Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 21 of 210
Found at i:7322013 original size:86 final size:86
Alignment explanation
Indices: 7321867--7322217 Score: 461
Period size: 86 Copynumber: 4.1 Consensus size: 86
7321857 TGTTTTTAGT
* * * * * * *
7321867 GGCGTTTTTACAAGAAGCGTCGCTAAAGGTCTCGAGCTATAGCGGCGTTTGTGGGAAAAGCGTCG
1 GGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAGCTATAGCGGCGTTTGTGGGAAAAGCGCCG
* *
7321932 CTAAAGGCCTCGAGCTATAGC
66 CTAAAGGCCTTGATCTATAGC
** * *
7321953 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGC-CTTGAGCTATAGCGGCGTTTTTGGGGAAAGCGCC
1 GGCGTTTGTGCAAAAAGCGCCGCTAAA-GCTCTTGAGCTATAGCGGCGTTTGTGGGAAAAGCGCC
* *
7322017 GCTAAAGGTCTTGATCTATAGA
65 GCTAAAGGCCTTGATCTATAGC
* * *
7322039 GGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGATCTATAGCGGCGTTTTTGGGAGAAGCGCCG
1 GGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAGCTATAGCGGCGTTTGTGGGAAAAGCGCCG
* *
7322104 CTAAAGGTCTTGATCTCTAGC
66 CTAAAGGCCTTGATCTATAGC
* * *
7322125 GGCGTTTGTGCAAAAAGCGCCGTTAAAGCTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCG
1 GGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAGCTATAGCGGCGTTTGTGGGAAAAGCGCCG
* *
7322190 CTAAAGGTCATGATCTATAGC
66 CTAAAGGCCTTGATCTATAGC
7322211 GGCGTTT
1 GGCGTTT
7322218 ATTCCTAAAA
Statistics
Matches: 235, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
85 2 0.01
86 232 0.99
87 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (86 bp):
GGCGTTTGTGCAAAAAGCGCCGCTAAAGCTCTTGAGCTATAGCGGCGTTTGTGGGAAAAGCGCCG
CTAAAGGCCTTGATCTATAGC
Found at i:7322100 original size:129 final size:129
Alignment explanation
Indices: 7321867--7322217 Score: 461
Period size: 129 Copynumber: 2.7 Consensus size: 129
7321857 TGTTTTTAGT
* * * * * *
7321867 GGCGTTTTTACAAGAAGCGTCGCTAAAGGTCTCGAGCTATAGCGGCGTTTGTGGGAAAAGCGTCG
1 GGCGTTTGTGCAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCG
* *
7321932 CTAAAGGC-CTCGAGCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCTTGAGCTATAGC
66 CTAAA-GCTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCTTGAGCTATAGC
* *** * ** *
7321996 GGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCTTGATCTATAGAGGCGTTTGTGCAAAAAGCGCCG
1 GGCGTTTGTGCAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCG
* * * * *
7322061 CTAAAGCTCTTGATCTATAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTCTTGATCTCTAGC
66 CTAAAGCTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCTTGAGCTATAGC
* *
7322125 GGCGTTTGTGCAAAAAGCGCCGTTAAAGCTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCG
1 GGCGTTTGTGCAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCG
* *
7322190 CTAAAGGTCATGATCTATAGCGGCGTTT
66 CTAAAGCTCTTGATCTATAGCGGCGTTT
7322218 ATTCCTAAAA
Statistics
Matches: 190, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
128 2 0.01
129 188 0.99
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (129 bp):
GGCGTTTGTGCAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGTCG
CTAAAGCTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCTTGAGCTATAGC
Found at i:7323344 original size:17 final size:17
Alignment explanation
Indices: 7323304--7323351 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
7323294 AATATTAACA
7323304 AAATAATTTTTAGAATTTTT
1 AAATAATTTTT---ATTTTT
7323324 -AATAATTTTTATTTTT
1 AAATAATTTTTATTTTT
*
7323340 AAATAACTTTTA
1 AAATAATTTTTA
7323352 CATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 10 0.38
19 10 0.38
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
AAATAATTTTTATTTTT
Found at i:7323358 original size:19 final size:18
Alignment explanation
Indices: 7323304--7323358 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
7323294 AATATTAACA
7323304 AAATAATTTTTAGAATTTTT
1 AAATAA-TTTTA-AATTTTT
*
7323324 -AATAATTTT-TATTTTT
1 AAATAATTTTAAATTTTT
*
7323340 AAATAACTTTTACATTTTT
1 AAATAA-TTTTAAATTTTT
7323359 TTTTGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 6 0.20
17 5 0.17
18 8 0.27
19 11 0.37
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (18 bp):
AAATAATTTTAAATTTTT
Found at i:7327925 original size:21 final size:21
Alignment explanation
Indices: 7327899--7327938 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7327889 AACTCGAAAT
7327899 TAATTCA-ATTCAAATATAAAA
1 TAATTCAGATTCAAA-ATAAAA
7327920 TAATTCAGATTCAAAATAA
1 TAATTCAGATTCAAAATAA
7327939 CTTGAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
TAATTCAGATTCAAAATAAAA
Found at i:7333169 original size:24 final size:25
Alignment explanation
Indices: 7333142--7333193 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
7333132 AAATTTATCT
*
7333142 TTTAATTTTTATTT-TTTT-TGTCAA
1 TTTAAATTTTATTTATTTTAT-TCAA
7333166 TTTAAATTTTATTTATTTTATTCAA
1 TTTAAATTTTATTTATTTTATTCAA
7333191 TTT
1 TTT
7333194 TTACTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 13 0.52
25 11 0.44
26 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTAAATTTTATTTATTTTATTCAA
Found at i:7333860 original size:17 final size:19
Alignment explanation
Indices: 7333829--7333864 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
7333819 ATTACAGAAT
7333829 TTTTTTATTTGATTTTTAA
1 TTTTTTATTTGATTTTTAA
7333848 TTTTTT-TTT-ATTTTTAA
1 TTTTTTATTTGATTTTTAA
7333865 AAATTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTATTTGATTTTTAA
Found at i:7334358 original size:23 final size:24
Alignment explanation
Indices: 7334327--7334378 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
7334317 TTTAAACACT
*
7334327 AAAAGTTGCTTTCTTGGA-GAAAA
1 AAAAATTGCTTTCTTGGAGGAAAA
7334350 AAAAATTGCTTTCTTGGAGGAAAA
1 AAAAATTGCTTTCTTGGAGGAAAA
7334374 AAAAA
1 AAAAA
7334379 ACTCCAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (24 bp):
AAAAATTGCTTTCTTGGAGGAAAA
Found at i:7336585 original size:21 final size:21
Alignment explanation
Indices: 7336555--7336607 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7336545 GACCCATATT
7336555 AAATAAATATTTGATTAAAAA
1 AAATAAATATTTGATTAAAAA
*
7336576 AAATATATATTTGATTAAAAA
1 AAATAAATATTTGATTAAAAA
*
7336597 TAAAAAAATAT
1 -AAATAAATAT
7336608 ATATTTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATAAATATTTGATTAAAAA
Found at i:7337829 original size:16 final size:16
Alignment explanation
Indices: 7337780--7337832 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
7337770 TTGGTTCGCT
*
7337780 GTAATTGAATAGAGGC
1 GTAATGGAATAGAGGC
** *
7337796 ACAATGGAATAGATGC
1 GTAATGGAATAGAGGC
*
7337812 GTAATGGAGTAGAGGC
1 GTAATGGAATAGAGGC
7337828 GTAAT
1 GTAAT
7337833 AGCAATTCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:7338086 original size:18 final size:17
Alignment explanation
Indices: 7338065--7338099 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7338055 TTATTATTAA
*
7338065 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7338083 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7338100 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7338356 original size:91 final size:90
Alignment explanation
Indices: 7338261--7338467 Score: 294
Period size: 91 Copynumber: 2.3 Consensus size: 90
7338251 TAATTATAAC
* *
7338261 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATACTA-ATTATTACATATAATTTAATAA
1 TAATAAATTAT-TTTTATGAATTTGTATAATTTAAAATAATATA-TATTAAATATAATTTAATAA
*
7338325 TAATATATAATTTCATAAAATTCTTGA
64 TAATATATAATTTCATAAAATTCTTAA
*
7338352 TAATAAATT-TTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAATTTAATAA
1 TAATAAATTATT-TT-TATGAATTTGTATAATTTAAAATAATATATATTAAATATAATTTAATAA
*
7338416 TGATATATAATTTCATAAAATTCTTAA
64 TAATATATAATTTCATAAAATTCTTAA
7338443 TAATAAA-TATTCTTATATGAATTTG
1 TAATAAATTATT-TT-TATGAATTTG
7338468 CTAAAACCAT
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
89 1 0.01
90 4 0.04
91 101 0.94
92 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (90 bp):
TAATAAATTATTTTTATGAATTTGTATAATTTAAAATAATATATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:7338383 original size:47 final size:46
Alignment explanation
Indices: 7338330--7338467 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 46
7338320 AATAATAATA
7338330 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTG
1 TATAATTTCATAAAATTCTT-ATAATAAATTTTCTTATATGAATTTG
* * * * *
7338377 TATAATTT-A-AAATAAT-TTATATTAAATATAAT-TTA-AT-AATGATA
1 TATAATTTCATAAA-ATTCTTATAATAAAT-T-TTCTTATATGAAT-TTG
*
7338421 TATAATTTCATAAAATTCTTAATAATAAATATTCTTATATGAATTTG
1 TATAATTTCATAAAATTCTT-ATAATAAATTTTCTTATATGAATTTG
7338468 CTAAAACCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 22
0.68 0.11 0.22
Matches are distributed among these distances:
43 3 0.04
44 19 0.28
45 13 0.19
46 12 0.17
47 19 0.28
48 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (46 bp):
TATAATTTCATAAAATTCTTATAATAAATTTTCTTATATGAATTTG
Found at i:7339037 original size:43 final size:43
Alignment explanation
Indices: 7338989--7339087 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
7338979 GGAAAGTTTG
*
7338989 ATGGTAGTTATAACAACGTTAAATGTCCAATTAA-GCAACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGC-ACACTA
* * *
7339032 ATGGTAATCATAACCACGCTAAATGTCCAATTAAGGCACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
7339075 ATGGTAGTTATAA
1 ATGGTAGTTATAA
7339088 GAGAGAGCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
Found at i:7339828 original size:17 final size:17
Alignment explanation
Indices: 7339806--7339838 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7339796 CCCAAATTGA
7339806 GAACTAAAGATAAACCG
1 GAACTAAAGATAAACCG
