Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 15 of 25
Found at i:2295034 original size:32 final size:32
Alignment explanation
Indices: 2294997--2295059 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2294987 TTCAACAATT
*
2294997 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2295029 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2295060 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2295120 original size:13 final size:13
Alignment explanation
Indices: 2295102--2295127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2295092 CATTTTTCTG
2295102 TGTATCGATACAT
1 TGTATCGATACAT
2295115 TGTATCGATACAT
1 TGTATCGATACAT
2295128 GGATCTTTGT
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:2295124 original size:33 final size:33
Alignment explanation
Indices: 2295082--2295148 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2295072 GCCAAGGAAA
***
2295082 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2295115 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2295148 T
1 T
2295149 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2297614 original size:52 final size:51
Alignment explanation
Indices: 2297488--2297622 Score: 137
Period size: 52 Copynumber: 2.6 Consensus size: 51
2297478 TTGAGTTTCT
* * * *
2297488 CAATTTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACAC
1 CAATTTTT-CACAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* ** * *
2297540 CAATTTTCCTTTAATC-AGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTTC-ACAATCGA-GGATACTCCAACCCCGATTTTATTTCC-AAAACAC
*
2297593 CAATTTTTCACAGTCGAGGATACTCCAACC
1 CAATTTTTCACAATCGAGGATACTCCAACC
2297623 TCGTTATTTC
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
51 1 0.02
52 50 0.77
53 14 0.22
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAACAC
Found at i:2297642 original size:28 final size:28
Alignment explanation
Indices: 2297610--2297681 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2297600 TCACAGTCGA
* **
2297610 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
* *
2297638 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
2297666 GGATACTCCAACCTCG
1 GGATACTCCAACCTCG
2297682 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACTTCAGAGG
Found at i:2297814 original size:78 final size:77
Alignment explanation
Indices: 2297635--2297836 Score: 217
Period size: 78 Copynumber: 2.6 Consensus size: 77
2297625 GTTATTTCAT
* * *
2297635 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-C-GATTTATTCCCAAAATAT
* * *
2297700 TAATTTCTCATAAT
64 CAATTTCTCACAAC
* * ** *
2297714 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTATTCCCAAAAT-AT
*
2297778 CGATTTCTCACAAC
64 CAATTTCTCACAAC
* * * *
2297792 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
2297837 CGTTATTATC
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
77 6 0.06
78 56 0.54
79 40 0.38
80 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGATTTATTCCCAAAATATCA
ATTTCTCACAAC
Found at i:2310274 original size:15 final size:14
Alignment explanation
Indices: 2310254--2310332 Score: 74
Period size: 14 Copynumber: 5.6 Consensus size: 14
2310244 CCTTCTCTTC
2310254 AAAAAAAAAAGAGCA
1 AAAAAAAAAAGA-CA
2310269 AAAAAAAAAAGA-A
1 AAAAAAAAAAGACA
2310282 AAAAAAACAAA-ACA
1 AAAAAAA-AAAGACA
2310296 AAAAAAACAAA-ACA
1 AAAAAAA-AAAGACA
* * *
2310310 AAGAAAAAGAGAGA
1 AAAAAAAAAAGACA
2310324 AAAGAAAAA
1 AAA-AAAAA
2310333 GAACCTGCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
13 11 0.20
14 28 0.50
15 17 0.30
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGACA
Found at i:2311394 original size:59 final size:59
Alignment explanation
Indices: 2311221--2311914 Score: 915
Period size: 59 Copynumber: 12.0 Consensus size: 59
2311211 AGCAGGACAC
* ** *
2311221 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* ** *
2311276 CTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
*
2311336 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
*
2311395 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
**
2311454 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGTGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
2311513 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
2311572 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
2311631 CTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
2311690 CTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC-TTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTT
** *
2311750 C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* ** * *
2311801 CTTTTAAAGCCCACACAAGTTTGTGGCATTTTCCAGTCCTCAAAGAGCAAGACACC---T
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
2311858 C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTT
2311915 CAAAGCGCAC
Statistics
Matches: 585, Mismatches: 36, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
51 1 0.00
54 3 0.01
55 183 0.31
56 4 0.01
57 1 0.00
59 316 0.54
60 56 0.10
61 21 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:2312686 original size:19 final size:19
Alignment explanation
Indices: 2312662--2312729 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2312652 AATTCAACAA
2312662 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2312681 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2312696 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2312713 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2312730 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2312701 original size:13 final size:13
Alignment explanation
Indices: 2312683--2312707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2312673 ACATAAGTTT
2312683 TGTATCGATACAA
1 TGTATCGATACAA
2312696 TGTATCGATACA
1 TGTATCGATACA
2312708 TAAGTATTGT
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:2312705 original size:32 final size:32
Alignment explanation
Indices: 2312664--2312726 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2312654 TTCAACAATT
*
2312664 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2312696 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2312727 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2312787 original size:13 final size:13
Alignment explanation
Indices: 2312769--2312794 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2312759 CATTTTTCTG
2312769 TGTATCGATACAT
1 TGTATCGATACAT
2312782 TGTATCGATACAT
1 TGTATCGATACAT
2312795 GGATCTTTGT
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:2312791 original size:33 final size:33
Alignment explanation
Indices: 2312749--2312815 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2312739 GCCAAGGAAA
***
2312749 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2312782 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2312815 T
1 T
2312816 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2315309 original size:28 final size:28
Alignment explanation
Indices: 2315277--2315348 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2315267 TCACAGTCGA
* * **
2315277 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
2315305 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
2315333 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
2315349 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:2315451 original size:79 final size:79
Alignment explanation
Indices: 2315302--2315506 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
2315292 GTTATTTCAT
* * *
2315302 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
2315367 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
2315381 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
*
2315445 TCGATTTCTCACAGC
65 TCGATTTCTCACAAC
* * * * *
2315460 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCTAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
2315507 TTATTATCTC
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 101 0.97
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:2319410 original size:11 final size:11
Alignment explanation
Indices: 2319396--2319428 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2319386 AAAACGAGAG
2319396 GAAAAAAAAAA
1 GAAAAAAAAAA
*
2319407 GAAAGAAAAAA
1 GAAAAAAAAAA
2319418 GAAAAAAAAAA
1 GAAAAAAAAAA
2319429 ACAGGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:2323363 original size:26 final size:26
Alignment explanation
Indices: 2323334--2323385 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
2323324 ATATAACCCT
* *
2323334 AAAGGGAATTAAAGGAAA-AAGTTTAA
1 AAAGAGAACTAAAGGAAAGAA-TTTAA
*
2323360 AAAGAGAGCTAAAGGAAAGAATTTAA
1 AAAGAGAACTAAAGGAAAGAATTTAA
2323386 GTCAAGACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (26 bp):
AAAGAGAACTAAAGGAAAGAATTTAA
Found at i:2329339 original size:34 final size:34
Alignment explanation
Indices: 2329301--2329381 Score: 137
Period size: 33 Copynumber: 2.4 Consensus size: 34
2329291 TTATTTCACT
2329301 CGTGGCAACCTTTTTCTTTTAAAGTCCACAACTC
1 CGTGGCAACCTTTTTCTTTTAAAGTCCACAACTC
*
2329335 CGTGGCAACC-TTTTCTTTTAAAGTCCACAACTT
1 CGTGGCAACCTTTTTCTTTTAAAGTCCACAACTC
*
2329368 CGTGGCATCCTTTT
1 CGTGGCAACCTTTT
2329382 AAGTCCACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 31 0.70
34 13 0.30
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (34 bp):
CGTGGCAACCTTTTTCTTTTAAAGTCCACAACTC
Found at i:2329348 original size:28 final size:28
Alignment explanation
Indices: 2329316--2329707 Score: 257
Period size: 27 Copynumber: 14.1 Consensus size: 28
2329306 CAACCTTTTT
2329316 CTTTTAAAGTCCACAACTCCGTGGCAACC
1 CTTTTAAAGTCCACAACTCCGTGGCAA-C
* *
2329345 TTTTCTTTTAAAGTCCACAACTTCGTGGCATC
1 ----CTTTTAAAGTCCACAACTCCGTGGCAAC
*
2329377 CTTTT-AAGTCCACAACTTCGTGGC-AC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* * *
2329403 CCTTTAAAGTCCA-AATCTCCATGGCACC
1 CTTTTAAAGTCCACAA-CTCCGTGGCAAC
* *
2329431 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* * *
2329459 CTTTT-AAGTCCTCAACTCTGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
** **
2329486 CTTTTAAAGTCTGCAACTTTGTGGC-AC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* * ** **
2329513 CCTTT-AAGTCCACAATTCTATGGCATT
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* *
2329540 CTTTT-AAGTCCACAACTCTGTGG-TAC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* *
2329566 CCTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* * **
2329594 CTTTT-AAGTCCATAGCTCCGTGGCCCC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* * *
2329621 CTTTT-AAGTCCACAAGTCAGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* * * * * * *
2329648 ATTTCAAAGCCCACAAGTCAGTGG-TAT
1 CTTTTAAAGTCCACAACTCCGTGGCAAC
* * * *
2329675 CTTTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTT-AAAGTCCACAACTCCGTGGCAAC
2329704 CTTT
1 CTTT
2329708 CAAGGCCCAT
Statistics
Matches: 292, Mismatches: 56, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
26 25 0.09
27 146 0.50
28 89 0.30
29 6 0.02
32 1 0.00
33 25 0.09
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCGTGGCAAC
Found at i:2329388 original size:27 final size:27
Alignment explanation
Indices: 2329316--2329635 Score: 292
Period size: 27 Copynumber: 11.6 Consensus size: 27
2329306 CAACCTTTTT
*
2329316 CTTTTAAAGTCCACAACTCCGTGGCAACC
1 CTTTT-AAGTCCACAACTTCGTGGC-ACC
*
2329345 TTTTCTTTTAAAGTCCACAACTTCGTGGCATC
1 ----CTTTT-AAGTCCACAACTTCGTGGCACC
2329377 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACC
* * *
2329404 CTTTAAAGTCCA-AATCTCCATGGCACC
1 CTTTTAAGTCCACAA-CTTCGTGGCACC
*
2329431 CTTTTAAAGTCCACAAC-TCTGTGGCATC
1 CTTTT-AAGTCCACAACTTC-GTGGCACC
*
2329459 CTTTTAAGTCCTCAAC-TCTGTGGCACC
1 CTTTTAAGTCCACAACTTC-GTGGCACC
** *
2329486 CTTTTAAAGTCTGCAACTTTGTGGCACC
1 CTTTT-AAGTCCACAACTTCGTGGCACC
* **
2329514 C-TTTAAGTCCACAA-TTCTATGGCATT
1 CTTTTAAGTCCACAACTTC-GTGGCACC
*
2329540 CTTTTAAGTCCACAAC-TCTGTGGTACC
1 CTTTTAAGTCCACAACTTC-GTGGCACC
* *
2329567 CTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTTCGTGGCACC
* * * *
2329594 CTTTTAAGTCCATAGCTCCGTGGCCCC
1 CTTTTAAGTCCACAACTTCGTGGCACC
2329621 CTTTTAAGTCCACAA
1 CTTTTAAGTCCACAA
2329636 GTCAGTGGCA
Statistics
Matches: 243, Mismatches: 34, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.01
26 16 0.07
27 153 0.63
28 43 0.18
29 3 0.01
32 2 0.01
33 24 0.10
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.32
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTTCGTGGCACC
Found at i:2329625 original size:81 final size:82
Alignment explanation
Indices: 2329318--2330111 Score: 395
Period size: 84 Copynumber: 9.5 Consensus size: 82
2329308 ACCTTTTTCT
*
2329318 TTTAAAGTCCACAACTCCGTGGCAACCTTTTCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTA
1 TTTAAAGTCCACAACTCCGTGGC-ACC----CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTA
2329383 AGTCCACAACT-TCGTGGCACCC
61 AGTCCACAACTCT-GTGGCACCC
* *
2329405 TTTAAAGTCCA-AATCTCCATGGCACCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTC
1 TTTAAAGTCCACAA-CTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
*
2329469 CTCAACTCTGTGGCACCC
65 CACAACTCTGTGGCACCC
** ** * ** *
2329487 TTTTAAAGTCTGCAACTTTGTGGCACCC-TTT-AAGTCCACAATTCTATGGCATTCTTTTAAGTC
1 -TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
*
2329550 CACAACTCTGTGGTACCC
65 CACAACTCTGTGGCACCC
* * **
