATTT
1 TAAATATTT-ATATAT
2294606 TAAATAT
1 TAAATAT
2294613 AAATATAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
13 7 0.13
14 16 0.31
15 8 0.15
16 14 0.27
17 7 0.13
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATATTTATATAT
Found at i:2294595 original size:22 final size:22
Alignment explanation
Indices: 2294561--2294628 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
2294551 TTTACATAAA
*
2294561 TAAATTATTAATATATTAAAATT
1 TAAA-TATAAATATATTAAAATT
* *
2294584 TATATATAAATAT-TTAATATTT
1 TAAATATAAATATATTAA-AATT
*
2294606 TAAATATAAATATAATATAAATT
1 TAAATATAAATATATTA-AAATT
2294629 ATTAAATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
21 4 0.11
22 23 0.64
23 8 0.22
24 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATATAAATATATTAAAATT
Found at i:2294602 original size:29 final size:31
Alignment explanation
Indices: 2294527--2294609 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 31
2294517 TATAAATATA
2294527 AAATAAATATATTAATATATT-AAATTTACAT
1 AAATAAATATATTAATATATTAAAATTTA-AT
2294558 AAATAAAT-TATTAATATATTAAAATTT-AT
1 AAATAAATATATTAATATATTAAAATTTAAT
* *
2294587 ATATAAATAT-TTAATATTTTAAA
1 AAATAAATATATTAATATATTAAA
2294610 TATAAATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
29 21 0.44
30 13 0.27
31 14 0.29
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
AAATAAATATATTAATATATTAAAATTTAAT
Found at i:2294624 original size:11 final size:11
Alignment explanation
Indices: 2294495--2294627 Score: 54
Period size: 11 Copynumber: 12.7 Consensus size: 11
2294485 AAATATTACT
*
2294495 ATATAAATATG
1 ATATAAATATA
* *
2294506 TTA-AAAAATA
1 ATATAAATATA
2294516 ATATAAATATA
1 ATATAAATATA
*
2294527 AAATAAATAT-
1 ATATAAATATA
2294537 AT-T-AATAT-
1 ATATAAATATA
*
2294545 AT-TAAAT-TT
1 ATATAAATATA
*
2294554 ACATAAATA-A
1 ATATAAATATA
*
2294564 ATTATTAATATA
1 A-TATAAATATA
* *
2294576 TTA-AAATTTA
1 ATATAAATATA
2294586 TATATAAATATTTA
1 -ATATAAATA--TA
**
2294600 ATAT-TTTA-A
1 ATATAAATATA
2294609 ATATAAATATA
1 ATATAAATATA
2294620 ATATAAAT
1 ATATAAAT
2294628 TATTAAATTT
Statistics
Matches: 89, Mismatches: 20, Indels: 26
0.66 0.15 0.19
Matches are distributed among these distances:
8 9 0.10
9 10 0.11
10 21 0.24
11 36 0.40
12 7 0.08
13 4 0.04
14 2 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
ATATAAATATA
Found at i:2294707 original size:23 final size:22
Alignment explanation
Indices: 2294662--2294717 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
2294652 CTTCATATCT
2294662 TAATATATTA-TATTATTTTAA
1 TAATATATTATTATTATTTTAA
2294683 TAATATATTATTATTATTTTAAA
1 TAATATATTATTATTATTTT-AA
*
2294706 TAATAAATTATT
1 TAATATATTATT
2294718 TTTTCTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 10 0.31
22 9 0.28
23 13 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATATATTATTATTATTTTAA
Found at i:2295432 original size:26 final size:26
Alignment explanation
Indices: 2295383--2295432 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2295373 AATAAAAAAT
*
2295383 AAAAATATTTTATATTATATTTATTA
1 AAAAATATTTTATATTATAATTATTA
*
2295409 AAAAATATTTTTTATT-TAAATTAT
1 AAAAATATTTTATATTAT-AATTAT
2295433 AATTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AAAAATATTTTATATTATAATTATTA