7339823 GAACTAAAGATAAACC
1 GAACTAAAGATAAACC
7339839 ATGATCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.12
Consensus pattern (17 bp):
GAACTAAAGATAAACCG
Found at i:7341983 original size:15 final size:15
Alignment explanation
Indices: 7341941--7341982 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7341931 TTATTTCACT
*
7341941 AAAAA-CAACTTTTG
1 AAAAATCAATTTTTG
7341955 AAAAATCAATTTTTG
1 AAAAATCAATTTTTG
*
7341970 GAAAAT-AATTTTT
1 AAAAATCAATTTTT
7341983 TTTTTAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (15 bp):
AAAAATCAATTTTTG
Found at i:7342256 original size:17 final size:18
Alignment explanation
Indices: 7342230--7342267 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7342220 ATAAATATTT
* *
7342230 ATATTTATA-TAATTAAA
1 ATATTCATATTAAATAAA
7342247 ATATTCATATTAAATAAA
1 ATATTCATATTAAATAAA
7342265 ATA
1 ATA
7342268 GTAACAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTCATATTAAATAAA
Found at i:7342323 original size:17 final size:17
Alignment explanation
Indices: 7342303--7342344 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
7342293 TTACTAATGT
*
7342303 TAAATTTT-TTATTGAAA
1 TAAATTTTAATATT-AAA
7342320 TAAAATTTTAATATTAAA
1 T-AAATTTTAATATTAAA
7342338 TAAATTT
1 TAAATTT
7342345 ATCAAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAATTTTAATATTAAA
Found at i:7350811 original size:51 final size:51
Alignment explanation
Indices: 7350756--7350914 Score: 141
Period size: 51 Copynumber: 3.1 Consensus size: 51
7350746 TTTTCAGTCA
7350756 TTTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGT
1 TTTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGT
** * * ** * * *
7350807 TTTTTTCTTGT-AT-C-TTTGATTCAT---AATGATTTTTGTCTTTATTTTCAGT
1 TTTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATC---AATAT-AGT
7350856 CATTTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGT
1 --TTTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGT
7350909 TTTTTT
1 TTTTTT
7350915 CTTGGTATCT
Statistics
Matches: 78, Mismatches: 18, Indels: 24
0.65 0.15 0.20
Matches are distributed among these distances:
45 12 0.15
48 10 0.13
49 4 0.05
50 1 0.01
51 24 0.31
52 1 0.01
53 4 0.05
54 10 0.13
57 12 0.15
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (51 bp):
TTTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGT
Found at i:7350841 original size:102 final size:103
Alignment explanation
Indices: 7350725--7350930 Score: 405
Period size: 102 Copynumber: 2.0 Consensus size: 103
7350715 AACAAACAAA
7350725 TCATAATGATTTTTGTCTTTATTTTCAGTCATTTTTTGATGTCTTGCAATAAATTCATAAAAATG
1 TCATAATGATTTTTGTCTTTATTTTCAGTCATTTTTTGATGTCTTGCAATAAATTCATAAAAATG
7350790 ATTTTTATCAATATAGTTTTTTTCTT-GTATCTTTGAT
66 ATTTTTATCAATATAGTTTTTTTCTTGGTATCTTTGAT
7350827 TCATAATGATTTTTGTCTTTATTTTCAGTCATTTTTTGATGTCTTGCAATAAATTCATAAAAATG
1 TCATAATGATTTTTGTCTTTATTTTCAGTCATTTTTTGATGTCTTGCAATAAATTCATAAAAATG
7350892 ATTTTTATCAATATAGTTTTTTTCTTGGTATCTTTGAT
66 ATTTTTATCAATATAGTTTTTTTCTTGGTATCTTTGAT
7350930 T
1 T
7350931 AATTTGGTGT
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 91 0.88
103 12 0.12
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (103 bp):
TCATAATGATTTTTGTCTTTATTTTCAGTCATTTTTTGATGTCTTGCAATAAATTCATAAAAATG
ATTTTTATCAATATAGTTTTTTTCTTGGTATCTTTGAT
Found at i:7362157 original size:22 final size:20
Alignment explanation
Indices: 7362109--7362157 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
7362099 GGTTTTCAAA
*
7362109 TTTTAAGAAAATAATTTATT
1 TTTTAAGAAAATAATTAATT
*
7362129 TGTTTAAGTAAATATATTGAATT
1 T-TTTAAGAAAATA-ATT-AATT
7362152 TTTTAA
1 TTTTAA
7362158 TATTTATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 8 0.33
23 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTTAAGAAAATAATTAATT
Found at i:7363312 original size:22 final size:20
Alignment explanation
Indices: 7363264--7363312 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
7363254 GGTTTTCAAA
*
7363264 TTTTAAGAAAATAATTTATT
1 TTTTAAGAAAATAATTAATT
*
7363284 TGTTTAAGTAAATATATTGAATT
1 T-TTTAAGAAAATA-ATT-AATT
7363307 TTTTAA
1 TTTTAA
7363313 TATTTATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 8 0.33
23 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTTAAGAAAATAATTAATT
Found at i:7363896 original size:22 final size:20
Alignment explanation
Indices: 7363848--7363896 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
7363838 GGTTTTCAAA
*
7363848 TTTTAAGAAAATAATTTATT
1 TTTTAAGAAAATAATTAATT
*
7363868 TGTTTAAGTAAATATATTGAATT
1 T-TTTAAGAAAATA-ATT-AATT
7363891 TTTTAA
1 TTTTAA
7363897 TATTTATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 8 0.33
23 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTTAAGAAAATAATTAATT
Found at i:7363968 original size:584 final size:584
Alignment explanation
Indices: 7362860--7364028 Score: 2338
Period size: 584 Copynumber: 2.0 Consensus size: 584
7362850 TTCTTGCTCC
7362860 TCCGAGTTACCGCTGCATTTCAAGGTGAGAGGCTTTAGCTGAGGAGAAATGGGGCCTTTTGGACA
1 TCCGAGTTACCGCTGCATTTCAAGGTGAGAGGCTTTAGCTGAGGAGAAATGGGGCCTTTTGGACA
7362925 TGTCGAAGGTGCTAAGTAGAAGGGATCTTTGAATAGGAATATGGGTTTTGAAGAGAGAAGCAAAG
66 TGTCGAAGGTGCTAAGTAGAAGGGATCTTTGAATAGGAATATGGGTTTTGAAGAGAGAAGCAAAG
7362990 TGGAGGTGATTGCTGAGGGCATTGATGCAGGGATTGCAGCGCCTGGATTCTGTGCAAATGCGATT
131 TGGAGGTGATTGCTGAGGGCATTGATGCAGGGATTGCAGCGCCTGGATTCTGTGCAAATGCGATT
7363055 GTTATCCTTTCCCTCTCACCCTTCGGGCCTCCAGTTCTGGCCCCTGATTTTTTTTGCGGTTCTTA
196 GTTATCCTTTCCCTCTCACCCTTCGGGCCTCCAGTTCTGGCCCCTGATTTTTTTTGCGGTTCTTA
7363120 TTGATGTTTTAATCACTTATTTTCGGTAAGAATACTTTACAGGTCCCTATATTCTAATGCAGATT
261 TTGATGTTTTAATCACTTATTTTCGGTAAGAATACTTTACAGGTCCCTATATTCTAATGCAGATT
7363185 GCATTATGATCCTTTTGGGGGGGGGGTAGCTGTGCTTTTAGGGTGTGTGTGAGTGAAAAACTTGG
326 GCATTATGATCCTTTTGGGGGGGGGGTAGCTGTGCTTTTAGGGTGTGTGTGAGTGAAAAACTTGG
7363250 AAAAGGTTTTCAAATTTTAAGAAAATAATTTATTTGTTTAAGTAAATATATTGAATTTTTTAATA
391 AAAAGGTTTTCAAATTTTAAGAAAATAATTTATTTGTTTAAGTAAATATATTGAATTTTTTAATA
7363315 TTTATGAGTAATTTTAAGAGGGAATTTTAATAGTTTAATTTTTTTTTTCAAAACCAATCTAATTT
456 TTTATGAGTAATTTTAAGAGGGAATTTTAATAGTTTAATTTTTTTTTTCAAAACCAATCTAATTT
7363380 TATTTTATTTAATGCATATGATTCCACCGATAAAAACTTAAACTTCAAATTATTTTTATTTAAG
521 TATTTTATTTAATGCATATGATTCCACCGATAAAAACTTAAACTTCAAATTATTTTTATTTAAG
7363444 TCCGAGTTACCGCTGCATTTCAAGGTGAGAGGCTTTAGCTGAGGAGAAATGGGGCCTTTTGGACA
1 TCCGAGTTACCGCTGCATTTCAAGGTGAGAGGCTTTAGCTGAGGAGAAATGGGGCCTTTTGGACA
7363509 TGTCGAAGGTGCTAAGTAGAAGGGATCTTTGAATAGGAATATGGGTTTTGAAGAGAGAAGCAAAG
66 TGTCGAAGGTGCTAAGTAGAAGGGATCTTTGAATAGGAATATGGGTTTTGAAGAGAGAAGCAAAG
7363574 TGGAGGTGATTGCTGAGGGCATTGATGCAGGGATTGCAGCGCCTGGATTCTGTGCAAATGCGATT
131 TGGAGGTGATTGCTGAGGGCATTGATGCAGGGATTGCAGCGCCTGGATTCTGTGCAAATGCGATT
7363639 GTTATCCTTTCCCTCTCACCCTTCGGGCCTCCAGTTCTGGCCCCTGATTTTTTTTGCGGTTCTTA
196 GTTATCCTTTCCCTCTCACCCTTCGGGCCTCCAGTTCTGGCCCCTGATTTTTTTTGCGGTTCTTA
7363704 TTGATGTTTTAATCACTTATTTTCGGTAAGAATACTTTACAGGTCCCTATATTCTAATGCAGATT
261 TTGATGTTTTAATCACTTATTTTCGGTAAGAATACTTTACAGGTCCCTATATTCTAATGCAGATT
7363769 GCATTATGATCCTTTTGGGGGGGGGGTAGCTGTGCTTTTAGGGTGTGTGTGAGTGAAAAACTTGG
326 GCATTATGATCCTTTTGGGGGGGGGGTAGCTGTGCTTTTAGGGTGTGTGTGAGTGAAAAACTTGG
7363834 AAAAGGTTTTCAAATTTTAAGAAAATAATTTATTTGTTTAAGTAAATATATTGAATTTTTTAATA
391 AAAAGGTTTTCAAATTTTAAGAAAATAATTTATTTGTTTAAGTAAATATATTGAATTTTTTAATA
7363899 TTTATGAGTAATTTTAAGAGGGAATTTTAATAGTTTAATTTTTTTTTTCAAAACCAATCTAATTT
456 TTTATGAGTAATTTTAAGAGGGAATTTTAATAGTTTAATTTTTTTTTTCAAAACCAATCTAATTT
7363964 TATTTTATTTAATGCATATGATTCCACCGATAAAAACTTAAACTTCAAATTATTTTTATTTAAG
521 TATTTTATTTAATGCATATGATTCCACCGATAAAAACTTAAACTTCAAATTATTTTTATTTAAG
7364028 T
1 T
7364029 GTAATATATA
Statistics
Matches: 585, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
584 585 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (584 bp):
TCCGAGTTACCGCTGCATTTCAAGGTGAGAGGCTTTAGCTGAGGAGAAATGGGGCCTTTTGGACA
TGTCGAAGGTGCTAAGTAGAAGGGATCTTTGAATAGGAATATGGGTTTTGAAGAGAGAAGCAAAG
TGGAGGTGATTGCTGAGGGCATTGATGCAGGGATTGCAGCGCCTGGATTCTGTGCAAATGCGATT
GTTATCCTTTCCCTCTCACCCTTCGGGCCTCCAGTTCTGGCCCCTGATTTTTTTTGCGGTTCTTA
TTGATGTTTTAATCACTTATTTTCGGTAAGAATACTTTACAGGTCCCTATATTCTAATGCAGATT
GCATTATGATCCTTTTGGGGGGGGGGTAGCTGTGCTTTTAGGGTGTGTGTGAGTGAAAAACTTGG
AAAAGGTTTTCAAATTTTAAGAAAATAATTTATTTGTTTAAGTAAATATATTGAATTTTTTAATA
TTTATGAGTAATTTTAAGAGGGAATTTTAATAGTTTAATTTTTTTTTTCAAAACCAATCTAATTT
TATTTTATTTAATGCATATGATTCCACCGATAAAAACTTAAACTTCAAATTATTTTTATTTAAG
Found at i:7376367 original size:10 final size:11
Alignment explanation
Indices: 7376347--7376372 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7376337 TTTAACTTTC
7376347 TTTCTTTTTTT
1 TTTCTTTTTTT
7376358 TTTCTTTTTTT
1 TTTCTTTTTTT
7376369 TTTC
1 TTTC
7376373 ATTCTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:7377199 original size:13 final size:13
Alignment explanation
Indices: 7377181--7377215 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7377171 ATACATGTTC
7377181 ATATTTTATTTAT
1 ATATTTTATTTAT
7377194 ATATTTTA-TTAT
1 ATATTTTATTTAT
7377206 -TATTTTATTT
1 ATATTTTATTT
7377216 TCATAACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATATTTTATTTAT
Found at i:7377209 original size:11 final size:12
Alignment explanation
Indices: 7377181--7377214 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
7377171 ATACATGTTC
7377181 ATATTTTATTTAT
1 ATATTTTA-TTAT
7377194 ATATTTTATTAT
1 ATATTTTATTAT
7377206 -TATTTTATT
1 ATATTTTATT
7377215 TTCATAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 4 0.19
13 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTTTATTAT
Found at i:7378229 original size:3 final size:3
Alignment explanation
Indices: 7378215--7378249 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7378205 TTTCAATTGA
*
7378215 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7378250 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:7378633 original size:933 final size:930
Alignment explanation
Indices: 7376809--7378677 Score: 2831
Period size: 933 Copynumber: 2.0 Consensus size: 930
7376799 AATGACTAAA
7376809 ACGTAACATTTCAAACATAAGTGACTAAAACGTAACCTAAGGTATACAAAAGTGACCATGGGTGT
1 ACGTAACATTTCAAACATAAGTGACTAAAACGTAACCTAAGGTATACAAAAGTGACCATGGGTGT
7376874 AGTTTACCCTTTATTTTAAACAACAAAAGCAAAACGGCGCTGTATAAGCCAGGTCTGCCCAATAG
66 AGTTTACCCTTTATTTTAAACAACAAAAGCAAAACGGCGCTGTATAAGCCAGGTCTGCCCAATAG
7376939 CCCGTGTGACCCGATTCAAAACCCGACCAGATCCGCGCACTTCTTTAAAAGGGGCCATTTGCGCA
131 CCCGTGTGACCCGATTCAAAACCCGACCAGATCCGCGCACTTCTTTAAAAGGGGCCATTTGCGCA
7377004 ATTGGTCCCTTTGTTTTTACAGTGTTTTTTTAATTAAATTTCTTAATTCTTTTAAATTTTACTGC
196 ATTGGTCCCTTTGTTTTTACAGTGTTTTTTTAATTAAATTTCTTAATTCTTTTAAATTTTACTGC
7377069 ACATTTTAATATTGTTTCAATTCGGTTCATGTTGCTGCGCAGTGTTTTGGAGGTTTGGGTAAATT
261 ACATTTTAATATTGTTTCAATTCGGTTCATGTTGCTGCGCAGTGTTTTGGAGGTTTGGGTAAATT
* * *
7377134 TCTCTTTGGGTCCTCCACTGTTGATTAACTTTTGTAAATACATGTTCATATTTTATTTATATATT
326 TCTCTTTGGGTCCTCCACTGTTGATTAACTGTTCTAAATACA-GTTCATATTTTATTTATAAATT
* **
7377199 TTATTATTATTTTATTTTCATAACTCTTGTATACATGGATATATATATACATATACATTTTATAA
390 TAATTATTATTTTATTTAAATAACTCTTGTATACAT-G-TATATATATACATATA-ATTTTATAA
* * * * *
7377264 TATATAATACATTTTTTATGTTTTATATACATACATTTCCTGTAATATATGTATACGTTTAAAAA
452 TATATAATACAATTATCATGTATTATATA-ATACATTT-CTATAATATATGTATACGTTTAAAAA
7377329 AAAGAAAAAAAATTGTTATAAATATATACATTTTATATATATATATATATATTAAACATTTTTTA
515 AAAGAAAAAAAATTGTTATAAATATATACATTTTATATATATATATATATATTAAACATTTTTTA
7377394 TGTATATATATATTTGCATATTTGTCTTTCAAAAATGTTCGTTTTATTAAAGTATTAAAATCATT
580 TGTATATATATATTTGCATATTTGTCTTTCAAAAATGTTCGTTTTATTAAAGTATTAAAATCATT
7377459 TTATTTTTAAAATTTTTAAATATTTGGCATTTACGTTTTTCGAGAGGGATCGTGTCCTAACTTAC
645 TTATTTTTAAAATTTTTAAATATTTGGCATTTACGTTTTTCGAGAGGGATCGTGTCCTAACTTAC
7377524 TGGCCTTCGATTCTATTCGATGAATTTAGAGGGCCAAATATTTATTTTACAAAAAATTTGTACAT
710 TGGCCTTCGATTCTATTCGATGAATTTAGAGGGCCAAATATTTATTTTACAAAAAATTTGTACAT
7377589 ATTTCAAATAAAATCTTATTCTCGGGAATTCAAAATGTTGGGTCCTAACTTACTGGTCACGACAT
775 ATTTCAAATAAAATCTTATTCTCGGGAATTCAAAATGTTGGGTCCTAACTTACTGGTCACGACAT
7377654 TTTGTCATCTCGAAATAAGAATTTCTACATAAATAAATAATTGTAATATTCGGTATTTGGAATTT
840 TTTGTCATCTCGAAATAAGAATTTCTACATAAATAAATAATTGTAATATTCGGTATTTGGAATTT
7377719 TGAGAAATTGTGCCCTAACTTACTGG
905 TGAGAAATTGTGCCCTAACTTACTGG
7377745 ACGTAACATTTCAAACATAAGTGACTAAAACGTAACCTAAGGTATACAAAAGTGACCATGGGTGT
1 ACGTAACATTTCAAACATAAGTGACTAAAACGTAACCTAAGGTATACAAAAGTGACCATGGGTGT
7377810 AGTTTACCCTTTATTTTAAACAACAAAAGCAAAACGGCGCTGTATAAGCCAGGTCTGCCCAATAG
66 AGTTTACCCTTTATTTTAAACAACAAAAGCAAAACGGCGCTGTATAAGCCAGGTCTGCCCAATAG
7377875 CCCGTGTGACCCGATTCAAAACCCGACCAGATCCGCGCACTTCTTTAAAAGGGGCCATTTGCGCA
131 CCCGTGTGACCCGATTCAAAACCCGACCAGATCCGCGCACTTCTTTAAAAGGGGCCATTTGCGCA
7377940 ATTGGTCCCTTTGTTTTTACAGTGTTTTTTTAATTAAATTTCTTAATTCTTTTAAATTTTACTGC
196 ATTGGTCCCTTTGTTTTTACAGTGTTTTTTTAATTAAATTTCTTAATTCTTTTAAATTTTACTGC
7378005 ACATTTTAATATTGTTTCAATTCGGTTCATGTTGCTGCGCAGTGTTTTGGAGGTTTGGGTAAATT
261 ACATTTTAATATTGTTTCAATTCGGTTCATGTTGCTGCGCAGTGTTTTGGAGGTTTGGGTAAATT
* * * *
7378070 TCTCTTTGGGTCCTCCACTGTTGATT-GCGTGTTCTAATTGGTCCA-TTCGTATTTTATTTATTT
326 TCTCTTTGGGTCCTCCACTGTTGATTAAC-TGTTCTAA---ATACAGTTCATATTTTATTTA--T
* * * * * * *
7378133 CAAATTTGCCCCGAATT-TCTGTTTTAAGTTTAAATTAGTCTTTTTTGTCAT-TAGTGCTAT-TA
385 -AAATTT------AATTAT-TATTTT-A-TTTAAATAACTCTTGTAT-ACATGTA-T-ATATATA
** * *
7378195 -A-AT-A-TTT-TAAT-T-TCAATTGAATTATCAT-TATTAT-T-AT-TATTAT-TATTAT-TAT
437 CATATAATTTTATAATATAT-AATACAATTATCATGTATTATATAATACATT-TCTATAATATAT
********************************
7378247 -TATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATATATACATTTTATATATATATATATA
500 GTAT-ACGTTTAAAAAAAAGAAAAAAAATTGTTATAAATATATACATTTTATATATATATATATA
7378311 TATTAAACATTTTTTATGTATATATATATTTGCATATTTGTCTTTCAAAAATGTTCGTTTTATTA
564 TATTAAACATTTTTTATGTATATATATATTTGCATATTTGTCTTTCAAAAATGTTCGTTTTATTA
7378376 AAGTATTAAAATCATTTTATTTTTAAAATTTTTAAATATTTGGCATTTACGTTTTTCGAGAGGGA
629 AAGTATTAAAATCATTTTATTTTTAAAATTTTTAAATATTTGGCATTTACGTTTTTCGAGAGGGA
7378441 TCGTGTCCTAACTTACTGGCCTTCGATTCTATTCGATGAATTTAGAGGGCCAAATATTTATTTTA
694 TCGTGTCCTAACTTACTGGCCTTCGATTCTATTCGATGAATTTAGAGGGCCAAATATTTATTTTA
7378506 CAAAAAATTTGTACATATTTCAAATAAAATCTTATTCTCGGGAATTCAAAATGTTGGGTCCTAAC
759 CAAAAAATTTGTACATATTTCAAATAAAATCTTATTCTCGGGAATTCAAAATGTTGGGTCCTAAC
7378571 TTACTGGTCACGACATTTTGTCATCTCGAAATAAGAATTTCTACATAAATAAATAATTGTAATAT
824 TTACTGGTCACGACATTTTGTCATCTCGAAATAAGAATTTCTACATAAATAAATAATTGTAATAT
7378636 TCGGTATTTGGAATTTTGAGAAATTGTGCCCTAACTTACTGG
889 TCGGTATTTGGAATTTTGAGAAATTGTGCCCTAACTTACTGG
7378678 GTATCGATAA
Statistics
Matches: 853, Mismatches: 58, Indels: 47
0.89 0.06 0.05
Matches are distributed among these distances:
932 3 0.00
933 398 0.47
934 4 0.00
935 4 0.00
936 360 0.42
937 14 0.02
938 1 0.00
939 10 0.01
940 15 0.02
941 4 0.00
942 3 0.00
943 1 0.00
945 3 0.00
946 11 0.01
947 4 0.00
948 15 0.02
949 3 0.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.40
Consensus pattern (930 bp):
ACGTAACATTTCAAACATAAGTGACTAAAACGTAACCTAAGGTATACAAAAGTGACCATGGGTGT
AGTTTACCCTTTATTTTAAACAACAAAAGCAAAACGGCGCTGTATAAGCCAGGTCTGCCCAATAG
CCCGTGTGACCCGATTCAAAACCCGACCAGATCCGCGCACTTCTTTAAAAGGGGCCATTTGCGCA
ATTGGTCCCTTTGTTTTTACAGTGTTTTTTTAATTAAATTTCTTAATTCTTTTAAATTTTACTGC
ACATTTTAATATTGTTTCAATTCGGTTCATGTTGCTGCGCAGTGTTTTGGAGGTTTGGGTAAATT
TCTCTTTGGGTCCTCCACTGTTGATTAACTGTTCTAAATACAGTTCATATTTTATTTATAAATTT
AATTATTATTTTATTTAAATAACTCTTGTATACATGTATATATATACATATAATTTTATAATATA
TAATACAATTATCATGTATTATATAATACATTTCTATAATATATGTATACGTTTAAAAAAAAGAA
AAAAAATTGTTATAAATATATACATTTTATATATATATATATATATTAAACATTTTTTATGTATA
TATATATTTGCATATTTGTCTTTCAAAAATGTTCGTTTTATTAAAGTATTAAAATCATTTTATTT
TTAAAATTTTTAAATATTTGGCATTTACGTTTTTCGAGAGGGATCGTGTCCTAACTTACTGGCCT
TCGATTCTATTCGATGAATTTAGAGGGCCAAATATTTATTTTACAAAAAATTTGTACATATTTCA
AATAAAATCTTATTCTCGGGAATTCAAAATGTTGGGTCCTAACTTACTGGTCACGACATTTTGTC
ATCTCGAAATAAGAATTTCTACATAAATAAATAATTGTAATATTCGGTATTTGGAATTTTGAGAA
ATTGTGCCCTAACTTACTGG
Found at i:7386639 original size:12 final size:11
Alignment explanation
Indices: 7386621--7386651 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
7386611 TTATCAAACA
7386621 AAAAAAGAGAG
1 AAAAAAGAGAG
7386632 AGAAAAAGAGAG
1 A-AAAAAGAGAG
7386644 AAAAAAGA
1 AAAAAAGA
7386652 AGGAAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:7388246 original size:20 final size:21
Alignment explanation
Indices: 7388207--7388246 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7388197 GAATATATAA
*
7388207 TTAAAAGTGATTATATATTTT
1 TTAAAAGTGATTAAATATTTT
*
7388228 TTAAAAG-GCTTAAATATTT
1 TTAAAAGTGATTAAATATTT
7388247 AAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TTAAAAGTGATTAAATATTTT
Found at i:7392001 original size:23 final size:23
Alignment explanation
Indices: 7391975--7392027 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
7391965 ATAAGTGCCA
*
7391975 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
7391998 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
7392021 CACTGAT
1 CACTGAT
7392028 CAATAACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:7392279 original size:18 final size:17
Alignment explanation
Indices: 7392253--7392291 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7392243 ATTTTCCTTC
7392253 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
7392270 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
7392288 CACA
1 CACA
7392292 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:7399000 original size:29 final size:29
Alignment explanation
Indices: 7398945--7399011 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
7398935 AAAGGGACCT
* * *
7398945 GATCAAATTAATCCCTCTATTATTAAACA
1 GATCAAATTAATCCCTCTACTACTAAAAA
* * *
7398974 GATCAATTTAGTCCCTGTACTACTAAAAA
1 GATCAAATTAATCCCTCTACTACTAAAAA
7399003 GAATCAAAT
1 G-ATCAAAT
7399012 AAAACCAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (29 bp):
GATCAAATTAATCCCTCTACTACTAAAAA
Found at i:7399773 original size:26 final size:21
Alignment explanation
Indices: 7399724--7399766 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7399714 TCACACAAAG
7399724 AAAACTTTTTTGTTTCATTTC
1 AAAACTTTTTTGTTTCATTTC
7399745 AAAACTTTTTTGTTTCATTTC
1 AAAACTTTTTTGTTTCATTTC
7399766 A
1 A
7399767 GAACAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.56
Consensus pattern (21 bp):
AAAACTTTTTTGTTTCATTTC
Found at i:7400721 original size:165 final size:166
Alignment explanation
Indices: 7400449--7400779 Score: 655
Period size: 165 Copynumber: 2.0 Consensus size: 166
7400439 TTTGGAATGT
7400449 AGGCAGCTTTTTTCCTTTTCTAGATTGCTATTGGTTAATCATAGCTACAACTTGCGCAAGTGGCC
1 AGGCAGCTTTTTTCCTTTTCTAGATTGCTATTGGTTAATCATAGCTACAACTTGCGCAAGTGGCC
7400514 TCCTAATCTTTAATTTCAGATTCATTACTAAGATAGACAAATATCCTTTCAAAAAAATATTATAT
66 TCCTAATCTTTAATTTCAGATTCATTACTAAGATAGACAAATATCCTTTCAAAAAAATATTATAT
7400579 TATATAATTTTTAATAAAGATAT-AATAATCATTAA
131 TATATAATTTTTAATAAAGATATAAATAATCATTAA
7400614 AGGCAGCTTTTTTCCTTTTCTAGATTGCTATTGGTTAATCATAGCTACAACTTGCGCAAGTGGCC
1 AGGCAGCTTTTTTCCTTTTCTAGATTGCTATTGGTTAATCATAGCTACAACTTGCGCAAGTGGCC
7400679 TCCTAATCTTTAATTTCAGATTCATTACTAAGATAGACAAATATCCTTTCAAAAAAATATTATAT
