Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 83 of 349
Found at i:24626771 original size:30 final size:30
Alignment explanation
Indices: 24626736--24626806 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
24626726 GGGCAAACCC
*
24626736 TGTGTCACACACAGTCTAGAAACATGCCCA
1 TGTGTCACACACAGTCTAGAAACACGCCCA
* * *
24626766 TGTGTCACACACGGTCTAGACACACGCCCG
1 TGTGTCACACACAGTCTAGAAACACGCCCA
24626796 TGTGTCTACAC
1 TGTGTC-ACAC
24626807 GTGTAGACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (30 bp):
TGTGTCACACACAGTCTAGAAACACGCCCA
Found at i:24627646 original size:48 final size:48
Alignment explanation
Indices: 24627575--24627756 Score: 213
Period size: 48 Copynumber: 3.8 Consensus size: 48
24627565 CGGTGCCGGT
* *
24627575 GCCGATGCCATGTTCCAAACATGGTCATACACTAGCTCATATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATATCGAG
** * * * *
24627623 GCCGATGCCATGTCCCGGACATGGTCTTACATTAGCTC-TCTTATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCAT-ATATCGAG
*** * *
24627671 ATTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCATAAATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATATCGAG
* *
24627719 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC
24627757 TCATAACCCT
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 105 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATATCGAG
Found at i:24627742 original size:96 final size:96
Alignment explanation
Indices: 24627578--24627758 Score: 317
Period size: 96 Copynumber: 1.9 Consensus size: 96
24627568 TGCCGGTGCC
* *
24627578 GATGCCATGTTCCAAACATGGTCATACACTAGCTCATATATCGAGGCCGATGCCATGTCCCGGAC
1 GATGCCATGTTCCAAACATGGTCATACACTAGCTCATAAATCGAGGCCGATGCCATGTCCCAGAC
*
24627643 ATGGTCTTACATTAGCTCTCTTATCAATATT
66 ATGGTCTTACACTAGCTCTCTTATCAATATT
* *
24627674 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCATAAATCGAGGCCGATGCCATGTCTCAGAC
1 GATGCCATGTTCCAAACATGGTCATACACTAGCTCATAAATCGAGGCCGATGCCATGTCCCAGAC
24627739 ATGGTCTTACACTAGCTCTC
66 ATGGTCTTACACTAGCTCTC
24627759 ATAACCCTAG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
GATGCCATGTTCCAAACATGGTCATACACTAGCTCATAAATCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCTTATCAATATT
Found at i:24635933 original size:67 final size:67
Alignment explanation
Indices: 24635852--24636036 Score: 232
Period size: 67 Copynumber: 2.8 Consensus size: 67
24635842 CATGTGAATG
* * * *
24635852 TTCTCTAGCTAATGTGGGATTAAAAAT-ATTTTTTAATG-AAATAGTGAAAAAGTGAACTATGAG
1 TTCTCTAGCCAATGTGAGATTAAAATTAACTTTTTAATGAAAATAGTG--AAAGTGAACTATGAG
24635915 AGTA
64 AGTA
* *
24635919 TTCTCTAGCCAATGTGAGATTAAAATTAACTTTTCAATGAAAATAGTGAAAGTTAACTATGAGAG
1 TTCTCTAGCCAATGTGAGATTAAAATTAACTTTTTAATGAAAATAGTGAAAGTGAACTATGAGAG
24635984 TA
66 TA
* * ** *
24635986 TTATCTAGTCGGTGTGTGATTAAAATTAACTTTTTAATGAAAATAGT-AAAG
1 TTCTCTAGCCAATGTGAGATTAAAATTAACTTTTTAATGAAAATAGTGAAAG
24636037 AAATTGTTCT
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
66 4 0.04
67 83 0.80
68 9 0.09
69 8 0.08
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (67 bp):
TTCTCTAGCCAATGTGAGATTAAAATTAACTTTTTAATGAAAATAGTGAAAGTGAACTATGAGAG
TA
Found at i:24637470 original size:14 final size:14
Alignment explanation
Indices: 24637451--24637483 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
24637441 ATGATTTATT
24637451 TATGTATGAATTTC
1 TATGTATGAATTTC
24637465 TATGTATGAATTTC
1 TATGTATGAATTTC
24637479 TATGT
1 TATGT
24637484 TTGATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (14 bp):
TATGTATGAATTTC
Found at i:24641941 original size:46 final size:46
Alignment explanation
Indices: 24641891--24642063 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
24641881 TTGAGCATCC
24641891 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * *
24641937 GAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCT
* *
24641984 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
24642030 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24642064 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 56 0.53
47 25 0.24
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:24642044 original size:93 final size:93
Alignment explanation
Indices: 24641885--24642054 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
24641875 GGATGATTGA
* *
24641885 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
24641950 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
*
24641978 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
24642043 TGAGTCCGAGTT
66 TGAGTCCGAGTT
24642055 CGCTTATGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:24675598 original size:24 final size:26
Alignment explanation
Indices: 24675565--24675615 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
24675555 ATATATCAAT
24675565 TTTTAAAAAATAAAT-AT-ATAAAAA
1 TTTTAAAAAATAAATAATAATAAAAA
* *
24675589 TTTTACAAAATATATAATAATAAAAA
1 TTTTAAAAAATAAATAATAATAAAAA
24675615 T
1 T
24675616 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 13 0.57
25 2 0.09
26 8 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTTAAAAAATAAATAATAATAAAAA
Found at i:24675611 original size:26 final size:24
Alignment explanation
Indices: 24675565--24675615 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 24
24675555 ATATATCAAT
24675565 TTTTAAAAAATAAATATATAAAAA
1 TTTTAAAAAATAAATATATAAAAA
24675589 TTTTACAAAATATATAATA-ATAAAAA
1 TTTTA-AAAA-ATA-AATATATAAAAA
24675615 T
1 T
24675616 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 4 0.17
26 11 0.46
27 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTTTAAAAAATAAATATATAAAAA
Found at i:24675627 original size:14 final size:14
Alignment explanation
Indices: 24675570--24675629 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
24675560 TCAATTTTTA
*
24675570 AAAAATAAATATAT
1 AAAAATAAAAATAT
24675584 AAAAATTTTACAAAATAT
1 AAAAA---TA-AAAATAT
24675602 ATAATAATAAAAATAT
1 A-AA-AATAAAAATAT
24675618 AAAAATAAAAAT
1 AAAAATAAAAAT
24675630 TCATTAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
14 14 0.36
15 2 0.05
16 8 0.21
17 4 0.10
18 7 0.18
19 2 0.05
20 2 0.05
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATAAAAATAT
Found at i:24680550 original size:29 final size:29
Alignment explanation
Indices: 24680490--24680551 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
24680480 CTATATAACA
* * *
24680490 TGAGTGTCTAAATTGAAAATTTTTTATTT
1 TGAGTGTCTAAAATGAAAATATTTTATAT
*
24680519 TGAGTGTTTAAAAT-AAAATATTTTATAAT
1 TGAGTGTCTAAAATGAAAATATTTTAT-AT
24680548 TGAG
1 TGAG
24680552 CGAAGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.47
Consensus pattern (29 bp):
TGAGTGTCTAAAATGAAAATATTTTATAT
Found at i:24693929 original size:25 final size:26
Alignment explanation
Indices: 24693881--24693929 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
24693871 GATTAAATCT
*
24693881 AAATATAAAATAAATAATTAAAATTC
1 AAATATAAAATAAATAACTAAAATTC
24693907 AAATA-AAAATAAAT-ACTAGAAAT
1 AAATATAAAATAAATAACTA-AAAT
24693930 AAATTGAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.62
26 5 0.24
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (26 bp):
AAATATAAAATAAATAACTAAAATTC
Found at i:24699237 original size:104 final size:104
Alignment explanation
Indices: 24699057--24699256 Score: 312
Period size: 104 Copynumber: 1.9 Consensus size: 104
24699047 GCATGCCAGG
* *
24699057 CCGTGTGCTACACATGGCTGAGACAAACACCCGTGTCTCAGGCCATGTGGCCTCAAAATAAACTT
1 CCGTGTGCTACACATGGCTGAGACAAACACCAGTGTCTCAGGCCATGTGGCCTCAAAATAAACCT
*
24699122 TAAAACTCAAGTTTACCATTTCAAATTGCTTCAACACGA
66 TAAAACACAAGTTTACCATTTCAAATTGCTTCAACACGA
* * * * *
24699161 CCGTGTGCTACACACT-GCTGAGACACACGCCAGTGTCTTAGGCCATGTGGCCTTAAAATGAACC
1 CCGTGTGCTACACA-TGGCTGAGACAAACACCAGTGTCTCAGGCCATGTGGCCTCAAAATAAACC
24699225 TTAAAACACAAGTTTACCATTTCAAATTGCTT
65 TTAAAACACAAGTTTACCATTTCAAATTGCTT
24699257 GGACCTTAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 86 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (104 bp):
CCGTGTGCTACACATGGCTGAGACAAACACCAGTGTCTCAGGCCATGTGGCCTCAAAATAAACCT
TAAAACACAAGTTTACCATTTCAAATTGCTTCAACACGA
Found at i:24702072 original size:12 final size:12
Alignment explanation
Indices: 24702042--24702074 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
24702032 TATATATTTT
24702042 AAAATT-ATATA
1 AAAATTAATATA
24702053 AAAA-TAATATA
1 AAAATTAATATA
24702064 AAAATTAATAT
1 AAAATTAATAT
24702075 GGGCTGGGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:24704584 original size:37 final size:37
Alignment explanation
Indices: 24704509--24704584 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
24704499 AAAGAAGCTT
* *
24704509 AATCGAGCAAATCCTACTGTTATACTGAATGAAGCTC
1 AATCGAGCAAATCCTACTGTTATACAGAATGAAACTC
* * *
24704546 AATCTAGCAAATCCTATTGTTATACAGAGTGAAACTC
1 AATCGAGCAAATCCTACTGTTATACAGAATGAAACTC
24704583 AA
1 AA
24704585 ACAAGTAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (37 bp):
AATCGAGCAAATCCTACTGTTATACAGAATGAAACTC
Found at i:24706893 original size:15 final size:15
Alignment explanation
Indices: 24706873--24706902 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24706863 ATAATCCTAA
*
24706873 TAATTATCTTAATAT
1 TAATTATCCTAATAT
24706888 TAATTATCCTAATAT
1 TAATTATCCTAATAT
24706903 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:24707486 original size:10 final size:10
Alignment explanation
Indices: 24707471--24707502 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24707461 TTAATATGAC
24707471 TTTTTTTTC-
1 TTTTTTTTCT
24707480 -TTTTTTTCT
1 TTTTTTTTCT
24707489 TTTTTTTTCT
1 TTTTTTTTCT
24707499 TTTT
1 TTTT
24707503 GTTATAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:24710305 original size:20 final size:20
