Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 23 of 253
Found at i:6267521 original size:1 final size:1
Alignment explanation
Indices: 6267515--6267552 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
6267505 TTAGTACTTA
*
6267515 TTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6267553 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:6267827 original size:118 final size:118
Alignment explanation
Indices: 6267676--6267906 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
6267666 TATTTCCGGT
*
6267676 TAGCGGAGTTTTACCCAACACGTCACACAACTTTTTGACACGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACTTTTTAACACGAAGTAGAATGACAACCCAAGCAC
* *
6267741 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
6267794 TAGCGGAGTTTTACTTGTCACGTCACACAACTTTTTAACACGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACTTTTTAACACGAAGTAGAATGACAACCCAAGCAC
**
6267859 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
6267907 ATGGAAAACT
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACTTTTTAACACGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:6268688 original size:42 final size:42
Alignment explanation
Indices: 6268629--6268709 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
6268619 GGGATTCTAA
* *
6268629 GGCTGGAATAGGACTGTTTGGCTGCAGAGATATAGCATTCTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
* *
6268671 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATGGCATT
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATT
6268710 TTGGTGCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.27
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
Found at i:6268807 original size:10 final size:10
Alignment explanation
Indices: 6268794--6268878 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
6268784 AATATTTAAC
6268794 TAAAATAAAA
1 TAAAATAAAA
6268804 TAAAATAAAA
1 TAAAATAAAA
6268814 TAATAAATAATAA
1 T-A-AAATAA-AA
*
6268827 -ATAATAAAA
1 TAAAATAAAA
*
6268836 -AAAAGAAAGA
1 TAAAATAAA-A
6268846 -AAAATAATAAA
1 TAAAAT-A-AAA
6268857 TAAAAATAAAA
1 T-AAAATAAAA
6268868 TTAAAAATAAA
1 -T-AAAATAAA
6268879 GATTGGGTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.13
10 21 0.34
11 7 0.11
12 19 0.31
13 7 0.11
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:6268823 original size:7 final size:7
Alignment explanation
Indices: 6268811--6268877 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
6268801 AAATAAAATA
6268811 AAATAAT
1 AAATAAT
6268818 AAATAAT
1 AAATAAT
6268825 AAATAAT
1 AAATAAT
*
6268832 AAA-AAA
1 AAATAAT
* *
6268838 AAGAAAGAA
1 AA-ATA-AT
6268847 AAATAAT
1 AAATAAT
6268854 AAATAA-
1 AAATAAT
6268860 AAATAA-
1 AAATAAT
*
6268866 AATTAA-
1 AAATAAT
6268872 AAATAA
1 AAATAA
6268878 AGATTGGGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
6 20 0.38
7 25 0.48
8 3 0.06
9 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (7 bp):
AAATAAT
Found at i:6268832 original size:22 final size:20
Alignment explanation
Indices: 6268795--6268867 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 20
6268785 ATATTTAACT
*
6268795 AAAATAAAATAAAATAAAATA
1 AAAATAAAA-ATAATAAAATA
*
6268816 ATAAATAATAAATAATAAAAAAA
1 A-AAATAA-AAATAAT-AAAATA
*
6268839 AGAAAGAAAAATAAT-AAATA
1 A-AAATAAAAATAATAAAATA
6268859 AAAATAAAA
1 AAAATAAAA
6268868 TTAAAAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 7 0.16
20 5 0.12
21 1 0.02
22 17 0.40
23 13 0.30
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAATAAAAATAATAAAATA
Found at i:6272458 original size:15 final size:15
Alignment explanation
Indices: 6272431--6272476 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6272421 GAAAGCAAAT
6272431 AAAATTATGGAAA-A
1 AAAATTATGGAAAGA
*
6272445 AAAATTTATTGAAAGA
1 AAAA-TTATGGAAAGA
*
6272461 AAAAATATGGAAAGA
1 AAAATTATGGAAAGA
6272476 A
1 A
6272477 CAAAAGACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (15 bp):
AAAATTATGGAAAGA
Found at i:6284201 original size:14 final size:15
Alignment explanation
Indices: 6284174--6284202 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6284164 TCTCAAAGGG
6284174 TTGACATGACATATT
1 TTGACATGACATATT
6284189 TTGACAT-ACATATT
1 TTGACATGACATATT
6284203 GAGTAGTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (15 bp):
TTGACATGACATATT
Found at i:6300359 original size:46 final size:46
Alignment explanation
Indices: 6300251--6300421 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
6300241 TTTGATATGA
* * * *
6300251 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
*
6300301 TGCCATGATATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
** * * * *
6300347 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
*
6300393 GGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
6300422 CACATTTCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
45 5 0.05
46 78 0.73
47 1 0.01
49 1 0.01
50 22 0.21
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:6300422 original size:46 final size:46
Alignment explanation
Indices: 6300302--6300435 Score: 196
Period size: 46 Copynumber: 2.9 Consensus size: 46
6300292 CTGTCATGTT
* ** * * *
6300302 GCCATGATATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTG
* *
6300348 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTG
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTG
6300394 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
6300436 GAGAGCACAC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTG
Found at i:6304287 original size:17 final size:18
Alignment explanation
Indices: 6304258--6304342 Score: 111
Period size: 18 Copynumber: 4.8 Consensus size: 18
6304248 CCGTTTACGT
*
6304258 ACTATTCATGTATACGGC
1 ACTATTCACGTATACGGC
*
6304276 ACTATT-ACGTATACGGT
1 ACTATTCACGTATACGGC
*
6304293 ACTA-TCACATATACGGC
1 ACTATTCACGTATACGGC
*
6304310 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
6304328 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
6304343 AGTAGTTGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
16 1 0.02
17 26 0.45
18 31 0.53
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:6311920 original size:26 final size:26
Alignment explanation
Indices: 6311859--6311916 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
6311849 TAGGAGGTGT
6311859 AGATTTTGCACCTAAAATTGACTTGA
1 AGATTTTGCACCTAAAATTGACTTGA
6311885 AGATTTTGCACCTAAAATTGACTTGA
1 AGATTTTGCACCTAAAATTGACTTGA
6311911 A-ATTTT
1 AGATTTT
6311917 TGCATGGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (26 bp):
AGATTTTGCACCTAAAATTGACTTGA
Found at i:6319500 original size:15 final size:16
Alignment explanation
Indices: 6319482--6319526 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
6319472 TAATAATTAT
6319482 TAAAAT-TTAAATATA
1 TAAAATATTAAATATA
6319497 TAAAATCATTAAATATA
1 TAAAAT-ATTAAATATA
*
6319514 TGAAAAAATTAAA
1 T-AAAATATTAAA
6319527 GATAAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATATTAAATATA
Found at i:6320484 original size:18 final size:17
Alignment explanation
Indices: 6320445--6320486 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6320435 TATATATAAA
6320445 TAATTAAAATTAAAATT
1 TAATTAAAATTAAAATT
*
6320462 GAATTAATAACTT-AAATT
1 TAATTAA-AA-TTAAAATT
6320480 TAATTAA
1 TAATTAA
6320487 CTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATTAAAATTAAAATT
Found at i:6320988 original size:18 final size:18
Alignment explanation
Indices: 6320965--6321009 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6320955 AGGGACTAAA
*
6320965 TTGAATAAATTATAATGT
1 TTGAATAAATTATAATGC