66 TCCTAATCTTTAATTTCAGATTCATTACTAAGATAGACAAATATCCTTTCAAAAAAATATTATAT
7400744 TATATAATTTTTAATAAAGATATAAATAATCATTAA
131 TATATAATTTTTAATAAAGATATAAATAATCATTAA
7400780 TGTTTTATTC
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 153 0.93
166 12 0.07
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (166 bp):
AGGCAGCTTTTTTCCTTTTCTAGATTGCTATTGGTTAATCATAGCTACAACTTGCGCAAGTGGCC
TCCTAATCTTTAATTTCAGATTCATTACTAAGATAGACAAATATCCTTTCAAAAAAATATTATAT
TATATAATTTTTAATAAAGATATAAATAATCATTAA
Found at i:7451215 original size:12 final size:12
Alignment explanation
Indices: 7451200--7451224 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7451190 AACAAGAAAA
7451200 ACAATAACAACG
1 ACAATAACAACG
7451212 ACAATAACAACG
1 ACAATAACAACG
7451224 A
1 A
7451225 AAACAAGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.24, G:0.08, T:0.08
Consensus pattern (12 bp):
ACAATAACAACG
Found at i:7461193 original size:21 final size:23
Alignment explanation
Indices: 7461151--7461193 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
7461141 TAAGTAATCA
*
7461151 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
7461174 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
7461194 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:7461238 original size:21 final size:21
Alignment explanation
Indices: 7461214--7461269 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
7461204 CTAAACAATT
*
7461214 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
7461235 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
7461255 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
7461270 CAATTTGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Found at i:7461255 original size:20 final size:23
Alignment explanation
Indices: 7461225--7461269 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
7461215 AGAAAAAGAG
7461225 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
7461246 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
7461268 AA
1 AA
7461270 CAATTTGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:7464429 original size:13 final size:13
Alignment explanation
Indices: 7464411--7464448 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
7464401 AGTTTCCAAA
7464411 TTTTCAAATTAAG
1 TTTTCAAATTAAG
7464424 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
*
7464438 ATTTCAAATTA
1 TTTTCAAATTA
7464449 CAAATATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:7472475 original size:89 final size:90
Alignment explanation
Indices: 7472373--7472553 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 90
7472363 CATGACACCA
7472373 ACTCAGTTAAAGACTTAATTTAAAGTCGTTTTTCTATATTTATAATATATTATAATATTATTCTT
1 ACTCAGTTAAAGACTTAATTTAAAGTCGTTTTTCTATATTTATAATATATTATAATATTATTCTT
7472438 TTATATATAGTATAT-GTTTATAGT
66 TTATATATAGTATATAGTTTATAGT
7472462 ACTCAGTTAAAGACTTAATTTAAAGTCGTTTTTCTATATTTATAATATATTATAATATTATTCTT
1 ACTCAGTTAAAGACTTAATTTAAAGTCGTTTTTCTATATTTATAATATATTATAATATTATTCTT
7472527 TTATATATAGTATATAGTTTATAGT
66 TTATATATAGTATATAGTTTATAGT
7472552 AC
1 AC
7472554 ATAAAAACTA
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 80 0.88
90 11 0.12
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (90 bp):
ACTCAGTTAAAGACTTAATTTAAAGTCGTTTTTCTATATTTATAATATATTATAATATTATTCTT
TTATATATAGTATATAGTTTATAGT
Found at i:7473862 original size:31 final size:31
Alignment explanation
Indices: 7473820--7473882 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7473810 ATAACATTCA
* * *
7473820 GTACTTGAACTTGATTTTTTTTTCTAATTTG
1 GTACTTAAACTTGATATTTTTTCCTAATTTG
*
7473851 GTACTTAAACTTGGTATTTTTTCCTAATTTG
1 GTACTTAAACTTGATATTTTTTCCTAATTTG
7473882 G
1 G
7473883 CACCTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (31 bp):
GTACTTAAACTTGATATTTTTTCCTAATTTG
Found at i:7477179 original size:18 final size:18
Alignment explanation
Indices: 7477135--7477181 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
7477125 TCAAGGTCAC
*
7477135 CATCAATAGCATCACTAG
1 CATCAATATCATCACTAG
* *
7477153 CATCAATATCGTCACTAT
1 CATCAATATCATCACTAG
7477171 CATCAATATCA
1 CATCAATATCA
7477182 ATATCATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (18 bp):
CATCAATATCATCACTAG
Found at i:7477180 original size:9 final size:9
Alignment explanation
Indices: 7477135--7477193 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
7477125 TCAAGGTCAC
*
7477135 CATCAATAG
1 CATCAATAT
* *
7477144 CATCACTAG
1 CATCAATAT
7477153 CATCAATAT
1 CATCAATAT
* *
7477162 CGTCACTAT
1 CATCAATAT
7477171 CATC-A-AT
1 CATCAATAT
7477178 -ATCAATAT
1 CATCAATAT
7477186 CATCAATA
1 CATCAATA
7477194 AGAAAAACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 2 0.05
9 32 0.80
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (9 bp):
CATCAATAT
Found at i:7485309 original size:7 final size:7
Alignment explanation
Indices: 7485297--7485321 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7485287 TATGAGATAC
7485297 ATAATAA
1 ATAATAA
7485304 ATAATAA
1 ATAATAA
7485311 ATAATAA
1 ATAATAA
7485318 ATAA
1 ATAA
7485322 AAGATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAA
Found at i:7486233 original size:21 final size:21
Alignment explanation
Indices: 7486181--7486239 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
7486171 ACGATAAATT
*
7486181 AAAATTAGTAATATA-TTAAACT
1 AAAA-TAG-AATATATTTAAACC
*
7486203 TAAATA-AATATATTTAAACC
1 AAAATAGAATATATTTAAACC
*
7486223 AAAATAGAATAAATTTA
1 AAAATAGAATATATTTA
7486240 CAGTTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 6 0.19
20 11 0.35
21 11 0.35
22 3 0.10
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAATAGAATATATTTAAACC
Found at i:7486679 original size:28 final size:29
Alignment explanation
Indices: 7486640--7486694 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
7486630 TCACAAAAAA
**
7486640 TATTATTTTAGAGTTTTTAA-ATTTTTTT
1 TATTATTTTAGAAATTTTAATATTTTTTT
*
7486668 TATTTTTTTAGAAATTTTAATATTTTT
1 TATTATTTTAGAAATTTTAATATTTTT
7486695 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (29 bp):
TATTATTTTAGAAATTTTAATATTTTTTT
Found at i:7486833 original size:19 final size:19
Alignment explanation
Indices: 7486796--7486852 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
7486786 TTTTTTTAAA
7486796 TATAAA-ATTTAAAATTTT
1 TATAAATATTTAAAATTTT
7486814 TATAAATATTTGAAAA-TTT
1 TATAAATATTT-AAAATTTT
* *
7486833 TAAAAATATTTATAATTTT
1 TATAAATATTTAAAATTTT
7486852 T
1 T
7486853 TTATATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 9 0.26
19 21 0.62
20 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TATAAATATTTAAAATTTT
Found at i:7487099 original size:40 final size:39
Alignment explanation
Indices: 7487051--7487173 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 39
7487041 ATAAAGCAGG
7487051 AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
1 AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
** * *
7487090 AAAACCGCTTCCTCAATGAAGCGCTTTGTCCACGTGAACA
1 AAAA-CGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
*
7487130 GAAAACGCTTCCTTGAGGGAGCGCTTTATGTCCACGTGGACA
1 -AAAACGCTTCCTTGAGGAAGCGC-TT-TGTCCACGTGGACA
7487172 AA
1 AA
7487174 GTACTTCCTC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.06
40 46 0.65
41 8 0.11
42 13 0.18
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (39 bp):
AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
Found at i:7487575 original size:95 final size:95
Alignment explanation
Indices: 7487344--7488004 Score: 1209
Period size: 95 Copynumber: 6.9 Consensus size: 95
7487334 TTTAGATTAG
* * * * * *
7487344 GGTTTAGTGTTTATGGTTTTTAAGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGAAA
1 GGTTTAGTATTTAGGGTTTTTAAG-GAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAA
7487409 ATTAATTATAAATTTTTAAAAAAAT-AGATT-A
65 ATTAATTATAAA--TTTAAAAAAATCAGATTGA
*
7487440 GGGTTTAGTGTTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAA
1 -GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAA
7487505 ATTAATTATAAATTTAAAAAAATCAGATTGA
65 ATTAATTATAAATTTAAAAAAATCAGATTGA
7487536 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
1 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
7487601 TTAATTATAAATTTAAAAAAATCAGATTGA
66 TTAATTATAAATTTAAAAAAATCAGATTGA
7487631 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
1 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
7487696 TTAATTATAAATTTAAAAAAATCAGATTGA
66 TTAATTATAAATTTAAAAAAATCAGATTGA
7487726 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
1 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
7487791 TTAATTATAAATTTAAAAAAATCAGATTGA
66 TTAATTATAAATTTAAAAAAATCAGATTGA
7487821 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
1 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
7487886 TTAATTATAAATTTAAAAAAATCAGATTGA
66 TTAATTATAAATTTAAAAAAATCAGATTGA
7487916 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
1 GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
7487981 TTAATTATAAATTTAAAAAAATCA
66 TTAATTATAAATTTAAAAAAATCA
7488005 TAATTTTTTA
Statistics
Matches: 556, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
94 11 0.02
95 473 0.85
96 49 0.09
97 23 0.04
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (95 bp):
GGTTTAGTATTTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGAGTAAA
TTAATTATAAATTTAAAAAAATCAGATTGA
Found at i:7490286 original size:17 final size:17
Alignment explanation
Indices: 7490243--7490286 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