2329568 TTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCATAGCTCCGTGGCCCCCTTTTAAGTCC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
* * * *
2329632 ACAAGTCAGTGGCATCA
66 ACAACTCTGTGGCACCC
* * * * * * * * *
2329649 TTTCAAAGCCCACAAGTCAGTGGTA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAGG
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAA-G
* * * * *
2329713 CCCATAAGT-TAGTGGCATCA
63 TCCACAACTCT-GTGGCACCC
* * * ** * * * * * * ** *
2329733 TTTCAAAGCCCATAAGTTAGTAGCAGCATTTCAAAGCCCACAAGTCAATGGCA-CCATTTCAAAG
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC-TTT-TAAG
* * * *
2329797 CCCACAAGTCAGTGGCATCC
63 TCCACAACTCTGTGGCACCC
* * * * * * * * * *
2329817 TTTCAAAG-CCTCCAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTT-AAAGTCC-ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTT-TAAG
* * *
2329881 CCCACAAGT-TAGTGGCACCA
63 TCCACAACTCT-GTGGCACCC
* * ** * * ** * * * **
2329901 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAAC
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTT-TAAGT
* *
2329966 CCACAAGTCAGTGGCACCC
64 CCACAACTCTGTGGCACCC
* * * * * * * * * *
2329985 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTT-TAAGT
** * *
2330050 CCACAGGTCAGTGGCATCC
64 CCACAACTCTGTGGCACCC
* * * *
2330069 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTAAAAGCCCACAA
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAA
2330112 GTCAACGACA
Statistics
Matches: 606, Mismatches: 81, Indels: 43
0.83 0.11 0.06
Matches are distributed among these distances:
80 23 0.04
81 93 0.15
82 71 0.12
83 50 0.08
84 336 0.55
85 9 0.01
86 5 0.01
87 19 0.03
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (82 bp):
TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
ACAACTCTGTGGCACCC
Found at i:2329708 original size:28 final size:28
Alignment explanation
Indices: 2329630--2330428 Score: 962
Period size: 28 Copynumber: 28.2 Consensus size: 28
2329620 CCTTTTAAGT
*
2329630 CCACAAGTCAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
2329658 CCACAAGTCAGTGGTATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2329686 CCACAAGTCAGTGGCATCCTTTCAAGGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
2329714 CCATAAGTTAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
2329742 CCATAAGTTAGTAGCAGCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2329770 CCACAAGTCAATGGCA-CCATTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
2329798 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2329826 CTC-CAAGTCAGTGGCATCATTTCAAAGC
1 C-CACAAGTCAGTGGCATCCTTTCAAAGC
2329854 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2329882 CCACAAGTTAGTGGCA-CCATTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
2329910 CCACAAGTTAGTGGCATCCTTTCAAAAC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2329938 CCACAAGTCAGTGGCATCCTTTCAAAAC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2329966 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
2329994 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
2330022 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2330050 CCACAGGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2330078 CCACAAGTCAGTGGCA-CCTTTTAAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
** *
2330106 CCACAAGTCAACGACATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
2330134 CCATAAGTCAGCGACATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
2330162 TCACAAGTCAGTGACACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
2330190 CCAAAAGTCAGCGGCATCCTTTTAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
2330218 CCACAAGTCAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
2330246 CCATAAGTTAGTGGCA-CCATTTTAAAAC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
2330274 CCACAATTCAGTAGCATCCCCTTTCAAAGC
1 CCACAAGTCAGTGGCAT--CCTTTCAAAGC
** *
2330304 CCACAAGTTGGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
2330332 CCACACATGTCGGTGGCAACTCTTTTCAAAGC
1 CCACA-A-GTCAGTGGC-A-TCCTTTCAAAGC
* * * *
2330364 CTACAAGTCAATGGCACCCTTGCAAAGCC
1 CCACAAGTCAGTGGCATCCTTTCAAAG-C
*
2330393 CACACAAGTC-GATGGCAACTCTTTTCAAAGC
1 C-CACAAGTCAG-TGGC-A-TCCTTTCAAAGC
2330424 CCACA
1 CCACA
2330429 CAAGTTAGTG
Statistics
Matches: 672, Mismatches: 78, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
27 7 0.01
28 576 0.86
29 11 0.02
30 49 0.07
31 7 0.01
32 22 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:2330361 original size:32 final size:32
Alignment explanation
Indices: 2330295--2330485 Score: 157
Period size: 32 Copynumber: 6.2 Consensus size: 32
2330285 TAGCATCCCC
* * *
2330295 TTTCAAAG-CC-CACAAGTTGGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCT
* *
2330323 TTTCAAAGCCCACACATGTCGGTGGCAACTCT
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCT
* * *
2330355 TTTCAAAG-CC-TACAAGTCAATGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCT
*
2330383 TTGCAAAGCCCACACAAGTCGATGGCAACTCT
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCT
* * *
2330415 TTTCAAAGCCCACACAAGT-TAGTGGCACCTAT
1 TTTCAAAGCCCACACAAGTCGA-TGGCAACTCT
** ** *
2330447 TTTTTAAGCCCATGCAAGTCGATGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCT
2330479 TTTCAAA
1 TTTCAAA
2330486 TCACCACTTT
Statistics
Matches: 127, Mismatches: 26, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
28 16 0.13
29 6 0.05
30 34 0.27
31 7 0.06
32 63 0.50
33 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGATGGCAACTCT
Found at i:2330622 original size:49 final size:45
Alignment explanation
Indices: 2330510--2330638 Score: 143
Period size: 49 Copynumber: 2.8 Consensus size: 45
2330500 ATCTTAAAGT
* *
2330510 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATTAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATTAGC
* * *
2330555 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCCCACTTTTCCTTTAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG--CACCTTT--ATTAGC
* *
2330604 CCAATATCGTTGGCCTTGAAT-TGACACATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAG-CACATTGGCAC
2330639 TCCTCTTATC
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
45 29 0.41
47 9 0.13
48 1 0.01
49 32 0.45
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATTAGC
Found at i:2336779 original size:13 final size:13
Alignment explanation
Indices: 2336738--2336786 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
2336728 CCGTTACAAG
2336738 CAATGTATCGATA
1 CAATGTATCGATA
2336751 CAAT-T-TC-AT-
1 CAATGTATCGATA
2336760 C-ATGTATCGATA
1 CAATGTATCGATA
2336772 CAATGTATCGATA
1 CAATGTATCGATA
2336785 CA
1 CA
2336787 TTGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2336779 original size:34 final size:33
Alignment explanation
Indices: 2336738--2336807 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
2336728 CCGTTACAAG
*
2336738 CAATGTATCGATACAATT-TCATCATGTATCGATA
1 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
*
2336772 CAATGTATCGATACATTGTCCCATGTATTGATA
1 CAATGTATCGATACATTGTCCCATGTATCGATA
2336805 CAA
1 CAA
2336808 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCCCATGTATCGATA
Found at i:2336858 original size:20 final size:20
Alignment explanation
Indices: 2336835--2336890 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
2336825 ACTGCCAATC
* *
2336835 TCATGTAGCGATACAATTGT
1 TCATGTATCGATACAATTGA
2336855 TCATGTATCGATACAA-TGA
1 TCATGTATCGATACAATTGA
*
2336874 GCATGTATCGATACAAT
1 TCATGTATCGATACAAT
2336891 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:2336894 original size:13 final size:13
Alignment explanation
Indices: 2336876--2336901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2336866 TACAATGAGC
2336876 ATGTATCGATACA
1 ATGTATCGATACA
2336889 ATGTATCGATACA
1 ATGTATCGATACA
2336902 TCTGGGAGTG
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:2337456 original size:21 final size:21
Alignment explanation
Indices: 2337430--2337497 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
2337420 TGTTTTACTC
*
2337430 CCCCTTAATTAAAGAATTTCT
1 CCCCTTAATCAAAGAATTTCT
** * *
2337451 CCCCTTTGTCAAAAAAATTCT
1 CCCCTTAATCAAAGAATTTCT
*
2337472 CCCCCTTAATCAAAGCATTTCT
1 -CCCCTTAATCAAAGAATTTCT
2337494 CCCC
1 CCCC
2337498 CTTTGTCAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.29, C:0.34, G:0.04, T:0.32
Consensus pattern (21 bp):
CCCCTTAATCAAAGAATTTCT
Found at i:2337469 original size:22 final size:23
Alignment explanation
Indices: 2337444--2337507 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
2337434 TTAATTAAAG
2337444 AATTTCT-CCCCTTTGTCAAAAA
1 AATTTCTCCCCCTTTGTCAAAAA
** *
2337466 AA-TTCTCCCCCTTAATC-AAAG
1 AATTTCTCCCCCTTTGTCAAAAA
*
2337487 CATTTCTCCCCCTTTGTCAAA
1 AATTTCTCCCCCTTTGTCAAA
2337508 TGACAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 8 0.24
22 23 0.70
23 2 0.06
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.34
Consensus pattern (23 bp):
AATTTCTCCCCCTTTGTCAAAAA
Found at i:2343958 original size:3 final size:3
Alignment explanation
Indices: 2343950--2343974 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2343940 TCCGAGTCAC
2343950 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
2343975 TTCCTCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:2345607 original size:20 final size:21
Alignment explanation
Indices: 2345563--2345609 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2345553 GTTACAAGCA
2345563 ATGTATCGATACAATTTCATC
1 ATGTATCGATACAATTTCATC
2345584 ATGTATCGATAC-ATTGTC-TC
1 ATGTATCGATACAATT-TCATC
2345604 ATGTAT
1 ATGTAT
2345610 TAATACAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACAATTTCATC
Found at i:2345670 original size:20 final size:20
Alignment explanation
Indices: 2345645--2345700 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
2345635 ACTGCCAATC
*
2345645 TCATGTATCGATACAATTGT
1 TCATGTATCGATACAATTGA
2345665 TCATGTATCGATACAA-TGA
1 TCATGTATCGATACAATTGA
*
2345684 GCATGTATCGATACAAT
1 TCATGTATCGATACAAT
2345701 GTATCGATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:2345704 original size:13 final size:13
Alignment explanation
Indices: 2345686--2345712 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2345676 TACAATGAGC
2345686 ATGTATCGATACA
1 ATGTATCGATACA
2345699 ATGTATCGATACA
1 ATGTATCGATACA
2345712 A
1 A
2345713 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2347510 original size:19 final size:19
Alignment explanation
Indices: 2347483--2347520 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2347473 TTTGTATCGA
2347483 TTCAATGTATCGATACATG
1 TTCAATGTATCGATACATG
* *
2347502 TTCATTGTATTGATACATG
1 TTCAATGTATCGATACATG
2347521 AAACTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (19 bp):
TTCAATGTATCGATACATG
Found at i:2347584 original size:13 final size:13
Alignment explanation
Indices: 2347566--2347617 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
2347556 GATACGTGGC
2347566 ACATTGTATCGAT
1 ACATTGTATCGAT
2347579 ACATTGTATCGAT
1 ACATTGTATCGAT
2347592 ACA-TG-AT-G--
1 ACATTGTATCGAT
2347600 A-ATTGTATCGAT
1 ACATTGTATCGAT
2347612 ACATTG
1 ACATTG
2347618 CTTCAAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2347586 original size:33 final size:32
Alignment explanation
Indices: 2347549--2347617 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
2347539 CTACCACTAT
*
2347549 TTGTATCGATACGTG-GCACATTGTATCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
2347582 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
2347615 TTG
1 TTG
2347618 CTTCAAATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:2353931 original size:21 final size:22
Alignment explanation
Indices: 2353907--2353956 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
2353897 ATCAAATCTT
2353907 CTTCAAAA-ATCTT-ATTTTTCA
1 CTTCAAAATA-CTTCATTTTTCA
2353928 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
2353950 --TCAAAAT
1 CTTCAAAAT
2353957 CATTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.26
21 11 0.41
22 9 0.33
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:2353953 original size:20 final size:19
Alignment explanation
Indices: 2353912--2353957 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2353902 ATCTTCTTCA
2353912 AAAATCTTATTTTTCACTTC
1 AAAATCTTATTTTTCAC-TC
2353932 AAAATACTTCATTTTTCA-TC
1 AAAAT-CTT-ATTTTTCACTC
2353952 AAAATC
1 AAAATC
2353958 ATTAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 3 0.12
22 8 0.33
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATCTTATTTTTCACTC
Found at i:2355679 original size:23 final size:23
Alignment explanation
Indices: 2355653--2355696 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2355643 ATTGTTTTGA
2355653 AAATAGATTTTTATC-AAGGGAGG
1 AAAT-GATTTTTATCAAAGGGAGG
**
2355676 AAATTTTTTTTATCAAAGGGA
1 AAATGATTTTTATCAAAGGGA
2355697 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (23 bp):
AAATGATTTTTATCAAAGGGAGG
Found at i:2355688 original size:22 final size:21
Alignment explanation
Indices: 2355660--2355705 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
2355650 TGAAAATAGA
2355660 TTTTTATC-AAGGGAGGAAATTT
1 TTTTTATCAAAGGGA--AAATTT
2355682 TTTTTATCAAAGGGAAAATTT
1 TTTTTATCAAAGGGAAAATTT
2355703 TTT
1 TTT
2355706 AACGAGAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.39
22 8 0.35
23 6 0.26
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TTTTTATCAAAGGGAAAATTT