*
6320983 TTGAATAAATTGTAATGC
1 TTGAATAAATTATAATGC
6321001 TTGAATAAA
1 TTGAATAAA
6321010 ATGACAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (18 bp):
TTGAATAAATTATAATGC
Found at i:6323936 original size:28 final size:25
Alignment explanation
Indices: 6323905--6323959 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
6323895 CCTTTTCGCC
6323905 CCCTTTTCTCTTCTCCCTTCATCTTCTT
1 CCCTTTTCT-TTCTCCCTT--TCTTCTT
*
6323933 CCCTTTTCTTTTTCCCTTTCTTCTT
1 CCCTTTTCTTTCTCCCTTTCTTCTT
6323958 CC
1 CC
6323960 TCTATCCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 9 0.35
27 8 0.31
28 9 0.35
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (25 bp):
CCCTTTTCTTTCTCCCTTTCTTCTT
Found at i:6323954 original size:12 final size:13
Alignment explanation
Indices: 6323913--6323959 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
6323903 CCCCCTTTTC
*
6323913 TCTTC-TCCCTTCA
1 TCTTCTTCCCTT-T
6323926 TCTTCTTCCCTTT
1 TCTTCTTCCCTTT
*
6323939 TCTTTTTCCC-TT
1 TCTTCTTCCCTTT
6323951 TCTTCTTCC
1 TCTTCTTCC
6323960 TCTATCCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 10 0.33
13 14 0.47
14 6 0.20
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (13 bp):
TCTTCTTCCCTTT
Found at i:6324151 original size:13 final size:13
Alignment explanation
Indices: 6324135--6324159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6324125 TTTATATATT
6324135 TATTTTATTTTTC
1 TATTTTATTTTTC
6324148 TATTTTATTTTT
1 TATTTTATTTTT
6324160 AGTTTAAATT
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:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTATTTTTC
Found at i:6325672 original size:7 final size:6
Alignment explanation
Indices: 6325655--6325712 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
6325645 TCCATTTGTT
* * **
6325655 TTTTTA TTTTTA TCTTTTG TTTTTC GCTTTA TTTTTA TTTTTA -TTTTA
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
6325703 TGTTTA TTTT
1 TTTTTA TTTT
6325713 AAAGACTTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
5 5 0.12
6 31 0.76
7 5 0.12
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:6329048 original size:19 final size:20
Alignment explanation
Indices: 6329009--6329048 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6328999 ACAAAGCCCA
6329009 GACCGTGTGGCTCAAAACGT
1 GACCGTGTGGCTCAAAACGT
*
6329029 GACCGTGTGGC-CAAACCGT
1 GACCGTGTGGCTCAAAACGT
6329048 G
1 G
6329049 TCACAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.17
Consensus pattern (20 bp):
GACCGTGTGGCTCAAAACGT
Found at i:6334764 original size:46 final size:44
Alignment explanation
Indices: 6334711--6334879 Score: 121
Period size: 46 Copynumber: 3.7 Consensus size: 44
6334701 TTTGTGTGCT
*
6334711 AGTGTAAGACATGTCTCAGACATGCATCGGCCACATTATGAGAGTC
1 AGTGTAAGACATGTCTGAGACATGCATCGGCC-CATTATGAGAG-C
* * *
6334757 AGTGTAAGACCATGTTTGGGACATGGCATCGG--CATTGAAACGAGAGC
1 AGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCCATT---ATGAGAGC
* * * *
6334804 AAGTGTAAGACATGTTTGGGATATGCATCGGCCTCGA-GATGTA-AGCC
1 -AGTGTAAGACATGTCTGAGACATGCATCGGCC-C-ATTATG-AGAG-C
*
6334851 AGTGTAAGACATGTCTAAGACATGCATCG
1 AGTGTAAGACATGTCTGAGACATGCATCG
6334880 ACTACAAGAT
Statistics
Matches: 100, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
45 4 0.04
46 45 0.45
47 27 0.27
48 22 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGCCCATTATGAGAGC
Found at i:6334956 original size:47 final size:47
Alignment explanation
Indices: 6334756--6334972 Score: 182
Period size: 46 Copynumber: 4.7 Consensus size: 47
6334746 TTATGAGAGT
* * * * *
6334756 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAA-ACGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAAGATGTGAG
* * * *
6334803 CAAGTGTAAGA-CATGTTTGGGATAT-GCATCGGCCTCG-AGATGTAAG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAAGATGTGAG
** *
6334849 CCAGTGTAAGA-CATGTCTAAGACAT-GCATCGACTAC-AAGATGTG-T
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAAGATGTGAG
* *
6334894 CAATGTAAGACCATGTCTGGGACATGGCATCGACTCGACG-TGTGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAAGATGTGAG
*
6334940 CTAGTGTAAGACCATGTCTAGGACATGGCATCG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCG
6334973 GTATCATACC
Statistics
Matches: 139, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.06
45 21 0.15
46 54 0.39
47 46 0.33
48 9 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAAGATGTGAG
Found at i:6344681 original size:21 final size:20
Alignment explanation
Indices: 6344657--6344719 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
6344647 ATTCAACCGT
6344657 GTACAACAATACACGGGCGTG
1 GTACAACAA-ACACGGGCGTG
* *
6344678 GTACCATAACACACGGGCGTG
1 GTACAACAA-ACACGGGCGTG
* *
6344699 GAAGAAGCAAACACGGGCGTG
1 GTACAA-CAAACACGGGCGTG
6344720 CCCAAGACAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.32, T:0.11
Consensus pattern (20 bp):
GTACAACAAACACGGGCGTG
Found at i:6346592 original size:6 final size:6
Alignment explanation
Indices: 6346581--6346627 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
6346571 TCCTCTTATC
* * * *
6346581 TTTTTA TTTTTA TTTCTA TTTCTA TTTTTA TTTATA TTTATA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
6346628 GGTTATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:6346608 original size:18 final size:18
Alignment explanation
Indices: 6346585--6346627 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6346575 CTTATCTTTT
* *
6346585 TATTTTTATTTCTATTTC
1 TATTTTTATTTATATTTA
6346603 TATTTTTATTTATATTTA
1 TATTTTTATTTATATTTA
6346621 TATTTTT
1 TATTTTT
6346628 GGTTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTATTTATATTTA
Found at i:6346633 original size:18 final size:19
Alignment explanation
Indices: 6346585--6346638 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
6346575 CTTATCTTTT
*
6346585 TATTTTTA-TT-TCTATTTC
1 TATTTTTAGTTAT-TATTTA
*
6346603 TATTTTTATTTA-TATTTA
1 TATTTTTAGTTATTATTTA
*
6346621 TATTTTTGGTTATTATTT
1 TATTTTTAGTTATTATTT
6346639 TCTTTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (19 bp):
TATTTTTAGTTATTATTTA
Found at i:6349503 original size:13 final size:13
Alignment explanation
Indices: 6349487--6349519 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6349477 TTTAATTAAA
*
6349487 TTAGTTAATTAGT
1 TTAGATAATTAGT
6349500 TTAGATAATTAGT
1 TTAGATAATTAGT
6349513 TTA-ATAA
1 TTAGATAA
6349520 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:6359705 original size:14 final size:15
Alignment explanation
Indices: 6359678--6359706 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6359668 TCTCAAAGGG
6359678 TTGACATGACATATT
1 TTGACATGACATATT
6359693 TTGACAT-ACATATT
1 TTGACATGACATATT
6359707 GAGTAGTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (15 bp):
TTGACATGACATATT
Found at i:6367690 original size:31 final size:30
Alignment explanation
Indices: 6367614--6367692 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
6367604 GAGTGCTATA
* *
6367614 TAAATCATTGTTGTCGGACAATTTGGGGTGG
1 TAAATCATCGTTGTCGG-CAATATGGGGTGG
* *
6367645 TAAACCATCATTGTCGAGCAATATGGGGTGG
1 TAAATCATCGTTGTCG-GCAATATGGGGTGG
**
6367676 TAGGTCATCGTTGTCGG
1 TAAATCATCGTTGTCGG
6367693 GCAACCTGGG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
30 1 0.03
31 37 0.95
32 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.32
Consensus pattern (30 bp):
TAAATCATCGTTGTCGGCAATATGGGGTGG
Found at i:6376875 original size:14 final size:15
Alignment explanation
Indices: 6376856--6376895 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6376846 CAAAAAGCAT
