Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 148 of 226
Found at i:48780836 original size:9 final size:9
Alignment explanation
Indices: 48780822--48780873 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
48780812 GTTCTTTTTC
48780822 TTTTTCTTT
1 TTTTTCTTT
48780831 TTTTTCTTT
1 TTTTTCTTT
**
48780840 TCCTTCTTT
1 TTTTTCTTT
48780849 TTTTT-TTT
1 TTTTTCTTT
48780857 GTTTTT-TTT
1 -TTTTTCTTT
48780866 TGTTTTCT
1 T-TTTTCT
48780874 CTCTTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.11
9 31 0.86
10 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:48780863 original size:31 final size:29
Alignment explanation
Indices: 48780813--48780884 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 29
48780803 CCCAGCGGGG
*
48780813 TTCTTTTTCTTTTTCTTTTTTTTCTTTTCC
1 TTCTTTTTTTTTTTCTTTTTTTTCTTTT-C
* *
48780843 TTCTTTTTTTTTTTGTTTTTTTTTGTTTTC
1 TTCTTTTTTTTTTT-CTTTTTTTTCTTTTC
48780873 TCTCTTTTTTTT
1 T-TCTTTTTTTT
48780885 GGATTGAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (29 bp):
TTCTTTTTTTTTTTCTTTTTTTTCTTTTC
Found at i:48780866 original size:15 final size:15
Alignment explanation
Indices: 48780816--48780865 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
48780806 AGCGGGGTTC
48780816 TTTTTCTTTTTCTTT
1 TTTTTCTTTTTCTTT
*
48780831 TTTTTCTTTTCCTTCT
1 TTTTTCTTTTTCTT-T
*
48780847 TTTTT-TTTTTGTTT
1 TTTTTCTTTTTCTTT
48780861 TTTTT
1 TTTTT
48780866 TGTTTTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.19
15 19 0.61
16 6 0.19
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTCTTT
Found at i:48780880 original size:18 final size:17
Alignment explanation
Indices: 48780816--48780885 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 17
48780806 AGCGGGGTTC
*
48780816 TTTTTCTTTT-TC-TTT
1 TTTTTGTTTTCTCTTTT
* *
48780831 TTTTTCTTTTC-CTTCT
1 TTTTTGTTTTCTCTTTT
*
48780847 TTTTT-TTTT-TGTTTT
1 TTTTTGTTTTCTCTTTT
48780862 TTTTTGTTTTCTCTCTTT
1 TTTTTGTTTTCTCT-TTT
48780880 TTTTTG
1 TTTTTG
48780886 GATTGAATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
15 23 0.51
16 11 0.24
17 2 0.04
18 9 0.20
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTTTGTTTTCTCTTTT
Found at i:48780881 original size:30 final size:29
Alignment explanation
Indices: 48780813--48780884 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
48780803 CCCAGCGGGG
48780813 TTCTTTTTCTTTTTCTTTTTTTTCTTTTCC
1 TTCTTTTT-TTTTTCTTTTTTTTCTTTTCC
* *
48780843 TTCTTTTTTTTTT-TGTTTTTTTTTGTTTTC
1 TTCTTTTTTTTTTCT-TTTTTTTCT-TTTCC
48780873 TCTCTTTTTTTT
1 T-TCTTTTTTTT
48780885 GGATTGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 13 0.35
30 13 0.35
31 10 0.27
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (29 bp):
TTCTTTTTTTTTTCTTTTTTTTCTTTTCC
Found at i:48792506 original size:24 final size:23
Alignment explanation
Indices: 48792461--48792506 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
48792451 CATTTGACTG
* *
48792461 TTTAAAAAAATATAATTTTTAAA
1 TTTAAAAAAATATAAATATTAAA
*
48792484 TTTATAAAATATATAAATATTAA
1 TTTA-AAAAAATATAAATATTAA
48792507 TAGAATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAAAAAAATATAAATATTAAA
Found at i:48801882 original size:22 final size:22
Alignment explanation
Indices: 48801852--48801931 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 22
48801842 CAAAATGCTA
* *
48801852 ACAGAGGCACTGTAGTGCAAAT
1 ACAGAGGCACCGAAGTGCAAAT
* *
48801874 ACAGTGGCACCGAAGTGCAAAG
1 ACAGAGGCACCGAAGTGCAAAT
* * *
48801896 A-A-AGGCACTGAACTGTAAA-
1 ACAGAGGCACCGAAGTGCAAAT
*
48801915 A-AGAGGCACCAAAGTGC
1 ACAGAGGCACCGAAGTGC
48801932 GATCCCATAA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
19 2 0.04
20 23 0.51
21 1 0.02
22 19 0.42
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (22 bp):
ACAGAGGCACCGAAGTGCAAAT
Found at i:48803577 original size:25 final size:25
Alignment explanation
Indices: 48803543--48803599 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
48803533 TAATAAATCA
* *
48803543 AGCAAAATAGAACCA-AATAGAGTAG
1 AGCAGAATAGAA-CAGAATAGAGCAG
48803568 AGCAGAATAGAACAGAATAGAGCAG
1 AGCAGAATAGAACAGAATAGAGCAG
*
48803593 AGTAGAA
1 AGCAGAA
48803600 AATGTGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.54, C:0.11, G:0.25, T:0.11
Consensus pattern (25 bp):
AGCAGAATAGAACAGAATAGAGCAG
Found at i:48803578 original size:10 final size:10
Alignment explanation
Indices: 48803565--48803598 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
48803555 CCAAATAGAG
48803565 TAGAGCAGAA
1 TAGAGCAGAA
*
48803575 TAGAACAGAA
1 TAGAGCAGAA
*
48803585 TAGAGCAGAG
1 TAGAGCAGAA
48803595 TAGA
1 TAGA
48803599 AAATGTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.29, T:0.12
Consensus pattern (10 bp):
TAGAGCAGAA
Found at i:48804202 original size:79 final size:79
Alignment explanation
Indices: 48804066--48804219 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 79
48804056 AGTCACATAC
* * * ** * **
48804066 ATGGCTATAAATAAGAATCAATAACAATTAGTCTAACTTTTTTAGATATCGTGTATTCCTCATCA
1 ATGGCTATAAATAAGAATCAATAACAATCAATCTAACATAATCAGATATCGCATATTCCTCATCA
48804131 ATAAAGTAACGTAG
66 ATAAAGTAACGTAG
* * * *
48804145 ATGGCTATAAATTAGAATCAGTAACAATCAATCTAACATAATCAGATGTCGCATATTCTTCATCA
1 ATGGCTATAAATAAGAATCAATAACAATCAATCTAACATAATCAGATATCGCATATTCCTCATCA
*
48804210 ATAGAGTAAC
66 ATAAAGTAAC
48804220 ACAGAGGCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (79 bp):
ATGGCTATAAATAAGAATCAATAACAATCAATCTAACATAATCAGATATCGCATATTCCTCATCA
ATAAAGTAACGTAG
Found at i:48807126 original size:28 final size:28
Alignment explanation
Indices: 48807095--48807149 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
48807085 AGTATCAATA
48807095 TGGGACTTAACCCTATACAGTAACAGTG
1 TGGGACTTAACCCTATACAGTAACAGTG
* * *
48807123 TGGGCCTTAGCCCTATACAGTATCAGT
1 TGGGACTTAACCCTATACAGTAACAGT
48807150 ACACTGCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (28 bp):
TGGGACTTAACCCTATACAGTAACAGTG
Found at i:48807541 original size:27 final size:27
Alignment explanation
Indices: 48807511--48807586 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
48807501 TCATCTCCTA
* *
48807511 GGGGTATAACGGTGATTTTACCCATTG
1 GGGGTATAACGATCATTTTACCCATTG
** *
48807538 GGGGTATCTCGATCATTTTACCCATTA
1 GGGGTATAACGATCATTTTACCCATTG
* **
48807565 GGTGTATTTCGATCATTTTACC
1 GGGGTATAACGATCATTTTACC
48807587 TATCAAGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGGTATAACGATCATTTTACCCATTG
Found at i:48807598 original size:27 final size:27
Alignment explanation
Indices: 48807539--48807828 Score: 274
Period size: 27 Copynumber: 10.7 Consensus size: 27
48807529 TACCCATTGG
*
48807539 GGGTATCTCGATCATTTTACCCATT--A
1 GGGTATTTCGATCATTTTACCC-TTCAA
48807565 GGTGTATTTCGATCATTTTA-CCTATCAA
1 GG-GTATTTCGATCATTTTACCCT-TCAA
* *
48807593 GGGTATTTTGGTCATTTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCAA
*
48807620 AGGTATTTC-AGTCATTTTACCCTTC-A
1 GGGTATTTCGA-TCATTTTACCCTTCAA
*
48807646 GGGCTATTT-TAGTCATTTTACCCTT-AA
1 GGG-TATTTCGA-TCATTTTACCCTTCAA
*
48807673 GGGGTATTTC-AGTCATTTTACCCTTCGA
1 -GGGTATTTCGA-TCATTTTACCCTTCAA
* **
48807701 GGGTATTTTGATCATTTTACCCTTCGT
1 GGGTATTTCGATCATTTTACCCTTCAA
* * *
48807728 GGGTATTTTGGTCAGTTTACCCTTCGAA
1 GGGTATTTCGATCATTTTACCCTTC-AA
* * *
48807756 -GGTATTTCGATCATTTAACCATTCGA
1 GGGTATTTCGATCATTTTACCCTTCAA
* * *
48807782 GGGTATTTCGGTCATTTTACCTTTTAA
1 GGGTATTTCGATCATTTTACCCTTCAA
48807809 GGGTATTTCGATCATTTTAC
1 GGGTATTTCGATCATTTTAC
48807829 AGCCCATTTT
Statistics