Alignment explanation
Indices: 24710265--24710305 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24710255 AAAAGAAGAG
* * *
24710265 AAATTTATAAATATAATAAA
1 AAATTTAAAAATAAAACAAA
24710285 AAATTTAAAAATAAAACAAA
1 AAATTTAAAAATAAAACAAA
24710305 A
1 A
24710306 TGAAATAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATTTAAAAATAAAACAAA
Found at i:24710345 original size:17 final size:18
Alignment explanation
Indices: 24710303--24710368 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 18
24710293 AAATAAAACA
*
24710303 AAATGAAATAAATTACAAT
1 AAAT-AAATAAAATACAAT
*
24710322 -AAGAAATAAAATA-AAT
1 AAATAAATAAAATACAAT
*
24710338 AAATAAATAAAA-ATAAT
1 AAATAAATAAAATACAAT
24710355 AAA-AAATAGAAATA
1 AAATAAATA-AAATA
24710369 AAATTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
16 9 0.22
17 28 0.70
18 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAATAAAATACAAT
Found at i:24710353 original size:30 final size:29
Alignment explanation
Indices: 24710271--24710362 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
24710261 AGAGAAATTT
**
24710271 ATAAATATAATAAA-AAATTTAAAAATAAA
1 ATAAATA-AATAAATAAAAATAAAAATAAA
* * *
24710300 ACAAAATGAAATAAATTACAATAAGAAATAAA
1 A-TAAAT-AAATAAATAAAAATAA-AAATAAA
*
24710332 ATAAATAAATAAATAAAAATAATAA-AAA
1 ATAAATAAATAAATAAAAATAAAAATAAA
24710360 ATA
1 ATA
24710363 GAAATAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
28 6 0.12
29 3 0.06
30 24 0.48
31 9 0.18
32 8 0.16
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (29 bp):
ATAAATAAATAAATAAAAATAAAAATAAA
Found at i:24710367 original size:16 final size:15
Alignment explanation
Indices: 24710319--24710369 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
24710309 AATAAATTAC
*
24710319 AATAAGAAATAAAAT
1 AATAAAAAATAAAAT
24710334 AAATAAATAAATAAAAAT
1 -AATAAA-AAAT-AAAAT
24710352 AATAAAAAATAGAAAT
1 AATAAAAAATA-AAAT
24710368 AA
1 AA
24710370 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 1 0.03
16 15 0.48
17 10 0.32
18 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (15 bp):
AATAAAAAATAAAAT
Found at i:24710367 original size:26 final size:27
Alignment explanation
Indices: 24710289--24710379 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 27
24710279 AATAAAAAAT
24710289 TTAAAAATAA-AACAAAAT-GAAATAAA
1 TTAAAAATAATAA-AAAATAGAAATAAA
* *
24710315 TTACAATAAGAAATAAAATAA-ATAAATAAA
1 TTA-AA-AA-TAATAAAA-AATAGAAATAAA
24710345 -TAAAAATAATAAAAAATAGAAATAAAA
1 TTAAAAATAATAAAAAATAGAAAT-AAA
*
24710372 TTTAAAAT
1 TTAAAAAT
24710380 TAAAGATTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
25 2 0.04
26 15 0.29
27 7 0.14
28 10 0.20
29 6 0.12
30 11 0.22
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.23
Consensus pattern (27 bp):
TTAAAAATAATAAAAAATAGAAATAAA
Found at i:24716831 original size:15 final size:15
Alignment explanation
Indices: 24716811--24716840 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24716801 ATAATCCTAA
24716811 TAATTATCTTAATAT
1 TAATTATCTTAATAT
24716826 TAATTATCTTAATAT
1 TAATTATCTTAATAT
24716841 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTATCTTAATAT
Found at i:24717558 original size:271 final size:271
Alignment explanation
Indices: 24717075--24717616 Score: 1030
Period size: 271 Copynumber: 2.0 Consensus size: 271
24717065 TAAACACATG
*
24717075 ATTAATACATAAAAATATGTTATTCTAGAGTATTATCAGCAAGGCTCATATGAGCGACTTTGGTG
1 ATTAATACATAAAAATATGTTATTCTAGAGCATTATCAGCAAGGCTCATATGAGCGACTTTGGTG
**
24717140 TGCGTTTTCAGAGTGTCAGAGGTAGTTTTGCTCATCAATGAGTGTAAAAGGGATGGCCGAAGGTA
66 TGCGTTTTCAGAGTGTCAGAGGTAGTTTTGCTCATCAATGAGCATAAAAGGGATGGCCGAAGGTA
24717205 TTCAACTATCGTCGGATTATTGATTTCGGTCGAGCAACAATAGTGCTCGGGGTAGTGACAATGTG
131 TTCAACTATCGTCGGATTATTGATTTCGGTCGAGCAACAATAGTGCTCGGGGTAGTGACAATGTG
24717270 GTGGTTGGTGGTTACTATTTGGTTTGGACACAAGATCGGGGCTTCGTTTGACGATGATAGAAAGG
196 GTGGTTGGTGGTTACTATTTGGTTTGGACACAAGATCGGGGCTTCGTTTGACGATGATAGAAAGG
24717335 GTTTTGGAGGC
261 GTTTTGGAGGC
*
24717346 ATTAATACATAAAAATATGTTATTCTAGAGCATTATTAGCAAGGCTCATATGAGCGACTTTGGTG
1 ATTAATACATAAAAATATGTTATTCTAGAGCATTATCAGCAAGGCTCATATGAGCGACTTTGGTG
*
24717411 TGCGTTTTCAGAGTGTCGGAGGTAGTTTTGCTCATCAATGAGCATAAAAGGGATGGCCGAAGGTA
66 TGCGTTTTCAGAGTGTCAGAGGTAGTTTTGCTCATCAATGAGCATAAAAGGGATGGCCGAAGGTA
*
24717476 TTCAACTATCGTCGGATTATTGATTTCGGTCGAGCAACAATGGTGCTCGGGGTAGTGACAATGTG
131 TTCAACTATCGTCGGATTATTGATTTCGGTCGAGCAACAATAGTGCTCGGGGTAGTGACAATGTG
24717541 GTGGTTGGTGGTTACTATTTGGTTTGGACACAAGATCGGGGCTTCGTTTGACGATGATAGAAAGG
196 GTGGTTGGTGGTTACTATTTGGTTTGGACACAAGATCGGGGCTTCGTTTGACGATGATAGAAAGG
24717606 GTTTTGGAGGC
261 GTTTTGGAGGC
24717617 GGCAATGTTC
Statistics
Matches: 265, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
271 265 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (271 bp):
ATTAATACATAAAAATATGTTATTCTAGAGCATTATCAGCAAGGCTCATATGAGCGACTTTGGTG
TGCGTTTTCAGAGTGTCAGAGGTAGTTTTGCTCATCAATGAGCATAAAAGGGATGGCCGAAGGTA
TTCAACTATCGTCGGATTATTGATTTCGGTCGAGCAACAATAGTGCTCGGGGTAGTGACAATGTG
GTGGTTGGTGGTTACTATTTGGTTTGGACACAAGATCGGGGCTTCGTTTGACGATGATAGAAAGG
GTTTTGGAGGC
Found at i:24721142 original size:30 final size:30
Alignment explanation
Indices: 24721106--24721165 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
24721096 TAGACATGTA
*
24721106 AATAAACCTAAGCTACAGTAAAAACTAACT
1 AATAAACCTAAGCTACAATAAAAACTAACT
24721136 AATAAACCTAAGCTACAATAAAAACTAACT
1 AATAAACCTAAGCTACAATAAAAACTAACT
24721166 TAACTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (30 bp):
AATAAACCTAAGCTACAATAAAAACTAACT
Found at i:24721157 original size:16 final size:16
Alignment explanation
Indices: 24721106--24721157 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
24721096 TAGACATGTA
24721106 AATAAACCTAAGCTAC
1 AATAAACCTAAGCTAC
* *
24721122 AGTAAAAACTAA-CT--
1 AAT-AAACCTAAGCTAC
24721136 AATAAACCTAAGCTAC
1 AATAAACCTAAGCTAC
24721152 AATAAA
1 AATAAA
24721158 AACTAACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 7 0.25
14 4 0.14
16 10 0.36
17 7 0.25
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
AATAAACCTAAGCTAC
Found at i:24724814 original size:9 final size:9
Alignment explanation
Indices: 24724790--24724846 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
24724780 TTAAAATTTG
24724790 TTTTAAAAT
1 TTTTAAAAT
* * *
24724799 ATATAAATT
1 TTTTAAAAT
*
24724808 TTTTAAAAA
1 TTTTAAAAT
*
24724817 TTTTAAAAA
1 TTTTAAAAT
*
24724826 TTTTAAAAA
1 TTTTAAAAT
*
24724835 TTTTGAAAT
1 TTTTAAAAT
24724844 TTT
1 TTT
24724847 GTTAAAAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:24724955 original size:20 final size:20
Alignment explanation
Indices: 24724902--24724958 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
24724892 ATTAAATAAT
*
24724902 TTAAAATATTGTGAAAAT-CA
1 TTAAAA-ATTGTAAAAATACA
* * *
24724922 TTAAAAAAT-AAAAAATATA
1 TTAAAAATTGTAAAAATACA
24724941 TTAAAAATTGTAAAAATA
1 TTAAAAATTGTAAAAATA
24724959 ATAAGATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 5 0.17
19 11 0.38
20 13 0.45
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
TTAAAAATTGTAAAAATACA
Found at i:24725220 original size:16 final size:15
Alignment explanation
Indices: 24725189--24725217 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24725179 AAAATTGTAA
24725189 AAAACATTATAATTT
1 AAAACATTATAATTT
24725204 AAAA-ATTATAATTT
1 AAAACATTATAATTT
24725218 TTACAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAACATTATAATTT
Found at i:24725407 original size:9 final size:9
Alignment explanation
Indices: 24725363--24725409 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
24725353 TTTTCTAAAC
24725363 AATTTTTACA
1 AATTTTTA-A
24725373 AATTTTTAA
1 AATTTTTAA
*
24725382 GAATTTTTAT
1 -AATTTTTAA
*
24725392 AACTTTTAA
1 AATTTTTAA
24725401 AATTTTTAA
1 AATTTTTAA
24725410 GTGTACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (9 bp):
AATTTTTAA
Found at i:24726332 original size:20 final size:20
Alignment explanation
Indices: 24726307--24726352 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
24726297 ATAAAAATTG
24726307 GTCAATATA-CTATGTCATTA
1 GTCAATATATC-ATGTCATTA
*
24726327 GTCAATTTATCATGTCATTA
1 GTCAATATATCATGTCATTA
*
24726347 ATCAAT
1 GTCAAT
24726353 CTGTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (20 bp):
GTCAATATATCATGTCATTA
Found at i:24726839 original size:11 final size:11
Alignment explanation
Indices: 24726823--24726847 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24726813 TTGAATTCCT
24726823 TCAATTTACCC
1 TCAATTTACCC
24726834 TCAATTTACCC
1 TCAATTTACCC
24726845 TCA
1 TCA
24726848 GAATTTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (11 bp):
TCAATTTACCC
Found at i:24729883 original size:120 final size:121
Alignment explanation
Indices: 24729705--24729932 Score: 278
Period size: 120 Copynumber: 1.9 Consensus size: 121
24729695 CTTATGCATT
* * * * * **
24729705 TGAAATTTCAAAAAGATATTTTAGCTATTTGGTTAAATGGTAAATCGAAATCCAGCACGATTGGG
1 TGAAATTTCAAAAAGATATTTCAGCTATTCGGTTAAACGGAAAATCGAAACCCAGCACGATAAGG
* * * * * *
24729770 CATGATTTCTCGAATTTTCAAATACGAAATATTGTCTCATTTTAAGAAAACATGGA
66 CACGATTTCTCAAACTTCCAAACACGAAATATTATCTCATTTTAAGAAAACATGGA
* * * * *
24729826 TGAAATTTCAAAAGGATA-TTCAGTTATTCGGTTGAACGGAAAATCGGAACCCAGCACGGTAAGG
1 TGAAATTTCAAAAAGATATTTCAGCTATTCGGTTAAACGGAAAATCGAAACCCAGCACGATAAGG
*
24729890 CACGATTTCTCAAACTTCCAAACACGAAATATTATCTTATTTT
66 CACGATTTCTCAAACTTCCAAACACGAAATATTATCTCATTTT
24729933 GAAAAACTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
120 71 0.81
121 17 0.19
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (121 bp):
TGAAATTTCAAAAAGATATTTCAGCTATTCGGTTAAACGGAAAATCGAAACCCAGCACGATAAGG
CACGATTTCTCAAACTTCCAAACACGAAATATTATCTCATTTTAAGAAAACATGGA