Found at i:2356334 original size:20 final size:20
Alignment explanation
Indices: 2356288--2356346 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
2356278 TTGTATTGAT
*
2356288 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGA
*
2356307 TC-ATTGTATCGATACATGA
1 ACAATTGTATCGATACATGA
2356326 ACAATTGTATCGATACATGA
1 ACAATTGTATCGATACATGA
2356346 A
1 A
2356347 ACTAGCAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.03
19 16 0.46
20 18 0.51
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
ACAATTGTATCGATACATGA
Found at i:2357526 original size:66 final size:66
Alignment explanation
Indices: 2357414--2357538 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 66
2357404 TTTAAATTCG
*
2357414 TTGACTTTATTAGTTTCACCCTGGTCAACCCTATTTCAACTTAGGTTTCACCTTAGTCACTTTTA
1 TTGACTTTATTAGTTTCACCCTGGTCAACCCTATTTCAACTAAGGTTTCACCTTAGTCACTTTTA
2357479 A
66 A
* ** * ** *
2357480 TTGACTTTATTGGTTTTGCCCTGGTCAACTTCT-TTTTGACTAAGGTTTCACCTTGGTCA
1 TTGACTTTATTAGTTTCACCCTGGTCAAC-CCTATTTCAACTAAGGTTTCACCTTAGTCA
2357539 ACCTTCCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
66 48 0.96
67 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (66 bp):
TTGACTTTATTAGTTTCACCCTGGTCAACCCTATTTCAACTAAGGTTTCACCTTAGTCACTTTTA
A
Found at i:2360399 original size:164 final size:166
Alignment explanation
Indices: 2360144--2360641 Score: 555
Period size: 164 Copynumber: 3.0 Consensus size: 166
2360134 ATAGTTCAGA
* *
2360144 GATTAAATAG-TAAATTTTAGTTTTTGGAGGTAAAAACATCATTTTAGTCATTTTTAAAGATTTC
1 GATTAAATAGCAAAATTTTAGTTTTTAGAGGTAAAAACATCA-TTTAGTCATTTTTAAAGATTTC
* * * * * *
2360208 TATTACTCCTATGGCCTTCCT-TAGGGGTATACAAATTTTCGAGACTATTCATATCCTCTCGGTT
65 TATTAATCCTATGGCCTT-TTGTAGGGGTATAAAAATTTTCAAGACTTTTCATATCCTCTTGGTT
*
2360272 TTCCATCAATGACGAAATGAAATTTTTACAAGTTTAGG
129 TTCCATCAATGACGAAATAAAATTTTTACAAGTTTAGG
*
2360310 GATTAAATAGCAAAATTTT-GTTTTTAGAGGTAAAAACATCATTT-GTCATTTTTAAAGTTTTCT
1 GATTAAATAGCAAAATTTTAGTTTTTAGAGGTAAAAACATCATTTAGTCATTTTTAAAGATTTCT
* * ** * *
2360373 ATTAATCCTATGGCCTTTTGTAGGGGTATAAAAATTTTTAAAACTTTTTGTATCTTCTTGATTTT
66 ATTAATCCTATGGCCTTTTGTAGGGGTATAAAAATTTTCAAGACTTTTCATATCCTCTTGGTTTT
** *
2360438 -CAGTC-GGGTATGAAATAAAATTTTT-CAAAGTTTAGG
131 CCA-TCAATG-ACGAAATAAAATTTTTAC-AAGTTTAGG
* * * *
2360474 GATTAAATA-CCAAATTTTAGTTTTTAGAGGTAAAATCATCTTTTTAGTCTTTTTTTTTAAAGAT
1 GATTAAATAGCAAAATTTTAGTTTTTAGAGGTAAAAACATC-ATTTAGTC---ATTTTTAAAGAT
* * * ** *
2360538 TTCTATTATTCCTATGGCCTTTTGTAGAGGCATAAAAATACTCAAGACTTTTCATATCCTCTTAG
62 TTCTATTAATCCTATGGCCTTTTGTAGGGGTATAAAAATTTTCAAGACTTTTCATATCCTCTTGG
* * *
2360603 TTTTCCATCAAAT-ACAAAATAAAATTTTAAAAAGTTTAG
127 TTTTCCATC-AATGACGAAATAAAATTTTTACAAGTTTAG
2360642 AGGCTTAATT
Statistics
Matches: 275, Mismatches: 42, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
163 13 0.05
164 123 0.45
165 6 0.02
166 34 0.12
167 7 0.03
169 90 0.33
170 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (166 bp):
GATTAAATAGCAAAATTTTAGTTTTTAGAGGTAAAAACATCATTTAGTCATTTTTAAAGATTTCT
ATTAATCCTATGGCCTTTTGTAGGGGTATAAAAATTTTCAAGACTTTTCATATCCTCTTGGTTTT
CCATCAATGACGAAATAAAATTTTTACAAGTTTAGG
Found at i:2361124 original size:155 final size:154
Alignment explanation
Indices: 2360739--2361546 Score: 665
Period size: 155 Copynumber: 5.2 Consensus size: 154
2360729 TTAGTGTCTA
* * * * * * **
2360739 TTAGGGTTATCAAGGTACTTTCACGTTGAAA-ATATACCT-AGGGACATTTTTGTAATTTT-TTA
1 TTAGGGTTACCAAGATACTTTCATG-TCAAAGGTATACCTAAGGG-TATTTTCATAATTTTCTTA
* * * * * **
2360801 AAATCGAGTTTTAGGTAGTCACTAGG-TCGCTTTTATGCCAAAGGTCTATATATAGGATAGGTTC
64 GAATCAAGTCTTAGGTTGTCACCAGGAT-GCTTTTATGCCAAAGGTCTGCAT-TAGGATAGGTTC
* **
2360865 AT-CCTTTTATGAT-ATTTTTTA-TCCT
127 ATCCCATTTATGATCATTTTCAAGTCCT
** * * *
2360890 TTAGGGTTA-CAAGAATACTTTCATGTTGAAGATATACCCTAAGGGTAGTTTAATAATTTTCTTA
1 TTAGGGTTACCAAG-ATACTTTCATGTCAAAGGTATA-CCTAAGGGTATTTTCATAATTTTCTTA
** * *
2360954 GAATTGAGTCTTAGGTTGTCACCGGGATGCTTTTATGCCAAAGGTTTGCAGTTAGGATAGGTTCA
64 GAATCAAGTCTTAGGTTGTCACCAGGATGCTTTTATGCCAAAGGTCTGCA-TTAGGATAGGTTCA
2361019 TCCCATTTATGATCATTTTCAAGTCCT
128 TCCCATTTATGATCATTTTCAAGTCCT
* * * * * * *
2361046 TTAAGGTTACCAAGATATTTTTATGTTAAATGTATACCTAAGGGTATTTTCGTAATTTTTTTAGA
1 TTAGGGTTACCAAGATACTTTCATGTCAAAGGTATACCTAAGGGTATTTTCATAATTTTCTTAGA
* ** *
2361111 ACCAAGTCTTAGGTTGTCACTGGGATGCTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCATC
66 ATCAAGTCTTAGGTTGTCACCAGGATGCTTTTATGCCAAAGGTCTGCA-TTAGGATAGGTTCATC
* * * *
2361176 CAATTTATGGTTATCTTCAAG-CCTT
130 CCATTTATGATCATTTTCAAGTCC-T
* *
2361201 TTAGGGTTATC-AGAATACTTTCATGTCGAAGGTATAACCTAAGGGTATTTTCATAATTTT-TTC
1 TTAGGGTTACCAAG-ATACTTTCATGTCAAAGGTAT-ACCTAAGGGTATTTTCATAATTTTCTT-
* * * * * * * * *
2361264 AAAATCAAGTCCTAAGTAGTCATCAGG-TCACTTTTATGTCGAAGGTCTACATATAGGATAGGTT
63 AGAATCAAGTCTTAGGTTGTCACCAGGAT-GCTTTTATGCCAAAGGTCTGCAT-TAGGATAGGTT
* * * * *
2361328 CATCCTAGTCATTATC-TTTTCTTA-TCCT
126 CATCCCATTTATGATCATTTTC-AAGTCCT
* * * * * * * **
2361356 TTAAGGTTACTAGGACATTTTCATGTCAAAGGTATACTTTAGGGTATTTTTGTAATTTTCTTAGA
1 TTAGGGTTACCAAGATACTTTCATGTCAAAGGTATACCTAAGGGTATTTTCATAATTTTCTTAGA
* * * * *
2361421 ATTAAGTCTTAGGTTATCACCAGGATGCTTTTATGCCAAAAGTATGCATTTAGGATAAGTTCATC
66 ATCAAGTCTTAGGTTGTCACCAGGATGCTTTTATGCCAAAGGTCTGCA-TTAGGATAGGTTCATC
* *
2361486 CCATTTATGATTATTTTTAAGT-CT
130 CCATTTATGATCATTTTCAAGTCCT
* * *
2361510 TTCAGGGTTATCAAGATACTTTTATGTCGAAGGTATA
1 TT-AGGGTTACCAAGATACTTTCATGTCAAAGGTATA
2361547 TCCCGAGAGG
Statistics
Matches: 522, Mismatches: 109, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
150 7 0.01
151 23 0.04
152 14 0.03
153 60 0.11
154 98 0.19
155 203 0.39
156 113 0.22
157 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (154 bp):
TTAGGGTTACCAAGATACTTTCATGTCAAAGGTATACCTAAGGGTATTTTCATAATTTTCTTAGA
ATCAAGTCTTAGGTTGTCACCAGGATGCTTTTATGCCAAAGGTCTGCATTAGGATAGGTTCATCC
CATTTATGATCATTTTCAAGTCCT
Found at i:2361471 original size:310 final size:309
Alignment explanation
Indices: 2360771--2361546 Score: 829
Period size: 310 Copynumber: 2.5 Consensus size: 309
2360761 ACGTTGAAAA
* * * *
2360771 TATACCT-AGGGACATTTTTGTAATTTTTTAAAATCGAGTTTTAGG-TAGTCACTAGG-TCGCTT
1 TATACCTAAGGG-TATTTTTGTAATTTTTTAGAATCAAGTCTTAGGTTA-TCACTAGGAT-GCTT
* ** * * * * *
2360833 TTATGCCAAAGGTCTATATATAGGATAGGTTCATCCTTTTAT-GATATTTTTTATCC-TTTAGGG
63 TTATGCCAAAGGTATGCATTTAGGATAGGTTCATCCATTTATGGTTATTTTTAAGCCTTTTAGGG
* * * * **
2360896 TTA-CAAGAATACTTTCATGTTGAAGATATACCCTAAGGGTAGTTTAATAATTTTCTTAGAATTG
128 TTATC-AGAATACTTTCATGTCGAAGGTATAACCTAAGGGTAGTTTAATAATTTTCTTAAAATCA
* * * * * * * *
2360960 AGTCTTAGGTTGTCACCGGGATGCTTTTATGCCAAAGGTTTGCAGTTAGGATAGGTTCATCCCAT
192 AGTCCTAAGTAGTCACCAGGATACTTTTATGCCAAAGGTCTACAGTTAGGATAGGTTCATCCCAG
* * * * *
2361025 TTATGATCATTTTCAAGTCCTTTAAGGTTACCAAGATATTTTTATGTTAAATG
257 TCATGATCATTTTCAAGTCCTTTAAGGTTACCAAGACATTTTCATGTCAAAGG
* * * *
2361078 TATACCTAAGGGTATTTTCGTAATTTTTTTAGAACCAAGTCTTAGGTTGTCACTGGGATGCTTTT
1 TATACCTAAGGGTATTTTTGTAA-TTTTTTAGAATCAAGTCTTAGGTTATCACTAGGATGCTTTT
* * *
2361143 ATGCCAAAGGTGTGCATTTAGGATAGGTTCATCCAATTTATGGTTATCTTCAAGCCTTTTAGGGT
65 ATGCCAAAGGTATGCATTTAGGATAGGTTCATCC-ATTTATGGTTATTTTTAAGCCTTTTAGGGT
* *
2361208 TATCAGAATACTTTCATGTCGAAGGTATAACCTAAGGGTATTTTCATAATTTT-TTCAAAATCAA
129 TATCAGAATACTTTCATGTCGAAGGTATAACCTAAGGGTAGTTTAATAATTTTCTT-AAAATCAA
* * * *
2361272 GTCCTAAGTAGTCATCAGG-TCACTTTTATGTCGAAGGTCTACA-TATAGGATAGGTTCATCCTA
193 GTCCTAAGTAGTCACCAGGAT-ACTTTTATGCCAAAGGTCTACAGT-TAGGATAGGTTCATCCCA
* * * *
2361335 GTCATTATC-TTTTCTTA-TCCTTTAAGGTTACTAGGACATTTTCATGTCAAAGG
256 GTCATGATCATTTTC-AAGTCCTTTAAGGTTACCAAGACATTTTCATGTCAAAGG
* * * *
2361388 TATACTTTAGGGTATTTTTGTAATTTTCTTAGAATTAAGTCTTAGGTTATCACCAGGATGCTTTT
1 TATACCTAAGGGTATTTTTGTAATTTT-TTAGAATCAAGTCTTAGGTTATCACTAGGATGCTTTT
* * * * *
2361453 ATGCCAAAAGTATGCATTTAGGATAAGTTCATCCCATTTATGATTATTTTTAAGTCTTTCAGGGT
65 ATGCCAAAGGTATGCATTTAGGATAGGTTCAT-CCATTTATGGTTATTTTTAAGCCTTTTAGGGT
*
2361518 TATCA-AGATACTTTTATGTCGAAGGTATA
129 TATCAGA-ATACTTTCATGTCGAAGGTATA
2361547 TCCCGAGAGG
Statistics
Matches: 390, Mismatches: 64, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
307 16 0.04
308 65 0.17
309 12 0.03
310 180 0.46
311 116 0.30
312 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (309 bp):
TATACCTAAGGGTATTTTTGTAATTTTTTAGAATCAAGTCTTAGGTTATCACTAGGATGCTTTTA
TGCCAAAGGTATGCATTTAGGATAGGTTCATCCATTTATGGTTATTTTTAAGCCTTTTAGGGTTA
TCAGAATACTTTCATGTCGAAGGTATAACCTAAGGGTAGTTTAATAATTTTCTTAAAATCAAGTC
CTAAGTAGTCACCAGGATACTTTTATGCCAAAGGTCTACAGTTAGGATAGGTTCATCCCAGTCAT
GATCATTTTCAAGTCCTTTAAGGTTACCAAGACATTTTCATGTCAAAGG
Found at i:2364390 original size:79 final size:79
Alignment explanation
Indices: 2364307--2364637 Score: 353
Period size: 79 Copynumber: 4.2 Consensus size: 79
2364297 ATAAAATCGA
* * * * * *
2364307 GGTTGCAGTATCCCCGATGGTGGAAAATTGGTGTTTTGAAAATAAAACTGGGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTGGAGTATCCC
2364372 CTCGAAAATAACGG
66 CTCGAAAATAACGG
* ** * * * *
2364386 GGTTGGAGTATCCTCGATTGTAAAAAATCGGTATTTT-AGAAATAAAATTGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGA-AAATAAAACTGAGGTTGGAGTATCC
* *
2364450 CCTTGAAAATAACAG
65 CCTCGAAAATAACGG
* * * * * * * *
2364465 GATTAGAGTATCTCTGACTCTGGAAAATCGATGTTTTGGAAGTAAAACTGAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTGGAGTATCCC
* *
2364530 TTCAAAAATAACGG
66 CTCGAAAATAACGG
*
2364544 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAA-TCGAGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACT-GAGGTTGGAGTATCC
*
2364608 CCTC-AGAAATAAAGG
65 CCTCGA-AAATAACGG
*
2364623 GGTAGGAGTACTCCC
1 GGTTGGAGTA-TCCC
2364638 TCGGAAATAA
Statistics
Matches: 207, Mismatches: 40, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
78 3 0.01
79 200 0.97
80 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTGGAGTATCCC
CTCGAAAATAACGG
Found at i:2364428 original size:130 final size:128
Alignment explanation
Indices: 2364187--2364451 Score: 350
Period size: 130 Copynumber: 2.1 Consensus size: 128
2364177 GGGGCTAGAT
* * * *
2364187 TATCCCCGATTGTGGAAAATTGGTGTTTTGAAAAAAAACTGGGTTGGAGTATCCTCTCGGAAATA
1 TATCCCCGATGGTGGAAAATTGGTGTTTTGAAAAAAAACTGGGTTAGAGTATCCCCTCGAAAATA
* * * * *
2364252 ATAAGGTTGGAGTATCCCCGATTATGAAGAATCAATGTTTTGGAAATAAAATCGAGGTTGCAG
66 ACAAGGTTGGAGTATCCCCGATTATAAAAAATCAATATTTTAGAAATAAAATCGAGGTTGCAG
2364315 TATCCCCGATGGTGGAAAATTGGTGTTTTGAAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAA
1 TATCCCCGATGGTGGAAAATTGGTGTTTTGAAAA-AAAACT-GGGTTAGAGTATCCCCTCGAAAA
** * * ** * * *
2364380 TAACGGGGTTGGAGTATCCTCGATTGTAAAAAATCGGTATTTTAGAAATAAAATTGGGGTTGGAG
64 TAACAAGGTTGGAGTATCCCCGATTATAAAAAATCAATATTTTAGAAATAAAATCGAGGTTGCAG
2364445 TATCCCC
1 TATCCCC
2364452 TTGAAAATAA
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
128 33 0.28
129 6 0.05
130 78 0.67
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (128 bp):
TATCCCCGATGGTGGAAAATTGGTGTTTTGAAAAAAAACTGGGTTAGAGTATCCCCTCGAAAATA
ACAAGGTTGGAGTATCCCCGATTATAAAAAATCAATATTTTAGAAATAAAATCGAGGTTGCAG
Found at i:2364619 original size:158 final size:158
Alignment explanation
Indices: 2364327--2364616 Score: 418
Period size: 158 Copynumber: 1.8 Consensus size: 158
2364317 TCCCCGATGG
* * * *
2364327 TGGAAAATTGGTGTTTTGAAAATAAAACTGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGG
1 TGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGG
* * * * *
2364392 AGTATCCTCGATTGTAAAAAATCGGTATTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTTGAA
66 AGTATCCCCGATTGTAAAAAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTAGAA
2364457 AATAACAGGATTAGAGTATCTCTGACTC
131 AATAACAGGATTAGAGTATCTCTGACTC
* * * *
2364485 TGGAAAATCGATGTTTTGGAAGTAAAACTGAGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGG
1 TGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGG
** * *
2364550 AGTATCCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTCAGA
66 AGTATCCCCGATTGTAAAAAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCT-AGA
2364615 AA
130 AA
2364617 TAAAGGGGTA
Statistics
Matches: 114, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
158 110 0.96
159 4 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (158 bp):
TGGAAAATCGATGTTTTGAAAATAAAACTGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGG
AGTATCCCCGATTGTAAAAAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTAGAA
AATAACAGGATTAGAGTATCTCTGACTC
Found at i:2364638 original size:28 final size:28
Alignment explanation
Indices: 2364599--2364663 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
2364589 AATCGAGGTT
2364599 GGAGTATCCCCTCAGAAATAAAGGGGTA
1 GGAGTATCCCCTCAGAAATAAAGGGGTA
* * *
2364627 GGAGTA-CTCCCTCGGAAATAACGGGGTT
1 GGAGTATC-CCCTCAGAAATAAAGGGGTA
*
2364655 GAAGTATCC
1 GGAGTATCC
2364664 TCAATTATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 29 0.94
29 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (28 bp):
GGAGTATCCCCTCAGAAATAAAGGGGTA
Found at i:2364646 original size:107 final size:106
Alignment explanation
Indices: 2364520--2364743 Score: 297
Period size: 107 Copynumber: 2.1 Consensus size: 106
2364510 AACTGAGGTT
** * * * *
2364520 GGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGGAA
1 GGAGTATCCC-TCGGAAATAACGGGGTTGAAGTATCCCCAATTATGGAAAATCAATGTTTTGGAA
* *
2364585 ATAAAATCGAGGTTGGAGTATCCCCTC-AGAAATAAAGGGGTA
65 ACAAAACCGAGGTTGGAGTATCCCCTCGA-AAATAAAGGGGTA
* *
2364627 GGAGTACTCCCTCGGAAATAACGGGGTTGAAGTATCCTCAATTATGGAGAATCAATGTTTTGGAA