Matches: 223, Mismatches: 26, Indels: 29
0.80 0.09 0.10
Matches are distributed among these distances:
25 1 0.00
26 9 0.04
27 202 0.91
28 11 0.05
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTTCAA
Found at i:48810536 original size:28 final size:28
Alignment explanation
Indices: 48810466--48810582 Score: 141
Period size: 28 Copynumber: 4.2 Consensus size: 28
48810456 CCTATTCAGT
*
48810466 TACAGT-ACAGTGTAGGCCTTAG-CC-A
1 TACAGTAACAGTGTGGGCCTTAGCCCTA
*
48810491 GTACAGTAACAGTATGGGCCTTAGCCCTA
1 -TACAGTAACAGTGTGGGCCTTAGCCCTA
* * *
48810520 TACAGTAATAGTGTGGGACTTAGCCCAA
1 TACAGTAACAGTGTGGGCCTTAGCCCTA
* *
48810548 TACAATAACAGTGTGGGCCTTAGCCTTA
1 TACAGTAACAGTGTGGGCCTTAGCCCTA
48810576 TACAGTA
1 TACAGTA
48810583 TGAGTATAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.08
27 14 0.18
28 55 0.72
29 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
TACAGTAACAGTGTGGGCCTTAGCCCTA
Found at i:48811498 original size:27 final size:27
Alignment explanation
Indices: 48810999--48811503 Score: 485
Period size: 27 Copynumber: 18.7 Consensus size: 27
48810989 CTTCAAGGGT
48810999 GGGTATTTCGATCATTTTACCCTTC-A
1 GGGTATTTCGATCATTTTACCCTTCGA
48811025 GGGGTATTTCGATCATTTTACCCTTC-A
1 -GGGTATTTCGATCATTTTACCCTTCGA
*
48811052 GAGGTATTTCAATCATTTTACCCTTCGA
1 G-GGTATTTCGATCATTTTACCCTTCGA
*
48811080 GGGTATTTCGATCATTTTACCTTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * * * *
48811107 GGATATTTCGGTCATTTCACCTTTTGA
1 GGGTATTTCGATCATTTTACCCTTCGA
** *
48811134 GCATATTT-TAGTCATTTTACCCTTCGA
1 GGGTATTTCGA-TCATTTTACCCTTCGA
*
48811161 GGGTATTTCAATCATTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * *
48811188 GGGTATTTCGATTATTTTACCTTTTGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
48811215 GGGTATTTC-AGTTATTTTACCCTTCAA
1 GGGTATTTCGA-TCATTTTACCCTTCGA
* *
48811242 GGGTATTTCGGTCA-TTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
48811268 TGGTATTTCGATCATTTTACCCTGCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * **
48811295 AGGTATTTTGATCATTTTA-CCTTTTA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
48811321 GGGGTATTTTGGA-CATTTTACCCTTCGG
1 -GGGTA-TTTCGATCATTTTACCCTTCGA
* *
48811349 GGGTATTTCGATCAATTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
48811376 GGAGTATTT-TAGTTATTTTACCCTTCG-
1 GG-GTATTTCGA-TCATTTTACCCTTCGA
* * *
48811403 GGGCTATTTTGGTTATTTTACCCTTTC-A
1 GGG-TATTTCGATCATTTTACCC-TTCGA
*
48811431 GGGTATTTC-AGTCA-TTTACCCTTCAA
1 GGGTATTTCGA-TCATTTTACCCTTCGA
* *
48811457 GGGTATTTCGGTCATTTTACCCTTTGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
48811484 GGATATTTTGATCATTTTAC
1 GGGTATTTCGATCATTTTAC
48811504 GGCCCATTTC
Statistics
Matches: 399, Mismatches: 58, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.01
26 56 0.14
27 304 0.76
28 36 0.09
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTTCGA
Found at i:48816093 original size:28 final size:30
Alignment explanation
Indices: 48816037--48816093 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
48816027 CATTTCTTCG
*
48816037 AAATGGAGAAATGAAATCATTTGGAAATGA
1 AAATGGAGAAATGAAATCATTTGCAAATGA
*
48816067 AAAT-GAGAAATG-ATTCATTTGCAAATG
1 AAATGGAGAAATGAAATCATTTGCAAATG
48816094 TAGATGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.52
29 8 0.32
30 4 0.16
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (30 bp):
AAATGGAGAAATGAAATCATTTGCAAATGA
Found at i:48817606 original size:297 final size:298
Alignment explanation
Indices: 48817067--48817667 Score: 1177
Period size: 297 Copynumber: 2.0 Consensus size: 298
48817057 ATTTCCTTTA
48817067 CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
1 CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
48817132 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
66 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
48817197 TAATAAGCTCCTTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
131 TAATAAGCTCCTTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
48817262 ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
196 ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
48817327 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
261 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
48817365 CCAT-TAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
1 CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
48817429 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
66 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
*
48817494 TAATGAGCTCCTTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
131 TAATAAGCTCCTTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
*
48817559 ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTTAAT
196 ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
48817624 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
261 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
48817662 CCATCT
1 CCATCT
48817668 TTTTTGCTAG
Statistics
Matches: 300, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
297 295 0.98
298 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (298 bp):
CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
TAATAAGCTCCTTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
Found at i:48826015 original size:597 final size:594
Alignment explanation
Indices: 48824802--48826078 Score: 2160
Period size: 597 Copynumber: 2.1 Consensus size: 594
48824792 TCAATTATCT
* * * * * *
48824802 GGTCAGGTTCCATCTTCCATCTTCAAGATTTCTTCTCTGAAGATTATTGATCTCTCCAGCAATAG
1 GGTCAGATTCCAACTTCGATCTTCAACATTTCTTCTCTGAAGACTATTGATCTCTCCAACAATAG
* * *
48824867 CCTATCAGGTAGTTTGCCTAATGATATGTGTGAACATCTTCCCAAGCTTGAAGGGCTTCACCTGA
66 CCTATCAGGTAGTTTGCCTAACGATATGTGTCAACATCTTCCCAAGCTTGAAGGGATTCACCTGA
* *
48824932 GTTGGAATGAATTATTTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAATTTTG
131 GTTGGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAAATTTG
* *
48824997 TCGTTGTCCTGTAATCAATTTATGGGGATCATTCCAAGAAGTATTGGAAATCTAACACAACTCCA
196 TCATTGTCCTGTAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTAACACAACTCCA
48825062 AAAATTATATTTGGGGTTTAATAATCTAGAAGGTAATCAATTTCCTTGATTTCTTGAATTTAAAT
261 AAAATTATATTTGGGGTTTAATAATCTAGAAGGTAATCAATTTCCTTGATTTCTTGAATTTAAAT
* * *
48825127 TTTCTTTATAAAAGAGTTTGATTTGTAATAGATAACAAAAGGAAAAACTTTTTATTTCATTTGAT
326 TTTCTTTATAAAAGAATTTGATTTGTAATAGATAACAAAAGGAAAAAATTTTAATTTCATTTGAT
*
48825192 GAAAAAAATATGCTGAAATATTTTAAAATCTAACATCTCCAAATTACTGTAGAACAAAAAAGAAA
391 GAAAAAAATATGCTGAAATATATTAAAATCTAACATCTCCAAATTACTGTAGAACAAAAAAGAAA
48825257 ACCTCTTTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGATTTTTCGACTATGTGTGCAG
456 ACCTCTTTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGATTTTTCGACTATGTGTGCAG
* *
48825322 GTCAAATTCCTGAGGAAATCGGTAATCTTCTTAGTTTGGAAATGCTTAGTATTAAAGCAATTGAA
521 GTCAAATTCCTGAGGAAATCGGTAATCTTCTTAGTTTGGAAATGCTTAATATTAAAGCAATTAAA
48825387 GGCCTTACA
586 GGCCTTACA
* *
48825396 GGTCAGATTCCAA-TGTCGATCTTCAACATTTCTTCTCTAAAGACCATTGATCTCTCCAACAATA
1 GGTCAGATTCCAACT-TCGATCTTCAACATTTCTTCTCTGAAGACTATTGATCTCTCCAACAATA
* *
48825460 GCCTATCAGGTAGTTTGCCTAACGATATGTGTCAACATCTTCCCAAGCTTGAAGTGATTTACCTG
65 GCCTATCAGGTAGTTTGCCTAACGATATGTGTCAACATCTTCCCAAGCTTGAAGGGATTCACCTG
*
48825525 AGTTTGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAAATTT
130 AGTTGGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAAATTT
* * *
48825590 GTCATTGTCTTTTAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTAACACGACTCC
195 GTCATTGTCCTGTAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTAACACAACTCC
*
48825655 AAGAATTATATTTGGGGTTTAATAATCTAGAAGGTAATCAATTTCCTTGATTTCTTGAATTTAAA
260 AAAAATTATATTTGGGGTTTAATAATCTAGAAGGTAATCAATTTCCTTGATTTCTTGAATTTAAA
* *
48825720 GTTTTTTTTTTATAAAAGAATTTGTTTTGTAATAGATAACAAAAGGAAAAAATTTTAATTTCATT
325 ---TTTTCTTTATAAAAGAATTTGATTTGTAATAGATAACAAAAGGAAAAAATTTTAATTTCATT
* *
48825785 TGATGAAAAACATATGCTGAAATATATTAAAATCTAACATCTCCAAATTACTGTAGAACAGAAAA
387 TGATGAAAAAAATATGCTGAAATATATTAAAATCTAACATCTCCAAATTACTGTAGAACAAAAAA
*
48825850 GAAAACCTCTTTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGATTTTTCGATTATGTGT
452 GAAAACCTCTTTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGATTTTTCGACTATGTGT
* **
48825915 GCAGGTCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAAATGCTTAATATTGTAGCAAT
517 GCAGGTCAAATTCCTGAGGAAATCGGTAATCTTCTTAGTTTGGAAATGCTTAATATTAAAGCAAT
48825980 TAAAGGCCTTACA
582 TAAAGGCCTTACA
* *
48825993 GGTCAGATTCCAACTTCGATCTTCAACATTTCTTCTCTGAAGGCTATTAATCTCTCCAACAATAG
1 GGTCAGATTCCAACTTCGATCTTCAACATTTCTTCTCTGAAGACTATTGATCTCTCCAACAATAG
*
48826058 TCTATCAGGTAGTTTGCCTAA
66 CCTATCAGGTAGTTTGCCTAA
48826079 NNNNNNNNNN
Statistics
Matches: 637, Mismatches: 41, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
593 1 0.00
594 300 0.47
597 335 0.53
598 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (594 bp):
GGTCAGATTCCAACTTCGATCTTCAACATTTCTTCTCTGAAGACTATTGATCTCTCCAACAATAG
CCTATCAGGTAGTTTGCCTAACGATATGTGTCAACATCTTCCCAAGCTTGAAGGGATTCACCTGA
GTTGGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAAATTTG
TCATTGTCCTGTAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTAACACAACTCCA
AAAATTATATTTGGGGTTTAATAATCTAGAAGGTAATCAATTTCCTTGATTTCTTGAATTTAAAT
TTTCTTTATAAAAGAATTTGATTTGTAATAGATAACAAAAGGAAAAAATTTTAATTTCATTTGAT
GAAAAAAATATGCTGAAATATATTAAAATCTAACATCTCCAAATTACTGTAGAACAAAAAAGAAA
ACCTCTTTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGATTTTTCGACTATGTGTGCAG
GTCAAATTCCTGAGGAAATCGGTAATCTTCTTAGTTTGGAAATGCTTAATATTAAAGCAATTAAA
GGCCTTACA
Found at i:48826710 original size:28 final size:28
Alignment explanation
Indices: 48826670--48826726 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
48826660 GAAAACCATT
48826670 GATCTCTCCAACAATAGCCTATCAGGTA
1 GATCTCTCCAACAATAGCCTATCAGGTA
48826698 GATCTCTCCAACAATAGCCTATCAGGTA
1 GATCTCTCCAACAATAGCCTATCAGGTA
48826726 G
1 G
48826727 TTTGCCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (28 bp):
GATCTCTCCAACAATAGCCTATCAGGTA
Found at i:48828306 original size:20 final size:20
Alignment explanation
Indices: 48828278--48828341 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
48828268 TAAATAATAC
*
48828278 AATTATTAAAAATTGTTAGA
1 AATTTTTAAAAATTGTTAGA
* *
48828298 AATTTTTAAATATTG-TAAA
1 AATTTTTAAAAATTGTTAGA
* *
48828317 AATTTATAAAAATTTATTAGA
1 AATTTTTAAAAA-TTGTTAGA
48828338 AATT
1 AATT
48828342 ATAAAAGACG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 13 0.37
20 15 0.43
21 7 0.20
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (20 bp):
AATTTTTAAAAATTGTTAGA
Found at i:48828321 original size:19 final size:20
Alignment explanation
Indices: 48828278--48828330 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
48828268 TAAATAATAC
* *
48828278 AATTATTAAAAATTGTTAGA
1 AATTTTTAAAAATTGTTAAA
*
48828298 AATTTTTAAATATTG-TAAA
1 AATTTTTAAAAATTGTTAAA
*
48828317 AATTTATAAAAATT
1 AATTTTTAAAAATT
48828331 TATTAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
AATTTTTAAAAATTGTTAAA
Found at i:48833954 original size:98 final size:98
Alignment explanation
Indices: 48833780--48833976 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
48833770 GTACAATAAA
* **
48833780 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCAAAATT
* * *
48833845 CCTTTAGAATCCCAAACTTGGAATATTTCATTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCATTT
48833878 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCAAAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCAAAATT
*
48833943 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCATTT
48833976 A
1 A
48833977 TTATTTTTTA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCAAAATT
CCTTTAAAATCCCAAACTCGAAATATTTCATTT
Found at i:48834870 original size:17 final size:17
Alignment explanation
Indices: 48834832--48834888 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
48834822 ATGCGTATGT
48834832 ATATATAAATATGTATAAAA
1 ATATATAAAT-T-TA-AAAA
48834852 ATATATAAATTTAAAAA
1 ATATATAAATTTAAAAA
*
48834869 ATA-ATTAAATATAAAAA
1 ATATA-TAAATTTAAAAA
48834886 ATA
1 ATA
48834889 ATTAAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 1 0.03
17 21 0.60
18 2 0.06
19 1 0.03
20 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATATAAATTTAAAAA
Found at i:48834889 original size:17 final size:17
Alignment explanation
Indices: 48834848--48834919 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
48834838 AAATATGTAT
*
48834848 AAAAAT-ATATAAATTTA
1 AAAAATAAT-TAAATATA
48834865 AAAAATAATTAAATATA
1 AAAAATAATTAAATATA
48834882 AAAAATAATT-AA-AT-
1 AAAAATAATTAAATATA
48834896 -AAAATAATTAAATA-A
1 AAAAATAATTAAATATA
48834911 AGAAAATAA
1 A-AAAATAA
48834920 AAAAATGAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
13 9 0.19
14 2 0.04
15 3 0.06
16 2 0.04
17 30 0.62
18 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (17 bp):
AAAAATAATTAAATATA
Found at i:48834901 original size:13 final size:13
Alignment explanation
Indices: 48834883--48834911 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48834873 TTAAATATAA
48834883 AAAATAATTAAAT
1 AAAATAATTAAAT
48834896 AAAATAATTAAAT
1 AAAATAATTAAAT
48834909 AAA
1 AAA
48834912 GAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATAATTAAAT
Found at i:48834934 original size:30 final size:30
Alignment explanation
Indices: 48834866--48834934 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
48834856 ATAAATTTAA
**
48834866 AAAATAATTAAATATAAAAAATAATTAAAT
1 AAAATAATTAAATATAAAAAATAAAAAAAT
48834896 AAAATAATTAAATA-AAGAAAATAAAAAAAT
1 AAAATAATTAAATATAA-AAAATAAAAAAAT
* *
48834926 GAACTAATT
1 AAAATAATT
48834935 TGAACTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (30 bp):
AAAATAATTAAATATAAAAAATAAAAAAAT
Found at i:48836335 original size:45 final size:44
Alignment explanation
Indices: 48836278--48836400 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
48836268 AGTGCTTCAA
* *
48836278 TCTATTCCACTGCAACTGCAGGGAGATAAGACTTGCCAT-CTTCAG
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AG
* * * *
48836323 TCTGC-CTTACTGCAACTTCA-GGAGGATAAGACCTGCTTACTTAG
1 TCTACTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAG
48836367 TCTACTCCACTGCAACTTCAGGGAGATAAGACTT
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTT
48836401 ATAGCTTACT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
44 33 0.52
45 31 0.48
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAG
Found at i:48836577 original size:132 final size:132
Alignment explanation
Indices: 48836431--48837036 Score: 1032
Period size: 132 Copynumber: 4.6 Consensus size: 132
48836421 TCACTGCTGA
* * * *
48836431 CCAGGGAAGCAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGATAAAATCCGCCA
1 CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCA
*
48836496 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGTT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
*
48836561 GC
131 AC
* ** *