Found at i:2297591 original size:2 final size:2
Alignment explanation
Indices: 2297584--2297608 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2297574 CCTTCATAAA
2297584 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2297609 AACTTACCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2297975 original size:22 final size:22
Alignment explanation
Indices: 2297950--2297993 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2297940 TTTATTCAAA
2297950 ATTAT-TTAA-AATAATATAAAAT
1 ATTATGTTAATAA-AAT-TAAAAT
2297972 ATTATGTTAATAAAATTAAAAT
1 ATTATGTTAATAAAATTAAAAT
2297994 TATGAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 7 0.35
24 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTATGTTAATAAAATTAAAAT
Found at i:2297984 original size:21 final size:20
Alignment explanation
Indices: 2297959--2297997 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2297949 AATTATTTAA
*
2297959 AATAATATAAAATATTATGTT
1 AATAAAATAAAA-ATTATGTT
*
2297980 AATAAAATTAAAATTATG
1 AATAAAATAAAAATTATG
2297998 AAATTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AATAAAATAAAAATTATGTT
Found at i:2305220 original size:30 final size:30
Alignment explanation
Indices: 2305160--2305222 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
2305150 TTTCAATTTT
*
2305160 AAAATGACAAAAATAAAAAAAAAGTTATAA
1 AAAATGACAAAAATAAAAAAAAAGTAATAA
*
2305190 AAAATGA-AAAAATTGAAAAAATAA-TAATAA
1 AAAATGACAAAAA-T-AAAAAAAAAGTAATAA
2305220 AAA
1 AAA
2305223 CAAAGCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 16 0.55
31 8 0.28
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (30 bp):
AAAATGACAAAAATAAAAAAAAAGTAATAA
Found at i:2307955 original size:26 final size:25
Alignment explanation
Indices: 2307908--2307956 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
2307898 GGGATTATAT
**
2307908 TGAAATAATATTGAGTTGAAACAAA
1 TGAAATAATATTGAGTCAAAACAAA
2307933 TGAAATCAATATTGAGTCAAAACA
1 TGAAAT-AATATTGAGTCAAAACA
2307957 TATCTAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (25 bp):
TGAAATAATATTGAGTCAAAACAAA
Found at i:2312121 original size:23 final size:21
Alignment explanation
Indices: 2312095--2312151 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
2312085 AAGTTCCCTT
2312095 CAAAATGACAAAAAAGTCAAAAG
1 CAAAA-GACAAAAAA-TCAAAAG
*
2312118 CAAAAGCACAAAAAATGAAAAG
1 CAAAAG-ACAAAAAATCAAAAG
2312140 -AAAA-ACAAAAAA
1 CAAAAGACAAAAAA
2312152 AAAAAAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.25
21 4 0.12
22 7 0.22
23 13 0.41
ACGTcount: A:0.72, C:0.12, G:0.11, T:0.05
Consensus pattern (21 bp):
CAAAAGACAAAAAATCAAAAG
Found at i:2312166 original size:44 final size:43
Alignment explanation
Indices: 2312118--2312203 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 43
2312108 AAGTCAAAAG
2312118 CAAAAGCACAAA-AAATGAAAA-GAAAAACAAAAAAAAAAAAACTA
1 CAAAAGCA-AAATAAA--AAAAGGAAAAACAAAAAAAAAAAAACTA
* *
2312162 CAAAAGCAAAATAAAAAAAGGGAACAACAAAAATAAAAAAAC
1 CAAAAGCAAAATAAAAAAA-GGAAAAACAAAAAAAAAAAAAC
2312204 GAGGACATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 4 0.11
43 3 0.08
44 30 0.81
ACGTcount: A:0.76, C:0.12, G:0.08, T:0.05
Consensus pattern (43 bp):
CAAAAGCAAAATAAAAAAAGGAAAAACAAAAAAAAAAAAACTA
Found at i:2312462 original size:8 final size:8
Alignment explanation