6376856 TATTTTCTTTTA-TA
1 TATTTTCTTTTATTA
6376870 TATTTTCTTTTTATTA
1 TATTTTC-TTTTATTA
*
6376886 TTTTTTCTTT
1 TATTTTCTTT
6376896 CTTTAGAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 8 0.35
16 8 0.35
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTCTTTTATTA
Found at i:6376883 original size:15 final size:16
Alignment explanation
Indices: 6376856--6376895 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6376846 CAAAAAGCAT
6376856 TATTTTC-TTTTA-TA
1 TATTTTCTTTTTATTA
6376870 TATTTTCTTTTTATTA
1 TATTTTCTTTTTATTA
*
6376886 TTTTTTCTTT
1 TATTTTCTTT
6376896 CTTTAGAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.30
15 5 0.22
16 11 0.48
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTCTTTTTATTA
Found at i:6388417 original size:45 final size:45
Alignment explanation
Indices: 6388350--6388442 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
6388340 TTAAATAAAC
*
6388350 TTAAAATGTTGACTGACAGAGATACTAACTTGGGAAAAAAGTAGT
1 TTAAAATGTTGACTAACAGAGATACTAACTTGGGAAAAAAGTAGT
**
6388395 TTAAAATGTTGACTAATGGAGATACTAACTTGGGAAAAAAGTAGT
1 TTAAAATGTTGACTAACAGAGATACTAACTTGGGAAAAAAGTAGT
6388440 TTA
1 TTA
6388443 GATACCACTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (45 bp):
TTAAAATGTTGACTAACAGAGATACTAACTTGGGAAAAAAGTAGT
Found at i:6394980 original size:24 final size:24
Alignment explanation
Indices: 6394952--6395003 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
6394942 TTTCTAGAAG
*
6394952 ATTTAGTATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATTT
*
6394976 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATTT
6395000 ATTT
1 ATTT
6395004 GACTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATTT
Found at i:6397915 original size:18 final size:18
Alignment explanation
Indices: 6397878--6397975 Score: 155
Period size: 18 Copynumber: 5.5 Consensus size: 18
6397868 AATGATATGT
6397878 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
6397895 AATCTTAAATATGATTAC
1 AATCTTAGATATGATTAC
6397913 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
6397930 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
6397948 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
6397967 AATCTTAGA
1 AATCTTAGA
6397976 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
17 30 0.41
18 33 0.45
19 11 0.15
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:6397918 original size:35 final size:35
Alignment explanation
Indices: 6397878--6397973 Score: 156
Period size: 35 Copynumber: 2.7 Consensus size: 35
6397868 AATGATATGT
6397878 AATCTTAGATATGATACAATCTTAAATATGATTAC
1 AATCTTAGATATGATACAATCTTAAATATGATTAC
* *
6397913 AATCTTAGATATGATACAATCTTAGATATGATTGC
1 AATCTTAGATATGATACAATCTTAAATATGATTAC
6397948 AATCTTAGATATGATATACAATCTTA
1 AATCTTAGATATG--ATACAATCTTA
6397974 GAAGATATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
35 46 0.81
37 11 0.19
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (35 bp):
AATCTTAGATATGATACAATCTTAAATATGATTAC
Found at i:6398471 original size:17 final size:17
Alignment explanation
Indices: 6398451--6398516 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
6398441 TTCTAAACCA
*
6398451 ATATATTTTATATTTTT
1 ATATATATTATATTTTT
*
6398468 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
6398485 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
6398500 ATTATATATTATATTTT
1 A-TATATATTATATTTT
6398517 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 20 0.51
18 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:6398541 original size:26 final size:26
Alignment explanation
Indices: 6398493--6398542 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6398483 TTATAAATAT
* * * *
6398493 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
6398519 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
6398543 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:6404282 original size:15 final size:14
Alignment explanation
Indices: 6404259--6404296 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
6404249 CTTCTATTTC
6404259 AAAAAAAAGAGAAA
1 AAAAAAAAGAGAAA
6404273 AAAAATAAAGAGAAA
1 AAAAA-AAAGAGAAA
6404288 AAAGAAAAA
1 AAA-AAAAA
6404297 AATGGAGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.23
15 15 0.68
16 2 0.09
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAGAAA
Found at i:6405330 original size:44 final size:44
Alignment explanation
Indices: 6405189--6405368 Score: 175
Period size: 44 Copynumber: 4.1 Consensus size: 44
6405179 ATGTAGATCA
* * * *
6405189 AGATTTGGCATCCTTATGTTTATAGGGAACAGATCAAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * ** * **
6405233 AGATCTGACATTCCTGTGCTTACAATGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
** *
6405278 A-ACATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
6405321 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
6405365 AGAT
1 AGAT
6405369 CTAACCTTCA
Statistics
Matches: 105, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 12 0.11
44 80 0.76
45 12 0.11
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:6405568 original size:119 final size:119
Alignment explanation
Indices: 6405360--6405953 Score: 945
Period size: 119 Copynumber: 5.0 Consensus size: 119
6405350 CAGATCGAAG
* * *
6405360 ATAGCAGATCTAACCTTCAAATGTTTATATTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
6405425 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
6405479 ATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTTGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
6405544 TTTCAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * *
6405598 ATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAGATACAAGATGATTTGGTATTCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
6405663 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
6405717 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * *
6405782 TTACAAGAAACAAATCGAGGACATAGCATATATGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * *
6405836 ATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
6405901 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
6405954 CAGACTCAAG
Statistics
Matches: 438, Mismatches: 37, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 438 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:6405982 original size:83 final size:83
Alignment explanation
Indices: 6405877--6406145 Score: 475
Period size: 83 Copynumber: 3.2 Consensus size: 83
6405867 AAAGCAGATC
6405877 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
6405942 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
6405960 CAAGATGGTTTAGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGGCTCTGA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
6406025 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
6406043 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
6406108 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
6406126 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
6406146 ACAAATCGAA
Statistics
Matches: 176, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 176 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:6406559 original size:17 final size:17
Alignment explanation
Indices: 6406539--6406636 Score: 124
Period size: 17 Copynumber: 5.5 Consensus size: 17
6406529 AATGATATGT
6406539 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
* *
6406556 AATCTTAAATATGATTGC
1 AATCTTAGATATGA-TAC
6406574 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