1 GGAGTA-TCCCTCGGAAATAACGGGGTTGAAGTATCCCCAATTATGGAAAATCAATGTTTTGGAA
* * *
2364692 ACAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
65 ACAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAAGGGGTA
2364734 GGAGTATCCC
1 GGAGTATCCC
2364744 CGATTATGAA
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
106 4 0.04
107 93 0.91
108 5 0.05
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (106 bp):
GGAGTATCCCTCGGAAATAACGGGGTTGAAGTATCCCCAATTATGGAAAATCAATGTTTTGGAAA
CAAAACCGAGGTTGGAGTATCCCCTCGAAAATAAAGGGGTA
Found at i:2364765 original size:79 final size:79
Alignment explanation
Indices: 2364621--2364776 Score: 197
Period size: 79 Copynumber: 2.0 Consensus size: 79
2364611 CAGAAATAAA
* * * *
2364621 GGGGTAGGAGTACTCCCTCGGAAATAACGGGGTTGAAGTATCCTCAATTATGGAGAATCAATGTT
1 GGGGTAGGAGTACTCCCTCGAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCAATGTT
*
2364686 TTGGAAACAAAACC
66 TTAGAAACAAAACC
* * * **
2364700 GGGGTTGGAGTA-TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGT
1 GGGGTAGGAGTACT-CCCTCGAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCAATGT
*
2364764 TTTAGAAATAAAA
65 TTTAGAAACAAAA
2364777 ATATGAATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.02
79 64 0.98
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (79 bp):
GGGGTAGGAGTACTCCCTCGAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCAATGTT
TTAGAAACAAAACC
Found at i:2367148 original size:33 final size:33
Alignment explanation
Indices: 2367111--2367177 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2367101 AAAATGCCTG
** *
2367111 AATGTATCGATACTTTGAAAAATGTATTGATAC
1 AATGTATCGATACAATGAAAAATGTATCGATAC
*
2367144 AATGTATCGATACAATGAACAATGTATCGATAC
1 AATGTATCGATACAATGAAAAATGTATCGATAC
2367177 A
1 A
2367178 TCTAGGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (33 bp):
AATGTATCGATACAATGAAAAATGTATCGATAC
Found at i:2367149 original size:13 final size:13
Alignment explanation
Indices: 2367131--2367160 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2367121 TACTTTGAAA
*
2367131 AATGTATTGATAC
1 AATGTATCGATAC
2367144 AATGTATCGATAC
1 AATGTATCGATAC
2367157 AATG
1 AATG
2367161 AACAATGTAT
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:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2367167 original size:20 final size:20
Alignment explanation
Indices: 2367142--2367228 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
2367132 ATGTATTGAT
2367142 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
2367162 ACAATGTATCGATACATCTAGGTAAA
1 ACAATGTATCGATACA---A--T-GA
2367188 ACCCAGAATGTATCGATACAATGA
1 A--C--AATGTATCGATACAATGA
2367212 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
2367229 ATTGTGAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
20 31 0.56
22 1 0.02
23 1 0.02
24 2 0.04
25 2 0.04
26 2 0.04
27 1 0.02
28 1 0.02
30 14 0.25
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:2367947 original size:75 final size:77
Alignment explanation
Indices: 2367816--2367993 Score: 227
Period size: 75 Copynumber: 2.4 Consensus size: 77
2367806 AGGAATGGGC
* * ** *
2367816 GTCCTGCACTTTGAGGACAAATG-AAAAGGAGCATGTCCTGCTCTTCGAGGACAAAGGAAACGA-
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGCACATCCTGCTCTTCGAGGACAAAGGAAACAAG
*
2367879 G-AATGAAATGG
66 GAAATAAAATGG
* * * *
2367890 GTCCTGCTCCTTGAGGACAAAGGAAAAAGGAGTACATCCTGCTCTTCGAGGATAAAGGAAATAAG
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGCACATCCTGCTCTTCGAGGACAAAGGAAACAAG
*
2367955 GAAATAAAATGT
66 GAAATAAAATGG
*
2367967 GTCCTACTCTTTGAGGACAAAGGAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAAAA
2367994 GAAGGAAATT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
74 20 0.23
75 34 0.39
76 1 0.01
77 33 0.38
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (77 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAAGGAGCACATCCTGCTCTTCGAGGACAAAGGAAACAAG
GAAATAAAATGG
Found at i:2367983 original size:42 final size:44
Alignment explanation
Indices: 2367926--2368028 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
2367916 AAGGAGTACA
* * *
2367926 TCCTGCTCTTCGAGGATAAAGG-AAATAAGGAAA-TAAAATGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATTAAAATGTG
* *
2367968 TCCTACTCTTTGAGGACAAAGGAAAAGAAGGAAATTAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATTAAAATGTG
*
2368012 TCCTGCTCTTTGGGGAC
1 TCCTGCTCTTTGAGGAC
2368029 TAGAAGATGC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 19 0.37
43 10 0.19
44 23 0.44
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (44 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATTAAAATGTG
Found at i:2368103 original size:59 final size:59
Alignment explanation
Indices: 2368011--2368420 Score: 563
Period size: 59 Copynumber: 6.9 Consensus size: 59
2368001 ATTAAAGTGT
* *
2368011 GTCCTGCTCTTTGGGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGC
* *
2368070 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTGAGAGGAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGC
* *
2368129 ATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGC
* * * * *
2368188 GTTCTGCTCTTTGA-GAATTGAAAGGTGCCACTAACTTGTGTAGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GC
*
2368249 GTCCTGCTCTTTGAGGACTA-ACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGC
1 GTCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGC
* * * * * *
2368308 ATCCTACTCTTTGAAGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGC
* * * * *
2368367 GTCCTGCTCTTTGAGGTCTGGAAGGTGCCACCAACTTATGTTGGCTTTGGAAGG
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
2368421 TTTGCCACCA
Statistics
Matches: 309, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
58 4 0.01
59 251 0.81
60 8 0.03
61 43 0.14
62 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (59 bp):
GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGC
Found at i:2368312 original size:179 final size:177
Alignment explanation
Indices: 2368011--2368420 Score: 585
Period size: 179 Copynumber: 2.3 Consensus size: 177
2368001 ATTAAAGTGT
* * *
2368011 GTCCTGCTCTTTGGGGA-CT-AGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCGTCC
1 GTCCTGCTCTTT-GAGATCTGA-AAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAAGCGTCC
* * *
2368074 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTGAGAGGAAAGCATCCTGCTCT
64 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAGCATCCTACTCT
* * *
2368139 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAC
129 TTGAAGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAC
* *
2368188 GTTCTGCTCTTTGAGAAT-TGAAAGGTGCCACTAACTTGTGTAGGCTTTGAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAG-ATCTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGG-AAA-GCGTC
*
2368252 CTGCTCTTTGAGGACTA-ACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCATCCTACT
63 CTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAGCATCCTACT
2368316 CTTTGAAGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAC
127 CTTTGAAGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAC
* * * * *
2368367 GTCCTGCTCTTTGAGGTCTGGAAGGTGCCACCAACTTATGTTGGCTTTGGAAGG
1 GTCCTGCTCTTTGAGATCTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGG
2368421 TTTGCCACCA
Statistics
Matches: 207, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
176 2 0.01
177 43 0.21
178 6 0.03
179 156 0.75
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (177 bp):
GTCCTGCTCTTTGAGATCTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAAGCGTCCTG
CTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAGCATCCTACTCTTT
GAAGACTAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAC
Found at i:2368906 original size:61 final size:60
Alignment explanation
Indices: 2368698--2369319 Score: 708
Period size: 61 Copynumber: 10.3 Consensus size: 60
2368688 AAGCGTGTCT
* *
2368698 TGCTCTTT-AGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTGGAAA--AGAAAGCGTCC
1 TGCTCTTTGA-GGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
** * *
2368757 TATTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAA-TGTCC
1 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
* *
2368816 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGTGTCC
1 TGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
* * * * *
2368877 TACTCTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCATCT
1 TGCTCTTTGAGGACTGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
* * * * * **
2368937 TGCTCTTTGAGGACTAAAAGGTGCCACCAATTTTTGTGGGCTTTAAAAGGAGAAAGTATCC
1 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
*
2368998 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAA-CATCC
1 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
* * *
2369057 TACTCTTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAAGTTGTCC
1 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG-CGTCC
*
2369118 TGCTCTTTGAGGACTGACAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTGA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA-GCGTCC
* * * * * * *
2369179 TCCTCTTTGAGGACTGAAAGGTGCCACCGACTTGTATAGGG-TTTAAAAGGAGAAGGCATCC
1 TGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGT-GGGCTTTGAAAGGAAAAAGCGTCC
* ** *
2369240 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGGCATCC
1 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAAGCGTCC
2369302 TGCTCTTTGAGGACTGAA
1 TGCTCTTTGAGGACTGAA
2369320 AGGATAAAAG
Statistics
Matches: 491, Mismatches: 52, Indels: 38
0.85 0.09 0.07
Matches are distributed among these distances:
58 1 0.00
59 147 0.30
60 71 0.14
61 231 0.47
62 41 0.08
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (60 bp):
TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
Found at i:2368918 original size:120 final size:119
Alignment explanation
Indices: 2368715--2369322 Score: 758
Period size: 120 Copynumber: 5.0 Consensus size: 119
2368705 TAGGGACTAG
* * ** *
2368715 AAGGTGCCACCAACTTGTGTGGGCTTGGAAA--AGAAAGCGTCCTATTCTTTGAAGACTAGAAGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGTGTCCTGCTCTTTGAGGACT-GAAGG
*
2368778 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTCCTACTCTTTGAGGACTGA
65 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCCTACTCTTTGAGGACTGA
* *
2368833 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGTGTCCTACTCTTTGAGGACTGACAGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGTGTCCTGCTCTTTGAGGACTGA-AGG
* * * * * *
2368898 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCTTGCTCTTTGAGGACTAA
65 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAA-ACGTCCTACTCTTTGAGGACTGA
* * * *
2368954 AAGGTGCCACCAATTTTTGTGGGCTTTAAAAGGAGAAAGTATCCTGCTCTTTGAGGACTGGAAGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGTGTCCTGCTCTTTGAGGACT-GAAGG
*
2369019 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCTTTGAGGACT-A
65 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCCTACTCTTTGAGGACTGA
*
2369073 GAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAAGTTGTCCTGCTCTTTGAGGACTGACA
1 -AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAG-TGTCCTGCTCTTTGAGGACTGA-A
* * *
2369137 GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTCCTCTTTGAGGACTGA
63 GGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA--CGTCCTACTCTTTGAGGACTGA
* * * * ** *
2369196 AAGGTGCCACCGACTTGTATAGGG-TTTAAAAGGAGAAGGCATCCTGCTCTTTGAGGACTAAAAG
1 AAGGTGCCACCAACTTGTGT-GGGCTTTGAAAGGAGAAAGTGTCCTGCTCTTTGAGGACT-GAAG
* * *
2369260 GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGGCATCCTGCTCTTTGAGGACTGA
64 GTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA--ACGTCCTACTCTTTGAGGACTGA
2369319 AAGG
1 AAGG
2369323 ATAAAAGGTT
Statistics
Matches: 429, Mismatches: 44, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
118 30 0.07
119 9 0.02
120 157 0.37
121 104 0.24
122 90 0.21
123 39 0.09
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (119 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGTGTCCTGCTCTTTGAGGACTGAAGGT
GCCACCAACTTGTGTGGGCTTTGAAAGGAAAACGTCCTACTCTTTGAGGACTGA
Found at i:2369126 original size:241 final size:242
Alignment explanation
Indices: 2368695--2369321 Score: 908
Period size: 241 Copynumber: 2.6 Consensus size: 242
2368685 TTAAAGCGTG
* ** *
2368695 TCTTGCTCTTT-AGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTGGAAA--AGAAAGCGTCC
1 TCTTGCTCTTTGA-GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCC
** * **
2368757 TATTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTCCTACTCT
65 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCT
*
2368822 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGTGTCCTACTCTTTGA
130 TTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGTGTCCTACTCTTTGA
*
2368887 GGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-GAAAGGCA
195 GGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
* * *
2368934 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAATTTTTGTGGGCTTTAAAAGGAGAAAGTATCCT
1 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCT
*
2368999 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCTT
66 GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCTT
*
2369064 TGAGGACT-AGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAAGTTGTCCTGCTCTTTG
131 TGAGGACTGA-AAGATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG-TGTCCTACTCTTTG
*
2369127 AGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCG
194 AGGACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * *
2369176 TCCTCCTCTTTGAGGACTGAAAGGTGCCACCGACTTGTATAGGG-TTTAAAAGGAGAAGGCATCC
1 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGGCTTTAAAAGGAGAAAGCATCC
* * *
2369240 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGGCATCCTGC
65 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAA--ACATCCTAC
2369305 TCTTTGAGGACTGAAAG
127 TCTTTGAGGACTGAAAG
2369322 GATAAAAGGT
Statistics
Matches: 347, Mismatches: 30, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
239 44 0.13
240 7 0.02
241 162 0.47
242 100 0.29
243 11 0.03
245 22 0.06
246 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (242 bp):
TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCT
GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAACATCCTACTCTT
TGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGTGTCCTACTCTTTGAG
GACTGACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
Found at i:2370297 original size:5 final size:5
Alignment explanation
Indices: 2370287--2370333 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
2370277 CTTAAGTAGG
*
2370287 TTCTT TTCTT TTCTT TT-TT TTC-T TT-TT TTCTT TT-TT TTATT TT-TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
2370332 TT
1 TT
2370334 ACAGAATTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
4 18 0.47
5 20 0.53
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (5 bp):
TTCTT
Found at i:2370309 original size:9 final size:9
Alignment explanation
Indices: 2370287--2370333 Score: 69
Period size: 9 Copynumber: 5.2 Consensus size: 9
2370277 CTTAAGTAGG
2370287 TTCTTTTCTT
1 TTCTTTT-TT
2370297 TTCTTTTTT
1 TTCTTTTTT
2370306 TTC-TTTTT
1 TTCTTTTTT
2370314 TTCTTTTTT
1 TTCTTTTTT
*
2370323 TTATTTTTT
1 TTCTTTTTT
2370332 TT
1 TT
2370334 ACAGAATTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
8 8 0.23
9 20 0.57
10 7 0.20
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:2370317 original size:17 final size:17
Alignment explanation
Indices: 2370295--2370332 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2370285 GGTTCTTTTC
*
2370295 TTTTCTTTTTTTTCTTT
1 TTTTCTTTTTTTTATTT
2370312 TTTTCTTTTTTTTATTT
1 TTTTCTTTTTTTTATTT
2370329 TTTT
1 TTTT
2370333 TACAGAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTCTTTTTTTTATTT
Found at i:2382808 original size:79 final size:79
Alignment explanation
Indices: 2382641--2382809 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 79
2382631 TAAAAACAGA
* ** ** * *
2382641 GTTAGAGTGTCCCCTCAGAAATAACGAGGCTGAAGTATCTTCGATTATGGAAAATCGGTGTTTTG
1 GTTAGAGTATCCCCTCAGAAATAACGAGGCTGAAGTATCCCCGATTATGGAAAATCAATGTTCTA
*
2382706 AAAATAAAATCGGG
66 AAAATAAAATCGAG
* * * *
2382720 GTTGGAGTATCCCCTCAGAAATAAC-AGGGTTGGAGTATCCCCGATTGTGGAAAATCAATGTTCT
1 GTTAGAGTATCCCCTCAGAAATAACGA-GGCTGAAGTATCCCCGATTATGGAAAATCAATGTTCT
2382784 AAAAATAAAATCGAG
65 AAAAATAAAATCGAG
*
2382799 GTTACAGTATC
1 GTTAGAGTATC
2382810 TCCGACGGTG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 74 0.99
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GTTAGAGTATCCCCTCAGAAATAACGAGGCTGAAGTATCCCCGATTATGGAAAATCAATGTTCTA
AAAATAAAATCGAG
Found at i:2382901 original size:130 final size:130
Alignment explanation
Indices: 2382688--2383070 Score: 490
Period size: 130 Copynumber: 2.9 Consensus size: 130
2382678 TCTTCGATTA
* * * *
2382688 TGGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGG
1 TGGAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGG
2382753 AGTATCCCCGATTGTGGAAAATCAATGTTCTAAAAATAAAATCGAGGTTACAGTAT-CTCCGACG
66 AGTATCCCCGATTGTGGAAAATCAATGTTCTAAAAATAAAATCGAGGTTACAGTATCCT-CGACG
2382817 G
130 G
* ** * * * *
2382818 TGGAAAATTAGTGTTTTGAAAATAAAACCGAGGTTAAAGTATCCTCTCATAAATAACGGGGTTGA
1 TGGAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGG
* * * * *
2382883 AGTATCCCTGATTATGGAAAATCAATGTTCTGAAAAA-AAAATCAAGGTTGCAGTATCCTCGATG
66 AGTATCCCCGATTGTGGAAAATCAATGTTCT-AAAAATAAAATCGAGGTTACAGTATCCTCGACG
2382947 G
130 G
* *
2382948 T-GAAATATTGGTGTTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAATAGGGTTG
1 TGGAAA-ATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTG
* *
2383012 GAGTATCCCCGATTGTGAAAAATCGATAT-TTC-AGAAATAAAATCGAGGTTGA-AGTATCC
65 GAGTATCCCCGATTGTGGAAAATC-A-ATGTTCTAAAAATAAAATCGAGGTT-ACAGTATCC
2383071 CTTCGAAAAT
Statistics
Matches: 216, Mismatches: 30, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
129 8 0.04
130 195 0.90
131 11 0.05
132 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (130 bp):
TGGAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGG
AGTATCCCCGATTGTGGAAAATCAATGTTCTAAAAATAAAATCGAGGTTACAGTATCCTCGACGG
Found at i:2383000 original size:79 final size:78
Alignment explanation
Indices: 2382928--2383256 Score: 394
Period size: 79 Copynumber: 4.2 Consensus size: 78
2382918 AAAAAATCAA
* * * * *
2382928 GGTTGCAGTATCCTCGATGGT-GAAATATTGGTGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGGAAA-ATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
*
2382992 CCTCAAAAATAATAG
65 CCTC-AAAATAACAG
* * ** * *
2383007 GGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTCAGAAATAAAATCGAGGTTGAAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
* *
2383072 TTCGAAAATAACGG
66 CTC-AAAATAACAG
*
2383086 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAACTGAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
*
2383151 CTCAGAAATAACGG
66 CTCA-AAATAACAG
* * * * *
2383165 GGTTGGAGTATCCCCAATTGTGGAAAATTGAT-TTTTGGAAACAAAACTGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
*
2383229 CCCAGAAATAACA-
66 CTCA-AAATAACAG
2383242 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2383257 TCGAAAATAA
Statistics
Matches: 219, Mismatches: 29, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
77 15 0.07
78 42 0.19
79 159 0.73
80 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCCC
CTCAAAATAACAG
Found at i:2383235 original size:78 final size:79
Alignment explanation
Indices: 2382961--2383256 Score: 402
Period size: 79 Copynumber: 3.8 Consensus size: 79
2382951 AATATTGGTG
* * **
2382961 TTTTGGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
*
2383026 GTGAAAAATCGATA
66 GTGGAAAATCGATA
** * *
2383040 TTTCAGAAATAAAA-TCGAGGTTGAAGTATCCCTTC-GAAAATAACGGGGTTGGAGTATCCCCGA
1 TTTTGGAAATAAAACT-GAGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGA
*
2383103 TTGTGGAAAATCGATG
64 TTGTGGAAAATCGATA
*
2383119 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATT
1 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
*
2383184 GTGGAAAATTGAT-
66 GTGGAAAATCGATA
* * * *
2383197 TTTTGGAAACAAAACTGGGGTTGGAGTATCCCCCCAGAAATAAC-AGGTTGGAGTATCCCC
1 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCC
2383257 TCGAAAATAA
Statistics
Matches: 193, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
77 15 0.08
78 41 0.21
79 135 0.70
80 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATT
GTGGAAAATCGATA
Found at i:2383253 original size:105 final size:105
Alignment explanation
Indices: 2383136--2383363 Score: 336
Period size: 105 Copynumber: 2.2 Consensus size: 105
2383126 AATAAAACTG
*
2383136 AGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCAATTGTGGAAAATTGAT-TT
1 AGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCAATTGTGGAAAATCGATGTT
* *
2383199 TTGGAAACAAAACTGGGGTTGGAGTATCCCCCC-AGAAATAA
65 TTGGAAACAAAACCGGGGTTAGAGTATCCCCCCGA-AAATAA
* *
2383240 CAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAGAATCGATGTT
1 -AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGGAAAATCGATGTT
*
2383305 TTGGAAACAAAACCGGGGTTAGAGTATCCCCTCGAAAATAA
65 TTGGAAACAAAACCGGGGTTAGAGTATCCCCCCGAAAATAA
2383346 AGGGGTTGGAGTATCCCC
1 A--GGTTGGAGTATCCCC
2383364 GATTGTGGAA
Statistics
Matches: 112, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
105 57 0.51
106 39 0.35
107 16 0.14
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (105 bp):
AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGGAAAATCGATGTTT
TGGAAACAAAACCGGGGTTAGAGTATCCCCCCGAAAATAA
Found at i:2383282 original size:28 final size:28
Alignment explanation
Indices: 2383213--2383284 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
2383203 AAACAAAACT
2383213 GGGGTTGGAGTATCCCCCCAGAAATAAC
1 GGGGTTGGAGTATCCCCCCAGAAATAAC
* *
2383241 -AGGTTGGAGTATCCCCTC-GAAAATAAC
1 GGGGTTGGAGTATCCCCCCAG-AAATAAC
2383268 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
2383285 GATTGTGGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 23 0.59
28 15 0.38
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCCAGAAATAAC
Found at i:2383384 original size:79 final size:79
Alignment explanation
Indices: 2383242--2383395 Score: 247
Period size: 79 Copynumber: 1.9 Consensus size: 79
2383232 AGAAATAACA
* * *
2383242 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAGAATCGATGTTTT
1 GGTTAGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTT
*
2383307 GGAAACAAAACCGG
66 AGAAACAAAACCGG
2383321 GGTTAGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTGTGGAAAATC-AGTGTTT
1 GGTTAGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTGTGGAAAATCGA-TGTTT
*
2383385 TAGAAATAAAA
65 TAGAAACAAAA
2383396 ACATAAATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 68 0.99
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (79 bp):
GGTTAGAGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTT
AGAAACAAAACCGG
Found at i:2385461 original size:20 final size:20
Alignment explanation
Indices: 2385438--2385495 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
2385428 GATGTATTGG
* *
2385438 TACATTGAAAAATGTATCAA
1 TACAATGAACAATGTATCAA
2385458 TACAATGAACAATGTATCAA
1 TACAATGAACAATGTATCAA
*
2385478 TATAATGAACAATGTATC
1 TACAATGAACAATGTATC
2385496 GATAGATCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (20 bp):
TACAATGAACAATGTATCAA
Found at i:2393140 original size:44 final size:44
Alignment explanation
Indices: 2393077--2393160 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
2393067 GTGTTCGAGC
* * *
2393077 AGAATGTAAGAAATCACAAACACAGATGAATTGTGAATCATGGT
1 AGAATGTAAGAAATCACAAACACACACGAATTGTAAATCATGGT
2393121 AGAATGTAAGAAATCACAAACACACACGAATTGTAAATCA
1 AGAATGTAAGAAATCACAAACACACACGAATTGTAAATCA
2393161 CAAGCACACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (44 bp):
AGAATGTAAGAAATCACAAACACACACGAATTGTAAATCATGGT
Found at i:2395993 original size:24 final size:24
Alignment explanation
Indices: 2395966--2396012 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2395956 ATGTTGACAT
*
2395966 ATTTTGTGTAT-TTATGTCGTATTC
1 ATTTT-TGTATGTTATGTCATATTC
*
2395990 ATTTTTTTATGTTATGTCATATT
1 ATTTTTGTATGTTATGTCATATT
2396013 TTAATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.62
Consensus pattern (24 bp):
ATTTTTGTATGTTATGTCATATTC
Found at i:2396763 original size:20 final size:21
Alignment explanation
Indices: 2396725--2396763 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2396715 TTACCTTATT
2396725 ATTTTATTATACTATTACTAG
1 ATTTTATTATACTATTACTAG
2396746 ATTTTAATTAT-C-ATTACT
1 ATTTT-ATTATACTATTACT
2396764 TGATGAGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTTATTATACTATTACTAG
Found at i:2399067 original size:18 final size:18
Alignment explanation
Indices: 2399046--2399080 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2399036 GCAAATGCTT
2399046 CCTTTCAC-TATTAAAGAG
1 CCTTTCACATA-TAAAGAG
2399064 CCTTTCACATATAAAGA
1 CCTTTCACATATAAAGA
2399081 AGTGATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTTTCACATATAAAGAG
Found at i:2400327 original size:18 final size:18
Alignment explanation
Indices: 2400306--2400340 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2400296 GCAAATGCTT
2400306 CCTTTCAC-TATTAAAGAG
1 CCTTTCACATA-TAAAGAG
2400324 CCTTTCACATATAAAGA
1 CCTTTCACATATAAAGA
2400341 AGTGATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTTTCACATATAAAGAG
Found at i:2407622 original size:36 final size:35
Alignment explanation
Indices: 2407582--2407649 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
2407572 TTTTTCTTCT
*
2407582 TTGTTTGTTGTTTCG-GTGTTGCTTTGCTTGCTGTTG
1 TTGTTTGCTG-TTCGAGTGTTGCTTTGC-TGCTGTTG
*
2407618 TTGTTTGCTGTTGGAGTGTTGCTTTGCTGCTG
1 TTGTTTGCTGTTCGAGTGTTGCTTTGCTGCTG
2407650 GATTGTGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.01, C:0.12, G:0.32, T:0.54
Consensus pattern (35 bp):
TTGTTTGCTGTTCGAGTGTTGCTTTGCTGCTGTTG
Found at i:2407645 original size:19 final size:18
Alignment explanation
Indices: 2407616--2407651 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2407606 TGCTTGCTGT
*
2407616 TGTTGTTTGCTGTTGGAG
1 TGTTGTTTGCTGCTGGAG
2407634 TGTTGCTTTGCTGCTGGA
1 TGTTG-TTTGCTGCTGGA
2407652 TTGTGCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.06, C:0.11, G:0.36, T:0.47
Consensus pattern (18 bp):
TGTTGTTTGCTGCTGGAG
Found at i:2408479 original size:38 final size:38
Alignment explanation
Indices: 2408431--2408507 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
2408421 GCATTCTTTA
* * ** *
2408431 TTGCTTTCTTCATTGTTGTCGTTTGCAGCAGCTTTAAT
1 TTGCATTCTTCATTGCTACCGTTTACAGCAGCTTTAAT
2408469 TTGCATTCTTCATTGCTACCGTTTACAGCAGCTTTAAT
1 TTGCATTCTTCATTGCTACCGTTTACAGCAGCTTTAAT
2408507 T
1 T