Found at i:24730457 original size:14 final size:15
Alignment explanation
Indices: 24730424--24730466 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
24730414 AGTGCATGGA
*
24730424 AAAAATAATGTATGT
1 AAAAATAATATATGT
24730439 AAAAATAATATAT-T
1 AAAAATAATATATGT
*
24730453 CAAAATAATATATG
1 AAAAATAATATATG
24730467 CATATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (15 bp):
AAAAATAATATATGT
Found at i:24732549 original size:16 final size:15
Alignment explanation
Indices: 24732530--24732567 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
24732520 TAAAAATCCT
24732530 AAAATAAATTATTTTA
1 AAAATAAATTA-TTTA
24732546 AAAAT-AATTATTTA
1 AAAATAAATTATTTA
24732560 AAAA-AAAT
1 AAAATAAAT
24732568 CACATTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.52
15 5 0.24
16 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATAAATTATTTA
Found at i:24733096 original size:19 final size:20
Alignment explanation
Indices: 24733057--24733096 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24733047 TCATACCAAT
*
24733057 AAATAATATAAAAATATTAA
1 AAATAATATAAAAATAGTAA
*
24733077 AAAT-ATATAAAAATCGTAA
1 AAATAATATAAAAATAGTAA
24733096 A
1 A
24733097 TATTCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAATAATATAAAAATAGTAA
Found at i:24734139 original size:19 final size:19
Alignment explanation
Indices: 24734098--24734181 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 19
24734088 ATTACAATTT
*
24734098 TTATTAATTTTTTTATTATAAA
1 TTATTAA-TATTTT-TTA-AAA
24734120 TTATTAATATTTTTTAAAA
1 TTATTAATATTTTTTAAAA
*
24734139 TTATTACATATTTATTTTATAA
1 TTATTA-ATA-TT-TTTTAAAA
*
24734161 -TATCTAATATTTTTTATAA
1 TTAT-TAATATTTTTTAAAA
24734180 TT
1 TT
24734182 TAAAAAAACA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
19 17 0.31
20 9 0.16
21 13 0.24
22 16 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTAATATTTTTTAAAA
Found at i:24734144 original size:22 final size:21
Alignment explanation
Indices: 24734093--24734144 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
24734083 TTTAGATTAC
* *
24734093 AATTTTTATTAATTTTTTTAT
1 AATTATTATTAATTTTTTTAA
* *
24734114 TATAAATTATTAATATTTTTTAA
1 AAT-TATTATTAAT-TTTTTTAA
24734137 AATTATTA
1 AATTATTA
24734145 CATATTTATT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTATTATTAATTTTTTTAA
Found at i:24737471 original size:26 final size:26
Alignment explanation
Indices: 24737435--24737544 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
24737425 TGATACAAAT
24737435 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24737461 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24737487 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24737513 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24737539 TGATAA
1 TGATAA
24737545 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:24742178 original size:101 final size:101
Alignment explanation
Indices: 24741978--24742210 Score: 279
Period size: 101 Copynumber: 2.3 Consensus size: 101
24741968 GTTGTGAGAA
* * **** ** * *
24741978 CACATGTGCAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTTTTAGATCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCA-ATCACGTGTGTAGTA
* * * *
24742043 CTAAGTGTAGGCTACTACTTGTACCAGATTGTTAGGT
65 CTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGT
*
24742080 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCAATCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCAATCACGTGTGTAGTAC
24742145 TAAGTGCAAGCTACTACGTGTATCC-GATGGTTAGGT
66 TAAGTGCAAGCTACTACGTGTA-CCAGATGGTTAGGT
** *
24742181 CATGTGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
24742211 CATGTACCAA
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
101 71 0.64
102 40 0.36
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (101 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCAATCACGTGTGTAGTAC
TAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGT
Found at i:24742217 original size:101 final size:101
Alignment explanation
Indices: 24742028--24742271 Score: 276
Period size: 101 Copynumber: 2.4 Consensus size: 101
24742018 ACGGTTTTAG
* * * * *
24742028 ATCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTA
**
24742093 CTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCA
66 CTAAGTGCAGGCTACTACATGTACCCGATAGCTTCA
**
24742129 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCC-GATGGTTAGGTCATGTGTGTAGT
1 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CCAGATGGTTAGGTCACATGTGTAGT
* ** * **
24742193 ACTAAGTGTAGGCTACTACATGTACCAAATTG-TTTG
65 ACTAAGTGCAGGCTACTACATGTACCCGATAGCTTCA
* * * * * *
24742229 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGA
24742272 GAGCTTCGGT
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
99 2 0.02
100 36 0.30
101 80 0.67
102 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (101 bp):
ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTA
CTAAGTGCAGGCTACTACATGTACCCGATAGCTTCA
Found at i:24742268 original size:50 final size:50
Alignment explanation
Indices: 24741978--24742271 Score: 272
Period size: 50 Copynumber: 5.8 Consensus size: 50
24741968 GTTGTGAGAA
* * ** * *
24741978 CACATGTGCAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTT-TTAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGGT
* *
24742030 CACGTGTGTAGTACTAAGTGTAGGCTACTACT-TGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACCAGATTGTTAGGT
* * * *
24742080 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TT-AGGT
* * * *
24742131 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCC-GATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATTGTTAGGT
** * ** * *
24742181 CATGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAAATTGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* *
24742231 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
24742272 GAGCTTCGGT
Statistics
Matches: 199, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
49 7 0.04
50 121 0.61
51 39 0.20
52 31 0.16
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
Found at i:24743106 original size:180 final size:180
Alignment explanation
Indices: 24742850--24743175 Score: 481
Period size: 180 Copynumber: 1.8 Consensus size: 180
24742840 TCCGAGAGTT
* * ** *
24742850 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGAAACTATTGGACAGTGAAATAGGGGTA
1 GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGAAACTATCAGACAGTGAAATAGGGATA
* * * *
24742915 TATTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTAAAAAATTTATGGTAAGAATA
66 TATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAACTATAAAAAATTTATGGTAAGAAGA
* *
24742980 TATGTGAGTCTAGTTTATGGTAAAATTAGTTGTTCTCAATTTGGAGTCCC
131 TATATGAGTATAGTTTATGGTAAAATTAGTTGTTCTCAATTTGGAGTCCC
* *
24743030 GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGGAACTGTCAGACAGTGAAATAGGGATA
1 GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGAAACTATCAGACAGTGAAATAGGGATA
* ** * * *
24743095 TCTTTAATGAATTGACTGTACTAATTGGCTAAACCAAAAACTATGAAAATTTTATGGTAATAAGA
66 TATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAACTATAAAAAATTTATGGTAAGAAGA
24743160 TATATGAGTATAGTTT
131 TATATGAGTATAGTTT
24743176 TATAAAAAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
180 127 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (180 bp):
GTACCATGAAATAAATAATTTTTAGTGAAGAGAAGTCGAAACTATCAGACAGTGAAATAGGGATA
TATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAACTATAAAAAATTTATGGTAAGAAGA
TATATGAGTATAGTTTATGGTAAAATTAGTTGTTCTCAATTTGGAGTCCC
Found at i:24745336 original size:5 final size:5
Alignment explanation
Indices: 24745326--24745357 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
24745316 ATAAGAATAT
24745326 TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TA
24745358 ACTAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:24749472 original size:41 final size:41
Alignment explanation
Indices: 24749421--24749564 Score: 227
Period size: 41 Copynumber: 3.5 Consensus size: 41
24749411 ATCTTAAATT
*
24749421 GCACACTAAGTGCCATATATAATCGAAGCTATCTCGATCTC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCGATCTC
* *
24749462 GCACACTAAGTGCCATATATAGTCGAATCTATCTTGATCTC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCGATCTC
* *
24749503 GCACACTAAGTGCCATATATAGTCGAAGCTATGTCGA-ATC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCGATCTC
*
24749543 GCACACTAAGTGCCACATATAG
1 GCACACTAAGTGCCATATATAG
24749565 CTGATTTGTC
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 23 0.24
41 72 0.76
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
GCACACTAAGTGCCATATATAGTCGAAGCTATCTCGATCTC
Found at i:24752362 original size:41 final size:42
Alignment explanation
Indices: 24752296--24752394 Score: 110
Period size: 41 Copynumber: 2.3 Consensus size: 42
24752286 AATCGGTACC
* * * *
24752296 TAGTACCTCATCGGATTTAATCCGAAGCAATAATACGACAC-A
1 TAGTGCCTCATCGAAATT-ATCCGAAACAATAATACGACACAA
* * *
24752338 TAGTGTCTCATCGAAATTATCCGAAACAATATTATGACACATA
1 TAGTGCCTCATCGAAATTATCCGAAACAATAATACGACACA-A
24752381 TAGTGCCTCATCGA
1 TAGTGCCTCATCGA
24752395 CTCGAGGCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 19 0.40
42 14 0.30
43 14 0.30
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (42 bp):
TAGTGCCTCATCGAAATTATCCGAAACAATAATACGACACAA
Found at i:24753286 original size:15 final size:15
Alignment explanation
Indices: 24753266--24753297 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
24753256 AAAATGACAA
24753266 AATATATAACCATTG
1 AATATATAACCATTG
24753281 AATATATAACCATTG
1 AATATATAACCATTG
24753296 AA
1 AA
24753298 GGCTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (15 bp):