Indices: 2312445--2312477 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
2312435 ACCCAATCCT
2312445 AAAA-AAA
1 AAAACAAA
2312452 AAAACAAA
1 AAAACAAA
2312460 AAAACAAA
1 AAAACAAA
*
2312468 AAAAGAAA
1 AAAACAAA
2312476 AA
1 AA
2312478 CCTTTCCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:2313916 original size:13 final size:13
Alignment explanation
Indices: 2313898--2313923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2313888 ACATACATGA
2313898 TGTATCGATACAT
1 TGTATCGATACAT
2313911 TGTATCGATACAT
1 TGTATCGATACAT
2313924 GACCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2313919 original size:32 final size:33
Alignment explanation
Indices: 2313878--2313945 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2313868 CCATAACTGT
* *
2313878 TTGTATCGATACAT-A-CATGATGTATCGATACA
1 TTGTATCGATACATGACCA-AATATATCGATACA
2313910 TTGTATCGATACATGACCAAATATATCGATACA
1 TTGTATCGATACATGACCAAATATATCGATACA
2313943 TTG
1 TTG
2313946 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAATATATCGATACA
Found at i:2314745 original size:27 final size:27
Alignment explanation
Indices: 2314714--2315303 Score: 508
Period size: 27 Copynumber: 21.3 Consensus size: 27
2314704 CAGTGGCATT
*
2314714 CCTTTTAAGTCCACAACTCTGTGCCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* *
2314741 CCTTTTAAGTCTACAACT-TCGTGGTAC
1 CCTTTTAAGTCCACAACTCT-GTGGCAC
*
2314768 CCTTTTAAGTTCACAACT-TCGTGGCAC
1 CCTTTTAAGTCCACAACTCT-GTGGCAC
* * * *
2314795 CTTTTTAGGTCCACAACTCAGTGACAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* * **
2314822 CTTTTTTAAGTCCATAACTCCATGGCAC
1 C-CTTTTAAGTCCACAACTCTGTGGCAC
* * *
2314850 TCGTTTTAAGTCCACAACACAGTGGCAC
1 -CCTTTTAAGTCCACAACTCTGTGGCAC
** *
2314878 ATTTTTAAGTCCATAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* * *
2314905 CCGTTTAAAGTCCACAACTTTATGGCATTC
1 CC-TTTTAAGTCCACAACTCTGTGGCA--C
* * *
2314935 CCTTTTAGGTCCATAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
2314962 CCTTTTAAAGTCCACAACTCCTGTGGCAC
1 CCTTTT-AAGTCCACAACT-CTGTGGCAC
* * *
2314991 CCTTTGAAAGTCCATAACTCTGTGGCAT
1 CCTTT-TAAGTCCACAACTCTGTGGCAC
* **
2315019 CCTTTTAAGTCCACAATTCCATGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* *
2315046 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCTGTGGCAC
**
2315073 CCTTTTAAAGTCCACAACTCCATGGCAC
1 CCTTTT-AAGTCCACAACTCTGTGGCAC
* **
2315101 CCTTTTAAAGTCTACAACTCCATGGCAC
1 CCTTTT-AAGTCCACAACTCTGTGGCAC
**
2315129 CCTTTTAA-TCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* *
2315155 CCTTTTAAAGTCCATAACTCTGTGGTAC
1 CCTTTT-AAGTCCACAACTCTGTGGCAC
*
2315183 CAGTTTTAAAGTCCACAACT-TGGTGGCAC
1 C-CTTTT-AAGTCCACAACTCT-GTGGCAC
*
2315212 CTTTTTAAAGTCCACAACT-TCGTGGCAC
1 CCTTTT-AAGTCCACAACTCT-GTGGCAC
* * *
2315240 TCTTTTAACTCCATAACT-TCGTGGCAC
1 CCTTTTAAGTCCACAACTCT-GTGGCAC
* * *
2315267 CCTTTTAAGTCTACAAGTCAGTGGCATTC
1 CCTTTTAAGTCCACAACTCTGTGGCA--C
2315296 CCTTTTAA
1 CCTTTTAA
2315304 ATCCCATAAG
Statistics
Matches: 471, Mismatches: 74, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
26 24 0.05
27 185 0.39
28 182 0.39
29 77 0.16
30 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:2314840 original size:28 final size:27
Alignment explanation
Indices: 2314703--2315328 Score: 398