2408508 ATATCTCGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.47
Consensus pattern (38 bp):
TTGCATTCTTCATTGCTACCGTTTACAGCAGCTTTAAT
Found at i:2408730 original size:57 final size:57
Alignment explanation
Indices: 2408653--2408766 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
2408643 AAATGAAAGC
* * *
2408653 ATGCAATGCAATAATGCCTAGAAAGCTTAGGTGGCAGCAAATTAAGCATGAAATCCA
1 ATGCAATGCAACAATGCCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCA
2408710 ATGCAATGCAACAA-GACCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCA
1 ATGCAATGCAACAATG-CCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCA
2408767 CCAAATTCGA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
56 1 0.02
57 52 0.98
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (57 bp):
ATGCAATGCAACAATGCCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCA
Found at i:2409447 original size:42 final size:41
Alignment explanation
Indices: 2409401--2409818 Score: 154
Period size: 42 Copynumber: 10.0 Consensus size: 41
2409391 AGCCAATAGA
* *
2409401 CAGACTTGAGATGAGATAGTCTCTAAGGTCAAAGTCGACAGG
1 CAGACTTGAGGTGAGAAAGTCTCTAAGGTCAAAG-CGACAGG
* * * *
2409443 CAGAC-TGAGGGTAAGAAAGTTTCCAAGGTCAAAGCTGACAGA
1 CAGACTTGA-GGTGAGAAAGTCTCTAAGGTCAAAGC-GACAGG
** * *
2409485 CAGACTTGAGGTGAGGCAGTCTCTAGGGTCAAAGCCAACAGG
1 CAGACTTGAGGTGAGAAAGTCTCTAAGGTCAAAG-CGACAGG
* ** * * * * **
2409527 CATACTAAAGGT-AGGAAAGTCTTTAGGGTAAAAGCTGATAAA
1 CAGACTTGAGGTGA-GAAAGTCTCTAAGGTCAAAGC-GACAGG
* ** * * * * * *
2409569 CAGACTTAATATGAGGCAA-TCTCCAGGGTTAAAGTTGACACG
1 CAGACTTGAGGTGA-GAAAGTCTCTAAGGTCAAAG-CGACAGG
* * *
2409611 CAGAC-TGAAGGT-AGGAAAGT-TCCCAGGGTCAAAGCCGACAAG
1 CAGACTTG-AGGTGA-GAAAGTCT-CTAAGGTCAAAG-CGACAGG
* * * * *
2409653 CAGACTTGAGATGAAAAAGTAT-TTAGGATCAAAGTCGACAAG
1 CAGACTTGAGGTGAGAAAGTCTCTAAGG-TCAAAG-CGACAGG
* * * * *
2409695 CAGAC-TAAGGGTAAGAAAGTCTCTAGGGTCAAAGTTGATAGG
1 CAGACTTGA-GGTGAGAAAGTCTCTAAGGTCAAAG-CGACAGG
* * * * *
2409737 TATAGTTGAGGAGAGACAA-TCTCTAGGGTCAAAGCTGACAGG
1 CAGACTTGAGGTGAGA-AAGTCTCTAAGGTCAAAGC-GACAGG
* *
2409779 CAGAC-TGAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACA
1 CAGACTTG-AGGTGAGAAAGTCTCTAAGGTCAAAG-CGACA
2409819 AGTAGTTCCC
Statistics
Matches: 277, Mismatches: 76, Indels: 46
0.69 0.19 0.12
Matches are distributed among these distances:
41 21 0.08
42 235 0.85
43 21 0.08
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (41 bp):
CAGACTTGAGGTGAGAAAGTCTCTAAGGTCAAAGCGACAGG
Found at i:2409477 original size:84 final size:84
Alignment explanation
Indices: 2409366--2409816 Score: 365
Period size: 84 Copynumber: 5.4 Consensus size: 84
2409356 GGGCAGATAA
* * * * * *
2409366 AAGGTGAA-AAAGTCTCCAGAGTTAAAGCCAATAGACAGACTTGAGATGAGATAGTCTCTAAGGT
1 AAGGT-AAGAAAGTTTCCAGGGTCAAAGCCGATAGACAGACTTGAGATGAGACAGTCTCTAGGGT
2409430 CAAAGTCGACAGGCAGACTG
65 CAAAGTCGACAGGCAGACTG
* * * * * *
2409450 AGGGTAAGAAAGTTTCCAAGGTCAAAGCTGACAGACAGACTTGAGGTGAGGCAGTCTCTAGGGTC
1 AAGGTAAGAAAGTTTCCAGGGTCAAAGCCGATAGACAGACTTGAGATGAGACAGTCTCTAGGGTC
* * * *
2409515 AAAGCCAACAGGCATACTA
66 AAAGTCGACAGGCAGACTG
* * * * * * * * * *
2409534 AAGGTAGGAAAGTCTT-TAGGGTAAAAGCTGATAAACAGACTTAATATGAGGCAATCTCCAGGGT
1 AAGGTAAGAAAGT-TTCCAGGGTCAAAGCCGATAGACAGACTTGAGATGAGACAGTCTCTAGGGT
* * *
2409598 TAAAGTTGACACGCAGACTG
65 CAAAGTCGACAGGCAGACTG
* * * * * * * *
2409618 AAGGTAGGAAAGTTCCCAGGGTCAAAGCCGACA-AGCAGACTTGAGATGAAAAAGTATTTAGGAT
1 AAGGTAAGAAAGTTTCCAGGGTCAAAGCCGATAGA-CAGACTTGAGATGAGACAGTCTCTAGGGT
*
2409682 CAAAGTCGACAAGCAGACT-
65 CAAAGTCGACAGGCAGACTG
* * ** ** * * *
2409701 AAGGGTAAGAAAGTCTCTAGGGTCAAAGTTGATAGGTATAGTTGAGGA-GAGACAATCTCTAGGG
1 AA-GGTAAGAAAGTTTCCAGGGTCAAAGCCGATAGACAGACTTGA-GATGAGACAGTCTCTAGGG
2409765 TCAAAG-CTGACAGGCAGACTG
64 TCAAAGTC-GACAGGCAGACTG
* *
2409786 AAGGTAAGAAAGTCTCCAAGGTCAAAGCCGA
1 AAGGTAAGAAAGTTTCCAGGGTCAAAGCCGA
2409817 CAAGTAGTTC
Statistics
Matches: 283, Mismatches: 75, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
83 7 0.02
84 270 0.95
85 6 0.02
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (84 bp):
AAGGTAAGAAAGTTTCCAGGGTCAAAGCCGATAGACAGACTTGAGATGAGACAGTCTCTAGGGTC
AAAGTCGACAGGCAGACTG
Found at i:2409643 original size:168 final size:168
Alignment explanation
Indices: 2409365--2409820 Score: 436
Period size: 168 Copynumber: 2.7 Consensus size: 168
2409355 CGGGCAGATA
* * * ** * * * * *
2409365 AAAGGTGAA-AAAGTCTCCAGAGTTAAAGCCAATAGACAGACTTG-AGATGAGATAGTCTCTAAG
1 AAAGGT-AAGAAAGTCTCTAGGGTAAAAGCTGATAAACAGACTTGAAGA-GAGACAATCTCCAGG
* * * *
2409428 GTCAAAGTCGACAGGCAGACTGAGGGTAAGAAAGTTTCCAAGGTCAAAGCTGAC-AGACAGACTT
64 GTCAAAGTTGACAGGCAGACTGAAGGTAAGAAAGTTCCCAAGGTCAAAGCCGACAAG-CAGACTT
* *** * * * *
2409492 GAGGTGAGGCAGTCTCTAGGGTCAAAGCCAACAGGCATACT
128 GAGATGAAAAAGTATCTAGGATCAAAGCCAACAAGCAGACT
* * * *
2409533 AAAGGTAGGAAAGTCTTTAGGGTAAAAGCTGATAAACAGACTT-AATATGAGGCAATCTCCAGGG
1 AAAGGTAAGAAAGTCTCTAGGGTAAAAGCTGATAAACAGACTTGAAGA-GAGACAATCTCCAGGG
* * * *
2409597 TTAAAGTTGACACGCAGACTGAAGGTAGGAAAGTTCCCAGGGTCAAAGCCGACAAGCAGACTTGA
65 TCAAAGTTGACAGGCAGACTGAAGGTAAGAAAGTTCCCAAGGTCAAAGCCGACAAGCAGACTTGA
* * *
2409662 GATGAAAAAGTATTTAGGATCAAAGTCGACAAGCAGACT
130 GATGAAAAAGTATCTAGGATCAAAGCCAACAAGCAGACT
* * * *** * * * *
2409701 AAGGGTAAGAAAGTCTCTAGGGTCAAAGTTGATAGGTATAGTTGAGGAGAGACAATCTCTAGGGT
1 AAAGGTAAGAAAGTCTCTAGGGTAAAAGCTGATAAACAGACTTGAAGAGAGACAATCTCCAGGGT
*
2409766 CAAAGCTGACAGGCAGACTGAAGGTAAGAAAG-TCTCCAAGGTCAAAGCCGACAAG
66 CAAAGTTGACAGGCAGACTGAAGGTAAGAAAGTTC-CCAAGGTCAAAGCCGACAAG
2409821 TAGTTCCCAA
Statistics
Matches: 231, Mismatches: 52, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
167 3 0.01
168 224 0.97
169 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (168 bp):
AAAGGTAAGAAAGTCTCTAGGGTAAAAGCTGATAAACAGACTTGAAGAGAGACAATCTCCAGGGT
CAAAGTTGACAGGCAGACTGAAGGTAAGAAAGTTCCCAAGGTCAAAGCCGACAAGCAGACTTGAG
ATGAAAAAGTATCTAGGATCAAAGCCAACAAGCAGACT
Found at i:2409852 original size:68 final size:68
Alignment explanation
Indices: 2409763--2409891 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 68
2409753 CAATCTCTAG
* * *
2409763 GGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGTAGTTCC
1 GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGTAGTTCC
2409828 CAA
66 CAA
* * * *
2409831 GGTCAATGCCGACAAGCAGACTAAAGGTAGGAAAGTCTCCAAGGTCAAAGTCGACAGGTAG
1 GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGTAG
2409892 ACTTCAGATG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.36, C:0.21, G:0.28, T:0.15
Consensus pattern (68 bp):
GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGTAGTTCC
CAA
Found at i:2409874 original size:42 final size:42
Alignment explanation
Indices: 2409827--2412952 Score: 927
Period size: 42 Copynumber: 74.3 Consensus size: 42
2409817 CAAGTAGTTC
* *
2409827 CCAAGGTCAATGCCGACAAGCAGACTAAAGGTAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * *
2409869 CCAAGGTCAAAGTCGACAGGTAGACTTCAGATGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * **
2409911 CTAGGGTCAAAGTCGACAAGCAGAC-TGAGAGTAAAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAG-GTAGGAAAGTCT
* * * * * *
2409953 CTAGGGTCAAAGCTGACAAGCAAACTTGAGGTGAGG-TAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * **
2409995 CCAAGGTCAAAGCCGACAGGCAAACTGAGGGTAAAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * *
2410037 CCGAGGTCAAAACCGACAGGTAGACTTAAGGTTA-GACAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGG-TAGGAAAGTCT
* * * * *
2410079 CTAAGGTCAAAGCCGATAAGCATACTGAAGGTAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
** * * * * * * *
2410121 ATAAGATCAAAGCTGATAAGCATACTTGAGGTGAGG-TATTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
** * * * * * *
2410163 CCGGGGTCAAAGCCAATAGGCAAACTAAAGGTAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * ** *
2410205 -CTAGAGTCAAAGCCGACAAGCATACTGAAGGTAAAAAAGCCT
1 CCAAG-GTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * ** *
2410247 CCAAGGTCAAAGCTGAC-AGACAAACTTTTGGTGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAG-CAGACTTAAGGT-AGGAAAGTCT
** * * *
2410289 CCAAGGTCAAAGTTGATAGGCACAC-TAGAGGTAAGG-AAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTA-AGGT-AGGAAAGTCT
* * *
2410331 CCAAGGTCAAAGGTTCAAAGTCGACAGGCAGACTGAAGGTAAGAAAGTCT
1 CCAAGGTCAAA-G--C-----CGACAAGCAGACTTAAGGTAGGAAAGTCT
* * *
2410381 -CAAGGGTCAAAGTCGACAAGCAGACTTGAGGTGAGG-CAGTCT
1 CCAA-GGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * ** * * * * * *
2410423 CTAGGGTCAAGGTTGAGAGGCAAACTGAAGGTAAGAAAGTTT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * *
2410465 TCAAGGTTAAAGCTGACAGGCAGACTTAAAGTGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
** * * * ** * *
2410507 CCAAGGTCAAAGCTAATAGGTAGACAGAACGTAGAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * * * * *
2410549 TCAAGGTCAAAGTCGATAGGTAGACTTGAGATAATG-CAGTTT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * * *
2410591 TCAAGGTCAAAGCTGA-TAGACAGACTAAAAGTAGGAAAATCT
1 CCAAGGTCAAAGCCGACAAG-CAGACTTAAGGTAGGAAAGTCT
* * * * * *
2410633 CTAAGGTCAAAGCTGACAAGCAAACTTGAGATGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * *
2410675 CCAAGGTCAAAGTCGAC-AGACAAACTAAACGTAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAG-CAGACTTAAGGTAGGAAAGTCT
* * * * * * *
2410717 TCAAAGTCAAAGCTGACAAGTAGACTTGAGATGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* *
2410759 CCAAGGTCAAAGCCGAC-AGACAGACTGAACGTAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAG-CAGACTTAAGGTAGGAAAGTCT
* * * * * *
2410801 TCAAGGTCGAAGCCGACAAGTAGACTTGAGATTAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAG-GTAGGAAAGTCT
* **
2410843 CCAAGGTCAAAGCCGACAGGCAGA-TTGAAGGTACAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTT-AAGGTAGGAAAGTCT
* ** * *
2410885 ACAAGGTCAAAGTTGAC-AGCCAGACTTGAGATGT-GG-CAGTC-
1 CCAAGGTCAAAGCCGACAAG-CAGACTT-A-AGGTAGGAAAGTCT
* * * * * *
2410926 ACTAGAGTCAAAGCAGACAGGTAGACTAAAGGTAGGAAAGTCT
1 CCAAG-GTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * * *
2410969 -CTAGAGCCAAAGCTGAGAGGCAGATTTGAGATA--AAGCAGTCT
1 CCAAG-GTCAAAGCCGACAAGCAGACTTAAGGTAGGAA--AGTCT
* * * * * * **
2411011 CTACGGTTAATGCCGACAAGTAGACTAAACATAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * **
2411053 CTAGGGTGAAAGCCGACAGGCAGACTTGAGATAAGGGGA-TCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
** * * * *
2411095 TTAAGGTCAAAGCCGACGAGCAGACTAAAGGTTGGAAAATCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* ** * * *
2411137 CTAAGGTCAAAATCGACAAGCAGACTTGAGATGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * *
2411179 CCAA-GTCAAAGCCGATAGGCAGACTTGAGGTAAGG-TAGTAT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
** * * * * * *
2411220 CCAAGGTCAAAATCGACAGGCAAACTGAGGGTAAGAAAGACT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * **
2411262 CCAGGGTCAAAGCCGATACGCAAACTTAAGG-AGAGGTAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAG-GAAAGTCT
** * * * * * * * *
2411304 TTAGGGTCAAAGTCAATAGGCAGACTGAATGTAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * *
2411346 CCAAGCTTAAAGCCGACAAGCAGACTTGAA-GTGAGGTAA-TCT
1 CCAAGGTCAAAGCCGACAAGCAGACTT-AAGGT-AGGAAAGTCT
* * * * * * * *
2411388 CTAGGGTCAAAGCCGATAGGTAGACTGAATGTAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * *
2411430 -CTAGGATTAAGGCCGATAGGCAGACTTGAGGTGAGG-TAGTCT
1 CCAAGG-TCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * *
2411472 CCAGGGTCAAAGCCGACAGGCAGACTGAATGTAGAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * *
2411514 CTAGGGTCAAAGTCAATAGGCAAACTTAAGGTA--AAGCAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAA--AGTCT
* * * * * *
2411556 CTAAGGTCAAAGTCGACAGGCAGACTGAATGTAGAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* ** * * * * *
2411598 CTAAGGTCAAAATCGATAGGCAGACTTGAGGTGAGG-TAGTTT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * * * ** *
2411640 CAAAGGTTAAAGTCGACAGGTAGACTAAACATAGGAACGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
** * * * * * * * * *
2411682 TTAATGTCAAAACTGATAGGTAGACTTGAGATGAGG-TAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * * *
2411724 CTAGGGTTAAAGCCGACAGGTAGACTGAAGGTAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * *
2411766 CTAGGGTTAAAGCCGACAGGCAAAC-TAGAGATAAGG-TAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTA-AGGT-AGGAAAGTCT
* * * * * *
2411808 CTAGGGTCAAAGCCAAC-AGACAAACTTAAGATAAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAG-CAGACTTAAGGT-AGGAAAGTCT
** * * * * * * *
2411850 TTAGGGTAAAAGCTGATAGGCAGAATGAAGGTAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * *
2411892 CTAGGGTCAAAGCCGAC-AGACAAACTTGAGATAAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAG-CAGACTTAAGGT-AGGAAAGTCT
* * * * *
2411934 CTAGGGTCAAAGTCGACAAGCAGACTAAAGGTAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * *
2411976 CCAAGGTCAATGTCGACAGGTAGACTTGAGATGAGG-TAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
** ** *
2412018 TTAAGGTCAAAGTTGACAAGCAGACTGAAGGTTA-GAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGG-TAGGAAAGTCT
* * *
2412060 CC-AGCGTCAAAACCGACAGGCAGACTTAA-G-ATGAAGTAGTCT
1 CCAAG-GTCAAAGCCGACAAGCAGACTTAAGGTAGGAA--AGTCT
** * * * * * *
2412102 CCAAGGTCAAAGTTGATAGGCAAACTTGAGAT-GAGACAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAG-GAAAGTCT
* * * * * * *
2412144 CCAAGGTCATAGCCTATAGGCAGACTGAGGGTAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* *