48836563 TCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACCGTAACCACAATGAGGTAAAATCCGCCA
1 CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCA
*
48836628 TCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
48836693 AC
131 AC
*
48836695 CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCGCCA
1 CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCA
48836760 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
48836825 AC
131 AC
*
48836827 CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCTACTATAACCACAAGGAGGTAAAATCCGCCA
1 CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCA
*
48836892 TCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGTT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
48836957 AC
131 AC
* * * *
48836959 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATATCCACAGGGAGGTAAAATCTGCCA
1 CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCA
* *
48837024 TCTTTGATTTGCT
66 TCTTCGATCTGCT
48837037 TCGCTGTCAA
Statistics
Matches: 449, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 449 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
CCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCA
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTT
AC
Found at i:48836966 original size:44 final size:44
Alignment explanation
Indices: 48836660--48836969 Score: 148
Period size: 44 Copynumber: 7.0 Consensus size: 44
48836650 CTTAGGGAGA
*
48836660 TAAGATCTGAAATCTTCAATCTATTCCACTGTTACCCAGGGAAG
1 TAAGATCTGAAATCTTCAATCTACTCCACTGTTACCCAGGGAAG
* * * * * *
48836704 T-AGAAT-T-ACTAGCTTCAATGTACTCCACTGTAACCACAAGGAGG
1 TAAG-ATCTGA-AATCTTCAATCTACTCCACTGTTACC-CAGGGAAG
* * ** * * ** * **
48836748 TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG-AG
1 TAAGATCTGAAATCTTCAATCTACTCCACTGTTACCCAGGGAAG
*
48836791 ATAAGATCTGAAATCTTCAATCTATTCCACTGTTACCCAGGGAAG
1 -TAAGATCTGAAATCTTCAATCTACTCCACTGTTACCCAGGGAAG
* * * * * * * *
48836836 T-AGAAT-T-ACTAGCTTCAATGTACTCTACTATAACCACAAGGAGG
1 TAAG-ATCTGA-AATCTTCAATCTACTCCACTGTTACC-CAGGGAAG
* * ** * * ** * ** *
48836880 TAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAA
1 TAAGATCTGAAATCTTCAATCTACTCCACTGTTACCCAGGGAAG
*
48836924 TAAGATCTGAAATCTTCAATCTATTCCACTGTTACCCAGGGAAG
1 TAAGATCTGAAATCTTCAATCTACTCCACTGTTACCCAGGGAAG
48836968 TA
1 TA
48836970 GAATTACTGG
Statistics
Matches: 178, Mismatches: 74, Indels: 28
0.64 0.26 0.10
Matches are distributed among these distances:
42 2 0.01
43 47 0.26
44 93 0.52
45 36 0.20
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (44 bp):
TAAGATCTGAAATCTTCAATCTACTCCACTGTTACCCAGGGAAG
Found at i:48842088 original size:98 final size:98
Alignment explanation
Indices: 48841909--48842105 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
48841899 GTACAATAAA
* *
48841909 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACTATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
* * *
48841974 CCTTTAGAATCTCAAACTTGGAATATTTCATTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCATTT
48842007 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
*
48842072 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCATTT
48842105 A
1 A
48842106 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCATTT
Found at i:48842921 original size:11 final size:11
Alignment explanation
Indices: 48842901--48842947 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
48842891 ATATATTAAT
48842901 TTAAAAAATAA
1 TTAAAAAATAA
*
48842912 TTAAATAAT-A
1 TTAAAAAATAA
*
48842922 -GAAAAAATAA
1 TTAAAAAATAA
48842932 TTAAAAAATAA
1 TTAAAAAATAA
48842943 TTAAA
1 TTAAA
48842948 TAAAGAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 6 0.20
10 2 0.07
11 22 0.73
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
TTAAAAAATAA
Found at i:48842926 original size:20 final size:20
Alignment explanation
Indices: 48842903--48842941 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48842893 ATATTAATTT
*
48842903 AAAAAATAATTAAATAATAG
1 AAAAAATAATTAAAAAATAG
48842923 AAAAAATAATTAAAAAATA
1 AAAAAATAATTAAAAAATA
48842942 ATTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAAAATAATTAAAAAATAG
Found at i:48844092 original size:14 final size:14
Alignment explanation
Indices: 48844069--48844101 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
48844059 TCGAGCCGTG
48844069 TTTGGCCCACTGAA
1 TTTGGCCCACTGAA
*
48844083 TTTGGGCCACTGAA
1 TTTGGCCCACTGAA
48844097 TTTGG
1 TTTGG
48844102 TTTTGGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.33
Consensus pattern (14 bp):
TTTGGCCCACTGAA
Found at i:48850220 original size:19 final size:18
Alignment explanation
Indices: 48850196--48850235 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48850186 TCATTGTATT
48850196 TGAC-AAGAAACATAGAAAA
1 TGACAAAGAAA-AT-GAAAA
48850215 TGACAAAGAAAATGAAAA
1 TGACAAAGAAAATGAAAA
48850233 TGA
1 TGA
48850236 AAATGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.12
Consensus pattern (18 bp):
TGACAAAGAAAATGAAAA
Found at i:48850233 original size:6 final size:6
Alignment explanation
Indices: 48850210--48850243 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
48850200 AAGAAACATA
48850210 GAAAAT GACAAA- GAAAAT GAAAAT GAAAAT GAAA
1 GAAAAT GA-AAAT GAAAAT GAAAAT GAAAAT GAAA
48850244 TAAAGTTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 3 0.12
6 20 0.77
7 3 0.12
ACGTcount: A:0.68, C:0.03, G:0.18, T:0.12
Consensus pattern (6 bp):
GAAAAT
Found at i:48854853 original size:90 final size:90
Alignment explanation
Indices: 48854708--48855006 Score: 345
Period size: 90 Copynumber: 3.3 Consensus size: 90
48854698 ATCCATGAAA
* * * * * *
48854708 ATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCTTGAATT-TAA-ATGTGGTTGCTAAG
1 ATAAAGGTGGTTGCTATGTGCTGAATCCATCGGATATCATCG-ATTATAAGA-GTGGTTGCTATG
* * *
48854771 TGCTGATTCCACCG-GATATCCTTGAAT
64 TGCTGAATCCACCGAG-TATCATCGAAT
* * * *
48854798 ATAAAGGTGGTAGCTATGTGCTGATTCCATCGGATATCATCGATTATAAGGGTGGTTGATATGTG
1 ATAAAGGTGGTTGCTATGTGCTGAATCCATCGGATATCATCGATTATAAGAGTGGTTGCTATGTG
* *
48854863 CTAAATCCAGCGAGTATCATCGAAT
66 CTGAATCCACCGAGTATCATCGAAT
* *
48854888 ATAAGGGTGGTTGTTATGTGCTGAATCCATC-GAGTATCATCGATTATAAGAGTGGTTGCTATGT
1 ATAAAGGTGGTTGCTATGTGCTGAATCCATCGGA-TATCATCGATTATAAGAGTGGTTGCTATGT
* * *
48854952 GTTGAATCCACCAAGTATCATCGATT
65 GCTGAATCCACCGAGTATCATCGAAT
*
48854978 ATAAGGGTGGTTGCTATGTGCTGAATCCA
1 ATAAAGGTGGTTGCTATGTGCTGAATCCA
48855007 CCGTGAATCT
Statistics
Matches: 180, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
89 5 0.03
90 174 0.97
91 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (90 bp):
ATAAAGGTGGTTGCTATGTGCTGAATCCATCGGATATCATCGATTATAAGAGTGGTTGCTATGTG
CTGAATCCACCGAGTATCATCGAAT
Found at i:48855024 original size:45 final size:44
Alignment explanation
Indices: 48854708--48855015 Score: 285
Period size: 45 Copynumber: 6.8 Consensus size: 44
48854698 ATCCATGAAA
* * * * *
48854708 ATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCTTGAATT
1 ATAAGGGTGGTTGCTATGTGCTGAATCCACCGGA-ATCATCG-ATT
** * * * * *
48854754 -TAAATGTGGTTGCTAAGTGCTGATTCCACCGGATATCCTTGAAT
1 ATAAGGGTGGTTGCTATGTGCTGAATCCACCGGA-ATCATCGATT
* * * *
48854798 ATAAAGGTGGTAGCTATGTGCTGATTCCATCGGATATCATCGATT
1 ATAAGGGTGGTTGCTATGTGCTGAATCCACCGGA-ATCATCGATT
* * * * *
48854843 ATAAGGGTGGTTGATATGTGCTAAATCCAGCGAGTATCATCGAAT
1 ATAAGGGTGGTTGCTATGTGCTGAATCCACCG-GAATCATCGATT
* * *
48854888 ATAAGGGTGGTTGTTATGTGCTGAATCCATCGAGTATCATCGATT