7490233 TATTAAATTG
7490243 AATTAAGATTTATATAT
1 AATTAAGATTTATATAT
7490260 AATTTTAAGATTTAT-TATT
1 AA--TTAAGATTTATATA-T
7490279 AATTAAGA
1 AATTAAGA
7490287 GTAGATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 14 0.58
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (17 bp):
AATTAAGATTTATATAT
Found at i:7491007 original size:7 final size:7
Alignment explanation
Indices: 7490988--7491027 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
7490978 TATATCAAAT
7490988 ACAATTAA
1 ACAATT-A
*
7490996 ATAATTA
1 ACAATTA
*
7491003 ATAATTA
1 ACAATTA
7491010 ACAATTA
1 ACAATTA
7491017 ACAATTA
1 ACAATTA
7491024 ACAA
1 ACAA
7491028 CTTTTCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (7 bp):
ACAATTA
Found at i:7512123 original size:31 final size:32
Alignment explanation
Indices: 7512062--7512124 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
7512052 TTACAAAATT
*
7512062 ATCACTTAAACTATTCAAAAATTTTCATTTAA
1 ATCACTTAAACTATTCAAAAAATTTCATTTAA
7512094 ATCA-TTAAACTATTCAAAAAAATTT-ATTTAA
1 ATCACTTAAACTATTC-AAAAAATTTCATTTAA
7512125 GTTATTGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.40
Consensus pattern (32 bp):
ATCACTTAAACTATTCAAAAAATTTCATTTAA
Found at i:7516872 original size:30 final size:32
Alignment explanation
Indices: 7516833--7516891 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
7516823 AAAATTTAAA
7516833 ATTCGAAAAA-TATAATAACTAAAATTAACCC
1 ATTCGAAAAAGTATAATAACTAAAATTAACCC
* *
7516864 ATTC-AAAAAGTATAATGACTAAATTTAA
1 ATTCGAAAAAGTATAATAACTAAAATTAA
7516892 TCAAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (32 bp):
ATTCGAAAAAGTATAATAACTAAAATTAACCC
Found at i:7522773 original size:2 final size:2
Alignment explanation
Indices: 7522768--7522798 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7522758 AAAAAAAAAC
*
7522768 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7522799 GAACATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7524497 original size:33 final size:35
Alignment explanation
Indices: 7524460--7524525 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
7524450 GTTAGTGGCT
*
7524460 GAAATTTGTCCGTGA-TTTC-TTTTGAGAATCATC
1 GAAATTTGTCAGTGATTTTCTTTTTGAGAATCATC
*
7524493 GAAATTTGTTAGTGATTTTCTTTTTGAGAATCA
1 GAAATTTGTCAGTGATTTTCTTTTTGAGAATCA
7524526 CAGACTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 4 0.14
35 12 0.41
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (35 bp):
GAAATTTGTCAGTGATTTTCTTTTTGAGAATCATC
Found at i:7528272 original size:6 final size:6
Alignment explanation
Indices: 7528261--7528292 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
7528251 GAATTTTGTG
7528261 GAATGT GAATGT GAATGT GAATGT GAATGT GA
1 GAATGT GAATGT GAATGT GAATGT GAATGT GA
7528293 GTTATAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (6 bp):
GAATGT
Found at i:7539759 original size:13 final size:13
Alignment explanation
Indices: 7539741--7539765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7539731 ACTTTGAGTC
7539741 AAAAAAATGAAAT
1 AAAAAAATGAAAT
7539754 AAAAAAATGAAA
1 AAAAAAATGAAA
7539766 AAATGAAAAA
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAAAATGAAAT
Found at i:7541139 original size:87 final size:87
Alignment explanation
Indices: 7541006--7542100 Score: 1967
Period size: 87 Copynumber: 12.6 Consensus size: 87
7540996 GACATCAGAT
* ** * * * *
7541006 CTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAATCCTTGCCTCCATCGGTTACAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
* * *
7541071 GAGCTGGTTGAAGATAGCAGAT
66 GAGCTGGTTAAAGATAGCATAC
* *
7541093 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541158 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541180 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541245 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541267 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541332 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541354 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541419 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541441 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541506 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541528 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541593 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541615 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541680 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541702 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541767 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541789 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541854 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541876 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
7541941 GAGCTGGTTAAAGATAGCATAC
66 GAGCTGGTTAAAGATAGCATAC
7541963 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
* * ** * *
7542028 GAGCTGGTTGAAGACAAAAGAT
66 GAGCTGGTTAAAGATAGCATAC
* * * *
7542050 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTC-AAAGACACAAACCTTGCCT
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAA-ACA-AAGCCTTGCCT
7542101 CTCTCAGTTG
Statistics
Matches: 986, Mismatches: 20, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
86 3 0.00
87 973 0.99
88 10 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (87 bp):
CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
GAGCTGGTTAAAGATAGCATAC
Found at i:7544580 original size:3 final size:3
Alignment explanation
Indices: 7544572--7544630 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
7544562 NNNNNNNNNN
7544572 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7544620 ATT ATT ATT AT
1 ATT ATT ATT AT
7544631 GTTTATACTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7544717 original size:5 final size:5
Alignment explanation
Indices: 7544709--7544734 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7544699 TATATGTACA
7544709 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
7544735 GTGTGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:7554001 original size:40 final size:40
Alignment explanation
Indices: 7553957--7554047 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 40
7553947 TCCCCTAGGG
*
7553957 CGCGATTTCC-GTCCATGTCAGC-AAATCGCGCTGACATGGA
1 CGCGATTTCCTG-CCATGT-ACCTAAATCGCGCTGACATGGA
* * *
7553997 CGCGATGTCCTGCCATGTACCTTGACATCGCGCTGACGTGGA
1 CGCGATTTCCTGCCATGTACC-T-AAATCGCGCTGACATGGA
7554039 CGCGATTTC
1 CGCGATTTC
7554048 GCGGAAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
39 2 0.05
40 15 0.36
41 1 0.02
42 24 0.57
ACGTcount: A:0.19, C:0.31, G:0.26, T:0.24
Consensus pattern (40 bp):
CGCGATTTCCTGCCATGTACCTAAATCGCGCTGACATGGA
Found at i:7567733 original size:7 final size:7
Alignment explanation
Indices: 7567721--7567749 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
7567711 TCCTTTTCAC
7567721 GATCAAT
1 GATCAAT
7567728 GATCAAT
1 GATCAAT
7567735 GATCAAT
1 GATCAAT
7567742 GATCAAT
1 GATCAAT
7567749 G
1 G
7567750 TCGTTTGGAT
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:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (7 bp):
GATCAAT
Found at i:7572433 original size:88 final size:90
Alignment explanation
Indices: 7572313--7572490 Score: 342
Period size: 88 Copynumber: 2.0 Consensus size: 90
7572303 AAATATTTAA
7572313 GTGAGATATTTCATTTCTATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTA
1 GTGAGATATTTCATTTCTATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTA
7572378 AACTCCACAAGAGAGGATTGATAAG
66 AACTCCACAAGAGAGGATTGATAAG
7572403 GTGAGATA-TT-ATTTCTATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTA
1 GTGAGATATTTCATTTCTATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTA
7572466 AACTCCACAAGAGAGGATTGATAAG
66 AACTCCACAAGAGAGGATTGATAAG
7572491 TGTAAAGTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
88 78 0.89
89 2 0.02
90 8 0.09
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.37
Consensus pattern (90 bp):
GTGAGATATTTCATTTCTATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTA
AACTCCACAAGAGAGGATTGATAAG
Found at i:7572518 original size:88 final size:88
Alignment explanation
Indices: 7572331--7572521 Score: 282
Period size: 88 Copynumber: 2.2 Consensus size: 88
7572321 TTTCATTTCT
7572331 ATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTAAACTCCACAAGAGAGGAT
1 ATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTAAACTCCACAAGAGAGGAT
* * ***
7572396 TGATAAGGTGAGATATTATTTCT
66 TGATAAGGTAAGATATTAGTAAA
7572419 ATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTAAACTCCACAAGAGAGGAT
1 ATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTAAACTCCACAAGAGAGGAT
7572484 TGATAAGTGTAA-AGTA-TAGTAAA
66 TGATAAG-GTAAGA-TATTAGTAAA
*
7572507 ATA-TTTAAAAA-AATA
1 ATAGGTTAAAAAGAATA
7572522 GACACATGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
86 4 0.04
87 7 0.07
88 79 0.83
89 5 0.05
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.35
Consensus pattern (88 bp):
ATAGGTTAAAAAGAATAATATTTAGTATATTGTAAATATAATTTTTAAACTCCACAAGAGAGGAT
TGATAAGGTAAGATATTAGTAAA
Found at i:7594285 original size:12 final size:12
Alignment explanation
Indices: 7594265--7594312 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
7594255 ATACATCATT
7594265 AACAACTAATAA
1 AACAACTAATAA
* *
7594277 AACAGCTAACAA
1 AACAACTAATAA
*
7594289 GAATAACTAATAA
1 -AACAACTAATAA
7594302 AACAACTAATA
1 AACAACTAATA
7594313 TGAGCAGCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.62, C:0.17, G:0.04, T:0.17