AATATATAACCATTG
Found at i:24762550 original size:41 final size:41
Alignment explanation
Indices: 24762505--24762589 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
24762495 ATATTGGAAG
24762505 AAAGAACTTATCCTAAAGAGATTAATGTTACGATAAATAAC
1 AAAGAACTTATCCTAAAGAGATTAATGTTACGATAAATAAC
24762546 AAAGAACTTATCCTAAAGAGATTAATGTTACGATAAATAAC
1 AAAGAACTTATCCTAAAGAGATTAATGTTACGATAAATAAC
24762587 AAA
1 AAA
24762590 TCAAATAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (41 bp):
AAAGAACTTATCCTAAAGAGATTAATGTTACGATAAATAAC
Found at i:24768194 original size:105 final size:105
Alignment explanation
Indices: 24768012--24768223 Score: 406
Period size: 105 Copynumber: 2.0 Consensus size: 105
24768002 ACGCCACGTT
24768012 GTTAAACTACTATTAGTCTGCAAATAACAACTGCCATATTGGCTGTGGACACATAGCAAGTCCTT
1 GTTAAACTACTATTAGTCTGCAAATAACAACTGCCATATTGGCTGTGGACACATAGCAAGTCCTT
*
24768077 GCGGTTGGAATCTACCTTTGACTGTGGGTTCATAGTAAAA
66 GCGGTTGGAATCTACCTTTGACTGTGGGTTCATAGCAAAA
*
24768117 GTTAAACTACTATTAGTTTGCAAATAACAACTGCCATATTGGCTGTGGACACATAGCAAGTCCTT
1 GTTAAACTACTATTAGTCTGCAAATAACAACTGCCATATTGGCTGTGGACACATAGCAAGTCCTT
24768182 GCGGTTGGAATCTACCTTTGACTGTGGGTTCATAGCAAAA
66 GCGGTTGGAATCTACCTTTGACTGTGGGTTCATAGCAAAA
24768222 GT
1 GT
24768224 CTTGCAGATA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (105 bp):
GTTAAACTACTATTAGTCTGCAAATAACAACTGCCATATTGGCTGTGGACACATAGCAAGTCCTT
GCGGTTGGAATCTACCTTTGACTGTGGGTTCATAGCAAAA
Found at i:24770635 original size:11 final size:10
Alignment explanation
Indices: 24770612--24770659 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
24770602 CGTTCTATAC
*
24770612 TCTTTCTTCT
1 TCTTTCTTTT
24770622 TCTTTCCTTTT
1 TCTTT-CTTTT
24770633 TCTTTCTCTTT
1 TCTTTCT-TTT
*
24770644 TTTTTCTTTCT
1 TCTTTCTTT-T
24770655 TCTTT
1 TCTTT
24770660 TTACTCCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:24770639 original size:15 final size:14
Alignment explanation
Indices: 24770612--24770661 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
24770602 CGTTCTATAC
24770612 TCTTTCTTC-TTCTT
1 TCTTT-TTCTTTCTT
24770626 TCCTTTTTCTTTCTCT
1 T-CTTTTTCTTTCT-T
*
24770642 TTTTTTTCTTTC-T
1 TCTTTTTCTTTCTT
24770655 TCTTTTT
1 TCTTTTT
24770662 ACTCCTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
15 18 0.58
16 2 0.06
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTTCTTTCTT
Found at i:24774135 original size:43 final size:43
Alignment explanation
Indices: 24774069--24774230 Score: 254
Period size: 43 Copynumber: 3.8 Consensus size: 43
24774059 CCGGCATTAC
* * ** *
24774069 GCCTACTAGGCACGAAGGCCCGAATACACATAATTGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
24774112 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
24774155 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
24774198 GCCTGCT-GGCCACGAAGGCCCGAATACACATCA
1 GCCTGCTAGG-CACGAAGGCCCGAATACACATCA
24774231 AGCCTGCTAG
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
42 2 0.02
43 109 0.98
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:24774298 original size:38 final size:38
Alignment explanation
Indices: 24774250--24774357 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
24774240 GGCACGAAGG
* ** * *
24774250 CCCGAATATAATACCAGCATTATGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
24774288 CCCGGATATAATACCAGTACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
24774326 CCCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
24774358 TCTTTAAGCC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:24778538 original size:27 final size:26
Alignment explanation
Indices: 24778503--24778614 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
24778493 AGCATGGCTT
* *
24778503 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
24778529 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
24778557 CCAGAATAGATATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
24778584 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
24778611 CCAG
1 CCAG
24778615 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:24778568 original size:54 final size:54
Alignment explanation
Indices: 24778503--24778614 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
24778493 AGCATGGCTT
* *
24778503 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
24778557 CCAGAATAGATATATGTGGCAAAGCCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
24778611 CCAG
1 CCAG
24778615 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:24779881 original size:26 final size:26
Alignment explanation
Indices: 24779824--24779881 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
24779814 GGATTCAGCT
*
24779824 ATGGAGAAAAGAAGAAGAGAAAGTAG
1 ATGGAGAAAAGAAGAAGAGAAAGAAG
24779850 ATGGAGAGAAA-AAGAAGAGAAGAGAAG
1 ATGGAGA-AAAGAAGAAGAGAA-AGAAG
24779877 A-GGAG
1 ATGGAG
24779882 GAAGGATGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (26 bp):
ATGGAGAAAAGAAGAAGAGAAAGAAG
Found at i:24785357 original size:16 final size:17
Alignment explanation
Indices: 24785332--24785370 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24785322 CAATCTTTAT
*
24785332 AAAATTTTTG-TTTCCA
1 AAAATCTTTGTTTTCCA
*
24785348 AAAATCTTTGTTTTCCG
1 AAAATCTTTGTTTTCCA
24785365 AAAATC
1 AAAATC
24785371 ATTGCGGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (17 bp):
AAAATCTTTGTTTTCCA
Found at i:24785988 original size:27 final size:26
Alignment explanation
Indices: 24785953--24786063 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
24785943 AGCATGACTG
* *
24785953 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
24785979 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
24786007 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
24786034 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
24786061 CCA
1 CCA
24786064 AGACGCTTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:24786017 original size:54 final size:54
Alignment explanation
Indices: 24785953--24786063 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
24785943 AGCATGACTG
*
24785953 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
24786007 CCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
24786061 CCA
1 CCA
24786064 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:24797461 original size:54 final size:54
Alignment explanation
Indices: 24797403--24797641 Score: 379
Period size: 54 Copynumber: 4.4 Consensus size: 54
24797393 ATTACCAAAG
* *
24797403 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCATTGATTTACAGAATTACCATTT
* *
24797457 TACCCTCAATTTATAGAATTACTGTTTTACCATTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCATTGATTTACAGAATTACCATTT
* *
24797511 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCATTGATTTACAGAATTACCATTT
* * *
24797565 TACCCTCAATTTATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCATTGATTTACAGAATTACCATTT
* *
24797619 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
24797642 AAAATACCCT
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 169 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCATTGATTTACAGAATTACCATTT
Found at i:24797642 original size:27 final size:27
Alignment explanation
Indices: 24797403--24797641 Score: 316
Period size: 27 Copynumber: 8.9 Consensus size: 27
24797393 ATTACCAAAG
*
24797403 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
24797430 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
24797457 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
24797484 TACCATTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
24797511 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
24797538 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
24797565 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
24797592 TACCATTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
24797619 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
24797642 AAAATACCCT
Statistics
Matches: 181, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 181 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:24797649 original size:27 final size:27
Alignment explanation
Indices: 24797599--24797843 Score: 108
Period size: 27 Copynumber: 9.0 Consensus size: 27
24797589 TTTTACCATT
***
24797599 GATTTACAAAATTACTATTTTACCCTC
1 GATTTACAAAATTACTAAAATACCCTC
24797626 GATTTACAAAATTACTAAAATACCCTC
1 GATTTACAAAATTACTAAAATACCCTC
* ** *
24797653 GGTTTGTAAAATTACCAAAATACCC-C
1 GATTTACAAAATTACTAAAATACCCTC
* ** *
24797679 TAGTTTGTAAAATTACCAAAATACCACT-
1 GA-TTTACAAAATTACTAAAATACC-CTC
* *** *
24797707 GGTTTGTGAAATTA-TCGAAATACCCTC
1 GATTTACAAAATTACT-AAAATACCCTC
* ** *
24797734 AATTTGTAAAATTACCAAAATACCC-C
1 GATTTACAAAATTACTAAAATACCCTC
* *
24797760 TGATTTACAAAGTTAC-AGAAATACCCTT
1 -GATTTACAAAATTACTA-AAATACCCTC
* * * *
24797788 GACTTT-CTAAAAATTA-TGGAAATAGCATT
1 GA-TTTAC--AAAATTACT-AAAATACCCTC
*
24797817 GGTTTAACAAAATTACTAAAATACCCT
1 GATTT-ACAAAATTACTAAAATACCCT
24797844 TGGTTTGTAG
Statistics
Matches: 169, Mismatches: 32, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
26 5 0.03
27 126 0.75
28 21 0.12
29 16 0.09
30 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
GATTTACAAAATTACTAAAATACCCTC
Found at i:24797651 original size:108 final size:108
Alignment explanation
Indices: 24797403--24797641 Score: 451
Period size: 108 Copynumber: 2.2 Consensus size: 108
24797393 ATTACCAAAG
24797403 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAATT
*
24797468 TATAGAATTACTGTTTTACCATTGATTTACAGAATTACTATTT
66 TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
24797511 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAATT
24797576 TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