1 ATAAGGGTGGTTGCTATGTGCTGAATCCACCG-GAATCATCGATT
* * * *
48854933 ATAAGAGTGGTTGCTATGTGTTGAATCCACCAAGTATCATCGATT
1 ATAAGGGTGGTTGCTATGTGCTGAATCCACC-GGAATCATCGATT
48854978 ATAAGGGTGGTTGCTATGTGCTGAATCCACCGTGAATC
1 ATAAGGGTGGTTGCTATGTGCTGAATCCACCG-GAATC
48855016 TGTTATTATT
Statistics
Matches: 228, Mismatches: 30, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
44 2 0.01
45 225 0.99
46 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (44 bp):
ATAAGGGTGGTTGCTATGTGCTGAATCCACCGGAATCATCGATT
Found at i:48856473 original size:18 final size:17
Alignment explanation
Indices: 48856441--48856478 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
48856431 TTTATAATTG
48856441 GTGAATTATATTTGATAT
1 GTGAATTATATTTGA-AT
48856459 GTGAATTA-ATATTGAAT
1 GTGAATTATAT-TTGAAT
48856476 GTG
1 GTG
48856479 GAAGGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
GTGAATTATATTTGAAT
Found at i:48863343 original size:18 final size:17
Alignment explanation
Indices: 48863311--48863348 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
48863301 TTTATAATTG
48863311 GTGAATTATATTTGATAT
1 GTGAATTATATTTGA-AT
48863329 GTGAATTA-ATATTGAAT
1 GTGAATTATAT-TTGAAT
48863346 GTG
1 GTG
48863349 TAAGGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
GTGAATTATATTTGAAT
Found at i:48863604 original size:23 final size:23
Alignment explanation
Indices: 48863574--48863672 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
48863564 AGTGTTATTG
48863574 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48863597 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
48863620 ATCATTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
48863643 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48863666 ATCAGTG
1 ATCAGTG
48863673 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48868506 original size:9 final size:9
Alignment explanation
Indices: 48868492--48868516 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48868482 GTACTCATAA
48868492 ATAAAAAAT
1 ATAAAAAAT
48868501 ATAAAAAAT
1 ATAAAAAAT
48868510 ATAAAAA
1 ATAAAAA
48868517 TGTTAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:48868738 original size:26 final size:26
Alignment explanation
Indices: 48868702--48868768 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
48868692 GGATTCGAAA
48868702 AGTGATATCTTCAAATTAATTTGATC
1 AGTGATATCTTCAAATTAATTTGATC
48868728 AGTGATATCTTCAAATTAATTTGATC
1 AGTGATATCTTCAAATTAATTTGATC
48868754 AGTGATATCTTCAAA
1 AGTGATATCTTCAAA
48868769 GATAACTCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (26 bp):
AGTGATATCTTCAAATTAATTTGATC
Found at i:48869799 original size:18 final size:18
Alignment explanation
Indices: 48869776--48869812 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48869766 GTATGATATT
48869776 ATAATCATAGA-AATAATA
1 ATAATCATA-ATAATAATA
48869794 ATAATCATAATAATAATA
1 ATAATCATAATAATAATA
48869812 A
1 A
48869813 CAACGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (18 bp):
ATAATCATAATAATAATA
Found at i:48871027 original size:18 final size:18
Alignment explanation
Indices: 48871004--48871038 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48870994 GAAAATATCA
48871004 AAAATAATAAGAAATAAT
1 AAAATAATAAGAAATAAT
*
48871022 AAAATAATGAGAAATAA
1 AAAATAATAAGAAATAA
48871039 AAGATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAATAATAAGAAATAAT
Found at i:48872752 original size:43 final size:43
Alignment explanation
Indices: 48872676--48872802 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 43
48872666 CGAGGAGATT
* * **
48872676 AGACTTGTAGCTTTAATCTGCTCCACTATAACTTTAAGGGATG
1 AGACTTGTAACTTTAATCTACTCCACTGCAACTTTAAGGGATG
* * * * *
48872719 AGACTCGTATCTTCAATCTACTCCACTGCAACTTCAAGAAGATG
1 AGACTTGTAACTTTAATCTACTCCACTGCAACTTTAAG-GGATG
* *
48872763 AGATTTGCAACTTTAATCTACTCCACTGCAACTTT-AGGGA
1 AGACTTGTAACTTTAATCTACTCCACTGCAACTTTAAGGGA
48872803 GATAAGATTT
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
42 2 0.03
43 33 0.49
44 33 0.49
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (43 bp):
AGACTTGTAACTTTAATCTACTCCACTGCAACTTTAAGGGATG
Found at i:48873037 original size:44 final size:44
Alignment explanation
Indices: 48872669--48873216 Score: 399
Period size: 44 Copynumber: 12.3 Consensus size: 44
48872659 ACAACTTCGA
* * * ** *
48872669 GGAGATTAGACTTGTAGCTTTAATCTGCTCCACTATAACTTTAA
1 GGAGATAAGATTTGTATCTTTAATCTGCTCCACTGCAACTTTAG
* * * * * * *
48872713 GG-GATGAGACTCGTATCTTCAATCTACTCCACTGCAACTTCAA
1 GGAGATAAGATTTGTATCTTTAATCTGCTCCACTGCAACTTTAG
* * * * *
48872756 GAAGATGAGATTTGCAACTTTAATCTACTCCACTGCAACTTTAG
1 GGAGATAAGATTTGTATCTTTAATCTGCTCCACTGCAACTTTAG
* * * * *
48872800 GGAGATAAGATTTGTGGT-TTTAATCTGTTCTACTACTACTTTAG
1 GGAGATAAGATTTGT-ATCTTTAATCTGCTCCACTGCAACTTTAG
* * ** *
48872844 GGAGATAAGATTTATGGT-TTTAATCTGCTATACTGCAACTTCAG
1 GGAGATAAGATTTGT-ATCTTTAATCTGCTCCACTGCAACTTTAG
* * * * *
48872888 AGAGATAAGATTTGTCATCTTCAATCTACTCCACTGTAACTTCAG
1 GGAGATAAGATTTGT-ATCTTTAATCTGCTCCACTGCAACTTTAG
* * * *
48872933 GGAGATAAGATTTGTAACCTGATTTAATATGAC-CCACTGTAACTTCAG
1 GGAGATAAGATTTGT-A--T-CTTTAATCTG-CTCCACTGCAACTTTAG
* * * *
48872981 AGG-TATAGGATTTGTCA-CTTTAATATGCTCCACTACAACTTTAG
1 -GGAGATAAGATTTGT-ATCTTTAATCTGCTCCACTGCAACTTTAG
* * *
48873025 GGAGATAAGATTTGTTATTTTTAA-CATGCTCAAGTGCAACTTTAG
1 GGAGATAAGATTTG-TATCTTTAATC-TGCTCCACTGCAACTTTAG
* * * * **
48873070 GGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACTGCTTTAG
1 GGAGATAAGATTTGTATCTTTAATCTGCTCCACTGCAACTTTAG
* * * * *
48873114 AGAGATAATATTTGTTATCTTCAATCTGTTCCACTGCAACTTCAG
1 GGAGATAAGATTTG-TATCTTTAATCTGCTCCACTGCAACTTTAG
** * *
48873159 GGAGATAAGATTTGTGGCTTTAATTTGCTCCACTGCAACTTCAG
1 GGAGATAAGATTTGTATCTTTAATCTGCTCCACTGCAACTTTAG
48873203 GGAGATAAGATTTG
1 GGAGATAAGATTTG
48873217 CCACGATAAC
Statistics
Matches: 402, Mismatches: 87, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
43 37 0.09
44 223 0.55
45 106 0.26
47 1 0.00
48 32 0.08
49 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (44 bp):
GGAGATAAGATTTGTATCTTTAATCTGCTCCACTGCAACTTTAG
Found at i:48873105 original size:89 final size:89
Alignment explanation
Indices: 48872774--48873216 Score: 385
Period size: 89 Copynumber: 4.9 Consensus size: 89
48872764 GATTTGCAAC
* * * * * * * *
48872774 TTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTGGTTTTAATCTGTTCTACTACTAC
1 TTTAATCTGCTCAACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAAC
* **
48872839 TTTAGGGAGATAAGATTT-ATGGT
66 TTTAGGGAGATAAGATTTGTTATT
* * * * **
48872862 TTTAATCTGCT-ATACTGCAACTTCAGAGAGATAAGATTTGTCATCTTCAATCTACTCCACTGTA
1 TTTAATCTGCTCA-ACTGCAACTTCAGGGAGATAAGATTTGT-AGCTTTAATCTGCTCCACTACA
* * *
48872926 ACTTCAGGGAGATAAGATTTGTAACCTGA
64 ACTTTAGGGAGATAAGATTTGTTA--T-T
* * * * * *
48872955 TTTAATATGAC-CCACTGTAACTTCAGAGG-TATAGGATTTGTCA-CTTTAATATGCTCCACTAC
1 TTTAATCTG-CTCAACTGCAACTTCAG-GGAGATAAGATTTGT-AGCTTTAATCTGCTCCACTAC
48873017 AACTTTAGGGAGATAAGATTTGTTATT
63 AACTTTAGGGAGATAAGATTTGTTATT
* * * * **
48873044 TTTAA-CATGCTCAAGTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACTG
1 TTTAATC-TGCTCAACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAA
* * *
48873108 CTTTAGAGAGATAATATTTGTTATC
65 CTTTAGGGAGATAAGATTTGTTATT
* * * * * *
48873133 TTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATTTGCTCCACTGCAAC
1 TTTAATCTGCTCAACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAAC
*
48873198 TTCAGGGAGATAAGATTTG