Consensus pattern (12 bp):
AACAACTAATAA
Found at i:7595735 original size:22 final size:22
Alignment explanation
Indices: 7595681--7595724 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7595671 TGTTCACCTG
7595681 GTATGCTTTTTCTAAAAATACT
1 GTATGCTTTTTCTAAAAATACT
7595703 GTATGCTTTTTCTAAAAATACT
1 GTATGCTTTTTCTAAAAATACT
7595725 TTCTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (22 bp):
GTATGCTTTTTCTAAAAATACT
Found at i:7597731 original size:46 final size:46
Alignment explanation
Indices: 7597664--7597757 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
7597654 ATCAAAAGAA
7597664 TGTGAATAATCTGGGTCCCTCTTAGCAGCATCAAGGTTGTTGTGTG
1 TGTGAATAATCTGGGTCCCTCTTAGCAGCATCAAGGTTGTTGTGTG
*
7597710 TGTGAATAATCTGGGTCCCTCTTAGGAGCATCAAGGTTGTTGTGTG
1 TGTGAATAATCTGGGTCCCTCTTAGCAGCATCAAGGTTGTTGTGTG
7597756 TG
1 TG
7597758 ATGAGTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (46 bp):
TGTGAATAATCTGGGTCCCTCTTAGCAGCATCAAGGTTGTTGTGTG
Found at i:7600605 original size:3 final size:3
Alignment explanation
Indices: 7600597--7600628 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7600587 TCCAATGAAC
7600597 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7600629 CAAATTTCAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7603226 original size:21 final size:21
Alignment explanation
Indices: 7603200--7603258 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
7603190 TCACTAACCC
*
7603200 TGGTCAAAATTATTTTGAAAG
1 TGGTCAAAATTATATTGAAAG
*
7603221 TGGTCAAAATTATATTGGAAG
1 TGGTCAAAATTATATTGAAAG
7603242 TGGTCAAAATTATATTG
1 TGGTCAAAATTATATTG
7603259 TTGGTCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.37
Consensus pattern (21 bp):
TGGTCAAAATTATATTGAAAG
Found at i:7603288 original size:19 final size:17
Alignment explanation
Indices: 7603220--7603286 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 17
7603210 TATTTTGAAA
7603220 GTGGTCAAAATTATATT
1 GTGGTCAAAATTATATT
7603237 GGAAGTGGTCAAAATTATATT
1 ----GTGGTCAAAATTATATT
7603258 GTTGGTCAAAATTATGATT
1 G-TGGTCAAAATTAT-ATT
7603277 GTGGTCAAAA
1 GTGGTCAAAA
7603287 ATGGTTTGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.02
18 22 0.50
19 4 0.09
21 17 0.39
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (17 bp):
GTGGTCAAAATTATATT
Found at i:7603463 original size:18 final size:18
Alignment explanation
Indices: 7603442--7603493 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
7603432 GATGGGATTG
*
7603442 ATGGTGCTATTGGGCCGA
1 ATGGTGGTATTGGGCCGA
*
7603460 ATGGTGGTGTTGGGCCGA
1 ATGGTGGTATTGGGCCGA
7603478 A-GGATGGTATTGGGCC
1 ATGG-TGGTATTGGGCC
7603494 ACATAGTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 2 0.07
18 28 0.93
ACGTcount: A:0.15, C:0.13, G:0.44, T:0.27
Consensus pattern (18 bp):
ATGGTGGTATTGGGCCGA
Found at i:7607310 original size:23 final size:23
Alignment explanation
Indices: 7607284--7607337 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
7607274 TACTAAATAA
* *
7607284 ATTAATAACAAT-AAAATAATAT
1 ATTAATAAAAATCAAAATAAAAT
*
7607306 CATTAA-AAAAATCAAATTAAAAT
1 -ATTAATAAAAATCAAAATAAAAT
7607329 ATTAATAAA
1 ATTAATAAA
7607338 CTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTAATAAAAATCAAAATAAAAT
Found at i:7609333 original size:88 final size:89
Alignment explanation
Indices: 7609224--7609401 Score: 349
Period size: 88 Copynumber: 2.0 Consensus size: 89
7609214 TTGATGACAT
7609224 AATCATAACTGGAGGTTCATCATCTTCTATTGACTGGTTTGTGAAGCTGCTGAATGATGAGTTCT
1 AATCATAACTGGAGGTTCATCATCTTCTATTGACTGGTTTGTGAAGCTGCTGAATGATGAGTTCT
7609289 CGCTCAAAGATATGGGAAGTCTGC
66 CGCTCAAAGATATGGGAAGTCTGC
7609313 AATCATAACT-GAGGTTCATCATCTTCTATTGACTGGTTTGTGAAGCTGCTGAATGATGAGTTCT
1 AATCATAACTGGAGGTTCATCATCTTCTATTGACTGGTTTGTGAAGCTGCTGAATGATGAGTTCT
7609377 CGCTCAAAGATATGGGAAGTCTGC
66 CGCTCAAAGATATGGGAAGTCTGC
7609401 A
1 A
7609402 TTAATTTCTG
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 79 0.89
89 10 0.11
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (89 bp):
AATCATAACTGGAGGTTCATCATCTTCTATTGACTGGTTTGTGAAGCTGCTGAATGATGAGTTCT
CGCTCAAAGATATGGGAAGTCTGC
Found at i:7614775 original size:14 final size:14
Alignment explanation
Indices: 7614758--7614784 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7614748 TTTTTTTTTT
7614758 TTTTTCCCTTTCCC
1 TTTTTCCCTTTCCC
7614772 TTTTTCCCTTTCC
1 TTTTTCCCTTTCC
7614785 ATTCCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTTCCCTTTCCC
Found at i:7615299 original size:22 final size:23
Alignment explanation
Indices: 7615256--7615299 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
7615246 TAAAGAAAAA
* *
7615256 AAAAGTGTATAAAAGAATAAGAG
1 AAAAGTGTATAAAAAAAAAAGAG
*
7615279 AAAATTGT-TAAAAAAAAAAGA
1 AAAAGTGTATAAAAAAAAAAGA
7615300 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (23 bp):
AAAAGTGTATAAAAAAAAAAGAG
Found at i:7619628 original size:25 final size:26
Alignment explanation
Indices: 7619579--7619629 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7619569 GTTAAATAAG
*
7619579 ATTTGATTTTAATTATTATATTTAAA
1 ATTTGATTTTAATTATTATACTTAAA
*
7619605 ATTTGGTTTTAATT-TTATACTTAAA
1 ATTTGATTTTAATTATTATACTTAAA
7619630 TAATAAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (26 bp):
ATTTGATTTTAATTATTATACTTAAA
Found at i:7621808 original size:39 final size:39
Alignment explanation
Indices: 7621754--7621832 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
7621744 AGAGAGTGAC
*
7621754 TAATTTAATCGTTCATCTATCGTACGTGGACCGATTTGA
1 TAATTTAATCATTCATCTATCGTACGTGGACCGATTTGA
7621793 TAATTTAATCATTCATCTATCGTACGTGGACCGATTTGA
1 TAATTTAATCATTCATCTATCGTACGTGGACCGATTTGA
7621832 T
1 T
7621833 CTTCTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (39 bp):
TAATTTAATCATTCATCTATCGTACGTGGACCGATTTGA
Found at i:7632348 original size:24 final size:22
Alignment explanation
Indices: 7632305--7632348 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
7632295 TTAATATTAA
* *
7632305 AGAAAAAGATAAACTGATTTTC
1 AGAAAAAAATAAAATGATTTTC
7632327 AGAAAAAAATAATAATGTATTT
1 AGAAAAAAATAA-AATG-ATTT
7632349 GGTAATCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 3 0.17
24 4 0.22
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (22 bp):
AGAAAAAAATAAAATGATTTTC
Found at i:7634128 original size:38 final size:34
Alignment explanation
Indices: 7634086--7634156 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
7634076 ATATTAATAG
7634086 ATTATAATTTAAATAATATTATTAATAAAAATGTTAAA
1 ATTAT-ATTTAAAT-AT-TTATTAATAAAAA-GTTAAA
* *
7634124 ATTATATTTTAATATTTATTAATTAAAAGTTAA
1 ATTATATTTAAATATTTATTAATAAAAAGTTAA
7634157 TTTAATTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 5 0.16
35 12 0.39
36 2 0.06
37 7 0.23
38 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (34 bp):
ATTATATTTAAATATTTATTAATAAAAAGTTAAA
Found at i:7634181 original size:6 final size:6
Alignment explanation
Indices: 7634170--7634196 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7634160 AATTAAGTGA
7634170 AATCTT AATCTT AATCTT AATCTT AAT
1 AATCTT AATCTT AATCTT AATCTT AAT
7634197 ATTATACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (6 bp):
AATCTT
Found at i:7636491 original size:13 final size:13
Alignment explanation
Indices: 7636473--7636499 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7636463 TTTTTGATGT
7636473 ATTATATATAAAA
1 ATTATATATAAAA
7636486 ATTATATATAAAA
1 ATTATATATAAAA
7636499 A
1 A
7636500 ACTAATATGG
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTATATATAAAA
Found at i:7638660 original size:17 final size:19
Alignment explanation
Indices: 7638624--7638660 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
7638614 TATCTTAAAT
*
7638624 TTTAATATTTTTATTTGGA
1 TTTAATATTTTTATTAGGA
7638643 TTTAAT-TTTTT-TTAGGA
1 TTTAATATTTTTATTAGGA
7638660 T
1 T
7638661 GAAAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
TTTAATATTTTTATTAGGA
Found at i:7639472 original size:15 final size:15
Alignment explanation
Indices: 7639447--7639481 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7639437 AACTCTGTTT
*
7639447 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
7639461 TAATTAATATTAAGA
1 TAATTAATATTAAGA
7639476 TAATTA
1 TAATTA
7639482 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:7648827 original size:22 final size:21
Alignment explanation
Indices: 7648796--7648862 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
7648786 AGAAACTAAG
7648796 AAAATCTATATAATTATTTTTTA
1 AAAAT-TATA-AATTATTTTTTA
**
7648819 AAAATTATAAA-TATAATTTA
1 AAAATTATAAATTATTTTTTA
* *
7648839 AATATTACTAAATTAATTTTTA
1 AAAATTA-TAAATTATTTTTTA
7648861 AA
1 AA
7648863 CCATTATCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 13 0.36
21 6 0.17
22 12 0.33
23 5 0.14
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATTATAAATTATTTTTTA
Found at i:7650188 original size:19 final size:19
Alignment explanation
Indices: 7650143--7650182 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7650133 AGTTCATGTT
* *
7650143 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
7650162 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
7650181 TT
1 TT
7650183 AGATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:7660219 original size:19 final size:19
Alignment explanation
Indices: 7660174--7660213 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7660164 AGTTCATGTT
* *
7660174 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
7660193 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