66 TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
* *
24797619 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
24797642 AAAATACCCT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 128 1.00
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (108 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAATT
TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
Found at i:24797666 original size:108 final size:108
Alignment explanation
Indices: 24797403--24797668 Score: 352
Period size: 108 Copynumber: 2.5 Consensus size: 108
24797393 ATTACCAAAG
* * **** * *
24797403 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATT
*
24797468 TATAGAATTACTGTTTTACCATTGATTTACAGAATTACTATTT
66 TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
* * **** * *
24797511 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATT
24797576 TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
66 TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
* **
24797619 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTGTAAAATTACC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACC
24797669 AAAATACCCC
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 146 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (108 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATT
TATAGAATTACTGTTTTACCATTGATTTACAAAATTACTATTT
Found at i:24797677 original size:54 final size:53
Alignment explanation
Indices: 24797619--24797758 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 53
24797609 ATTACTATTT
* ** *
24797619 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCT-GGTTTGTAAAATTACCAAAA
* * * *
24797673 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAA
24797727 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
24797759 CTGATTTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.03
54 69 0.93
55 3 0.04
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAA
Found at i:24797781 original size:54 final size:54
Alignment explanation
Indices: 24797619--24797786 Score: 148
Period size: 54 Copynumber: 3.1 Consensus size: 54
24797609 ATTACTATTT
* ** * * * *
24797619 TACCCTCGATTTACAAAATTACTAAAATACC-CTCGGTTTGTA-AAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACT-GATTTG-ACAAATTATCGAAA
* * **
24797673 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTGATTTGACAAATTATCGAAA
*
24797727 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGACAAA-TTATC-GAAA
24797781 TACCCT
1 TACCCT
24797787 TGACTTTCTA
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
53 5 0.05
54 87 0.92
55 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTGACAAATTATCGAAA
Found at i:24797932 original size:27 final size:27
Alignment explanation
Indices: 24797902--24797990 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
24797892 TACCCCTATT
*
24797902 AGGTAAAAAGATCGTAAAGCCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
*
24797929 AGGTAAAGAGACCGTAAAGCCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
* ** *
24797956 GGGTAAAGTGACCGTAATA-CCCCTATA
1 AGGTAAAAAGACCGTAA-AGCCCCTGTA
*
24797983 TGGTAAAA
1 AGGTAAAA
24797991 TAACGAATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
AGGTAAAAAGACCGTAAAGCCCCTGTA
Found at i:24798818 original size:26 final size:26
Alignment explanation
Indices: 24798789--24798924 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
24798779 GAGGAAGTGC
24798789 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
24798815 AAAATGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
** *
24798841 AAAATAGCTTATGCCCAAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
24798867 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
24798892 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
24798915 AAAAGAGGCT
1 AAAAG-GGCT
24798925 AGGCCTCCAG
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 29 0.31
26 54 0.57
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:24799168 original size:31 final size:31
Alignment explanation
Indices: 24799130--24799200 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
24799120 CGTTTACAGT
24799130 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
24799161 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
24799192 AAAGGCTTC
1 AAAGGCTTC
24799201 AGCCGAGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:24802232 original size:19 final size:18
Alignment explanation
Indices: 24802203--24802239 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
24802193 TTACACGGCT
24802203 TGGAGACACAGGCGTGTC
1 TGGAGACACAGGCGTGTC
24802221 TGGAGCACACAGGCGTGTC
1 TGGAG-ACACAGGCGTGTC
24802240 CCTGTGTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (18 bp):
TGGAGACACAGGCGTGTC
Found at i:24807635 original size:35 final size:35
Alignment explanation
Indices: 24807596--24807760 Score: 181
Period size: 35 Copynumber: 4.7 Consensus size: 35
24807586 TCCATGGTAA
*
24807596 AGTTGTGAAACATAGGTATGGTATCATCCATATTG
1 AGTTGTGAAACATAGGTATGGTATTATCCATATTG
* * *
24807631 AGTTGTGAAACATAGGTATGCTATTAACCATACTG
1 AGTTGTGAAACATAGGTATGGTATTATCCATATTG
* *
24807666 AGTTGTGCAACGTAGGTATGGTATTATCCATATTG
1 AGTTGTGAAACATAGGTATGGTATTATCCATATTG
* * ***
24807701 AGTTAAT-AAACGTAGGTATAACATT-TCCCATATTG
1 AGTT-GTGAAACATAGGTATGGTATTAT-CCATATTG
* *
24807736 AGTTGTAAAATATAGGTATGGTATT
1 AGTTGTGAAACATAGGTATGGTATT
24807761 TCAATGAGAA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.02
35 104 0.97
36 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (35 bp):
AGTTGTGAAACATAGGTATGGTATTATCCATATTG
Found at i:24811425 original size:92 final size:92
Alignment explanation
Indices: 24811268--24811451 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
24811258 GGTTTAACAA
*
24811268 ATGCCCCTGCGGTATTTATGGATTTAATGAATTGGATTTTTCATCCTTATTTGGATAGATTTGTG
1 ATGCCCCTGCGGTATTTATGGATTTAATGAATTGGATTTTTCAGCCTTATTTGGATAGATTTGTG
24811333 GTGGTATTTATTGATGACATATTGGTC
66 GTGGTATTTATTGATGACATATTGGTC
*
24811360 ATGCCCCTGCTGTATTTATGGATTTAATGAATTGGATTTTTCAGCCTTATTTGGATAGATTTGTG
1 ATGCCCCTGCGGTATTTATGGATTTAATGAATTGGATTTTTCAGCCTTATTTGGATAGATTTGTG
24811425 GTGGTATTTATTGATGACATATTGGTC
66 GTGGTATTTATTGATGACATATTGGTC
24811452 TATTCAAAGA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.45
Consensus pattern (92 bp):
ATGCCCCTGCGGTATTTATGGATTTAATGAATTGGATTTTTCAGCCTTATTTGGATAGATTTGTG
GTGGTATTTATTGATGACATATTGGTC
Found at i:24815188 original size:35 final size:36
Alignment explanation
Indices: 24815144--24815234 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
24815134 GCAAAGTTGT
24815144 GAAATGTAGGTATGGTATTAT-CCATACTGAGCT-AA
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGCTGAA
* ** * *
24815179 GAAACGTAGGTATGACATTTCCCATACTGAGTTGTA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGCTGAA
24815215 -AAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
24815235 AATGAGGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 1 0.02
35 44 0.96
36 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (36 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGCTGAA
Found at i:24817775 original size:96 final size:93
Alignment explanation
Indices: 24817611--24817945 Score: 300
Period size: 96 Copynumber: 3.5 Consensus size: 93
24817601 GAGGGTGAAT
* * ** ** *
24817611 TGTCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCC
1 TGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACAAATCAATGCCGATGCCATGTCCC
*
24817676 AGACATGGTCTGACACTAGCTCTCGTCTTAA
66 AGACATGGTCTTACACT-GCTCTC-TC-TAA
* *
24817707 TGTCGATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACAAATCAATGCCGATGCCATGTCC
1 TGTCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACAAATCAATGCCGATGCCATGTCC
* *
24817771 CAGACATGGTCTTACACTGGCTCTCACAACA
65 CAGACATGGTCTTACACT-GCTCTCTCTA-A
* * * * * *
24817802 TTGCCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCTCATAA-CATTGCCGATGCCATGTT
1 -TGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACA-AATCAATGCCGATGCCATGTC
* *
24817866 CCAAACATGGTCTTACACTGGCTCTC-ATAA
64 CCAGACATGGTCTTACACT-GCTCTCTCTAA
* * * * *
24817896 TGTGGTTGACTCCATG-TCCTAGACATGGTCTTACACTAGCACACATATCA
1 TGTCGATG---CCATGTTCC-AAACATGGTCTTACACTAGCTCACAAATCA
24817946 CCCAAATGTC
Statistics
Matches: 196, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
93 5 0.03
94 2 0.01
95 10 0.05
96 174 0.89
97 5 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
TGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACAAATCAATGCCGATGCCATGTCCC
AGACATGGTCTTACACTGCTCTCTCTAA
Found at i:24817932 original size:48 final size:48
Alignment explanation
Indices: 24817609--24817895 Score: 292
Period size: 48 Copynumber: 6.0 Consensus size: 48
24817599 AAGAGGGTGA
* * * ***
24817609 ATTGTCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCACATGTTG
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-AAC
* * * * * * ***
24817658 A-GGCCGATGCCATGTCCCAGACATGGTCTGACACTAGCTCTCGTCTT
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC
* * * * * *
24817705 AATGTCGATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACA-AATC
1 ATTGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTCATAA-C
* * * *
24817753 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAAC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC
*
24817801 ATTGCCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC
24817849 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAA
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAA
24817896 TGTGGTTGAC
Statistics
Matches: 201, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
47 4 0.02
48 192 0.96
49 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC
Found at i:24823368 original size:16 final size:16
Alignment explanation
Indices: 24823347--24823379 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24823337 GTGGGTATGA
*
24823347 TAACTCAACGTTTACT
1 TAACTCAACATTTACT
24823363 TAACTCAACATTTACT
1 TAACTCAACATTTACT
24823379 T
1 T
24823380 GTCACTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.39
Consensus pattern (16 bp):
TAACTCAACATTTACT
Found at i:24824858 original size:7 final size:7
Alignment explanation
Indices: 24824837--24824869 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
24824827 TTCCCTTTTC
24824837 TTTCTTT
1 TTTCTTT
24824844 TTAT-TTT
1 TT-TCTTT
24824851 TTTCTTT
1 TTTCTTT
24824858 TTTCTTT
1 TTTCTTT
24824865 TTTCT
1 TTTCT
24824870 CATTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTCTTT
Found at i:24824859 original size:15 final size:14
Alignment explanation
Indices: 24824832--24824869 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
24824822 CTTACTTCCC
24824832 TTTTCTTTCTTTTTA
1 TTTT-TTTCTTTTTA
24824847 TTTTTTTCTTTTT-
1 TTTTTTTCTTTTTA
24824860 TCTTTTTTCT
1 T-TTTTTTCT
24824870 CATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 17 0.77
15 4 0.18
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTCTTTTTA
Found at i:24833270 original size:16 final size:15
Alignment explanation
Indices: 24833249--24833278 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24833239 TACCGAGGGT
24833249 TCATCACATAATGAGC
1 TCATCACAT-ATGAGC
24833265 TCATCACATATGAG
1 TCATCACATATGAG
24833279 TTTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (15 bp):
TCATCACATATGAGC
Found at i:24833534 original size:42 final size:42
Alignment explanation
Indices: 24833414--24833523 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
24833404 TATCATACCA
*
24833414 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
24833456 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
24833498 ATGTCATATCCCAGATATGGTCTTAC
1 ATGCCATATCCCAGATATGGTCTTAC
24833524 GCATGGTCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:24840524 original size:705 final size:705
Alignment explanation
Indices: 24839195--24840536 Score: 1773
Period size: 705 Copynumber: 1.9 Consensus size: 705
24839185 TATCCAACAT
* * *
24839195 CAGAATATGGCACGAGGCATTACCGGACTTATACACAAGCAAACATACAAAACCGAGACGTAAAT
1 CAGAATAGGGCACGAGGCATTACCGGACTTAAACACAAGCAAACATACAAAACCGAGACATAAAT
** * * * *
24839260 TTTTATCCAAATTTAAACTTTTCATATACATTCCTATTGTCCTTAAAACGAACTTACGAGGTCCA
66 TTCCATCCAAATTTAAACTTTTCATATACATTCCTATCGTCCCTAAAACGAACCTACGAGGCCCA
*
24839325 GAACATGCATTGGAAGCGGTTCGGGACTAAACCGAGAACTTTAGAAAATTTCAAAACACTTAGAA
131 AAACATGCATTGGAAGCGGTTCGGGACTAAACCGAGAACTTTAGAAAATTTCAAAACACTTAGAA
* * * * * * *
24839390 AATTTTTCATGTTTTTAAAAACACGCCCGTGTGGGTAGGCCGTGTGGTTACACACGCCCTTGTCC
196 AATTTTTAATGATTTTAAAAACACACAC------G--GCCCGTGTGGTCACACACGCCCGTGTCC
* * *
24839455 CTAACCCGTGTAACTCTCTATTTGTCACCCAAGAACAAATTGAATACACACAGCCAAGTCACACG
253 CTAACCCATGTAACTCTCTATTTGTCACCCAAGAACAAATTCAATACACACAGCCAAGGCACACG
* *
24839520 CCTGTGTGCTAGGCCGTGTGGTCGATTTCATTTTCACAATTTTTCATAAAATAGGTGCAGACTTC
318 CCCGTGTGCTAGGCCGTGTGGTCGATTTAATTTTCACAATTTTTCATAAAATAGGTGCAGACTTC
* * * *
24839585 ATACGCCCAGGGCACACGCCCGTGCCTAAGGTCATGTCATCCACACGGCTGAGACACACGTCCGT
383 ATACGCCCAGGGCACACGCCCATACCTAAGGCCATGTCATCCACACGGCTGAGACACACGCCCGT
* * * * * *
24839650 GTCTCTGCCCGTGTGCTCAATTCTGAGCATTCTATTTTGCAACAATTAAGGTTCAGGGGACACAC
448 GTCTCTGCCAGTGTGCTCAATACTGAGCAGTCTATTTTGAAAAAATTAAGGTGCAGGGGACACAC
* * * * * *
24839715 AGCCGGAATACACGCCCATAGGGCAAGCCGTGTGTTACACACGGCCTAGACACATGCCCGTGTGT
513 AGCCAGAATACACGCCCATAGGGCAAGCCATGTGTCACACAAGGCCTAGACACATCCCCATGTGT
* * * * *
24839780 CTACTCGTGTGGACAAAAACAAGGCTATTCACCAAGCCATTTTGTCACCCTTTTATCACACACCT
578 CTACCCATATGGACAAAAACAAGGCTATTCACCAAGCCATATTATCACCCTTTTATCACACACCT
24839845 ACACGACAAAACATAACACCAATCCAAGGAACTACTGTAACACCCCTTACCTGTATTAGACGC
643 ACACGACAAAACATAACACCAATCCAAGGAACTACTGTAACACCCCTTACCTGTATTAGACGC
* * *
24839908 CAGAATAGGGTACGAGGCATTACTGGACTTAAACATAAGCAAACATACAAAACCGAGACATAAAT
1 CAGAATAGGGCACGAGGCATTACCGGACTTAAACACAAGCAAACATACAAAACCGAGACATAAAT
* * *
24839973 TTCCATCCAAATTTAAAACTTTTCATTTACATTCAC-ATCGTCCCTAAAATGAGCCTACGAGGCC
66 TTCCATCCAAATTT-AAACTTTTCATATACATTC-CTATCGTCCCTAAAACGAACCTACGAGGCC
* * * *
24840037 CAAAACAT-CTATTGGAAGCGGTTTGGGACTAAACCGAGAACTTTGGAAAATTTTACAACACTTA
129 CAAAACATGC-ATTGGAAGCGGTTCGGGACTAAACCGAGAACTTTAGAAAATTTCAAAACACTTA
* * * *
24840101 GAATAATTTTTAAT-ATTTTAAGAGC-CACAC-GCCCGTGTGGTCATACACGCCCGTGTCCCTCA
193 GAA-AATTTTTAATGATTTTAAAAACACACACGGCCCGTGTGGTCACACACGCCCGTGTCCCTAA
* * * * *
24840163 CCCATGTAACTCTCTGTTTTTCATCCATA-AACAAATTCAAGT-TACACGGCCAAGGCACACGCC
257 CCCATGTAACTCTCTATTTGTCACCCA-AGAACAAATTCAA-TACACACAGCCAAGGCACACGCC
** * *
24840226 CGTGTGCTTAGGTTGTGTGGTCGATTTAATTTTCATATTTTTTCATAAAATAGGTGCAGACTTCA
320 CGTGTGC-TAGGCCGTGTGGTCGATTTAATTTTCACAATTTTTCATAAAATAGGTGCAGACTTCA
* * * *
24840291 TACGCCCAGGGCACACGCCCATACTTGAGGCCGTGTCATCCACATGGCTGAGACACACGCCCGTG
384 TACGCCCAGGGCACACGCCCATACCTAAGGCCATGTCATCCACACGGCTGAGACACACGCCCGTG
* *
24840356 TCTCTGCCAGTGTGCTCAATACTGAGCAGTCTATTTTGAAAAAATTAAGGTGCGGGGGACACACG
449 TCTCTGCCAGTGTGCTCAATACTGAGCAGTCTATTTTGAAAAAATTAAGGTGCAGGGGACACACA
* * *
24840421 GCCAGAATACAC-CTCTATGGGGCAAGCCATGTGTCACACAAGGCCTAGACACATCCCCATTTGT
514 GCCAGAATACACGC-CCATAGGGCAAGCCATGTGTCACACAAGGCCTAGACACATCCCCATGTGT
* ** *
24840485 CTACCCATATGGACAAAAATAAGGCTATTTTCTAAGCCATATTATCACCCTT
578 CTACCCATATGGACAAAAACAAGGCTATTCACCAAGCCATATTATCACCCTT
24840537 CCATGCACAC
Statistics
Matches: 542, Mismatches: 79, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
704 85 0.16
705 264 0.49
713 75 0.14
714 108 0.20
715 10 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (705 bp):
CAGAATAGGGCACGAGGCATTACCGGACTTAAACACAAGCAAACATACAAAACCGAGACATAAAT
TTCCATCCAAATTTAAACTTTTCATATACATTCCTATCGTCCCTAAAACGAACCTACGAGGCCCA
AAACATGCATTGGAAGCGGTTCGGGACTAAACCGAGAACTTTAGAAAATTTCAAAACACTTAGAA
AATTTTTAATGATTTTAAAAACACACACGGCCCGTGTGGTCACACACGCCCGTGTCCCTAACCCA
TGTAACTCTCTATTTGTCACCCAAGAACAAATTCAATACACACAGCCAAGGCACACGCCCGTGTG
CTAGGCCGTGTGGTCGATTTAATTTTCACAATTTTTCATAAAATAGGTGCAGACTTCATACGCCC
AGGGCACACGCCCATACCTAAGGCCATGTCATCCACACGGCTGAGACACACGCCCGTGTCTCTGC
CAGTGTGCTCAATACTGAGCAGTCTATTTTGAAAAAATTAAGGTGCAGGGGACACACAGCCAGAA
TACACGCCCATAGGGCAAGCCATGTGTCACACAAGGCCTAGACACATCCCCATGTGTCTACCCAT
ATGGACAAAAACAAGGCTATTCACCAAGCCATATTATCACCCTTTTATCACACACCTACACGACA
AAACATAACACCAATCCAAGGAACTACTGTAACACCCCTTACCTGTATTAGACGC
Found at i:24841358 original size:42 final size:42
Alignment explanation
Indices: 24841245--24841410 Score: 201
Period size: 42 Copynumber: 3.9 Consensus size: 42
24841235 AGTACCACTC
* **
24841245 CAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * * * *
24841287 CGATGCCAATAGCCCAGCTACGGACTTACACGAAATCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAT
*
24841330 CAATGCCATACCCCAGATATGGTCTTACACGAAATCTCATAAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-AT
*
24841373 -AATGCCATATCCCAGATGTGGTCTTACAC-ATAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACACGA-AATCTCA
24841411 ATAACCCTAA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 69 0.65
43 36 0.34
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:24845580 original size:66 final size:66
Alignment explanation
Indices: 24845432--24845562 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
24845422 TGAAAACAGG
* * *
24845432 GCCGAGAACACGCCCGTATGTCATGGTCGTGGGAAAACTAGAGGGGTTAGTGACTTAGGTCACAC
1 GCCGAGAACACGCCCGTATGCCATGGTCGTGGGAAAACTAGAGGGGTTACTAACTTAGGTCACAC
24845497 C
66 C
* *
24845498 GCCGAGAACACGCCCGTATGCCATGG-C-TGCGAGAAAACTGGAGGGGTTACTAACTTGGGTCAC
1 GCCGAGAACACGCCCGTATGCCATGGTCGTG-G-GAAAACTAGAGGGGTTACTAACTTAGGTCAC
24845561 AC
64 AC
24845563 GGCCAGCTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
64 2 0.03
65 2 0.03
66 54 0.93
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.18
Consensus pattern (66 bp):
GCCGAGAACACGCCCGTATGCCATGGTCGTGGGAAAACTAGAGGGGTTACTAACTTAGGTCACAC
C
Found at i:24846689 original size:47 final size:47
Alignment explanation
Indices: 24846620--24846746 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
24846610 ACAATCGATA
* * * *
24846620 AGTACCTATACCATAGCCCGTAGCCAAATCAATGTAACTTATCCCAG
1 AGTACCTATACCATTGCCCGTAGCCAAATCAAGGCAACTCATCCCAG
* *
24846667 AGTACCTATACCATTGCCCGTAGCCAAATCAAGGCAACTCCTCTCAG
1 AGTACCTATACCATTGCCCGTAGCCAAATCAAGGCAACTCATCCCAG
* * * *
24846714 AATACATATACCA-TGGCTGTAGCCAAATCAAGG
1 AGTACCTATACCATTGCCCGTAGCCAAATCAAGG
24846747 TATTATTCAC
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 18 0.26
47 52 0.74
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (47 bp):
AGTACCTATACCATTGCCCGTAGCCAAATCAAGGCAACTCATCCCAG
Found at i:24851200 original size:40 final size:40
Alignment explanation
Indices: 24851043--24851210 Score: 259
Period size: 40 Copynumber: 4.2 Consensus size: 40
24851033 AAACTTTAAG
* * *
24851043 CCCGGATATA-A-TACCAGCACTAAGCCTGCGAGATTTAA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
24851081 CCCGGATATACATTACCAGCACGAAGCCTACGGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
24851121 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
* *
24851161 CCCGGATATACATTACCAGCACGAAGCCTGTGGGGTTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
24851201 CCTGGATATA
1 CCCGGATATA
24851211 TATAATATAT
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 10 0.08
39 1 0.01
40 109 0.91
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (40 bp):
CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
Found at i:24856889 original size:93 final size:93