6406591 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
*
6406609 AATATTAGATATGATATAC
1 AATCTTAGATATG--ATAC
6406628 AATCTTAGA
1 AATCTTAGA
6406637 AGATATGATT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
17 29 0.42
18 29 0.42
19 10 0.14
20 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:6406578 original size:18 final size:18
Alignment explanation
Indices: 6406539--6406636 Score: 137
Period size: 18 Copynumber: 5.5 Consensus size: 18
6406529 AATGATATGT
6406539 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
6406556 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
6406574 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
6406591 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
6406609 AATATTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
6406628 AATCTTAGA
1 AATCTTAGA
6406637 AGATATGATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
17 29 0.41
18 31 0.44
19 10 0.14
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:6406579 original size:35 final size:35
Alignment explanation
Indices: 6406530--6406634 Score: 156
Period size: 35 Copynumber: 2.9 Consensus size: 35
6406520 ATAATCTTCA
*
6406530 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
6406566 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
*
6406601 ATGATTGCAATATTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
6406635 GAAGATATGA
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
35 48 0.75
36 5 0.08
37 11 0.17
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:6407133 original size:17 final size:17
Alignment explanation
Indices: 6407113--6407178 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
6407103 TTCTAAACCA
*
6407113 ATATATTTTATATTTTT
1 ATATATATTATATTTTT
*
6407130 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
6407147 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
6407162 ATTATATATTATATTTT
1 A-TATATATTATATTTT
6407179 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 20 0.51
18 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:6407203 original size:26 final size:26
Alignment explanation
Indices: 6407155--6407204 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6407145 TTATAAATAT
* * * *
6407155 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
6407181 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
6407205 TTATATGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:6411571 original size:38 final size:38
Alignment explanation
Indices: 6411527--6411602 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
6411517 CAGACTAGGA
6411527 TAATTTTCAGACATCGTAACTCGGAAAACCCAGACAGC
1 TAATTTTCAGACATCGTAACTCGGAAAACCCAGACAGC
6411565 TAATTTTCAGACATCGTAACTCGGAAAACCCAGACAGC
1 TAATTTTCAGACATCGTAACTCGGAAAACCCAGACAGC
6411603 ATGTGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (38 bp):
TAATTTTCAGACATCGTAACTCGGAAAACCCAGACAGC
Found at i:6427463 original size:19 final size:18
Alignment explanation
Indices: 6427428--6427463 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6427418 GAAGCAAGCA
*
6427428 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
6427446 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
6427464 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:6434147 original size:18 final size:19
Alignment explanation
Indices: 6434109--6434149 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
6434099 ACTTATGAAA
6434109 TTTCAACCATTTAATTTTT
1 TTTCAACCATTTAATTTTT
6434128 TTTCAACCATTTAATTTTT
1 TTTCAACCATTTAATTTTT
6434147 TTT
1 TTT
6434150 ACATTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTCAACCATTTAATTTTT
Found at i:6450088 original size:22 final size:21
Alignment explanation
Indices: 6450057--6450124 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 21
6450047 TTAATACATG
6450057 TTTGTCTTTTTGATGATTTCTT
1 TTTGT-TTTTTGATGATTTCTT
6450079 TTTGTTTTTTGAATGATTTCTT
1 TTTGTTTTTTG-ATGATTTCTT
*
6450101 TTTGTTTTTTGAGTGAATTCTT
1 TTTGTTTTTTGA-TGATTTCTT
6450123 TT
1 TT
6450125 CGATGATTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 7 0.16
22 36 0.84
ACGTcount: A:0.12, C:0.06, G:0.15, T:0.68
Consensus pattern (21 bp):
TTTGTTTTTTGATGATTTCTT
Found at i:6457283 original size:15 final size:15
Alignment explanation
Indices: 6457263--6457295 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6457253 CTGAGTTACA
6457263 GTGTCGTCTCCCATG
1 GTGTCGTCTCCCATG
6457278 GTGTCGTCTCCCATG
1 GTGTCGTCTCCCATG
6457293 GTG
1 GTG
6457296 CCATCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.30, T:0.33
Consensus pattern (15 bp):
GTGTCGTCTCCCATG
Found at i:6458365 original size:13 final size:13
Alignment explanation
Indices: 6458347--6458371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6458337 ATGCACATTC
6458347 ATGTTTTAATTTA
1 ATGTTTTAATTTA
6458360 ATGTTTTAATTT
1 ATGTTTTAATTT
6458372 CCCACTGTCC
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
ATGTTTTAATTTA
Found at i:6476064 original size:18 final size:18
Alignment explanation
Indices: 6476041--6476078 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6476031 TTACTTGGAC
6476041 TCTAATTCT-GTTTTAAAT
1 TCTAATT-TGGTTTTAAAT
6476059 TCTAATTTGGGTTTTAAAT
1 TCTAATTT-GGTTTTAAAT
6476078 T
1 T
6476079 TTGTAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 7 0.39
19 10 0.56
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (18 bp):
TCTAATTTGGTTTTAAAT
Found at i:6477513 original size:27 final size:26
Alignment explanation
Indices: 6477482--6477534 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6477472 CAGAAAATTG
6477482 AGAGAGTTGAGAGTTT-AGAAAAAATAA
1 AGAGAGTTGA-A-TTTGAGAAAAAATAA
*
6477509 AGAGAGTTGAATTTGAGTAAAAATAA
1 AGAGAGTTGAATTTGAGAAAAAATAA
6477535 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 11 0.46
27 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.25
Consensus pattern (26 bp):
AGAGAGTTGAATTTGAGAAAAAATAA
Found at i:6481159 original size:4 final size:4
Alignment explanation
Indices: 6481150--6481174 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6481140 TGTCCAAATT
6481150 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
6481175 ACAAGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:6489696 original size:27 final size:27
Alignment explanation
Indices: 6489658--6489717 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
6489648 ACAAGTGATG
6489658 AATTCGCTGTCATATCGCTAAAAACTA
1 AATTCGCTGTCATATCGCTAAAAACTA
6489685 AATTCGCTGTCATATCGCTAAAAACTA
1 AATTCGCTGTCATATCGCTAAAAACTA
6489712 ACATTC
1 A-ATTC
6489718 CAAAATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTCGCTGTCATATCGCTAAAAACTA
Found at i:6491679 original size:5 final size:5
Alignment explanation
Indices: 6491669--6491695 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6491659 AATTTTTAAA
6491669 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
6491696 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:6497792 original size:31 final size:29
Alignment explanation
Indices: 6497728--6497784 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
6497718 TACTATTAAC
* * *
6497728 GACACACAGCCGTGTGGCAGGCTGTGTAT
1 GACACACAGCCATGTGACAAGCTGTGTAT
6497757 GACACACAGCCATGTGACAAGCTGTGTA
1 GACACACAGCCATGTGACAAGCTGTGTA
6497785 CTAGACACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (29 bp):
GACACACAGCCATGTGACAAGCTGTGTAT
Found at i:6497827 original size:18 final size:18
Alignment explanation