7660212 TT
1 TT
7660214 AGATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:7660515 original size:45 final size:45
Alignment explanation
Indices: 7660407--7660639 Score: 310
Period size: 45 Copynumber: 5.2 Consensus size: 45
7660397 TAGTAGTGAT
* *
7660407 AGTAACAGTATTCAACACACAAAGTGTCGAATCTGTAACAGT-AC
1 AGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAAC
* * * * *
7660451 GGGAACAGTATTC-AGCACACAAAGTGCCAAATCGGTAATAGTAAC
1 AGTAACAGTATTCGA-CACACAAAGTGTCGAATCGGTAACAGTAAC
* * *
7660496 GGTAACAGTATTCGCCACACAAAGTGTCGAATCGATAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAAC
* *
7660541 AGTAATAGTATTCGACACACAAAGTGTCGATTCGGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAAC
* *
7660586 AGTAACAGTATTCGACACACAAAGTGTCAAATCGGTAATAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAAC
7660631 A-TAACAGTA
1 AGTAACAGTA
7660640 GTCGGCATAT
Statistics
Matches: 165, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.01
44 42 0.25
45 122 0.74
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
AGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAAC
Found at i:7660916 original size:39 final size:40
Alignment explanation
Indices: 7660839--7660924 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 40
7660829 AATTCATTAC
* * *
7660839 TTCAGTAATTTCACAGTTCAATGCAGTATACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTATACAAAACAATA
*
7660879 TTCAGTAACTTCACAATTCACT-CAGTACT-CAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTA-TACAAAACAATA
7660918 TTCAGTA
1 TTCAGTA
7660925 TTCCATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 21 0.51
40 20 0.49
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTATACAAAACAATA
Found at i:7668812 original size:20 final size:22
Alignment explanation
Indices: 7668789--7668840 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
7668779 TTAAATATTG
*
7668789 AAAATTAAA-CTTAACTAA-AA
1 AAAATTAAAGATTAACTAATAA
*
7668809 AAAATTAAAGATTAATTAATAA
1 AAAATTAAAGATTAACTAATAA
7668831 AAAATATAAA
1 AAAAT-TAAA
7668841 TGTTAATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 7 0.26
22 7 0.26
23 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATTAAAGATTAACTAATAA
Found at i:7672249 original size:17 final size:16
Alignment explanation
Indices: 7672221--7672256 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
7672211 GAATTTATCG
7672221 ATATTTAATATATAAA
1 ATATTTAATATATAAA
*
7672237 ATATTTAAATATATTAA
1 ATATTT-AATATATAAA
7672254 ATA
1 ATA
7672257 AATTAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTTAATATATAAA
Found at i:7679137 original size:20 final size:19
Alignment explanation
Indices: 7679114--7679152 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
7679104 TAAGCACAAC
*
7679114 TAAATAATAATAATTATAAA
1 TAAATAATAA-AATCATAAA
7679134 TAAATAATAAAATCATAAA
1 TAAATAATAAAATCATAAA
7679153 CTCTAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATAATAAAATCATAAA
Found at i:7682183 original size:28 final size:27
Alignment explanation
Indices: 7682127--7682181 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
7682117 CCGCATGGTA
7682127 TAAAATACAATGGAACAATCCAGGGTT
1 TAAAATACAATGGAACAATCCAGGGTT
*
7682154 TAAAATATATATGGAA-AA-CCGAGGGTT
1 TAAAATACA-ATGGAACAATCC-AGGGTT
7682181 T
1 T
7682182 TAGAGGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 17 0.68
28 6 0.24
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (27 bp):
TAAAATACAATGGAACAATCCAGGGTT
Found at i:7701974 original size:22 final size:22
Alignment explanation
Indices: 7701946--7701989 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7701936 TCTCTGAAGC
7701946 CCCTTTCTTTTTCCTGAATGAA
1 CCCTTTCTTTTTCCTGAATGAA
7701968 CCCTTTCTTTTTCCTGAATGAA
1 CCCTTTCTTTTTCCTGAATGAA
7701990 TCTTCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (22 bp):
CCCTTTCTTTTTCCTGAATGAA
Found at i:7712335 original size:13 final size:13
Alignment explanation
Indices: 7712317--7712351 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
7712307 GATATCAAGT
7712317 TGAAAAAAAATCG
1 TGAAAAAAAATCG
7712330 TG-AAAAAAATCG
1 TGAAAAAAAATCG
7712342 TGAAAAAAAA
1 TGAAAAAAAA
7712352 AGAAGAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.66, C:0.06, G:0.14, T:0.14
Consensus pattern (13 bp):
TGAAAAAAAATCG
Found at i:7726992 original size:5 final size:5
Alignment explanation
Indices: 7726982--7727013 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
7726972 TGCACATACT
7726982 AATAG AATAG AATAG AATAG AATAG AATAG AA
1 AATAG AATAG AATAG AATAG AATAG AATAG AA
7727014 AATACTAATA
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:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AATAG
Found at i:7727043 original size:23 final size:23
Alignment explanation
Indices: 7726997--7727043 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7726987 AATAGAATAG
*
7726997 AATAGAATAGAATAGAAAATACT
1 AATAGAATAGAATAGAAAAAACT
*
7727020 AATATAATAGAA-AGAAAAGAACT
1 AATAGAATAGAATAGAAAA-AACT
7727043 A
1 A
7727044 CCCTACCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.64, C:0.04, G:0.13, T:0.19
Consensus pattern (23 bp):
AATAGAATAGAATAGAAAAAACT
Found at i:7730594 original size:52 final size:52
Alignment explanation
Indices: 7730516--7730620 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
7730506 TTTGAATTAG
*
7730516 ACTAATCAATTCTAACCATAACCTAAAAATCCAATCCAATCTACCAACACCT
1 ACTAATCAATTCTAACCATAACCTAAAAACCCAATCCAATCTACCAACACCT
* *
7730568 ACTAATCAATTCTAACCATAATCTAAAAACCCAATCCAATCTACCAGCACCT
1 ACTAATCAATTCTAACCATAACCTAAAAACCCAATCCAATCTACCAACACCT
7730620 A
1 A
7730621 ACAAAGTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (52 bp):
ACTAATCAATTCTAACCATAACCTAAAAACCCAATCCAATCTACCAACACCT
Found at i:7741031 original size:24 final size:24
Alignment explanation
Indices: 7740996--7741043 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7740986 AACACACCAT
7740996 AGCTCTTACGAGCATCCTGTTATA
1 AGCTCTTACGAGCATCCTGTTATA
* *
7741020 AGCTCTCT-CGAGCTTTCTGTTATA
1 AGCTCT-TACGAGCATCCTGTTATA
7741044 TGGTTCTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
AGCTCTTACGAGCATCCTGTTATA
Found at i:7741800 original size:410 final size:410
Alignment explanation
Indices: 7740804--7742030 Score: 2170
Period size: 410 Copynumber: 3.0 Consensus size: 410
7740794 TGTGTAACTA
*
7740804 ATTTGTGTATATTTGTATGTTTGAATTGAACGTCGTGTATATGTGAATTGTATAAATGCTATGAA
1 ATTTGTGTATATTTATATGTTTGAATTGAACGTCGTGTATATGTGAATTGTATAAATGCTATGAA
*
7740869 AATATGAAATTGATCACATGTTCAATAATGCCCGATAAGTAATATGTCCCGTTTGAATTAATGAA
66 AATATGAAATTGATCACATGTTCAATAATGCCCGATAAGTAATATGTCCTGTTTGAATTAATGAA
7740934 ATTCGATGGAAACATGATTTCTCGTATTGGTTGTGGTTCTGCATATGTTGTGAACACACCATAGC
131 ATTCGATGGAAACATGATTTCTCGTATTGGTTGTGGTTCTGCATATGTTGTGAACACACCATAGC
*
7740999 TCTTACGAGCATCCTGTTATAAGCTCTCTCGAGCTTTCTGTTATATGGTTCTTGCAAGCATCCCA
196 TCTTACGAGCATCCTGTTATAAGCTCTCTCGAGCTTTCCGTTATATGGTTCTTGCAAGCATCCCA
7741064 ATCGGTATTGACCCTGCATATGTTGCAGTCATACCGCAACTCTTTGTGAGCGTCCTGTTATATGA
261 ATCGGTATTGACCCTGCATATGTTGCAGTCATACCGCAACTCTTTGTGAGCGTCCTGTTATATGA
*
7741129 TCGGTATGGATCCTACATATAAAGCAGACATACCGCAGCTATTTA-GAGCGTCATGATATAAACT
326 TCGGTATGGATCCTACATATAAAGCAGACATACCGCAGCTATTTATGAGCGTCATGATATAGACT
7741193 CTTTGTGAGCTTCCTGATAT
391 CTTTGTGAGCTTCCTGATAT
7741213 ATTTGTGTATATTTATATGTTTGAATTGAACGTCGTGTATATGTGAATTGTATAAATGCTATGAA
1 ATTTGTGTATATTTATATGTTTGAATTGAACGTCGTGTATATGTGAATTGTATAAATGCTATGAA
7741278 AATATGAAATTGATCACATGTTCAATAATGCCCGATAAGTAATATGT-CTCGTTTGAATTAATGA
66 AATATGAAATTGATCACATGTTCAATAATGCCCGATAAGTAATATGTCCT-GTTTGAATTAATGA
*
7741342 AATTCGATGGAAACATGATTTCTCGTATTGGTTGTGGTTCTACATATGTTGTGAACACACCATAG
130 AATTCGATGGAAACATGATTTCTCGTATTGGTTGTGGTTCTGCATATGTTGTGAACACACCATAG
7741407 CTCTTACGAGCATCCTGTTATAAGCTCTCTCGAGCTTTCCGTTATATGGTTCTTGCAAGCATCCC
195 CTCTTACGAGCATCCTGTTATAAGCTCTCTCGAGCTTTCCGTTATATGGTTCTTGCAAGCATCCC
*
7741472 AATCGGTATTGACCCTGCATATGTTGCAGTCATACCGCAGCTCTTTGTGAGCGTCCTGTTATATG
260 AATCGGTATTGACCCTGCATATGTTGCAGTCATACCGCAACTCTTTGTGAGCGTCCTGTTATATG
*
7741537 ATCGGTATGGATCCTACATATAAAGCAGACATACAGCAGCTATTTATGAGCGTCATGATATAGAC
325 ATCGGTATGGATCCTACATATAAAGCAGACATACCGCAGCTATTTATGAGCGTCATGATATAGAC
7741602 TCTTTGTGAGCTTCCTGATAT
390 TCTTTGTGAGCTTCCTGATAT
7741623 ATTTGTGTATATTTATATGTTTGAATTGAACGTCGTGTATATGTGAATTGTATAAATGCTATGAA
1 ATTTGTGTATATTTATATGTTTGAATTGAACGTCGTGTATATGTGAATTGTATAAATGCTATGAA
* *
7741688 AATATGAAATTGATCGCATGTTCAATAATGCCTGATAAGTAATATGTCCTGTTTGAATTAATGAA
66 AATATGAAATTGATCACATGTTCAATAATGCCCGATAAGTAATATGTCCTGTTTGAATTAATGAA
* * * * *
7741753 ATTCGATGGAAACAGGATTTCCCATATTGGTTGTGGTTCTGCATATGTTGCGGACACACCATAGC
131 ATTCGATGGAAACATGATTTCTCGTATTGGTTGTGGTTCTGCATATGTTGTGAACACACCATAGC
* * * *
7741818 TCTTACGAGCATCCTGTTATAAGCTCTCTCGAGCTTCCCATTATATAGTTCTTGCGAGCATCCCA
196 TCTTACGAGCATCCTGTTATAAGCTCTCTCGAGCTTTCCGTTATATGGTTCTTGCAAGCATCCCA
* * * * ** *
7741883 ATCGGTATTAACCATGCATGTGTTACAGTCATACCGCAACTCTTTGTGAGCGTAATGTTATAAGA
261 ATCGGTATTGACCCTGCATATGTTGCAGTCATACCGCAACTCTTTGTGAGCGTCCTGTTATATGA
* * *
7741948 TCGGTATGGATCCTACATATAATGCGGACATACCGCAGCTATTTATGAGCGTCATGATATAGGCT
326 TCGGTATGGATCCTACATATAAAGCAGACATACCGCAGCTATTTATGAGCGTCATGATATAGACT
*
7742013 CCTTGTGAGCTTCCTGAT
391 CTTTGTGAGCTTCCTGAT
7742031 GTGGTTCGCT
Statistics
Matches: 783, Mismatches: 32, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
408 1 0.00
409 362 0.46
410 418 0.53
411 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (410 bp):