Period size: 28 Copynumber: 22.6 Consensus size: 27
2314693 AGTCTACGAT
2314703 TCAGTGGCATTCC-TTTTAAGTCCACAAC
1 TCAGTGGCA--CCTTTTTAAGTCCACAAC
* * * *
2314731 TCTGTGCCACCCTTTTAAGTCTACAAC
1 TCAGTGGCACCTTTTTAAGTCCACAAC
* * *
2314758 TTC-GTGGTACCCTTTTAAGTTCACAAC
1 -TCAGTGGCACCTTTTTAAGTCCACAAC
*
2314785 TTC-GTGGCACCTTTTTAGGTCCACAAC
1 -TCAGTGGCACCTTTTTAAGTCCACAAC
* *
2314812 TCAGTGACACCTTTTTTAAGTCCATAAC
1 TCAGTGGCACC-TTTTTAAGTCCACAAC
*
2314840 TCCA-TGGCACTCGTTTTAAGTCCACAAC
1 T-CAGTGGCAC-CTTTTTAAGTCCACAAC
* * *
2314868 ACAGTGGCACATTTTTAAGTCCATAAC
1 TCAGTGGCACCTTTTTAAGTCCACAAC
* * *
2314895 TCTGTGGCACCCGTTTAAAGTCCACAAC
1 TCAGTGGCA-CCTTTTTAAGTCCACAAC
* * * *
2314923 TTTA-TGGCATTCCCTTTTAGGTCCATAAC
1 -TCAGTGGCA--CCTTTTTAAGTCCACAAC
** *
2314952 TTTGTGGCACCCTTTTAAAGTCCACAAC
1 TCAGTGGCA-CCTTTTTAAGTCCACAAC
* ** *
2314980 TCCTGTGGCACCCTTTGAAAGTCCATAAC
1 T-CAGTGGCA-CCTTTTTAAGTCCACAAC
* *
2315009 TCTGTGGCATCC-TTTTAAGTCCACAAT
1 TCAGTGGCA-CCTTTTTAAGTCCACAAC
*
2315036 TCCA-TGGCACCCTTTTAAGTCCACAAC
1 T-CAGTGGCACCTTTTTAAGTCCACAAC
* *
2315063 TCCGTGGCATCCTTTTAAAGTCCACAAC
1 TCAGTGGCA-CCTTTTTAAGTCCACAAC
* *
2315091 TCCA-TGGCACCCTTTTAAAGTCTACAAC
1 T-CAGTGGCA-CCTTTTTAAGTCCACAAC
*
2315119 TCCA-TGGCACCCTTTTAA-TCCACAAC
1 T-CAGTGGCACCTTTTTAAGTCCACAAC
* *
2315145 TCCA-TGGCACCCTTTTAAAGTCCATAAC
1 T-CAGTGGCA-CCTTTTTAAGTCCACAAC
* * *
2315173 TCTGTGGTACCAGTTTTAAAGTCCACAAC
1 TCAGTGGCACC--TTTTTAAGTCCACAAC
**
2315202 TTGGTGGCACCTTTTTAAAGTCCACAAC
1 TCAGTGGCACCTTTTT-AAGTCCACAAC
* *
2315230 TTC-GTGGCA-CTCTTTTAACTCCATAAC
1 -TCAGTGGCACCT-TTTTAAGTCCACAAC
* * *
2315257 TTC-GTGGCACCCTTTTAAGTCTACAAG
1 -TCAGTGGCACCTTTTTAAGTCCACAAC
* * * *
2315284 TCAGTGGCATTCCCTTTTAAATCCCATAAG
1 TCAGTGGCA--CCTTTTTAAGT-CCACAAC
*
2315314 TTAGTGGCACCTTTT
1 TCAGTGGCACCTTTT
2315329 CAAAGCCTAC
Statistics
Matches: 486, Mismatches: 82, Indels: 60
0.77 0.13 0.10
Matches are distributed among these distances:
26 25 0.05
27 182 0.37
28 183 0.38
29 83 0.17
30 13 0.03
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (27 bp):
TCAGTGGCACCTTTTTAAGTCCACAAC
Found at i:2314959 original size:57 final size:54
Alignment explanation
Indices: 2314714--2315277 Score: 472
Period size: 55 Copynumber: 10.2 Consensus size: 54
2314704 CAGTGGCATT
* * * * * * *
2314714 CCTTTTAAGTCCACAACTCTGTGCCACCCTTTTAAGTCTACAACTTCGTGGTAC
1 CCTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACAACTCCATGGCAC
* * * * * *
2314768 CCTTTTAAGTTCACAACT-TCGTGGCACCTTTTTAGGTCCACAACT-CAGTGACAC
1 CCTTTTAAGTCCATAACTCT-GTGGCACCCTTTAAAGTCCACAACTCCA-TGGCAC
* ** * * *
2314822 CTTTTTTAAGTCCATAACTCCATGGCACTCGTTTTAAGTCCACAAC-ACAGTGGCAC
1 C-CTTTTAAGTCCATAACTCTGTGGCAC-CCTTTAAAGTCCACAACTCCA-TGGCAC
** **
2314878 ATTTTTAAGTCCATAACTCTGTGGCACCCGTTTAAAGTCCACAACTTTATGGCATTC
1 CCTTTTAAGTCCATAACTCTGTGGCACCC-TTTAAAGTCCACAACTCCATGGCA--C
* * *
2314935 CCTTTTAGGTCCATAACTTTGTGGCACCCTTTTAAAGTCCACAACTCCTGTGGCAC
1 CCTTTTAAGTCCATAACTCTGTGGCACCC-TTTAAAGTCCACAACTCC-ATGGCAC
* * * *
2314991 CCTTTGAAAGTCCATAACTCTGTGGCATCCTTTTAAGTCCACAATTCCATGGCAC
1 CCTTT-TAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACAACTCCATGGCAC
* * *
2315046 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCATAACTCTGTGGCA-CCCTTTAAAGTCCACAACTCCATGGCAC
* * ** *