Alignment explanation
Indices: 24856730--24856902 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 93
24856720 CAGATATTTG
* * * **
24856730 GGCATCCAAACTTGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACATCCAAACTTGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACATCCAAACTCATTGAG
24856795 TTGAGTCCGAGTTCGTGAAATGTAATTA
66 TTGAGTCCGAGTTCGTGAAATGTAATTA
* *
24856823 GGCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCG-A-ATGCCTAAGCTCATTG
1 GGCATCCAAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACAT-CC-AAACTCATTG
*
24856886 AGTTGAGTCTGAGTTCG
64 AGTTGAGTCCGAGTTCG
24856903 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 2 0.03
92 3 0.04
93 65 0.93
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACATCCAAACTCATTGAG
TTGAGTCCGAGTTCGTGAAATGTAATTA
Found at i:24859887 original size:30 final size:31
Alignment explanation
Indices: 24859851--24859919 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
24859841 TATCGTATCT
* *
24859851 TGGGTTTCTTTATTC-TAGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTAGATTTCTTTATTC
*
24859881 TGGGTTTC-TCAATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTAGATTTCTTTATTC
*
24859911 -GGTTTTCTT
1 TGGGTTTCTT
24859920 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (31 bp):
TGGGTTTCTTCAATCTTAGATTTCTTTATTC
Found at i:24859888 original size:15 final size:15
Alignment explanation
Indices: 24859855--24859919 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
24859845 GTATCTTGGG
*
24859855 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
24859870 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
24859885 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
*
24859900 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
24859914 TTTCTT
1 TTTCTT
24859920 GTTATCTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
14 12 0.30
15 24 0.60
16 4 0.10
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:24862709 original size:46 final size:46
Alignment explanation
Indices: 24862652--24862776 Score: 180
Period size: 46 Copynumber: 2.7 Consensus size: 46
24862642 TGGTCATCCG
*
24862652 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-A
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTA
*
24862698 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTA
* * * *
24862744 AGCTCGTTGAGTTGATTCTGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24862777 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 2 0.03
46 70 0.97
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTA
Found at i:24864780 original size:30 final size:30
Alignment explanation
Indices: 24864745--24864812 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
24864735 ACCTTACAGG
*
24864745 ACACACGGCCGTATACCAAGGCCATGTGTC
1 ACACACGGCCGTATACCAAAGCCATGTGTC
*
24864775 ACACACGGCTGTATACCAAAGCCATGTGTC
1 ACACACGGCCGTATACCAAAGCCATGTGTC
*
24864805 ACATACGG
1 ACACACGG
24864813 TCAAGCCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (30 bp):
ACACACGGCCGTATACCAAAGCCATGTGTC
Found at i:24867629 original size:30 final size:30
Alignment explanation
Indices: 24867593--24867735 Score: 110
Period size: 30 Copynumber: 4.8 Consensus size: 30
24867583 ATTCGCCAAT
24867593 AGTGAGTTCGCCATGGGGGAGTTTGACATA
1 AGTGAGTTCGCCATGGGGGAGTTTGACATA
* * *
24867623 AGTGAGTTCGCCATGGGAGAGCTCG-CTATA
1 AGTGAGTTCGCCATGGGGGAGTTTGAC-ATA
* * * * * * *
24867653 GGAGAGTTTGCCATAGGTGCA-TTTGCCAAA
1 AGTGAGTTCGCCAT-GGGGGAGTTTGACATA
* *
24867683 AGTGAGTTCGCCATAGTGGAGTTTGACATA
1 AGTGAGTTCGCCATGGGGGAGTTTGACATA
* * * *
24867713 ACTGAGATCACCATGGGAGAGTT
1 AGTGAGTTCGCCATGGGGGAGTT
24867736 CGCTATAGGA
Statistics
Matches: 84, Mismatches: 25, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
29 5 0.06
30 75 0.89
31 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (30 bp):
AGTGAGTTCGCCATGGGGGAGTTTGACATA
Found at i:24867633 original size:45 final size:45
Alignment explanation
Indices: 24867584--24867718 Score: 130
Period size: 45 Copynumber: 3.0 Consensus size: 45
24867574 CATAGGTGCA
*
24867584 TTCGCCAATAGTGAGTTCGCCATGGGGGAGTTTGACATAAGTGAG
1 TTCGCCAATAGTGAGTTCGCCATAGGGGAGTTTGACATAAGTGAG
* * * * * * *
24867629 TTCGCC-ATGGGAGAGCTCGCTATAGGAGAGTTTGCCATAGGTGCA-
1 TTCGCCAAT-AGTGAGTTCGCCATAGGGGAGTTTGACATAAGTG-AG
* * * *
24867674 TTTGCCAAAAGTGAGTTCGCCATAGTGGAGTTTGACATAACTGAG
1 TTCGCCAATAGTGAGTTCGCCATAGGGGAGTTTGACATAAGTGAG
24867719 ATCACCATGG
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
44 3 0.04
45 62 0.93
46 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (45 bp):
TTCGCCAATAGTGAGTTCGCCATAGGGGAGTTTGACATAAGTGAG
Found at i:24867727 original size:90 final size:90
Alignment explanation
Indices: 24867568--24867759 Score: 303
Period size: 90 Copynumber: 2.1 Consensus size: 90
24867558 TATTATGTTT
* * * * * *
24867568 GTTTGTCATAGGTGCATTCGCCAATAGTGAGTTCGCCATGGGGGAGTTTGACATAAGTGAGTTCG
1 GTTTGCCATAGGTGCATTCGCCAAAAGTGAGTTCGCCATAGGGGAGTTTGACATAACTGAGATCA
24867633 CCATGGGAGAGCTCGCTATAGGAGA
66 CCATGGGAGAGCTCGCTATAGGAGA
* *
24867658 GTTTGCCATAGGTGCATTTGCCAAAAGTGAGTTCGCCATAGTGGAGTTTGACATAACTGAGATCA
1 GTTTGCCATAGGTGCATTCGCCAAAAGTGAGTTCGCCATAGGGGAGTTTGACATAACTGAGATCA
*
24867723 CCATGGGAGAGTTCGCTATAGGAGA
66 CCATGGGAGAGCTCGCTATAGGAGA
24867748 GTTTGCCATAGG
1 GTTTGCCATAGG
24867760 GCTATGCCTA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (90 bp):
GTTTGCCATAGGTGCATTCGCCAAAAGTGAGTTCGCCATAGGGGAGTTTGACATAACTGAGATCA
CCATGGGAGAGCTCGCTATAGGAGA
Found at i:24867758 original size:15 final size:15
Alignment explanation
Indices: 24867596--24867759 Score: 71
Period size: 15 Copynumber: 10.9 Consensus size: 15
24867586 CGCCAATAGT
* *
24867596 GAGTTCGCCATGGGG
1 GAGTTCGCCATAGGA
* * * *
24867611 GAGTTTGACATAAGT
1 GAGTTCGCCATAGGA
*
24867626 GAGTTCGCCATGGGA
1 GAGTTCGCCATAGGA
* *
24867641 GAGCTCGCTATAGGA
1 GAGTTCGCCATAGGA
* *
24867656 GAGTTTGCCATAGGT
1 GAGTTCGCCATAGGA
* * * *
24867671 GCA-TTTGCCAAAAGT
1 G-AGTTCGCCATAGGA
24867686 GAGTTCGCCATAGTG-
1 GAGTTCGCCATAG-GA
* * ***
24867701 GAGTTTGACATAACT
1 GAGTTCGCCATAGGA
* * *
24867716 GAGATCACCATGGGA
1 GAGTTCGCCATAGGA
*
24867731 GAGTTCGCTATAGGA
1 GAGTTCGCCATAGGA
*
24867746 GAGTTTGCCATAGG
1 GAGTTCGCCATAGG
24867760 GCTATGCCTA
Statistics
Matches: 105, Mismatches: 40, Indels: 8
0.69 0.26 0.05
Matches are distributed among these distances:
14 1 0.01
15 102 0.97
16 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (15 bp):
GAGTTCGCCATAGGA
Found at i:24881224 original size:20 final size:21
Alignment explanation
Indices: 24881187--24881225 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
24881177 TTTGGAATTT
24881187 TTTTTCATATTCTTAAAATCA
1 TTTTTCATATTCTTAAAATCA
24881208 TTTTT-ATATT-TTGAAAAT
1 TTTTTCATATTCTT-AAAAT
24881226 TATAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 10 0.59
21 5 0.29
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTTTCATATTCTTAAAATCA
Found at i:24881988 original size:17 final size:17
Alignment explanation
Indices: 24881971--24882019 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
24881961 TATTTTTTTA
24881971 AAAAAATTAAAT-TATT
1 AAAAAATTAAATATATT
24881987 -AAAAATCTAAATATATT
1 AAAAAAT-TAAATATATT
*
24882004 ATAAAAATTATATATA
1 A-AAAAATTAAATATA
24882020 AATTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 5 0.18
17 4 0.14
18 7 0.25
19 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAAATTAAATATATT
Found at i:24882024 original size:20 final size:19
Alignment explanation
Indices: 24881978--24882030 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
24881968 TTAAAAAAAT
24881978 TAAATTATTAAAAATCTAAA
1 TAAATTA-TAAAAATCTAAA
*
24881998 TATATTATAAAAAT-TATATA
1 TAAATTATAAAAATCTA-A-A
*
24882018 TAAATTACAAAAA
1 TAAATTATAAAAA
24882031 AAAACCATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 2 0.07
19 8 0.29
20 18 0.64
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATTATAAAAATCTAAA
Found at i:24883443 original size:16 final size:16
Alignment explanation
Indices: 24883419--24883451 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24883409 AAACAGACCC
24883419 AAATACCAAAAAAAAA
1 AAATACCAAAAAAAAA
*
24883435 AAATCCCAAAAAAAAA
1 AAATACCAAAAAAAAA
24883451 A
1 A
24883452 GTCTTGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (16 bp):
AAATACCAAAAAAAAA
Found at i:24883787 original size:24 final size:24
Alignment explanation
Indices: 24883758--24883806 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24883748 CTTTAACAAA
24883758 TTTACTTTATAATATATAATAAAT
1 TTTACTTTATAATATATAATAAAT
24883782 TTTACTTTATAATATATAATAAAT
1 TTTACTTTATAATATATAATAAAT
24883806 T
1 T
24883807 AATTAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTACTTTATAATATATAATAAAT
Found at i:24888476 original size:32 final size:32
Alignment explanation
Indices: 24888439--24888515 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
24888429 ATGCATGTGT
* * **
24888439 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
24888471 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
24888503 GTAACTTTTCATA
1 GTAACTTTTCATA
24888516 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:24892982 original size:32 final size:32
Alignment explanation
Indices: 24892945--24893021 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
24892935 ATGCATGTGT
* * **
24892945 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
24892977 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
24893009 GTAACTTTTCATA
1 GTAACTTTTCATA
24893022 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:24893913 original size:20 final size:20
Alignment explanation