ATTTGTGTATATTTATATGTTTGAATTGAACGTCGTGTATATGTGAATTGTATAAATGCTATGAA
AATATGAAATTGATCACATGTTCAATAATGCCCGATAAGTAATATGTCCTGTTTGAATTAATGAA
ATTCGATGGAAACATGATTTCTCGTATTGGTTGTGGTTCTGCATATGTTGTGAACACACCATAGC
TCTTACGAGCATCCTGTTATAAGCTCTCTCGAGCTTTCCGTTATATGGTTCTTGCAAGCATCCCA
ATCGGTATTGACCCTGCATATGTTGCAGTCATACCGCAACTCTTTGTGAGCGTCCTGTTATATGA
TCGGTATGGATCCTACATATAAAGCAGACATACCGCAGCTATTTATGAGCGTCATGATATAGACT
CTTTGTGAGCTTCCTGATAT
Found at i:7742864 original size:17 final size:18
Alignment explanation
Indices: 7742842--7742875 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7742832 TAAATGAGTT
7742842 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
7742859 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
7742876 AATAAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:7743899 original size:25 final size:24
Alignment explanation
Indices: 7743833--7743944 Score: 122
Period size: 25 Copynumber: 4.7 Consensus size: 24
7743823 ATACGGATCA
* *
7743833 AATA-CAGAGAGCACGAATGTGCT
1 AATATCAGAGAGCACAAACGTGCT
* **
7743856 AA-A-CAAAGAGCACTGACGTGCT
1 AATATCAGAGAGCACAAACGTGCT
7743878 AAATATCAGAGAGCACAAACGTGCT
1 -AATATCAGAGAGCACAAACGTGCT
*
7743903 AATAATCAGAGAGCACCAACGTGCT
1 AAT-ATCAGAGAGCACAAACGTGCT
7743928 AATAATCAGAGAGCACA
1 AAT-ATCAGAGAGCACA
7743945 CTAAAGCTCC
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
22 16 0.21
23 4 0.05
24 4 0.05
25 52 0.68
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (24 bp):
AATATCAGAGAGCACAAACGTGCT
Found at i:7745060 original size:15 final size:15
Alignment explanation
Indices: 7745032--7745073 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
7745022 GTTTCGTCTC
* *
7745032 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTA
7745048 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTA
7745063 TTCTTTCTTTT
1 TTCTTTCTTTT
7745074 GTTTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTCTTTTTCTA
Found at i:7745095 original size:5 final size:5
Alignment explanation
Indices: 7745082--7745153 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
7745072 TTGTTTTATG
7745082 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
7745130 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
7745154 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:7745107 original size:19 final size:19
Alignment explanation
Indices: 7745083--7745125 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
7745073 TGTTTTATGT
7745083 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
7745102 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
7745121 ATATA
1 ATATA
7745126 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:7745135 original size:24 final size:25
Alignment explanation
Indices: 7745089--7745154 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
7745079 ATGTATATAT
* *
7745089 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
7745113 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
7745138 TTACTATAATATAATAA
1 ATAATATAATATAATAA
7745155 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 13 0.37
26 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:7745904 original size:21 final size:22
Alignment explanation
Indices: 7745871--7745912 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
7745861 AGTAACTTTA
*
7745871 TGTGTCGTATTTCAGGTACTTCG
1 TGTGTCG-ATTTCAGGCACTTCG
7745894 TGTGTCG-TTTCAGGCACTT
1 TGTGTCGATTTCAGGCACTT
7745913 ATGTGTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.43
Consensus pattern (22 bp):
TGTGTCGATTTCAGGCACTTCG
Found at i:7747355 original size:28 final size:29
Alignment explanation
Indices: 7747297--7747355 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
7747287 AAATAACCAT
* * *
7747297 AATATATTGAGTCTTTTCTTATTTATTTA
1 AATATATTGAGTCTTTCCATATTTACTTA
*
7747326 AATATATTGAGTCTTTCCAT-TTTCCTTA
1 AATATATTGAGTCTTTCCATATTTACTTA
7747354 AA
1 AA
7747356 AAAATATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.53
Consensus pattern (29 bp):
AATATATTGAGTCTTTCCATATTTACTTA
Found at i:7756945 original size:21 final size:21
Alignment explanation
Indices: 7756921--7756989 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
7756911 AATTATTAAA
7756921 ATTTTAAGAAT-ATATAA-AATT
1 ATTTTAA-AATGAT-TAAGAATT
7756942 ATTTTAAAATGATTAAGAATT
1 ATTTTAAAATGATTAAGAATT
*** *
7756963 ATAAAAAAAT-ATTAA-AACT
1 ATTTTAAAATGATTAAGAATT
7756982 ATTTTAAA
1 ATTTTAAA
7756990 TTACAATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 8 0.21
20 11 0.28
21 20 0.51
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (21 bp):
ATTTTAAAATGATTAAGAATT
Found at i:7756977 original size:29 final size:29
Alignment explanation
Indices: 7756914--7756984 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
7756904 TTCAAAGAAT
* **
7756914 TATTAAAATTTTAAGAATATATAAAATTA
1 TATTAAAATATTAAGAATATATAAAAAAA
*
7756943 TTTTAAAATGATTAAGAAT-TATAAAAAAA
1 TATTAAAAT-ATTAAGAATATATAAAAAAA
7756972 TATTAAAACTATT
1 TATTAAAA-TATT
7756985 TTAAATTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (29 bp):
TATTAAAATATTAAGAATATATAAAAAAA
Found at i:7792703 original size:10 final size:11
Alignment explanation
Indices: 7792686--7792710 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7792676 CCCAGTTAAC
7792686 CAAAAAAAGAA
1 CAAAAAAAGAA
7792697 CAAAAAAAGAA
1 CAAAAAAAGAA
7792708 CAA
1 CAA
7792711 GCCATGTCAT
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:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (11 bp):
CAAAAAAAGAA
Found at i:7793780 original size:7 final size:7
Alignment explanation
Indices: 7793761--7793795 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
7793751 TAATATATCA
7793761 TTGCCAGT
1 TTGCCA-T
7793769 TTGCCAT
1 TTGCCAT
7793776 TTGCCAT
1 TTGCCAT
7793783 TTGCCAT
1 TTGCCAT
7793790 TTGCCA
1 TTGCCA
7793796 ACCTTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.40
Consensus pattern (7 bp):
TTGCCAT
Found at i:7795837 original size:2 final size:2
Alignment explanation
Indices: 7795832--7795870 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7795822 TTTAATTTGC
7795832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7795871 GCGAGTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7806585 original size:133 final size:134
Alignment explanation
Indices: 7806411--7806680 Score: 533
Period size: 133 Copynumber: 2.0 Consensus size: 134
7806401 TTATAATTTA
7806411 AAATAATTTTAATAATTTCATAATTGAATTTGTGACCTAATTAAAGATGACATCAACTCAATAAA
1 AAATAATTTTAATAATTTCATAATTGAATTTGTGACCTAATTAAAGATGACATCAACTCAATAAA
7806476 ATACTTAAATAATTGTATAAATTATTTCAAAATATATAAAATGATAATCAAAATAAAATTTCAGA
66 ATACTTAAATAATTGTATAAATTATTTCAAAATATATAAAATGATAATCAAAATAAAATTTCAGA
7806541 CAAT
131 CAAT
7806545 AAATAATTTTAA-AATTTCATAATTGAATTTGTGACCTAATTAAAGATGACATCAACTCAATAAA
1 AAATAATTTTAATAATTTCATAATTGAATTTGTGACCTAATTAAAGATGACATCAACTCAATAAA
7806609 ATACTTAAATAATTGTATAAATTATTTCAAAATATATAAAATGATAATCAAAATAAAATTTCAGA
66 ATACTTAAATAATTGTATAAATTATTTCAAAATATATAAAATGATAATCAAAATAAAATTTCAGA
7806674 CAAT
131 CAAT
7806678 AAA
1 AAA
7806681 CAAGTTCATT
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
133 124 0.91
134 12 0.09
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (134 bp):
AAATAATTTTAATAATTTCATAATTGAATTTGTGACCTAATTAAAGATGACATCAACTCAATAAA
ATACTTAAATAATTGTATAAATTATTTCAAAATATATAAAATGATAATCAAAATAAAATTTCAGA
CAAT
Found at i:7815580 original size:3 final size:3
Alignment explanation
Indices: 7815574--7815604 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7815564 TCTCTAAGTT
7815574 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
7815605 GGTGATGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:7825368 original size:32 final size:32
Alignment explanation
Indices: 7825332--7825398 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
7825322 ATCATTAACT
* * * *
7825332 TTTCGGGTAAAACATTATGTGGTTGTATATAA
1 TTTCGGGAAAAACATTACGTGATTGCATATAA
7825364 TTTCGGGAAAAACATTACGTGATTGCATATAA
1 TTTCGGGAAAAACATTACGTGATTGCATATAA
7825396 TTT
1 TTT
7825399 GAATATACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (32 bp):
TTTCGGGAAAAACATTACGTGATTGCATATAA
Found at i:7834140 original size:20 final size:18
Alignment explanation
Indices: 7834117--7834155 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7834107 TTATAAATTT
7834117 TAAAAAGTCAAAATAATATA
1 TAAAAA-TCAAAA-AATATA
*
7834137 TAAAAATTAAAAAATATA
1 TAAAAATCAAAAAATATA
7834155 T
1 T
7834156 TTAAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAAATCAAAAAATATA
Found at i:7834303 original size:32 final size:32
Alignment explanation
Indices: 7834231--7834307 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
7834221 TATGTTTTAA
* *
7834231 AATTTTTTGTAATTTTATAAAAAAATACTTTT
1 AATTTTTTTTAATTTTATAAAAAAATACTATT
* * *
7834263 AA-ATTTTTTACATTTT-TTAAATAATACTATT
1 AATTTTTTTTA-ATTTTATAAAAAAATACTATT
7834294 AATTTTTTTTAATT
1 AATTTTTTTTAATT
7834308 ATCGTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (32 bp):
AATTTTTTTTAATTTTATAAAAAAATACTATT
Found at i:7835569 original size:23 final size:21
Alignment explanation
Indices: 7835542--7835594 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
7835532 ACGTTAGTAC
*
7835542 TTGAAAATATTAAAAAATATAT
1 TTGAAAATAGTAAAAAA-ATAT
7835564 ATTGAAAATTAGTAAAAAAATAT
1 -TTGAAAA-TAGTAAAAAAATAT
*
7835587 TTAAAAAT
1 TTGAAAAT
7835595 TTTAGGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 6 0.22
23 11 0.41
24 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (21 bp):
TTGAAAATAGTAAAAAAATAT
Done.