2412186 CCAAGGTCAAAGTCGACAAGTAGACTTAAGGT-GAGACAA-TCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAG-GA-AAGTCT
* * * ** * *
2412228 CTACGGTCGAAGCCG-GTAGTCAGACTGAAGGTAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAG-CAGACTTAAGGTAGGAAAGTCT
* * * * * * * *
2412270 CTAGGGTTGAAA-CCGACAGGTAGACTTGAGATGAGG-CAGTCT
1 CCAAGG-TCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * *
2412312 CCAAGGTCAAAGCCGACAAGTAAACTGAAGGTCGAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * *
2412354 TCAGGGTCAAAACCGACAAGCAGACTTGAGATGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * * *
2412396 CTAAGGTCAAAGCCAACAGGTAGACTAAAGGTAGGACAGT-T
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * ** * * * *
2412437 TCTAGAGTCAAAGCTAACAGGCAAACTTGAA-ATAAGG-TAGTCT
1 CCAAG-GTCAAAGCCGACAAGCAGACTT-AAGGT-AGGAAAGTCT
* ** * * *
2412480 CTAAGGTCAAAGTTGACAGGCAGACTGAAGGTAGAAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * *
2412522 CTAGGGTCAAAGCCGACAAGCAGACTTGAGATGAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * *
2412564 CTAAGGTCAAAACCGACAAGCAAACTAAAGGCAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
* * * * * * * * *
2412606 CTAGGGTCAAAGTCGATAGGCAAACTTGAGATATGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTA-GGAAAGTCT
* * * *
2412648 CTAGGGTCAAAGCCGACAAGCAGACTGAACGTAGGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
** * * * * * *
2412690 TTAGGGTCAAAGTCGACAAGCAAACTTGAGATAAGG-CAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * * * *
2412732 CTAGGGTCAAAGTCGACAAGCAGACTAAAGGTAAGATAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
** * * * * **
2412774 CCAAGGTCAAAATCGATAGGCAGACTTGAGATAAGG-CTGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGT-AGGAAAGTCT
* * * *
2412816 CCAAGGTCAAAGCTGACAAGCATACTAAAGG-ATGGAAATTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTA-GGAAAGTCT
** * * * * *
2412858 CTTAGGTCAAAGCC-ACCAGGTAGACTTGAGATGAGG-CAGTCT
1 CCAAGGTCAAAGCCGA-CAAGCAGACTTAAGGT-AGGAAAGTCT
* * * *
2412900 CCAGGGTCAAAGCCGACAAGCAGACTGAAGATAAGAAAGTCT
1 CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
2412942 CCAAGGTCAAA
1 CCAAGGTCAAA
2412953 AATGATAGGC
Statistics
Matches: 2248, Mismatches: 699, Indels: 274
0.70 0.22 0.09
Matches are distributed among these distances:
39 1 0.00
40 11 0.00
41 141 0.06
42 1938 0.86
43 114 0.05
44 10 0.00
49 6 0.00
50 26 0.01
51 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (42 bp):
CCAAGGTCAAAGCCGACAAGCAGACTTAAGGTAGGAAAGTCT
Found at i:2409964 original size:152 final size:152
Alignment explanation
Indices: 2409688--2409972 Score: 378
Period size: 152 Copynumber: 1.9 Consensus size: 152
2409678 GGATCAAAGT
* * * * * * * *
2409688 CGACAAGCAGACTAAGGGTAAGAAAGTCTCTAGGGTCAAAGTTGATAGGTATAGTTGAGGAGAGA
1 CGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGTCGACAGGTAGACTTCAGGAGAGA
* *
2409753 CAATCTCTAGGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGAC
66 CAATCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGAC
2409818 AAGTAGTTCCCAAGGTCAATGC
131 AAGTAGTTCCCAAGGTCAATGC
*
2409840 CGACAAGCAGACTAAAGGTAGGAAAGTCTCCAAGGTCAAAGTCGACAGGTAGACTTCA-GATGAG
1 CGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGTCGACAGGTAGACTTCAGGA-GAG
* * * * *
2409904 GCAGTCTCTAGGGTCAAAG-TCGACAAGCAGACTG-AGAGTAAAAAAGTCTCTAGGGTCAAAGCT
65 ACAATCTCTAGGGTCAAAGCT-GACAAGCAGACTGAAG-GTAAAAAAGTCTCCAAGGTCAAAGCC
2409967 GACAAG
128 GACAAG
2409973 CAAACTTGAG
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
151 5 0.04
152 109 0.96
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (152 bp):
CGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGTCGACAGGTAGACTTCAGGAGAGA
CAATCTCTAGGGTCAAAGCTGACAAGCAGACTGAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGAC
AAGTAGTTCCCAAGGTCAATGC
Found at i:2410036 original size:236 final size:236
Alignment explanation
Indices: 2409605--2410059 Score: 579
Period size: 236 Copynumber: 1.9 Consensus size: 236
2409595 GGTTAAAGTT
* * * *
2409605 GACACGCAGACTGAAGGTAGGAAAGTTCCCAGGGTCAAAGCCGACAAGCAGACTTGAGATGAAAA
1 GACAAGCAGACTAAAGGTAGGAAAGTTCCCAAGGTCAAAGCCGACAAGCAGACTTCAGATGAAAA
* * * * *
2409670 AGTATTTAGGATCAAAGTCGACAAGCAGACTAAGGGTAAGAAAGTCTCTAGGGTCAAAGTTGATA
66 AGTATCTAGGATCAAAGTCGACAAGCAGACTAAGAGTAAAAAAGTCTCTAGGGTCAAAGCTGACA
* * * * * * * * *
2409735 GGTATAGTTGAGGAGAGACAATCTCTAGGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTC
131 AGCAAACTTGAGGAGAGACAATCTCCAAGGTCAAAGCCGACAGGCAAACTGAAGGTAAAAAAGTC
*
2409800 TCCAAGGTCAAAGCCGACAAGTAGTTCCCAAGGTCAATGCC
196 TCCAAGGTCAAAACCGACAAGTAGTTCCCAAGGTCAATGCC
* * * **
2409841 GACAAGCAGACTAAAGGTAGGAAAG-TCTCCAAGGTCAAAGTCGACAGGTAGACTTCAGATGAGG
1 GACAAGCAGACTAAAGGTAGGAAAGTTC-CCAAGGTCAAAGCCGACAAGCAGACTTCAGATGAAA
* * * *
2409905 CAGTCTCTAGGGTCAAAGTCGACAAGCAGACTGAGAGTAAAAAAGTCTCTAGGGTCAAAGCTGAC
65 AAGTATCTAGGATCAAAGTCGACAAGCAGACTAAGAGTAAAAAAGTCTCTAGGGTCAAAGCTGAC
* ** * *
2409970 AAGCAAACTTGAGGTGAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAAACTGAGGGTAAAAAAGT
130 AAGCAAACTTGAGGAGAGACAATCTCCAAGGTCAAAGCCGACAGGCAAACTGAAGGTAAAAAAGT
* *
2410035 CTCCGAGGTCAAAACCGACAGGTAG
195 CTCCAAGGTCAAAACCGACAAGTAG
2410060 ACTTAAGGTT
Statistics
Matches: 183, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
235 2 0.01
236 181 0.99
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (236 bp):
GACAAGCAGACTAAAGGTAGGAAAGTTCCCAAGGTCAAAGCCGACAAGCAGACTTCAGATGAAAA
AGTATCTAGGATCAAAGTCGACAAGCAGACTAAGAGTAAAAAAGTCTCTAGGGTCAAAGCTGACA
AGCAAACTTGAGGAGAGACAATCTCCAAGGTCAAAGCCGACAGGCAAACTGAAGGTAAAAAAGTC
TCCAAGGTCAAAACCGACAAGTAGTTCCCAAGGTCAATGCC
Found at i:2410371 original size:50 final size:49
Alignment explanation
Indices: 2410291--2410392 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 49
2410281 GGCAGTCTCC
* * *
2410291 AAGGTCAAAGTTGATAGGCACACTAGAGGTAAGGAAGTCTCCAA-GGTCA
1 AAGGTCAAAGTCGACAGGCACACTAGAGGTAAGAAAGTCT-CAAGGGTCA
*
2410340 AAGGTTCAAAGTCGACAGGCAGACT-GAAGGTAAGAAAGTCTCAAGGGTCA
1 AAGG-TCAAAGTCGACAGGCACACTAG-AGGTAAGAAAGTCTCAAGGGTCA
2410390 AAG
1 AAG
2410393 TCGACAAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 8 0.17
50 38 0.83
ACGTcount: A:0.38, C:0.16, G:0.29, T:0.17
Consensus pattern (49 bp):
AAGGTCAAAGTCGACAGGCACACTAGAGGTAAGAAAGTCTCAAGGGTCA
Found at i:2410416 original size:134 final size:134
Alignment explanation
Indices: 2410081--2410476 Score: 325
Period size: 134 Copynumber: 3.0 Consensus size: 134
2410071 GACAGTCTCT
* * * * ** * * *
2410081 AAGG-TCAAAGCCGATAAGCATACTGAAGGTAAGAAAGTCTATAAGATCAAAGCTGATA-AGCAT
1 AAGGTTCAAAGCCGACAAGCAGACTGAAGGTAAAAAAGCCTCCAAGGTCAAAGCTGACAGA-CAA
* * ** *** * *
2410144 ACTTGAGGTGAGGTATTCTCCGGGGTCAAAGCCAATAGGCAAACTAAAGGTAAGAAAGTCT-C--
65 ACTTGAGGTGAGGCAGTCTCCAAGGTCAAAGTTGAGAGGCAAACTGAAGGTAAGAAAGTCTCCAA
2410206 --T-A
130 GGTCA
* *
2410208 GA-G-TCAAAGCCGACAAGCATACTGAAGGTAAAAAAGCCTCCAAGGTCAAAGCTGACAGACAAA
1 AAGGTTCAAAGCCGACAAGCAGACTGAAGGTAAAAAAGCCTCCAAGGTCAAAGCTGACAGACAAA
** * * *
2410271 CTTTTGGTGAGGCAGTCTCCAAGGTCAAAGTTGATAGGCACACT-AGAGGTAAGGAAGTCTCCAA
66 CTTGAGGTGAGGCAGTCTCCAAGGTCAAAGTTGAGAGGCAAACTGA-AGGTAAGAAAGTCTCCAA
2410335 GGTCA
130 GGTCA
* * * *
2410340 AAGGTTCAAAGTCGACAGGCAGACTGAAGGTAAGAAAGTCT-CAAGGGTCAAAG-TCGACA-AGC
1 AAGGTTCAAAGCCGACAAGCAGACTGAAGGTAAAAAAGCCTCCAA-GGTCAAAGCT-GACAGA-C
* * * * * *
2410402 AGACTTGAGGTGAGGCAGTCTCTAGGGTCAAGGTTGAGAGGCAAACTGAAGGTAAGAAAGTTTTC
63 AAACTTGAGGTGAGGCAGTCTCCAAGGTCAAAGTTGAGAGGCAAACTGAAGGTAAGAAAGTCTCC
*
2410467 AAGGTTA
128 AAGGTCA
2410474 AAG
1 AAG
2410477 CTGACAGGCA
Statistics
Matches: 217, Mismatches: 38, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
125 1 0.00
126 98 0.45
127 3 0.01
131 1 0.00
132 2 0.01
133 6 0.03
134 105 0.48
135 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (134 bp):
AAGGTTCAAAGCCGACAAGCAGACTGAAGGTAAAAAAGCCTCCAAGGTCAAAGCTGACAGACAAA
CTTGAGGTGAGGCAGTCTCCAAGGTCAAAGTTGAGAGGCAAACTGAAGGTAAGAAAGTCTCCAAG
GTCA
Found at i:2411566 original size:168 final size:168
Alignment explanation
Indices: 2411222--2412981 Score: 1068
Period size: 168 Copynumber: 10.5 Consensus size: 168
2411212 GGTAGTATCC
** * * * * * * *
2411222 AAGGTCAAAATCGACAGGCAAACTGAGGGTAAGAAAGACTCCAGGGTCAAAGCCGATACGCAAAC
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAGAC
* * ** * * * * * ** *
2411287 TTAAGGA-GAGGTAGTCTTTAGGGTCAAAGTCAATAGGCAGACTGAATGTA-AGAAAGTCTCCAA
66 TTGA-GATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGA-AAAGTCTTTAG
* * * * * * *
2411350 GCTTAAAGCCGACAAGCAGACTTGAAG-TGAGGTAATCTCT
129 GGTCAAAGTCGACAAGCAGACTT-AAGATAAAGCAGTCTCT
* * * * * * * *
2411390 AGGGTCAAAGCCGATAGGTAGACTGAATGTAAGAAAGTCTCTAGGATTAAGGCCGATAGGCAGAC
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAGAC
* * * * *
2411455 TTGAGGTGAGGTAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAATGTAGAAAAGTCTCTAGGG
66 TTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGAAAAGTCTTTAGGG
* * * * *
2411520 TCAAAGTCAATAGGCAAACTTAAGGTAAAGCAGTCTCT
131 TCAAAGTCGACAAGCAGACTTAAGATAAAGCAGTCTCT
* * * *
2411558 AAGGTCAAAGTCGACAGGCAGACTGAATGT-AGAAAAGTCTCTAAGGTCAAAATCGATAGGCAGA
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAG-AAAGTCTCTAGGGTCAAAGTCGATAGGCAGA
* * * * * * * * ** * * **
2411622 CTTGAGGTGAGGTAGTTTCAAAGGTTAAAGTCGACAGGTAGACTAAACATAGGAACGTCTTTAAT
65 CTTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGAAAAGTCTTTAGG
* * * * * * * *
2411687 GTCAAA-ACTGATAGGTAGACTTGAGATGAGGTAGTCTCT
130 GTCAAAGTC-GACAAGCAGACTTAAGATAAAGCAGTCTCT
* * * * * * * *
2411726 AGGGTTAAAGCCGACAGGTAGACTGAAGGTAGGAAAGTCTCTAGGGTTAAAGCCGACAGGCAAAC
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAGAC
* * * * * * * * **
2411791 TAGAGATAAGGTAGTCTCTAGGGTCAAAGCCAACAGACAAACTTAAGATA-AGGCAGTCTTTAGG
66 TTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGA-AAAGTCTTTAGG
* * * * * *
2411855 GTAAAAG-CTGATAGGCAGAATGAAGGTAGGAA--AGTCTCT
130 GTCAAAGTC-GACAAGCAGACTTAAGATA--AAGCAGTCTCT
* * * * ** * *
2411894 AGGGTCAAAGCCGACAGACAAACTTG-AGATAAGGCAGTCTCTAGGGTCAAAGTCGACAAGCAGA
1 AAGGTCAAAGCCGACAGGCAGAC-TGAAGGTAAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAGA
** * ** * * * * **
2411958 CTAAAGGTAAGAAAGTCTCCAAGGTCAATGTCGACAGGTAGACTTG-AGAT-GAGGTAGTCTTTA
65 CTTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAAGGTAGA-AAAGTCTTTA
* * * *
2412021 AGGTCAAAGTTGACAAGCAGACTGAAGGTTAGAA--AGTCTC-
128 GGGTCAAAGTCGACAAGCAGACTTAA-GATA-AAGCAGTCTCT
* * * * * * * * *
2412061 CAGCGTCAAAACCGACAGGCAGACTTAAGATGAAG-TAGTCTCCAAGGTCAAAGTTGATAGGCAA
1 AAG-GTCAAAGCCGACAGGCAGACTGAAGGT-AAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAG
* ** * * * * **
2412125 ACTTGAGATGAGACAGTCTCCAAGGTCATAGCCTATAGGCAGACTGAGGGTA-AGAAAGTCTCCA
64 ACTTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGA-AAAGTCTTTA
* * * * *
2412189 AGGTCAAAGTCGACAAGTAGACTTAAGGT-GAGACAATCTCT
128 GGGTCAAAGTCGACAAGCAGACTTAAGATAAAG-CAGTCTCT
* * ** * * * * *
2412230 ACGGTCGAAGCCGGTAGTCAGACTGAAGGTAAGAAAGTCTCTAGGGTTGAAA-CCGACAGGTAGA
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGG-TCAAAGTCGATAGGCAGA
* * * * * * *
2412294 CTTGAGATGAGGCAGTCTCCAAGGTCAAAGCCGACAAGTAAACTGAAGGTCGAAAAGTCTTCAGG
65 CTTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGAAAAGTCTTTAGG
** * * *
2412359 GTCAAAACCGACAAGCAGACTTGAGATGAGGCAGTCTCT
130 GTCAAAGTCGACAAGCAGACTTAAGATAAAGCAGTCTCT
* * * * * * * * * *
2412398 AAGGTCAAAGCCAACAGGTAGACTAAAGGTAGGACAGTTTCTAGAGTCAAAG-CTAACAGGCAAA
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGTC-GATAGGCAGA
* * ** *
2412462 CTTGAAATAAGGTAGTCTCTAAGGTCAAAGTTGACAGGCAGACTGAAGGTAGAAAAGTCTCTAGG
65 CTTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGAAAAGTCTTTAGG
* * * *
2412527 GTCAAAGCCGACAAGCAGACTTGAGATGAGGCAGTCTCT
130 GTCAAAGTCGACAAGCAGACTTAAGATAAAGCAGTCTCT
* * * * * * *
2412566 AAGGTCAAAACCGACAAGCAAACTAAAGGCAGGAAAGTCTCTAGGGTCAAAGTCGATAGGCAAAC
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAGAC
* * * * * * *
2412631 TTGAGATATGGCAGTCTCTAGGGTCAAAGCCGACAAGCAGACTGAACGTAGGAAAGTCTTTAGGG
66 TTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGAAAAGTCTTTAGGG
* * *
2412696 TCAAAGTCGACAAGCAAACTTGAGATAAGGCAGTCTCT
131 TCAAAGTCGACAAGCAGACTTAAGATAAAGCAGTCTCT
* * * * * * * *
2412734 AGGGTCAAAGTCGACAAGCAGACTAAAGGTAAGATAGTCTCCAAGGTCAAAATCGATAGGCAGAC
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAGAC
* * * * * *
2412799 TTGAGATAAGGCT-GTCTCCAAGGTCAAAGCTGACAAGCATACTAAAGG-ATGGAAATTCTCTTA
66 TTGAGATAAGG-TAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTA-GAAAAGTCT-TTA
* * * * * * *
2412862 -GGTCAAAG-CCACCAGGTAGACTTGAGATGAGGCAGTCTCC
128 GGGTCAAAGTCGA-CAAGCAGACTTAAGATAAAGCAGTCTCT
* * * * * * *
2412902 AGGGTCAAAGCCGACAAGCAGACTGAAGATAAGAAAGTCTCCAAGGTCAAAAAT-GATAGGCAAA
1 AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTC-AAAGTCGATAGGCAGA
*
2412966 CTTAAGATAAGGTAGT
65 CTTGAGATAAGGTAGT
2412982 AGACAGACTG
Statistics
Matches: 1256, Mismatches: 299, Indels: 74
0.77 0.18 0.05
Matches are distributed among these distances:
165 1 0.00
167 25 0.02
168 1202 0.96
169 27 0.02
170 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.19
Consensus pattern (168 bp):
AAGGTCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGTCGATAGGCAGAC
TTGAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAGAAAAGTCTTTAGGG
TCAAAGTCGACAAGCAGACTTAAGATAAAGCAGTCTCT
Found at i:2413212 original size:38 final size:39