2315101 CCTTTTAAAGTCTACAACTCCATGGCACCCTTTTAA-TCCACAACTCCATGGCAC
1 CCTTTT-AAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACAACTCCATGGCAC
* * ***
2315155 CCTTTTAAAGTCCATAACTCTGTGGTACCAGTTTTAAAGTCCACAACTTGGTGGCAC
1 CCTTTT-AAGTCCATAACTCTGTGGCACC--CTTTAAAGTCCACAACTCCATGGCAC
* * * * * * * *
2315212 CTTTTTAAAGTCCACAACT-TCGTGGCACTCTTTTAACTCCATAACTTCGTGGCAC
1 CCTTTT-AAGTCCATAACTCT-GTGGCACCCTTTAAAGTCCACAACTCCATGGCAC
2315267 CCTTTTAAGTC
1 CCTTTTAAGTC
2315278 TACAAGTCAG
Statistics
Matches: 423, Mismatches: 69, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
53 2 0.00
54 109 0.26
55 137 0.32
56 70 0.17
57 100 0.24
58 5 0.01
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (54 bp):
CCTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACAACTCCATGGCAC
Found at i:2315345 original size:28 final size:28
Alignment explanation
Indices: 2315279--2315855 Score: 452
Period size: 28 Copynumber: 19.9 Consensus size: 28
2315269 TTTTAAGTCT
*
2315279 ACAAGTCAGTGGCATTCCCTTTT-AAATCCC
1 ACAAGTCAGTGGCA---CCTTTTCAAAGCCC
* * *
2315309 ATAAGTTAGTGGCACCTTTTCAAAGCCT
1 ACAAGTCAGTGGCACCTTTTCAAAGCCC
* *
2315337 ACAAGTTAGTGGTACTCTTTTCAAAGTCCAC
1 ACAAGTCAGTGGCAC-CTTTTCAAAG-CC-C
** * *
2315368 ACAAGTTGGTGGCAACTCATTTCAAAGCCT
1 ACAAGTCAGTGGC-AC-CTTTTCAAAGCCC
* * *
2315398 ACAAGTTAGTGGCATCATTTCAAAGCCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCC
* * *
2315426 ATAAGTCAGTGGCATCTTTTCAAAACCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCC
* *
2315454 ACAAGTTAG-GGACATCTTTTCAAAGCCC
1 ACAAGTCAGTGG-CACCTTTTCAAAGCCC
* *
2315482 AAAAGTTAGTGGCATCCTTTT-AAAGCCC
1 ACAAGTCAGTGGCA-CCTTTTCAAAGCCC
* *
2315510 ACAAGTTAGTGGCATCC-TTTCAAATCCC
1 ACAAGTCAGTGGCA-CCTTTTCAAAGCCC
* * * *
2315538 ACAAGTTAGTGGCATCATTTCAAAACCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCC
* * *
2315566 ACAAGTCAATGGCATCTTTTCAAAGCTC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCC
*
2315594 ACAAGTCAGTGGC-CTCTTTTTAAAGCCC
1 ACAAGTCAGTGGCAC-CTTTTCAAAGCCC
* *
2315622 ACAAGTCAGTGGCCTCCTTTT-AAAGCAC
1 ACAAGTCAGTGG-CACCTTTTCAAAGCCC
*
2315650 ACAAGTTAGTGGCATCC-TTTCAAAGCCC
1 ACAAGTCAGTGGCA-CCTTTTCAAAGCCC
*
2315678 ACAAGAT-AGTGGCATCC-TTTCAAAGCTC
1 ACAAG-TCAGTGGCA-CCTTTTCAAAGCCC
*
2315706 ACAAGTCAGTGGCATCTTTTCAAAGCCC
1 ACAAGTCAGTGGCACCTTTTCAAAGCCC
* **
2315734 ACAAGTCAATGGCATACCCGTTCAAAGCCCAC
1 ACAAGTCAGTGGC--ACCTTTTCAAAG-CC-C
*
2315766 ACAAGTCGGTGGCAACTCTTTTCAAAGCCCGC
1 ACAAGTCAGTGGC-AC-CTTTTCAAAG-CC-C
*
2315798 ACAAGTCAGTGGCACCTTTTTTTAAAGCCTAC
1 ACAAGTCAGTGGCACC--TTTTCAAAGCC--C
*
2315830 GCAAGTCAGTGGCAACCCTTTTCAAA
1 ACAAGTCAGTGGC-A-CCTTTTCAAA
2315856 TCACCACTTT
Statistics
Matches: 461, Mismatches: 58, Indels: 54
0.80 0.10 0.09
Matches are distributed among these distances:
27 18 0.04
28 281 0.61
29 25 0.05
30 37 0.08
31 21 0.05
32 76 0.16
33 1 0.00
34 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (28 bp):
ACAAGTCAGTGGCACCTTTTCAAAGCCC
Found at i:2315475 original size:56 final size:56
Alignment explanation
Indices: 2315279--2315817 Score: 519
Period size: 56 Copynumber: 9.4 Consensus size: 56
2315269 TTTTAAGTCT
* * * * *
2315279 ACAAGTCAGTGGCATTCCCTTTT-AAATCCCATAAGTTAGTGGCACCTTTTCAAAGCCT
1 ACAAGTTAGTGGCA-T--CTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