66 TTTAGGGAGATAAGATTTG
48873217 CCACGATAAC
Statistics
Matches: 277, Mismatches: 64, Indels: 27
0.75 0.17 0.07
Matches are distributed among these distances:
88 40 0.14
89 164 0.59
90 2 0.01
92 37 0.13
93 32 0.12
94 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (89 bp):
TTTAATCTGCTCAACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAAC
TTTAGGGAGATAAGATTTGTTATT
Found at i:48873149 original size:226 final size:225
Alignment explanation
Indices: 48872764--48873173 Score: 563
Period size: 226 Copynumber: 1.8 Consensus size: 225
48872754 AAGAAGATGA
* * * *
48872764 GATTTGCAACTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTGGTTTTAATCTGTT
1 GATTTGCAACTTTAATATACTCCACTACAACTTTAGGGAGATAAGATTTGTAGTTTTAATCTGCT
* * * * *
48872829 CTACTACTACTTTAGGGAGATAAGATTTATGGTTTTAATCTGCTATACTGCAACTTCAGAGAGAT
66 CAACTACAACTTTAGGGAGATAAGATTTATAGCTTTAATCTGCTATACTACAACTTCAGAGAGAT
*
48872894 AAGATTTGTCATCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTAACCTGATTTA
131 AAGATTTGTCATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACCTGATTTA
48872959 ATATGACCCACTGTAACTTCAGAGGTATAG
196 ATATGACCCACTGTAACTTCAGAGGTATAG
* *
48872989 GATTTGTC-ACTTTAATATGCTCCACTACAACTTTAGGGAGATAAGATTTGTTATTTTTAA-CAT
1 GATTTG-CAACTTTAATATACTCCACTACAACTTTAGGGAGATAAGATTTG-TAGTTTTAATC-T
* * * * * ** *
48873052 GCTCAAGTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACTGCTTTAGAGA
63 GCTCAACTACAACTTTAGGGAGATAAGATTTATAGCTTTAATCTGCTATACTACAACTTCAGAGA
* * **
48873117 GATAATATTTGTTATCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGT
128 GATAAGATTTGTCATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT
48873174 GGCTTTAATT
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
225 46 0.29
226 112 0.71
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (225 bp):
GATTTGCAACTTTAATATACTCCACTACAACTTTAGGGAGATAAGATTTGTAGTTTTAATCTGCT
CAACTACAACTTTAGGGAGATAAGATTTATAGCTTTAATCTGCTATACTACAACTTCAGAGAGAT
AAGATTTGTCATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACCTGATTTA
ATATGACCCACTGTAACTTCAGAGGTATAG
Found at i:48878773 original size:129 final size:128
Alignment explanation
Indices: 48878580--48878844 Score: 288
Period size: 129 Copynumber: 2.1 Consensus size: 128
48878570 GCAACTTTAA
* * * *
48878580 AGATAAGACTGGTGTGATCTATTCTACTGCAACTTCAGAGAGATGAAACAAATCATTTTGATCCG
1 AGATAAGACTGGTGCGATCTACTCTACTACAACTTCAGAGAGATGAAACAAATCATTTTAATCCG
* * * * *
48878645 CTCCTCTGCAACCTCAGGGAAATAGGATT-T--GTTTCTTATGTCTGCTCCACTGCAACTTCAGG
66 CTCCGCTGCAACCTCAGGGAAATAGGATTATCGGCTTC--A-ATCTGCTCCACTACAACCTCAGG
48878707 G
128 G
* ** *
48878708 AGATAAGACTGGTTGCGATCTGCTCTACTACAACTTCAGAGAGAT-AAGATCTGAT-GTTTTAAT
1 AGATAAGACTGG-TGCGATCTACTCTACTACAACTTCAGAGAGATGAA-A-CAAATCATTTTAAT
* ** *
48878771 CCGCTCCGCTGTAATTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGG
63 CCGCTCCGCTGCAACCTCAGGGAAATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGG
48878836 G
128 G
48878837 AGATAAGA
1 AGATAAGA
48878845 TTTGCCATCT
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
128 14 0.12
129 91 0.80
130 5 0.04
132 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (128 bp):
AGATAAGACTGGTGCGATCTACTCTACTACAACTTCAGAGAGATGAAACAAATCATTTTAATCCG
CTCCGCTGCAACCTCAGGGAAATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAGGG
Found at i:48879029 original size:219 final size:219
Alignment explanation
Indices: 48878685--48879456 Score: 1213
Period size: 219 Copynumber: 3.5 Consensus size: 219
48878675 GTTTCTTATG
* * * * * **
48878685 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTGCGATCTGCTCTACTACAACTTCAGAGA
1 TCTGCTCCGCTGCAACCTCAGGGAGATGAGACTCGATGCGATCCACTCTACTACAACTTCAGAGA
* *
48878750 GATAAGATCTGATGTTTTAATCCGCTCCGCTGTAATTTCAGGGAGATAGGATTATCGGCTTCAAT
66 GATAAGATCTGATGTTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
48878815 CTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCCACTGCAACTTCA
131 CTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCCACTGCAACTTCA
48878880 GGGGGATAAGACCTACTTACTCGA
196 GGGGGATAAGACCTACTTACTCGA
* * ** *
48878904 TCTGCTCTGCTGCAACCTCAGGGAGATGGGACTCGATGCGATCCACTCTACTGTAACTTCAGAGT
1 TCTGCTCCGCTGCAACCTCAGGGAGATGAGACTCGATGCGATCCACTCTACTACAACTTCAGAGA
* *
48878969 GATAAGATTTGATGTTTTAATCCGCTCCGCTGCAATTTCAGGGAGATAGGATTATCGGCTTCAAT
66 GATAAGATCTGATGTTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
*
48879034 CTGCTCCACTACAAACTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCCACTGCAACTTCA
131 CTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCCACTGCAACTTCA
** *
48879099 GGGGGATAAGATTTTCTTACTCGA
196 GGGGGATAAGACCTACTTACTCGA
* * * *
48879123 TCTACTCTGCTGCAACCTCAGGGAGATGAGACCCAATGCGATCCACTCTACTACAACTTCAGAGA
1 TCTGCTCCGCTGCAACCTCAGGGAGATGAGACTCGATGCGATCCACTCTACTACAACTTCAGAGA
* *
48879188 GATAAGATCTGATGTTTTAATCCACTCCGTTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
66 GATAAGATCTGATGTTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
* * * *
48879253 CTGCTCCATTGCAACCTCAGGGAAATAAGATTTGCCATCTTCGATCTG-CCCCACTGCAACTTTA
131 CTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCCACTGCAACTTCA
48879317 GGGGGATAAGACCTACTTACTCGA
196 GGGGGATAAGACCTACTTACTCGA
* ** *
48879341 TCTGCTCCGTTGCAACCTCAGGGAGATGAGACTCGATGCGATCCACTCTACTGTAACTTCAGAGT
1 TCTGCTCCGCTGCAACCTCAGGGAGATGAGACTCGATGCGATCCACTCTACTACAACTTCAGAGA
* *
48879406 GATAAGATTTGATGTTTTAATCCGCTCCGCTGCAACTTCAGGCAGATAGGA
66 GATAAGATCTGATGTTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGA
48879457 GTAGTGGCTT
Statistics
Matches: 504, Mismatches: 49, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
218 140 0.28
219 364 0.72
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (219 bp):
TCTGCTCCGCTGCAACCTCAGGGAGATGAGACTCGATGCGATCCACTCTACTACAACTTCAGAGA
GATAAGATCTGATGTTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATCGGCTTCAAT
CTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCCACTGCAACTTCA
GGGGGATAAGACCTACTTACTCGA
Found at i:48893903 original size:40 final size:40
Alignment explanation
Indices: 48893859--48893994 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
48893849 GTTTGGACAA
* *
48893859 AAAACGCCGCTAAAAATCAAGCATTAGAGGCGCTTTAAAT
1 AAAACGCCGCTAAAAATCGAGCATTAGAGGCGCTTTAAAG
* * * *
48893899 AAAACGCCGCTAAAGACCGAGCATTA-ACGGCGCTTTCAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGA-GGCGCTTTAAAG
* * * ***
48893939 AAAACGCCGCCAAAAAT-GAGCATTAGCGGCGTTTTTTTG
1 AAAACGCCGCTAAAAATCGAGCATTAGAGGCGCTTTAAAG
48893978 AAAAACGCCGCTAAAAA
1 -AAAACGCCGCTAAAAA
48893995 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 17 0.22
40 61 0.78
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGAGGCGCTTTAAAG
Found at i:48894247 original size:41 final size:41
Alignment explanation
Indices: 48894030--48894232 Score: 352
Period size: 41 Copynumber: 5.0 Consensus size: 41
48894020 ACCTTTCGGG
48894030 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
1 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
* *
48894071 GCTTTTAGCGGTGTTATTGAAAAAGCGCCGCTAATGCTCAA
1 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
* *
48894112 GCTTTTAGCGGTGTTATTGAAAAAGCGCCGCTAATGCTCAA
1 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
*
48894153 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
1 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
*
48894194 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTC
1 GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
48894233 TGGGCTTTAG
Statistics
Matches: 156, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 156 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
Found at i:48894273 original size:52 final size:52
Alignment explanation
Indices: 48894197--48894299 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
48894187 TGCTCAGGCT
**
48894197 TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCT-GGGCTTTAGCGGCGC
1 TTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCT-TAGGGCTTTAGCGGCGC
* *
48894249 TTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTTAGGGCTTTAGCGGCG
1 TTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTAGGGCTTTAGCGGCG
48894300 TTTTTGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 45 0.98
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.28
Consensus pattern (52 bp):
TTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTAGGGCTTTAGCGGCGC
Found at i:48894856 original size:7 final size:7
Alignment explanation
Indices: 48894846--48894878 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
48894836 TAGTAGTTAT
48894846 GGGTTTG
1 GGGTTTG
*
48894853 GGGTTTA
1 GGGTTTG
48894860 GGGTTTG
1 GGGTTTG
48894867 GGGTTTG
1 GGGTTTG
48894874 GGGTT
1 GGGTT
48894879 AGGTGTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.55, T:0.42
Consensus pattern (7 bp):
GGGTTTG
Found at i:48894892 original size:21 final size:21
Alignment explanation
Indices: 48894825--48894892 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
48894815 ATATTAAATA
*
48894825 AGGTTTAGGGTTA-GTAGTTATG
1 AGGTTTGGGGTTAGGT-GTTA-G
*
48894847 -GGTTTGGGGTTTAGG-GTTTG
1 AGGTTTGGGG-TTAGGTGTTAG
*
48894867 GGGTTTGGGGTTAGGTGTTAG
1 AGGTTTGGGGTTAGGTGTTAG
48894888 AGGTT
1 AGGTT
48894893 AAGAGTTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
20 6 0.16
21 28 0.74
22 3 0.08
23 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (21 bp):
AGGTTTGGGGTTAGGTGTTAG
Found at i:48895524 original size:27 final size:27
Alignment explanation
Indices: 48895492--48895548 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
48895482 TTACATGTTG
48895492 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
48895519 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
48895546 AAA
1 AAA
48895549 AAGAATGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.21
Consensus pattern (27 bp):
AAATTAATTAAGGGAATGTAAACAAGA
Found at i:48900537 original size:23 final size:22
Alignment explanation
Indices: 48900500--48900542 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
48900490 TCGTATAATA
*
48900500 AAATTTATTTATTTATTGTTAGG
1 AAATTTAATTATTTA-TGTTAGG
*
48900523 AAATTTAATTGTTTATGTTA
1 AAATTTAATTATTTATGTTA
48900543 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (22 bp):
AAATTTAATTATTTATGTTAGG
Found at i:48900762 original size:43 final size:42
Alignment explanation
Indices: 48900707--48901044 Score: 417
Period size: 43 Copynumber: 7.9 Consensus size: 42
48900697 CATTTGTGAA
* * *
48900707 AAAAGCGCCGCTAAAAGTTATGATCTATAGCGGCGTTCGTGAG
1 AAAAGCGCCGCTAAAGGTT-TGATCTATAGCGGCGTTTGTGGG
* * *
48900750 AGAAGCGTCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGG
*
48900793 AAAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGG
*
48900836 AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGG
* * *
48900879 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGATTGTGGG
1 AAAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGG
* *
48900922 AAAAGCGCCGCTAAAGATCTTGATCTATAGCGCCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGG
* * * *
48900965 -AAAGCGCCGCTAAATGTCTTAATCTATAGCGGTGTTTGTGAG
1 AAAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGGG
** *
48901007 AAAAGCGCCGCTAAAGGTCCCGATCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTT
48901045 ATTTCTAAAA
Statistics
Matches: 262, Mismatches: 31, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
42 36 0.14
43 226 0.86
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTTTGATCTATAGCGGCGTTTGTGGG
Found at i:48900848 original size:86 final size:86
Alignment explanation
Indices: 48900707--48901044 Score: 491
Period size: 86 Copynumber: 3.9 Consensus size: 86
48900697 CATTTGTGAA
* * * * *
48900707 AAAAGCGCCGCTAAAAGT-TATGATCTATAGCGGCGTTCGTGAGAGAAGCGTCGCTAAAGGTCCT
1 AAAAGCGCCGCTAAAGGTCT-TAATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCT
48900771 GATCTATAGCGGCGTTTGTGGG
65 GATCTATAGCGGCGTTTGTGGG
* * *
48900793 AAAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTG
1 AAAAGCGCCGCTAAAGGTCTTAATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
48900858 ATCTATAGCGGCGTTTGTGGG
66 ATCTATAGCGGCGTTTGTGGG
* * * * *
48900879 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGATTGTGGGAAAAGCGCCGCTAAAGATCTTG
1 AAAAGCGCCGCTAAAGGTCTTAATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
*
48900944 ATCTATAGCGCCGTTTGTGGG
66 ATCTATAGCGGCGTTTGTGGG
* * *
48900965 -AAAGCGCCGCTAAATGTCTTAATCTATAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAGGTCCCG
1 AAAAGCGCCGCTAAAGGTCTTAATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
*
48901029 ATCTTTAGCGGCGTTT
66 ATCTATAGCGGCGTTT
48901045 ATTTCTAAAA
Statistics
Matches: 228, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
85 70 0.31
86 157 0.69
87 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTCTTAATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
ATCTATAGCGGCGTTTGTGGG
Found at i:48900932 original size:129 final size:129
Alignment explanation
Indices: 48900707--48901041 Score: 501
Period size: 129 Copynumber: 2.6 Consensus size: 129
48900697 CATTTGTGAA
* * * *
48900707 AAAAGCGCCGCTAAAAGTTATGATCTATAGCGGCGTTCGTGAGAGAAGCGTCGCTAAAGGTCCTG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
* * * *
48900772 ATCTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGG
66 ATCTATAGCGGCGATTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTATAGCGCCGTTTGTGGG
* * * *
48900836 AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTA
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
48900901 ATCTATAGCGGCGATTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTATAGCGCCGTTTGTGGG
66 ATCTATAGCGGCGATTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTATAGCGCCGTTTGTGGG
* * * * *
48900965 -AAAGCGCCGCTAAATGTCTTAATCTATAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAGGTCCCG
1 AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
*
48901029 ATCTTTAGCGGCG
66 ATCTATAGCGGCG
48901042 TTTATTTCTA
Statistics
Matches: 186, Mismatches: 20, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
128 69 0.37
129 117 0.63
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (129 bp):
AAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG
ATCTATAGCGGCGATTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTATAGCGCCGTTTGTGGG
Found at i:48901938 original size:18 final size:17
Alignment explanation
Indices: 48901915--48901967 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
48901905 GAAAATATCA
48901915 AAAATAATAAGAAATAAT
1 AAAATAAT-AGAAATAAT
* *
48901933 AAAATAACGAGAAGTAA-
1 AAAATAA-TAGAAATAAT
48901950 AAAATAATA-AAATAAT
1 AAAATAATAGAAATAAT
48901966 AA
1 AA
48901968 CGATAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 7 0.24
18 14 0.48
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.19
Consensus pattern (17 bp):
AAAATAATAGAAATAAT