Alignment explanation
Indices: 2413149--2413255 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 39
2413139 GAAGAGGATT
* * *
2413149 TGACTAGGGTGGTAACCAGATGTCA-AATGAGAAAAATC
1 TGACTAGAGTGGTAACCACACGTCAGAATGAGAAAAATC
*
2413187 TGATTAGAGTGGTAACCACACGTCAAATCAGAATGAGAAAAATC
1 TGACTAGAGTGGTAACCACACG-----TCAGAATGAGAAAAATC
* *
2413231 TGACTAGGGTGGTAACCATACGTCA
1 TGACTAGAGTGGTAACCACACGTCA
2413256 TGCTAAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
38 18 0.32
39 3 0.05
43 3 0.05
44 32 0.57
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (39 bp):
TGACTAGAGTGGTAACCACACGTCAGAATGAGAAAAATC
Found at i:2426958 original size:19 final size:20
Alignment explanation
Indices: 2426918--2426960 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2426908 GTTTCATTTG
*
2426918 CTTTTAGTTGCTGACTGTTT
1 CTTTTAGTTGCTGACCGTTT
*
2426938 CTTTTGGTTGCTG-CCGTTT
1 CTTTTAGTTGCTGACCGTTT
2426957 CTTT
1 CTTT
2426961 CTTGGCAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.05, C:0.19, G:0.21, T:0.56
Consensus pattern (20 bp):
CTTTTAGTTGCTGACCGTTT
Found at i:2427255 original size:38 final size:38
Alignment explanation
Indices: 2427211--2427295 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 38
2427201 AATTTGCCTC
* *
2427211 TAATTTGCATTCTTCATTGTTG-TCGTTTGCAGCAGCTT
1 TAATTTGCATTCTTCATTGCTGCT-GTTTACAGCAGCTT
2427249 TAATTTGCATTCTTCATTGCTGCTGTTTACAGCAGCTT
1 TAATTTGCATTCTTCATTGCTGCTGTTTACAGCAGCTT
2427287 TAA-TTGCAT
1 TAATTTGCAT
2427296 CTCGTTGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 6 0.14
38 37 0.84
39 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (38 bp):
TAATTTGCATTCTTCATTGCTGCTGTTTACAGCAGCTT
Found at i:2427518 original size:62 final size:62
Alignment explanation
Indices: 2427437--2427555 Score: 229
Period size: 62 Copynumber: 1.9 Consensus size: 62
2427427 AAATGAAAGG
*
2427437 ATGCAATGCAATGACACCTAGAAAGCTTAGGTGGCAGCAAATTAAACATGAAATCCAATGCA
1 ATGCAATGCAATGACACCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCAATGCA
2427499 ATGCAATGCAATGACACCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCA
1 ATGCAATGCAATGACACCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCA
2427556 CCAAATTCGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (62 bp):
ATGCAATGCAATGACACCTAGAAAGCTTAGGTAGCAGCAAATTAAACATGAAATCCAATGCA
Found at i:2427648 original size:17 final size:19
Alignment explanation
Indices: 2427626--2427666 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
2427616 ATTAACAAAA
*
2427626 TTTTAA-TTTTATTCT-TT
1 TTTTAATTTTTATTATATT
2427643 TTTTAATTTTTATTATATT
1 TTTTAATTTTTATTATATT
2427662 TTTTA
1 TTTTA
2427667 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 8 0.38
19 7 0.33
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTAATTTTTATTATATT
Found at i:2427650 original size:23 final size:22
Alignment explanation
Indices: 2427624--2427674 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
2427614 TAATTAACAA
* *
2427624 AATTTTAATTTTATTCTTTTTTT
1 AATTTTAATTATATT-TTTTATT
*
2427647 AATTTTTATTATATTTTTTATT
1 AATTTTAATTATATTTTTTATT
*
2427669 ATTTTT
1 AATTTT
2427675 TAATATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (22 bp):
AATTTTAATTATATTTTTTATT
Found at i:2428057 original size:20 final size:20
Alignment explanation
Indices: 2428032--2428109 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
2428022 AAAAACCCAG
*
2428032 AATGTATCGATACAATCGAT
1 AATGTATCGATACATTCGAT
* *
2428052 AATGTATCGATACATTTGAG
1 AATGTATCGATACATTCGAT
2428072 ACATGTATCGATACATTC-ACT
1 A-ATGTATCGATACATTCGA-T
* *
2428093 TATGTATCGATATATTC
1 AATGTATCGATACATTC
2428110 ACTAATTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
20 34 0.69
21 15 0.31
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCGAT
Found at i:2428110 original size:20 final size:20
Alignment explanation
Indices: 2428074--2428127 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2428064 CATTTGAGAC
* *
2428074 ATGTATCGATACATTCACTT
1 ATGTATCGATATATTCACTA
2428094 ATGTATCGATATATTCACTA
1 ATGTATCGATATATTCACTA
*
2428114 ATTATATCGATATA
1 A-TGTATCGATATA
2428128 AATCATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGTATCGATATATTCACTA
Found at i:2431326 original size:13 final size:13
Alignment explanation
Indices: 2431308--2431367 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
2431298 ACATTATGCT
2431308 TTGTATCGATACA
1 TTGTATCGATACA
*
2431321 TTGTATCAATACA
1 TTGTATCGATACA
*
2431334 -T-TAT-G---CT
1 TTGTATCGATACA
*
2431341 TTCTATCGATACA
1 TTGTATCGATACA
2431354 TTGTATCGATACA
1 TTGTATCGATACA
2431367 T
1 T
2431368 GAAACTGGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 1 0.03
11 3 0.08
12 1 0.03
13 26 0.72
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2431336 original size:33 final size:33
Alignment explanation
Indices: 2431289--2431367 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
2431279 CACATCCAGA
* *
2431289 TGTAACAATACATTATGCTTTGTATCGATACAT
1 TGTATCAATACATTATGCTTTCTATCGATACAT
2431322 TGTATCAATACATTATGCTTTCTATCGATACAT
1 TGTATCAATACATTATGCTTTCTATCGATACAT
*
2431355 TGTATCGATACAT
1 TGTATCAATACAT
2431368 GAAACTGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (33 bp):
TGTATCAATACATTATGCTTTCTATCGATACAT
Found at i:2437643 original size:13 final size:13
Alignment explanation
Indices: 2437625--2437661 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2437615 ATATTCTTTG
2437625 TATCGATACATTA
1 TATCGATACATTA
* *
2437638 TATCGATATATTG
1 TATCGATACATTA
2437651 TATCGATACAT
1 TATCGATACAT
2437662 GGGTTCATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2440138 original size:20 final size:19
Alignment explanation
Indices: 2440089--2440144 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2440079 TTGTATCAAT
* *
2440089 ACATTGGATCGATACATGT
1 ACATTGAATCGATACATGC
* *
2440108 TCATTGTATCGATACATGC
1 ACATTGAATCGATACATGC
2440127 ACAATTGAATCGATACAT
1 AC-ATTGAATCGATACAT
2440145 AAAACTGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
ACATTGAATCGATACATGC
Found at i:2440212 original size:33 final size:32
Alignment explanation
Indices: 2440175--2440239 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
2440165 TACTACTGAT
2440175 TGTATAGATACATG-GCACATTGTATCGATACAA
1 TGTATAGATACATGAG-A-ATTGTATCGATACAA
*
2440208 TGTATTGATACATGATGAATTGTATCGATACA
1 TGTATAGATACATGA-GAATTGTATCGATACA
2440240 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATAGATACATGAGAATTGTATCGATACAA
Found at i:2442318 original size:7 final size:7
Alignment explanation
Indices: 2442302--2442331 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2442292 TGGTCCATTA
2442302 TTTA-TT
1 TTTATTT
2442308 TTTATTT
1 TTTATTT
2442315 TTTATTT
1 TTTATTT
2442322 TTTATTT
1 TTTATTT
2442329 TTT
1 TTT
2442332 TGGGGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:2442943 original size:4 final size:4
Alignment explanation
Indices: 2442934--2442973 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
2442924 CAATTATTTG
*
2442934 AATT AATT AATT AATTT AATT AATT ATTT GAATT AATT AA
1 AATT AATT AATT AA-TT AATT AATT AATT -AATT AATT AA
2442974 AATTAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 25 0.78
5 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:2442945 original size:17 final size:17
Alignment explanation
Indices: 2442925--2442973 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
2442915 TTATTTAACC
2442925 AATTATTTGAATTAATT
1 AATTATTTGAATTAATT
*
2442942 AATTA----ATTTAATT
1 AATTATTTGAATTAATT
2442955 AATTATTTGAATTAATT
1 AATTATTTGAATTAATT
2442972 AA
1 AA
2442974 AATTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 12 0.46
17 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
AATTATTTGAATTAATT
Found at i:2442951 original size:30 final size:30
Alignment explanation
Indices: 2442917--2442973 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
2442907 TTTATCATTT
2442917 ATTTAACCAATTATTTGAATTAATTAATTA
1 ATTTAACCAATTATTTGAATTAATTAATTA
**
2442947 ATTTAATTAATTATTTGAATTAATTAA
1 ATTTAACCAATTATTTGAATTAATTAA
2442974 AATTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
ATTTAACCAATTATTTGAATTAATTAATTA
Found at i:2442952 original size:13 final size:13
Alignment explanation
Indices: 2442936--2442973 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
2442926 ATTATTTGAA
2442936 TTAATTAATTAAT
1 TTAATTAATTAAT
2442949 TTAATTAATT-AT
1 TTAATTAATTAAT
2442961 TTGAATTAATTAA
1 TT-AATTAATTAA
2442974 AATTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 18 0.78
14 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:2443581 original size:23 final size:24
Alignment explanation
Indices: 2443553--2443608 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
2443543 TTATTTTATG
*
2443553 ATTTTTTTAAATT-TGAATTTTAA
1 ATTTTTTTAAATTGTGAAGTTTAA
*
2443576 ATTTTTTTAAATTGTTAAGTTTAA
1 ATTTTTTTAAATTGTGAAGTTTAA
2443600 ATTATTTTT
1 ATT-TTTTT
2443609 GTTTTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.45
24 11 0.38
25 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (24 bp):
ATTTTTTTAAATTGTGAAGTTTAA
Found at i:2443701 original size:15 final size:15
Alignment explanation
Indices: 2443681--2443726 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
2443671 ATTAATTTTA
*
2443681 AAATTAAATTTAAGT
1 AAATTAAATTTAATT
2443696 AAATT--ATTTAATT
1 AAATTAAATTTAATT
*
2443709 AAATAAAATTTAATT
1 AAATTAAATTTAATT
2443724 AAA
1 AAA
2443727 ATTATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 11 0.41
15 16 0.59
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
AAATTAAATTTAATT
Found at i:2444136 original size:25 final size:25
Alignment explanation
Indices: 2444082--2444136 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
2444072 CATGATAATC
* *
2444082 TATTATTATAACATATCATATAAAT
1 TATTATGATAAAATATCATATAAAT
* *
2444107 AATTATGATAAAATA-CATATACCAT
1 TATTATGATAAAATATCATATA-AAT
2444132 TATTA
1 TATTA
2444137 ACAACTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (25 bp):
TATTATGATAAAATATCATATAAAT
Found at i:2444970 original size:17 final size:19
Alignment explanation
Indices: 2444929--2444976 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
2444919 AATTATATAA
2444929 TATATATTATTTTTGTATT
1 TATATATTATTTTTGTATT
2444948 TATATATTATTTTTGTATT
1 TATATATTATTTTTGTATT
2444967 TATATATTAT
1 TATATATTAT
2444977 ATAATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TATATATTATTTTTGTATT
Found at i:2446655 original size:21 final size:21
Alignment explanation
Indices: 2446622--2446662 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2446612 AATGTTAGTA
**
2446622 TTATTTTTTTTATATTTTATT
1 TTATTTTAATTATATTTTATT
*
2446643 TTATTTTAATTATTTTTTAT
1 TTATTTTAATTATATTTTAT
2446663 ATTAGTGTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTATTTTAATTATATTTTATT
Found at i:2446660 original size:16 final size:18
Alignment explanation
Indices: 2446620--2446662 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
2446610 ATAATGTTAG
2446620 TATTATTTT-TTTTATAT
1 TATTATTTTATTTTATAT
2446637 T-TTATTTTATTTTA-AT
1 TATTATTTTATTTTATAT
2446653 TATT-TTTTAT
1 TATTATTTTAT
2446663 ATTAGTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTATTTTATTTTATAT
Found at i:2446820 original size:14 final size:13
Alignment explanation
Indices: 2446797--2446852 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
2446787 TTTATCTATT
*
2446797 TTATTGTATTTTGA
1 TTATTTTATTTT-A
2446811 TTATTTTATTTTA
1 TTATTTTATTTTA
*
2446824 -TATTTTA-ATTA
1 TTATTTTATTTTA
2446835 TT-TTTTATTTTA
1 TTATTTTATTTTA
2446847 -TATTTT
1 TTATTTT
2446853 CGTATAACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.25
12 15 0.42
13 1 0.03
14 11 0.31
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:2446837 original size:16 final size:16
Alignment explanation
Indices: 2446816--2446846 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2446806 TTTGATTATT
2446816 TTATTTTATATTTTAA
1 TTATTTTATATTTTAA
*
2446832 TTATTTTTTATTTTA
1 TTATTTTATATTTTA
2446847 TATTTTCGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTATATTTTAA
Found at i:2446844 original size:23 final size:23
Alignment explanation
Indices: 2446734--2446852 Score: 82
Period size: 23 Copynumber: 4.9 Consensus size: 23
2446724 TTGTATCAAG
* *
2446734 TTATTTTTTATGTTATGTTTTAA
1 TTATTTTTTATTTTATATTTTAA
*
2446757 TTATTTTTTAGGTTTATAGATTTTAGCA
1 TTATTTTTTA--TTT-TATATTTTA--A
* * *
2446785 -CATTTATCTATTTTATTGTATTTTGA
1 TTATTT-TTTATTTTA---TATTTTAA
2446811 TTA--TTTTATTTTATATTTTAA
1 TTATTTTTTATTTTATATTTTAA
2446832 TTATTTTTTATTTTATATTTT
1 TTATTTTTTATTTTATATTTT
2446853 CGTATAACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
21 10 0.14
23 26 0.35
24 8 0.11
25 5 0.07
26 11 0.15
27 5 0.07
28 9 0.12
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.67
Consensus pattern (23 bp):
TTATTTTTTATTTTATATTTTAA
Found at i:2447042 original size:14 final size:13
Alignment explanation
Indices: 2447012--2447058 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
2447002 TTTTCTAATA
*
2447012 AAATTTTTTATAT
1 AAATTTATTATAT
2447025 -AATTTATTATAAT
1 AAATTTATTAT-AT
**
2447038 AAATTTAAAATAT
1 AAATTTATTATAT
2447051 AAATTTAT
1 AAATTTAT
2447059 ATTATTATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 9 0.32
13 11 0.39
14 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTTATTATAT
Done.