* * * *
2315337 ACAAGTTAGTGGTACTCTTTTCAAAGTCCACACAAGTTGGTGGCAACTCATTTCAAAGCCT
1 ACAAGTTAGTGGCA-TCTTTTCAAAG-CC-CACAAGTTAGTGGC-A-TCTTTTCAAAGCCC
* * * *
2315398 ACAAGTTAGTGGCATCATTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAACCC
1 ACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
*
2315454 ACAAGTTAG-GGACATCTTTTCAAAGCCCAAAAGTTAGTGGCATCCTTTT-AAAGCCC
1 ACAAGTTAGTGG-CATCTTTTCAAAGCCCACAAGTTAGTGGCAT-CTTTTCAAAGCCC
* * * *
2315510 ACAAGTTAGTGGCATCCTTTCAAATCCCACAAGTTAGTGGCATCATTTCAAAACCC
1 ACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
* * * * * *
2315566 ACAAGTCAATGGCATCTTTTCAAAGCTCACAAGTCAGTGGCCTCTTTTTAAAGCCC
1 ACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
* * * *
2315622 ACAAGTCAGTGGCCTCCTTTT-AAAGCACACAAGTTAGTGGCATCCTTTCAAAGCCC
1 ACAAGTTAGTGGCAT-CTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
* * * *
2315678 ACAAGATAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCTTTTCAAAGCCC
1 ACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
* * ** **
2315734 ACAAGTCAATGGCATACCCGTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCGC
1 ACAAGTTAGTGGCAT--CTTTTCAAAG-CC-CACAAGTTAGTGGC-A-TCTTTTCAAAG-CC-C
* *
2315798 ACAAGTCAGTGGCACCTTTT
1 ACAAGTTAGTGGCATCTTTT
2315818 TTTAAAGCCT
Statistics
Matches: 403, Mismatches: 59, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
55 10 0.02
56 247 0.61
57 16 0.04
58 35 0.09
59 15 0.04
60 24 0.06
61 26 0.06
62 14 0.03
63 2 0.00
64 14 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (56 bp):
ACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCC
Found at i:2325020 original size:28 final size:27
Alignment explanation
Indices: 2324923--2325067 Score: 159
Period size: 27 Copynumber: 5.3 Consensus size: 27
2324913 TGGCATTCCC
* *
2324923 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCAGTGGCACCT
*
2324950 TTTTAGGTCCACAACTCCA-TGGCACCT
1 TTTTAAGTCCACAACT-CAGTGGCACCT
*
2324977 TTTTAAGTCCCCAACTCAGTGGCACCTT
1 TTTTAAGTCCACAACTCAGTGGCACC-T
* *
2325005 TTTTAAGTCCATAACTCCA-TGGCACTCA
1 TTTTAAGTCCACAACT-CAGTGGCAC-CT
* * *
2325033 TTTTAAGTCCATAATTCAGGGGCACCT
1 TTTTAAGTCCACAACTCAGTGGCACCT
2325060 TTTTAAGT
1 TTTTAAGT
2325068 TGTAGATACC
Statistics
Matches: 101, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.02
27 54 0.53
28 42 0.42
29 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCAGTGGCACCT
Found at i:2325063 original size:55 final size:54
Alignment explanation
Indices: 2324923--2325067 Score: 191
Period size: 55 Copynumber: 2.6 Consensus size: 54
2324913 TGGCATTCCC
* * * *
2324923 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAGGTCCACAACTCCATGGCACCT
1 TTTTAAGTCCACAACTCAGTGGCACCTTTTTAAGTCCACAACTCCATGGCACCA
* *
2324977 TTTTAAGTCCCCAACTCAGTGGCACCTTTTTTAAGTCCATAACTCCATGGCACTCA
1 TTTTAAGTCCACAACTCAGTGGCACC-TTTTTAAGTCCACAACTCCATGGCAC-CA
* * *
2325033 TTTTAAGTCCATAATTCAGGGGCACCTTTTTAAGT
1 TTTTAAGTCCACAACTCAGTGGCACCTTTTTAAGT
2325068 TGTAGATACC
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 24 0.30
55 32 0.41
56 23 0.29
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (54 bp):
TTTTAAGTCCACAACTCAGTGGCACCTTTTTAAGTCCACAACTCCATGGCACCA
Found at i:2325364 original size:20 final size:20
Alignment explanation