Indices: 24893876--24893913 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24893866 AAAAGTTATA
*
24893876 AAAATTAAAAAATCAAAATC
1 AAAATTAAAAAATAAAAATC
24893896 AAAATTAAAAAATAAAAA
1 AAAATTAAAAAATAAAAA
24893914 AGGTTGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAATTAAAAAATAAAAATC
Found at i:24908154 original size:16 final size:16
Alignment explanation
Indices: 24908133--24908182 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
24908123 ATATCTAGTC
24908133 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
24908149 ATATAATTAATTATT-
1 ATATAATAAATTATTA
24908164 -T-TAATAAATTATTTA
1 ATATAATAAATTA-TTA
24908179 ATAT
1 ATAT
24908183 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 9 0.32
14 3 0.11
16 15 0.54
17 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:24908169 original size:29 final size:30
Alignment explanation
Indices: 24908136--24908201 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
24908126 TCTAGTCATA
24908136 TAATAAATTA-TTAATATAATTAA-TTATTT
1 TAATAAATTATTTAATAT-ATTAATTTATTT
*
24908165 TAATAAATTATTTAATATTTTAATTTTATTT
1 TAATAAATTATTTAATATATTAA-TTTATTT
24908196 TAATAA
1 TAATAA
24908202 GAAATGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 14 0.42
30 7 0.21
31 12 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TAATAAATTATTTAATATATTAATTTATTT
Found at i:24908684 original size:14 final size:14
Alignment explanation
Indices: 24908662--24908700 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
24908652 CAAAAAAAGT
24908662 AAGTCATTTTCCAG
1 AAGTCATTTTCCAG
*
24908676 ATA-TCATTTTCTAG
1 A-AGTCATTTTCCAG
24908690 AAGTCATTTTC
1 AAGTCATTTTC
24908701 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (14 bp):
AAGTCATTTTCCAG
Found at i:24910857 original size:20 final size:20
Alignment explanation
Indices: 24910816--24910919 Score: 70
Period size: 20 Copynumber: 5.1 Consensus size: 20
24910806 GATAAATTTG
*
24910816 AATCTATCGATACTT-AACAA
1 AATCTATTGATACTTGAA-AA
24910836 AATCTATTGATACTTGAAAA
1 AATCTATTGATACTTGAAAA
***
24910856 AAAGAATTGATA-TCTGAAAA
1 AATCTATTGATACT-TGAAAA
***
24910876 AAAGAATTGATATCTT-AACAA
1 AATCTATTGATA-CTTGAA-AA
*
24910897 AATCTATGGATACTTGACAAA
1 AATCTATTGATACTTGA-AAA
24910918 AA
1 AA
24910920 GAATTGATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.01
20 48 0.70
21 18 0.26
22 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.29
Consensus pattern (20 bp):
AATCTATTGATACTTGAAAA
Found at i:24910898 original size:22 final size:21
Alignment explanation
Indices: 24910841--24910929 Score: 96
Period size: 20 Copynumber: 4.4 Consensus size: 21
24910831 AACAAAATCT
24910841 ATTGATA-CTTGAAAAAAAGA
1 ATTGATATCTTGAAAAAAAGA
24910861 ATTGATATC-TGAAAAAAAGA
1 ATTGATATCTTGAAAAAAAGA
***
24910881 ATTGATATCTT-AACAAAATCT
1 ATTGATATCTTGAA-AAAAAGA
* *
24910902 ATGGATA-CTTGACAAAAAGA
1 ATTGATATCTTGAAAAAAAGA
24910922 ATTGATAT
1 ATTGATAT
24910930 AGGATCGATA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
20 42 0.76
21 13 0.24
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.29
Consensus pattern (21 bp):
ATTGATATCTTGAAAAAAAGA
Found at i:24913899 original size:20 final size:20
Alignment explanation
Indices: 24913874--24913924 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
24913864 CCAATAGGTA
*
24913874 TCGATAATTTTT-TGTAAGTG
1 TCGATAATTTTTAT-AAAGTG
*
24913894 TCGATACTTTTTATAAAGTG
1 TCGATAATTTTTATAAAGTG
24913914 TCGAT-ATTTTT
1 TCGATAATTTTT
24913925 GTATCGGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (20 bp):
TCGATAATTTTTATAAAGTG
Found at i:24915928 original size:3 final size:3
Alignment explanation
Indices: 24915922--24915965 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
24915912 TAAGTAAAAT
24915922 ATA ATA ATA ATA ACTA A-A AT- ATA ATA ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24915964 AT
1 AT
24915966 TAAAAGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.22
3 25 0.69
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:24915941 original size:20 final size:20
Alignment explanation
Indices: 24915916--24915953 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24915906 ATTATTTAAG
24915916 TAAAATATAATAATAATAAC
1 TAAAATATAATAATAATAAC
24915936 TAAAATATAATAATAATA
1 TAAAATATAATAATAATA
24915954 TAATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATATAATAATAATAAC
Found at i:24915979 original size:10 final size:9
Alignment explanation
Indices: 24915916--24915998 Score: 60
Period size: 10 Copynumber: 8.4 Consensus size: 9
24915906 ATTATTTAAG
24915916 TAAAATATAA
1 TAAAATA-AA
*
24915926 TAATAATAAC
1 TAA-AATAAA
24915936 TAAAATATAA
1 TAAAATA-AA
24915946 TAATAATATAA
1 TAA-AATA-AA
* *
24915957 TATAATAAT
1 TAAAATAAA
24915966 TAAAAGTAAA
1 TAAAA-TAAA
24915976 TAAAATAAA
1 TAAAATAAA
24915985 -AGAAATAGAA
1 TA-AAATA-AA
24915995 TAAA
1 TAAA
24915999 GAAAGAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.02
9 18 0.30
10 27 0.45
11 14 0.23
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
TAAAATAAA
Found at i:24919695 original size:27 final size:28
Alignment explanation
Indices: 24919643--24919697 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
24919633 TTTACAGTCC
24919643 GGGCCTGAGCCCCTTACAGAATCAATTT
1 GGGCCTGAGCCCCTTACAGAATCAATTT
24919671 GGGCCTGAG-CCCTTACAG-ATACAATTT
1 GGGCCTGAGCCCCTTACAGAAT-CAATTT
24919698 CAAAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 2 0.08
27 15 0.58
28 9 0.35
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (28 bp):
GGGCCTGAGCCCCTTACAGAATCAATTT
Found at i:24920254 original size:22 final size:22
Alignment explanation
Indices: 24920229--24920278 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
24920219 CCGTGTAGAT
*
24920229 CACACGGCCTGGCCCAGAATCC
1 CACACGGACTGGCCCAGAATCC
* * * *
24920251 CACATGGATTGGCCTAGAATCT
1 CACACGGACTGGCCCAGAATCC
24920273 CACACG
1 CACACG
24920279 CCCGTGTGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.22, T:0.16
Consensus pattern (22 bp):
CACACGGACTGGCCCAGAATCC
Found at i:24920311 original size:31 final size:31
Alignment explanation
Indices: 24920273--24920340 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
24920263 CCTAGAATCT
* *
24920273 CACACGCCCGTGTGGTTTACCCATGTGGGCC
1 CACACGCCCATGTGGTTTACCCATGTGGGAC
* *
24920304 CACACGCCCATGTGGTTTACTCGTGTGGGAC
1 CACACGCCCATGTGGTTTACCCATGTGGGAC
24920335 CACACG
1 CACACG
24920341 ACCAAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.16, C:0.34, G:0.28, T:0.22
Consensus pattern (31 bp):
CACACGCCCATGTGGTTTACCCATGTGGGAC
Found at i:24929044 original size:24 final size:24
Alignment explanation
Indices: 24929000--24929051 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
24928990 TTTCTAGAAG
**
24929000 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAACATAATAT
*
24929024 ATTTAGTATTTATTAACATAATTT
1 ATTTAGTATTTATTAACATAATAT
24929048 ATTT
1 ATTT
24929052 GAACTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAACATAATAT
Found at i:24939700 original size:59 final size:62
Alignment explanation
Indices: 24939619--24939735 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
24939609 AACACTTTCA
* * * *
24939619 TATTAAATTGATATAATATTTATC-T-T-GATAAATATGATATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATCTTGTAGATAAATATGAAATTAAATTTAATATTAAATCT
* *
24939678 TATTAAAATAATAAAATGTTTATCTTGTAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAAAATATTTATCTTGTAGATAAATATGAAATTAAATTTAATATTAA
24939736 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
60 1 0.02
61 1 0.02
62 27 0.55
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (62 bp):
TATTAAAATAATAAAATATTTATCTTGTAGATAAATATGAAATTAAATTTAATATTAAATCT
Found at i:24939761 original size:20 final size:18
Alignment explanation
Indices: 24939711--24939762 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
24939701 CTTGTAGATA
24939711 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
24939728 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
24939748 AATATTAAATTAATA
1 AATATTAAATTAATA
24939763 AAATGCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:24946440 original size:15 final size:15
Alignment explanation
Indices: 24946420--24946449 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24946410 CTATGCATGC
*
24946420 AAAATATAAAAGACA
1 AAAATACAAAAGACA
24946435 AAAATACAAAAGACA
1 AAAATACAAAAGACA
24946450 TGATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:24951413 original size:46 final size:46
Alignment explanation
Indices: 24951239--24951419 Score: 235
Period size: 46 Copynumber: 3.9 Consensus size: 46
24951229 TTCGACATGA
* * * * *
24951239 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
**
24951285 TGCCATGGTATCATTT-AACCATGGTCTTATTCATTTCCCAT-T-ACGT
1 TGCCATGGTATC-TTTCAACCATGGTCTTACACATTT--CATGTCACGT
24951331 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
24951377 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCA
24951420 AGTCTTACAC
Statistics
Matches: 121, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
44 3 0.02
45 7 0.06
46 105 0.87
47 5 0.04
48 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
Found at i:24951426 original size:67 final size:67
Alignment explanation
Indices: 24951354--24951482 Score: 231
Period size: 67 Copynumber: 1.9 Consensus size: 67
24951344 TTCAACCATG
*
24951354 GTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTC
1 GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTC
24951419 AA
66 AA
* *
24951421 GTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
24951483 ATCAGGTTGC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (67 bp):
GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTC
AA
Done.