Indices: 6497794--6497828 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6497784 ACTAGACACG
**
6497794 GTCTGGGCTATTTGGGTT
1 GTCTGGGCTACATGGGTT
6497812 GTCTGGGCTACATGGGT
1 GTCTGGGCTACATGGGT
6497829 GTGTAGTCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.14, G:0.40, T:0.37
Consensus pattern (18 bp):
GTCTGGGCTACATGGGTT
Found at i:6501211 original size:19 final size:19
Alignment explanation
Indices: 6501189--6501225 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6501179 CACATGGTTG
*
6501189 TGTGCCCCGGCCATGTGGA
1 TGTGCCCAGGCCATGTGGA
6501208 TGTGCCCAGGCCATGTGG
1 TGTGCCCAGGCCATGTGG
6501226 GGGTCTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.30, G:0.38, T:0.22
Consensus pattern (19 bp):
TGTGCCCAGGCCATGTGGA
Found at i:6516577 original size:13 final size:13
Alignment explanation
Indices: 6516538--6516585 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
6516528 AGTTCTTCAT
6516538 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
6516551 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
6516564 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
6516577 TACTTTTGA
1 TGCTTTTGA
6516586 GAAATGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:6520381 original size:3 final size:3
Alignment explanation
Indices: 6520375--6520405 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6520365 GTTTTAATCA
*
6520375 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6520406 GCACATTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6524765 original size:21 final size:21
Alignment explanation
Indices: 6524733--6524773 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6524723 AGGCTCGAGG
6524733 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
6524754 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
6524774 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:6530815 original size:18 final size:18
Alignment explanation
Indices: 6530792--6530827 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6530782 TAGTAAGCTT
6530792 TTTAGTCATACTTATGCA
1 TTTAGTCATACTTATGCA
* *
6530810 TTTAGTCTTACTTTTGCA
1 TTTAGTCATACTTATGCA
6530828 AGTGACTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTAGTCATACTTATGCA
Found at i:6546597 original size:3 final size:3
Alignment explanation
Indices: 6546591--6546622 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6546581 ACGAGTGGTA
6546591 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6546623 GTCAATCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6546976 original size:9 final size:9
Alignment explanation
Indices: 6546962--6546988 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6546952 GGCTTCATTG
6546962 CAACTTGCA
1 CAACTTGCA
6546971 CAACTTGCA
1 CAACTTGCA
6546980 CAACTTGCA
1 CAACTTGCA
6546989 AATTGCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.11, T:0.22
Consensus pattern (9 bp):
CAACTTGCA
Found at i:6553026 original size:38 final size:38
Alignment explanation
Indices: 6552948--6553047 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 38
6552938 ATATATTTAT
* * *
6552948 ATTAAAATTTATA-ATTTAAAATTTAACTTGCAATTAA
1 ATTAAAAATTATATTTTTAAAATTTAACTTACAATTAA
6552985 ATTAAAAATTATATTTTTAAAATTT-ACTATACAAATT-A
1 ATTAAAAATTATATTTTTAAAATTTAACT-TAC-AATTAA
* *
6553023 ATTAATTAAATTTTATTTTAAAAAT
1 ATTAA--AAATTATATTTTTAAAAT
6553048 ATTATAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 15 0.28
38 18 0.34
39 4 0.08
40 16 0.30
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (38 bp):
ATTAAAAATTATATTTTTAAAATTTAACTTACAATTAA
Found at i:6553047 original size:27 final size:27
Alignment explanation
Indices: 6552986--6553047 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
6552976 TGCAATTAAA
*
6552986 TTAAAAATTATATTTTTAAAATTTACT
1 TTAAAAATTATATTATTAAAATTTACT
* * * *
6553013 ATACAAATTA-ATTAATTAAATTTTATT
1 TTAAAAATTATATT-ATTAAAATTTACT
6553040 TTAAAAAT
1 TTAAAAAT
6553048 ATTATAATGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAAAATTATATTATTAAAATTTACT
Found at i:6555251 original size:21 final size:21
Alignment explanation
Indices: 6555227--6555266 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6555217 TTTGTTTATA
6555227 ATTTTCTTGCTT-TTTTTTTCT
1 ATTTTCTTG-TTATTTTTTTCT
6555248 ATTTTCTTGTTATTTTTTT
1 ATTTTCTTGTTATTTTTTT
6555267 ACTAATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (21 bp):
ATTTTCTTGTTATTTTTTTCT
Found at i:6555597 original size:13 final size:13
Alignment explanation
Indices: 6555581--6555607 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6555571 TTTAAAAAAT
6555581 TAAAATAAATAAA
1 TAAAATAAATAAA
6555594 TAAAATAAATAAA
1 TAAAATAAATAAA
6555607 T
1 T
6555608 GAGAAAAGAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:6561958 original size:15 final size:14
Alignment explanation
Indices: 6561928--6561956 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6561918 ATCTATCCAA
6561928 ATTAATTTTTTTAT
1 ATTAATTTTTTTAT
6561942 ATT-ATTTTTTTAT
1 ATTAATTTTTTTAT
6561955 AT
1 AT
6561957 ATAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.80
14 3 0.20
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTAATTTTTTTAT
Found at i:6561976 original size:16 final size:16
Alignment explanation
Indices: 6561955--6562004 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
6561945 ATTTTTTTAT
6561955 ATATAAAAAATTAAAA
1 ATATAAAAAATTAAAA
* * *
6561971 ATATAATACATCAAAA
1 ATATAAAAAATTAAAA
6561987 ATACTAAAAACATTAAAA
1 ATA-TAAAAA-ATTAAAA
6562005 TAAATTATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 16 0.62
17 4 0.15
18 6 0.23
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (16 bp):
ATATAAAAAATTAAAA
Found at i:6562209 original size:11 final size:11
Alignment explanation
Indices: 6562194--6562238 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
6562184 TAGTAAAACG
6562194 GTAAGAAAATA
1 GTAAGAAAATA
*
6562205 ATAAGAAAATA
1 GTAAGAAAATA
*
6562216 GT-AGCAAAACA
1 GTAAG-AAAATA
6562227 GTAAGAAAATA
1 GTAAGAAAATA
6562238 G
1 G
6562239 CAGAATTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 24 0.86
12 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.18, T:0.16
Consensus pattern (11 bp):
GTAAGAAAATA
Found at i:6574341 original size:9 final size:9
Alignment explanation
Indices: 6574327--6574356 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6574317 ATATCAATCT
6574327 ATTATTTGA
1 ATTATTTGA
6574336 ATTATTTGA
1 ATTATTTGA
*
6574345 GTTATTTGA
1 ATTATTTGA
6574354 ATT
1 ATT
6574357 GTAACATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (9 bp):
ATTATTTGA
Found at i:6576290 original size:22 final size:22
Alignment explanation
Indices: 6576246--6576290 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6576236 CAATTTGCTT
* * * *
6576246 AATTAACGTGACCAAATTCAAA
1 AATTAAAGTAACCAAAATAAAA
6576268 AATTAAAGTAACCAAAATAAAA
1 AATTAAAGTAACCAAAATAAAA
6576290 A
1 A
6576291 CGATGCTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (22 bp):
AATTAAAGTAACCAAAATAAAA
Found at i:6576466 original size:32 final size:32
Alignment explanation
Indices: 6576425--6576488 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
6576415 TTATGTAAGT
6576425 TGTTTTATATATTTGAATACCAAAGTCCTTGA
1 TGTTTTATATATTTGAATACCAAAGTCCTTGA
6576457 TGTTTTATATATTTGAATACCAAAGTCCTTGA
1 TGTTTTATATATTTGAATACCAAAGTCCTTGA
6576489 AATACATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (32 bp):
TGTTTTATATATTTGAATACCAAAGTCCTTGA
Found at i:6578605 original size:17 final size:17
Alignment explanation