Indices: 2325339--2325393 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2325329 TTTTTACAAT
*
2325339 TTGTATCAATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
2325359 TTGTATCGATACATTGTTTA
1 TTGTATCGATACATTGTTCA
*
2325379 TCGTATCGATACATT
1 TTGTATCGATACATT
2325394 TATCGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:2325397 original size:17 final size:18
Alignment explanation
Indices: 2325341--2325400 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
2325331 TTTACAATTT
* *
2325341 GTATCAATACATTGTTCATT
1 GTATCGATACATT-TT-ATC
2325361 GTATCGATACATTGTTTATC
1 GTATCGATACA-T-TTTATC
2325381 GTATCGATACA-TTTATC
1 GTATCGATACATTTTATC
2325398 GTA
1 GTA
2325401 ACGTGCACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.25
20 23 0.64
21 3 0.08
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (18 bp):
GTATCGATACATTTTATC
Found at i:2327870 original size:19 final size:18
Alignment explanation
Indices: 2327846--2327945 Score: 103
Period size: 19 Copynumber: 5.9 Consensus size: 18
2327836 CAGTAGCTAA
2327846 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2327865 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2327880 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAA-AC
2327897 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2327912 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAA-AC
2327929 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2327946 TCGTTGAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.32
14 2 0.03
16 4 0.06
18 3 0.04
19 38 0.55
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2327886 original size:13 final size:13
Alignment explanation
Indices: 2327868--2327924 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2327858 ACAATACTTA
2327868 TGTATCGATACAT
1 TGTATCGATACAT
2327881 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2327899 ATGTATCGATACAT
1 -TGTATCGATACAT
2327913 TGTATCGATACA
1 TGTATCGATACA
2327925 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2327890 original size:32 final size:32
Alignment explanation
Indices: 2327849--2327943 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
2327839 TAGCTAATTA
*
2327849 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
2327881 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
2327913 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
2327944 AATCGTTGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:2329646 original size:13 final size:13
Alignment explanation
Indices: 2329628--2329658 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2329618 CAATTTCCTC
2329628 ATGTATCGATACA
1 ATGTATCGATACA
2329641 ATGTATCGATACA
1 ATGTATCGATACA
*
2329654 TTGTA
1 ATGTA
2329659 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2329669 original size:33 final size:34
Alignment explanation
Indices: 2329606--2329674 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
2329596 CGTTACAAGA
*
2329606 AATGTATCGATACAATTTCCTCATGTATCGATAC
1 AATGTATCGATACAATTTACTCATGTATCGATAC
2329640 AATGTATCGATAC-ATTGTAC-CATGTATCGATAC
1 AATGTATCGATACAATT-TACTCATGTATCGATAC
2329673 AA
1 AA
2329675 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (34 bp):
AATGTATCGATACAATTTACTCATGTATCGATAC
Done.