Indices: 6578583--6578617 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6578573 TCACCAAGAT
6578583 GCCATTCTAGCACTAAG
1 GCCATTCTAGCACTAAG
*
6578600 GCCATTCTAGCATTAAG
1 GCCATTCTAGCACTAAG
6578617 G
1 G
6578618 GTGTGCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (17 bp):
GCCATTCTAGCACTAAG
Found at i:6584009 original size:23 final size:23
Alignment explanation
Indices: 6583959--6584009 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
6583949 TGCATAATGA
*
6583959 TAAATTTTATCCTATATATTTTT
1 TAAATTTGATCCTATATATTTTT
*
6583982 T-AATTTGATCCT-TATTTTTTTT
1 TAAATTTGATCCTATA-TATTTTT
6584004 TAAATT
1 TAAATT
6584010 AAATTTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.08
22 17 0.71
23 5 0.21
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (23 bp):
TAAATTTGATCCTATATATTTTT
Found at i:6585820 original size:49 final size:49
Alignment explanation
Indices: 6585717--6585811 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
6585707 TACTCTTCGT
* * *
6585717 ATATGTAGAATTTAATCTTCGTACTTTTATTTTTTAGGAATTTAGTCGA
1 ATATTTAGAATTTAATCTTCGTACTTTTATTTTTTAGGAATTTAATCCA
6585766 ATATTTAGAATTTAATCTTCGTACTTTTA-TTTTTAGGAATTTAATC
1 ATATTTAGAATTTAATCTTCGTACTTTTATTTTTTAGGAATTTAATC
6585812 TCTCTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 16 0.36
49 28 0.64
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (49 bp):
ATATTTAGAATTTAATCTTCGTACTTTTATTTTTTAGGAATTTAATCCA
Found at i:6589105 original size:32 final size:33
Alignment explanation
Indices: 6589056--6589129 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
6589046 TCTAACAAGT
*
6589056 TCAATTAATCAATGAGTTA-TCAAATT-AAATTAA
1 TCAATTTATCAATGAGTTACT-AAATTCAAA-TAA
*
6589089 TTAATTTATC-ATGAGTTACTAAATTCAAATAA
1 TCAATTTATCAATGAGTTACTAAATTCAAATAA
6589121 TCAATTTAT
1 TCAATTTAT
6589130 AAATTTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 24 0.67
33 12 0.33
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (33 bp):
TCAATTTATCAATGAGTTACTAAATTCAAATAA
Found at i:6590577 original size:33 final size:33
Alignment explanation
Indices: 6590535--6590658 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
6590525 TTTCTTCTTG
* *
6590535 ACATTCCAGCTACTGTCCAGTAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
6590568 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
6590601 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
6590634 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
6590659 TGAAACAGAG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.30, C:0.42, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:6594785 original size:21 final size:21
Alignment explanation
Indices: 6594752--6594791 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6594742 AATTCTGAAC
* *
6594752 TCTTTTTTTATTTTCTGTTTT
1 TCTTCTTTAATTTTCTGTTTT
6594773 TCTTCTTTAATTTTCTGTT
1 TCTTCTTTAATTTTCTGTT
6594792 GAATGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.75
Consensus pattern (21 bp):
TCTTCTTTAATTTTCTGTTTT
Found at i:6594874 original size:4 final size:4
Alignment explanation
Indices: 6594854--6594892 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
6594844 CGAAATTTTA
*
6594854 ATTT AATTT AATT ATTT ATTT ATTT ATTTT ATTT ATTT A
1 ATTT -ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT A
6594893 GGTTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
4 23 0.74
5 8 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:6594884 original size:13 final size:13
Alignment explanation
Indices: 6594854--6594892 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6594844 CGAAATTTTA
* *
6594854 ATTTAATTTAATT
1 ATTTTATTTATTT
6594867 A-TTTATTTATTT
1 ATTTTATTTATTT
6594879 ATTTTATTTATTT
1 ATTTTATTTATTT
6594892 A
1 A
6594893 GGTTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTATTTATTT
Found at i:6595784 original size:16 final size:17
Alignment explanation
Indices: 6595757--6595790 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6595747 TTATTTAGGT
*
6595757 ATTTTAAAATTATTAAA
1 ATTTTAAAATTAGTAAA
6595774 ATTTT-AAATTAGTAAA
1 ATTTTAAAATTAGTAAA
6595790 A
1 A
6595791 GTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTTTAAAATTAGTAAA
Found at i:6595893 original size:21 final size:21
Alignment explanation
Indices: 6595867--6595917 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
6595857 ATAGATTATA
6595867 AAAAAATTAAAATTTTCACCT
1 AAAAAATTAAAATTTTCACCT
6595888 AAAAAATTAAAATTTTCACCT
1 AAAAAATTAAAATTTTCACCT
6595909 AAAAAATTA
1 AAAAAATTA
6595918 TTCTGGCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTAAAATTTTCACCT
Found at i:6599467 original size:26 final size:26
Alignment explanation
Indices: 6599437--6599518 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
6599427 TGAAATTCCC
6599437 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6599463 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6599489 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6599515 ATCA
1 ATCA
6599519 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6602442 original size:53 final size:53
Alignment explanation
Indices: 6602361--6602506 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
6602351 CTTACACGGT
* *
6602361 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGAAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGAAATCACATTA
* *
6602416 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTA
**
6602469 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
6602507 AACGGGCGCA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTA
Found at i:6606668 original size:20 final size:20
Alignment explanation
Indices: 6606623--6606668 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
6606613 AGTTCCATTG
* *
6606623 TTAAAATATTTTTTTATATT
1 TTAAAAAATATTTTTATATT
* *
6606643 TAAAAAAATATTTTTATGTT
1 TTAAAAAATATTTTTATATT
6606663 TTAAAA
1 TTAAAA
6606669 TACTAATCAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAAAAAATATTTTTATATT
Found at i:6617586 original size:15 final size:14
Alignment explanation
Indices: 6617554--6617592 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
6617544 CCAATTATCC
6617554 TTAATTAAGTTAAAT
1 TTAATTAA-TTAAAT
*
6617569 TTACTTAATTAAACT
1 TTAATTAATTAAA-T
6617584 TTAATTAAT
1 TTAATTAAT
6617593 CACTCACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (14 bp):
TTAATTAATTAAAT
Found at i:6623102 original size:50 final size:49
Alignment explanation
Indices: 6622982--6623157 Score: 219
Period size: 50 Copynumber: 3.5 Consensus size: 49
6622972 CCATTGCAAC
*
6622982 AAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGACAAATGA
* *
6623031 AATTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAA-GACAAATGA
* * *
6623081 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAATGGCAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GACAAATGA
* * * *
6623131 CAAATGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
6623158 CTGATCAATG
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.33
50 50 0.46
51 22 0.20
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGACAAATGA
Found at i:6623374 original size:31 final size:31
Alignment explanation
Indices: 6623133--6623366 Score: 351
Period size: 31 Copynumber: 7.5 Consensus size: 31
6623123 GCAAATAACA
* *
6623133 AATGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
6623164 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
6623195 AATGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
6623226 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
*
6623257 AATGAAGAGTGGTAGCTCCGGCTACCTGATC
1 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
*
6623288 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
* * * *
6623319 AATGAAAAATGATAGCACCGGCTACCTAATC
1 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
6623350 AGTGAATAGTGGCAGCT
1 AATGAAAAGTGGTAGCT
6623367 TTGGCTACAA
Statistics
Matches: 183, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 183 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (31 bp):
AATGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:6623385 original size:7 final size:7
Alignment explanation
Indices: 6623373--6623401 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6623363 AGCTTTGGCT
6623373 ACAAGTG
1 ACAAGTG
6623380 ACAAGTG
1 ACAAGTG
6623387 ACAAGTG
1 ACAAGTG
6623394 ACAAGTG
1 ACAAGTG
6623401 A
1 A
6623402 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:6623563 original size:49 final size:48
Alignment explanation
Indices: 6623410--6623619 Score: 204
Period size: 47 Copynumber: 4.5 Consensus size: 48
6623400 GATTTCCGTA
* * * * * *
6623410 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTAC-GTG
** * * *
6623457 TAAGACCATATATGGGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTACGTG
*
6623503 TAAGACAATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-ATGTGATATGTGATTACGTG
* * *
6623552 TAAGACCATAGCTGGGCTATGGCATCG-A--T-ATATG-AAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTACGTG
6623595 TAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATAGCTGGGCTATGGCAT
6623620 AATTATGTGA
Statistics
Matches: 143, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
43 31 0.22
44 5 0.03
45 1 0.01
46 24 0.17
47 38 0.27
48 14 0.10
49 30 0.21
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGATTACGTG
Found at i:6623596 original size:43 final size:43
Alignment explanation
Indices: 6623500--6623664 Score: 165
Period size: 42 Copynumber: 3.7 Consensus size: 43
6623490 TATGTGATTC
* *
6623500 GTGTAAGACAATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATGT-A-A--AGA-T
*
6623547 ACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATG-AAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGAT-TATGTAAAGAT
* *
6623592 GTGTAAGACCATAGCTGGGCTATGGCAT-AATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATGTAAAGAT
* **
6623634 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
6623665 GAAAACGAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 4 0.04
42 31 0.30
43 29 0.28
45 1 0.01
46 1 0.01
48 1 0.01
49 31 0.30
51 4 0.04
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATGTAAAGAT
Found at i:6624968 original size:13 final size:13
Alignment explanation
Indices: 6624950--6624977 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6624940 CCTCTTTTTA
6624950 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
6624963 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
6624976 TT
1 TT
6624978 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:6625026 original size:18 final size:18
Alignment explanation
Indices: 6625005--6625041 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6624995 AATAATAACT
6625005 ATAACAAAAATCTATTTA
1 ATAACAAAAATCTATTTA
* *
6625023 ATAACAAATATTTATTTA
1 ATAACAAAAATCTATTTA
6625041 A
1 A
6625042 CACTTGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACAAAAATCTATTTA
Found at i:6625286 original size:24 final size:24
Alignment explanation
Indices: 6625230--6625286 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
6625220 ACTTTAAAAC
6625230 TAAAC-TTTCACATTATATTCAAT
1 TAAACTTTTCACATTATATTCAAT
*
6625253 TTAA-TCTTTCACATTATATTCAAT
1 TAAACT-TTTCACATTATATTCAAT
6625277 TAAACTTTTC
1 TAAACTTTTC
6625287 TAATACACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 3 0.10
24 25 0.86
25 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAACTTTTCACATTATATTCAAT
Found at i:6625298 original size:13 final size:13
Alignment explanation
Indices: 6625280--6625304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6625270 ATTCAATTAA
6625280 ACTTTTCTAATAC
1 ACTTTTCTAATAC
6625293 ACTTTTCTAATA
1 ACTTTTCTAATA
6625305 ACCTTAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ACTTTTCTAATAC
Found at i:6626250 original size:15 final size:15
Alignment explanation
Indices: 6626241--6626270 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6626231 AATTTGAAGA
6626241 GACAAAATTTAAATG
1 GACAAAATTTAAATG
6626256 GACAAAATTTAAATG
1 GACAAAATTTAAATG
6626271 AATGATTAAA
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:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
GACAAAATTTAAATG
Found at i:6627178 original size:3 final size:3
Alignment explanation
Indices: 6627170--6627206 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
6627160 CGCTAAGGAT
*
6627170 TTC TTC TTC TTC TTC TTC GTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
6627207 ATTATTTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:6628505 original size:18 final size:18
Alignment explanation
Indices: 6628468--6628507 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6628458 TTACTCTTCG
*
6628468 TTTCTTCTCTGCTATTCA
1 TTTCTTCTCTGCTATCCA
*
6628486 TTTCTTCTCTGCTCTCCA
1 TTTCTTCTCTGCTATCCA
6628504 TTTC
1 TTTC
6628508 ATCTGGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.33, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTCTTCTCTGCTATCCA
Found at i:6632647 original size:63 final size:63
Alignment explanation
Indices: 6632554--6632713 Score: 173
Period size: 63 Copynumber: 2.5 Consensus size: 63
6632544 TTAAAATTAT
* * * *
6632554 AGTTTTAACTTGTAT-AGAGT-AGTAATTAAAGCATTGGTTATTCAAGGATTAAATATAAACGGG
1 AGTTTTGACTTGTATGA-AGTGA-TAGTTAAAGCATTGGTTATTCAAGAATTAAATATAAACGAG
* * *
6632617 AGTTTTGACTTGTATGAAGTGATAGTTAAAGTATTGGTTATTTAAGAATTAAATATAAGCGAG
1 AGTTTTGACTTGTATGAAGTGATAGTTAAAGCATTGGTTATTCAAGAATTAAATATAAACGAG
* * *
6632680 AGTTTCCGACTTATATGGAA-TGATTGTTAAAGCA
1 AGTTT-TGACTTGTAT-GAAGTGATAGTTAAAGCA
6632714 CTTACTAAAC
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 57 0.70
64 22 0.27
65 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (63 bp):
AGTTTTGACTTGTATGAAGTGATAGTTAAAGCATTGGTTATTCAAGAATTAAATATAAACGAG
Found at i:6636171 original size:24 final size:24
Alignment explanation
Indices: 6636126--6636172 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6636116 ATAAAAATTA
*
6636126 AACCCTAAAAACTTGAAAACAAAT
1 AACCCTAAAAACGTGAAAACAAAT
*
6636150 AACCCTCAAAACGT-AAACACAAA
1 AACCCTAAAAACGTGAAA-ACAAA
6636173 ATTTTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.57, C:0.26, G:0.04, T:0.13
Consensus pattern (24 bp):
AACCCTAAAAACGTGAAAACAAAT
Found at i:6636443 original size:13 final size:13
Alignment explanation
Indices: 6636421--6636450 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6636411 TTTTTGCACT
6636421 AAATTATCTTATG
1 AAATTATCTTATG
*
6636434 AAATTCTCTTATG
1 AAATTATCTTATG
6636447 AAAT
1 AAAT
6636451 CACTCTATTC
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:0.07, T:0.43
Consensus pattern (13 bp):
AAATTATCTTATG
Found at i:6639551 original size:29 final size:30
Alignment explanation
Indices: 6639518--6639576 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
6639508 CCTTAATACG
6639518 AACTTTGGCAAAATTACA-TTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
6639547 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
6639577 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:6646643 original size:47 final size:47
Alignment explanation
Indices: 6646491--6646667 Score: 213
Period size: 47 Copynumber: 3.8 Consensus size: 47
6646481 TGTAACCCGC
*
6646491 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGC-GTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACAGTTCACAT
6646537 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * * * *
6646587 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
6646631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6646668 TGTTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
43 3 0.03
44 4 0.04
45 1 0.01
46 36 0.32
47 57 0.51
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:6646659 original size:94 final size:93
Alignment explanation
Indices: 6646499--6646669 Score: 281
Period size: 94 Copynumber: 1.8 Consensus size: 93
6646489 GCCCATAAGT
*
6646499 GAACTCGGACTCAACTCAACGATCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGATCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
6646564 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
6646592 GAACTCGGACTCAACTCAATGAGT-TCGGACATTTCTCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGA-TCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTC
6646656 AACGAGTTCGGATG
64 AACGAGTTCGGATG
6646670 TTCAACCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
93 26 0.36
94 46 0.64
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGATCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:6649043 original size:43 final size:43
Alignment explanation
Indices: 6648982--6649097 Score: 207
Period size: 43 Copynumber: 2.7 Consensus size: 43
6648972 CTATTTAGGC
*
6648982 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
6649025 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
*
6649068 CTTCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGA
6649098 ATGAGTTCAG
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 12 0.17
43 59 0.83
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.24
Consensus pattern (43 bp):
CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
Found at i:6652537 original size:18 final size:18
Alignment explanation
Indices: 6652514--6652550 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6652504 TAGTAAATAT
*
6652514 ATTATTTTAAAAATTTAA
1 ATTATTTTAAAAAATTAA
6652532 ATTATTTTAAAAAATTAA
1 ATTATTTTAAAAAATTAA
6652550 A
1 A
6652551 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTTAAAAAATTAA
Found at i:6652546 original size:19 final size:18
Alignment explanation
Indices: 6652514--6652552 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
6652504 TAGTAAATAT
*
6652514 ATTATTTTAAAAATTTAA
1 ATTATTTTAAAAATTAAA
6652532 ATTATTTTAAAAAATTAAA
1 ATTATTTT-AAAAATTAAA
6652551 AT
1 AT
6652553 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTTAAAAATTAAA
Found at i:6655157 original size:27 final size:27
Alignment explanation
Indices: 6655123--6655177 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6655113 AAAGATTGGG
6655123 AATTTGAAGGACAAAGTAATAGAGGAA
1 AATTTGAAGGACAAAGTAATAGAGGAA
6655150 AATTTGAAGGACAAAGTAATAGAGGAA
1 AATTTGAAGGACAAAGTAATAGAGGAA
6655177 A
1 A
6655178 GGAAAGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.04, G:0.25, T:0.18
Consensus pattern (27 bp):
AATTTGAAGGACAAAGTAATAGAGGAA
Found at i:6664972 original size:5 final size:5
Alignment explanation
Indices: 6664962--6664989 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6664952 CAATTTGTGA
6664962 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6664990 GAACATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6668694 original size:57 final size:58
Alignment explanation
Indices: 6668578--6668702 Score: 180
Period size: 57 Copynumber: 2.2 Consensus size: 58
6668568 TTACAAATAA
* *
6668578 GATTTAGCCTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATGTTATAGATAG
1 GATTTAGCTTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATGTTAGAGATAG
* * ** *
6668636 GATTTAGCTTAGACGGGTAATCTTGAT-TAAGCTCTTTTGAGCATATGTTGGAGATAG
1 GATTTAGCTTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATGTTAGAGATAG
6668693 GATTTAGCTT
1 GATTTAGCTT
6668703 GGACAAGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
57 34 0.57
58 26 0.43
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (58 bp):
GATTTAGCTTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATGTTAGAGATAG
Found at i:6680942 original size:8 final size:8
Alignment explanation
Indices: 6680929--6680953 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6680919 TCTTGTAGCT
6680929 TGCTCCGA
1 TGCTCCGA
6680937 TGCTCCGA
1 TGCTCCGA
6680945 TGCTCCGA
1 TGCTCCGA
6680953 T
1 T
6680954 TTTCGCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.36, G:0.24, T:0.28
Consensus pattern (8 bp):
TGCTCCGA
Found at i:6684122 original size:70 final size:70
Alignment explanation
Indices: 6684009--6684148 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
6683999 AAATTAATTC
* *
6684009 GTAAACTCCGGTAATACCTCGTACCCTATTCCGGTAATGAATACAAGTAGGGGGTATTACATTTG
1 GTAAACTCCAGTAATACCTCGTAACCTATTCCGGTAATGAATACAAGTAGGGGGTATTACATTTG
6684074 TTGGT
66 TTGGT
*
6684079 GTAAACTCTAGTAATACCTCGTAACCTATTCCGGTAATGAATACAAGTAGGGGGTATTACATTTG
1 GTAAACTCCAGTAATACCTCGTAACCTATTCCGGTAATGAATACAAGTAGGGGGTATTACATTTG
6684144 TTGGT
66 TTGGT
6684149 ATCAGAGCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (70 bp):
GTAAACTCCAGTAATACCTCGTAACCTATTCCGGTAATGAATACAAGTAGGGGGTATTACATTTG
TTGGT
Found at i:6689400 original size:43 final size:43
Alignment explanation
Indices: 6689339--6689424 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
6689329 AAGTGTCTAA
6689339 TGAGATAGGATTTAAAAGGAAAACAGACACAAAATTTATTTGG
1 TGAGATAGGATTTAAAAGGAAAACAGACACAAAATTTATTTGG
6689382 TGAGATAGGATTTAAAAGGAAAACAGACACAAAATTTATTTGG
1 TGAGATAGGATTTAAAAGGAAAACAGACACAAAATTTATTTGG
6689425 GCTGGACGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.26
Consensus pattern (43 bp):
TGAGATAGGATTTAAAAGGAAAACAGACACAAAATTTATTTGG
Found at i:6693417 original size:39 final size:38
Alignment explanation
Indices: 6693374--6693462 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
6693364 CGGTACCTTA
* * * *
6693374 TGGTGTGTAGGGTTTGATGGGTTGATTTATCTCCATACT
1 TGGTGTGTAGGGCTAGATGGGTTGATTT-TCTCCACACG
* * *
6693413 TGGTGTGTAGGGCTAGGTGGGTTGATTTTTTCCCCACG
1 TGGTGTGTAGGGCTAGATGGGTTGATTTTCTCCACACG
6693451 TGGTGTGTAGGG
1 TGGTGTGTAGGG
6693463 GTGGACGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 18 0.42
39 25 0.58
ACGTcount: A:0.12, C:0.11, G:0.37, T:0.39
Consensus pattern (38 bp):
TGGTGTGTAGGGCTAGATGGGTTGATTTTCTCCACACG
Found at i:6701543 original size:16 final size:17
Alignment explanation
Indices: 6701502--6701543 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
6701492 TTTTTGTAAA
6701502 ATTTCTTTTCATCCTCT
1 ATTTCTTTTCATCCTCT
*
6701519 ATTT-ATTTCATCCTCT
1 ATTTCTTTTCATCCTCT
6701535 -TTTCTTTTC
1 ATTTCTTTTC
6701544 CTCTCTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 3 0.14
16 15 0.68
17 4 0.18
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTCTTTTCATCCTCT
Found at i:6701793 original size:22 final size:22
Alignment explanation
Indices: 6701767--6701826 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
6701757 CGATCTAATC
* **
6701767 AAACTTTTGACAAATTTTGCCA
1 AAACTTTCGACAAATCATGCCA
6701789 AAACTTTCGACAAATCATGCCA
1 AAACTTTCGACAAATCATGCCA
6701811 AAACTTTCGACAAATC
1 AAACTTTCGACAAATC
6701827 TTGATTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (22 bp):
AAACTTTCGACAAATCATGCCA
Done.