Found at i:48902219 original size:23 final size:23
Alignment explanation
Indices: 48902192--48902242 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
48902182 TAAATGAAAT
48902192 TAAAAGGG-TAAATTGCAATAAAA
1 TAAAAGGGCT-AATTGCAATAAAA
*
48902215 TAAAAGGGCCTAATTGTAATAAAA
1 TAAAAGGG-CTAATTGCAATAAAA
48902239 TAAA
1 TAAA
48902243 CACATAAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 16 0.64
25 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.24
Consensus pattern (23 bp):
TAAAAGGGCTAATTGCAATAAAA
Found at i:48903192 original size:17 final size:17
Alignment explanation
Indices: 48903155--48903196 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
48903145 CAGTGACAGT
* * *
48903155 GGTGGTGGCAGGCAGTT
1 GGTGGCGGCAGGCACTA
48903172 GGTGGCGGCAGGCACTA
1 GGTGGCGGCAGGCACTA
48903189 GGT-GCGGC
1 GGTGGCGGC
48903197 GCTGACGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.12, C:0.19, G:0.52, T:0.17
Consensus pattern (17 bp):
GGTGGCGGCAGGCACTA
Found at i:48903743 original size:44 final size:43
Alignment explanation
Indices: 48903542--48903788 Score: 190
Period size: 44 Copynumber: 5.6 Consensus size: 43
48903532 CATTCTAATT
* *
48903542 CACTGCAACTTCAGAGG-TATAAGATTTGTTACTTCAATCTACTC
1 CACTGCAACTT-AG-GGAGATAAGATTTGTAACTTCAATCTACTC
* * * * * * *
48903586 CACTACAACTTTGAGGAGATTAGAGTTGTAGCTTTAATCTGCTC
1 CACTGCAACTTAG-GGAGATAAGATTTGTAACTTCAATCTACTC
** * * * * *
48903630 CACTATAACTTTAGGGCGATGAGACTCGTATCTTCAATCTACTC
1 CACTGCAAC-TTAGGGAGATAAGATTTGTAACTTCAATCTACTC
* *
48903674 CTCTGCAACTTCAGGGAGATGAGATTTGTAACTTCAATCTACTC
1 CACTGCAACTT-AGGGAGATAAGATTTGTAACTTCAATCTACTC
* *** * * *
48903718 CACTGCAACTCTAGGGAGATAAGATTTATGGTTTTAATTTGCTC
1 CACTGCAACT-TAGGGAGATAAGATTTGTAACTTCAATCTACTC
*
48903762 TACTGCAACTTCAGGGAGATAAGATTT
1 CACTGCAACTT-AGGGAGATAAGATTT
48903789 ATAGTTTTAA
Statistics
Matches: 163, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
43 7 0.04
44 152 0.93
45 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (43 bp):
CACTGCAACTTAGGGAGATAAGATTTGTAACTTCAATCTACTC
Found at i:48903789 original size:44 final size:44
Alignment explanation
Indices: 48903676--48903807 Score: 167
Period size: 44 Copynumber: 3.0 Consensus size: 44
48903666 ATCTACTCCT
* * ** * * *
48903676 CTGCAACTTCAGGGAGATGAGATTTGTAACTTCAATCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATTTATAGTTTTAATCTGCTCTA
* *
48903720 CTGCAAC-TCTAGGGAGATAAGATTTATGGTTTTAATTTGCTCTA
1 CTGCAACTTC-AGGGAGATAAGATTTATAGTTTTAATCTGCTCTA
48903764 CTGCAACTTCAGGGAGATAAGATTTATAGTTTTAATCTGCTCTA
1 CTGCAACTTCAGGGAGATAAGATTTATAGTTTTAATCTGCTCTA
48903808 GATTTGCTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
43 2 0.03
44 71 0.95
45 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTTATAGTTTTAATCTGCTCTA
Found at i:48903801 original size:132 final size:132
Alignment explanation
Indices: 48903544--48903785 Score: 290
Period size: 132 Copynumber: 1.8 Consensus size: 132
48903534 TTCTAATTCA
* * * *
48903544 CTGCAACTTCAGAGGTATAAGATTTGTTACTTCAATCTACTCCACTACAACTTTGAGGAGATTAG
1 CTGCAACTTCAGAGGGATAAGATTTGTAACTTCAATCTACTCCACTACAACTTAGAGGAGATAAG
* * * * * *
48903609 AGTTGTAGCTTTAATCTGCTCCACTATAACTTTAGGGCGATGAGACTCGTATCTTCAATCTACTC
66 AGTTATAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCATATCTTCAATCTACTC
48903674 CT
131 CT
* *
48903676 CTGCAACTTCAG-GGAGATGAGATTTGTAACTTCAATCTACTCCACTGCAACTCTAG-GGAGATA
1 CTGCAACTTCAGAGG-GATAAGATTTGTAACTTCAATCTACTCCACTACAACT-TAGAGGAGATA
* * * * * *
48903739 AGATTTATGGTTTTAATTTGCTCTACTGCAACTTCAGGGAGATAAGA
64 AGAGTTATAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGA
48903786 TTTATAGTTT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
131 2 0.02
132 87 0.96
133 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (132 bp):
CTGCAACTTCAGAGGGATAAGATTTGTAACTTCAATCTACTCCACTACAACTTAGAGGAGATAAG
AGTTATAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCATATCTTCAATCTACTC
CT
Found at i:48903858 original size:45 final size:44
Alignment explanation
Indices: 48903807--48904128 Score: 306
Period size: 44 Copynumber: 7.2 Consensus size: 44
48903797 AATCTGCTCT
*
48903807 AGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
1 AGATTTG-TATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * * *
48903852 AGATTTGTAACCTGATTTAATCCGAC-CCACTGTAACTTTAGAGG-TATA
1 AGATTTGT-A--T-CTTTAATCTG-CTCCACTGCAACTTCAG-GGAGATA
* ** **
48903900 GGATTTGTCGCTTTAATCTATTCCACTGCAACTTCAGGGAGATA
1 AGATTTGTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* *
48903944 AGATTTGTTATCTTTAACCTGCTCCACTGCAACTTCATGGAGATA
1 AGATTTG-TATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * * * * *
48903989 AGGTTTGTAGCTTTAATTTGCTCTACTGCAACTTTAGAGACATA
1 AGATTTGTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
48904033 AGATTTGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGACA
1 AGATTTG-TATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
** *
48904078 AGATTTGTGGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATA
1 AGATTTGTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
*
48904122 AAATTTG
1 AGATTTG
48904129 ATACGATAAC
Statistics
Matches: 220, Mismatches: 47, Indels: 21
0.76 0.16 0.07
Matches are distributed among these distances:
43 2 0.01
44 102 0.46
45 82 0.37
47 1 0.00
48 30 0.14
49 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
AGATTTGTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
Found at i:48904017 original size:89 final size:88
Alignment explanation
Indices: 48903826--48904128 Score: 315
Period size: 89 Copynumber: 3.4 Consensus size: 88
48903816 ATCTTCAATC
* * *
48903826 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACCTGATTTAATCC-GAC-CCACTGTAACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTA--T-CTTTAA-CCTG-CTCCACTGCAACT
* * * *
48903889 T-TAGAGGTATAGGATTTGTCGCTTTAATC
61 TATGGAGATA-AGG-TTTGTAGCTTTAATT
**
48903918 TATTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAACCTGCTCCACTGCAACTTCATG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAACCTGCTCCACTGCAACTT-ATG
48903983 GAGATAAGGTTTGTAGCTTTAATT
65 GAGATAAGGTTTGTAGCTTTAATT
* * * * * * * *
48904007 TGCTCTACTGCAACTTTAGAGACATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTTAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAACCTGCTCCACTGCAAC-TTATG
* * *
48904072 GAGACAAGATTTGTGGCTTTAATT
65 GAGATAAGGTTTGTAGCTTTAATT
*
48904096 TGCTCCACTGCAACTTCAGGGAGATAAAATTTG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG
48904129 ATACGATAAC
Statistics
Matches: 179, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
88 3 0.02
89 131 0.73
90 6 0.03
91 6 0.03
92 33 0.18
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAACCTGCTCCACTGCAACTTATGG
AGATAAGGTTTGTAGCTTTAATT
Found at i:48904617 original size:16 final size:16
Alignment explanation
Indices: 48904596--48904631 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
48904586 CAAAAAATCC
48904596 TTTTACTTGAATATTA
1 TTTTACTTGAATATTA
*
48904612 TTTTACTTGATTATTA
1 TTTTACTTGAATATTA
48904628 TTTT
1 TTTT
48904632 TCCATTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTTACTTGAATATTA
Found at i:48905858 original size:18 final size:19
Alignment explanation
Indices: 48905830--48905867 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
48905820 TTTTCATAAG
48905830 TATATATACATATACATTT
1 TATATATACATATACATTT
48905849 TATA-ATACATATACATTT
1 TATATATACATATACATTT
48905867 T
1 T
48905868 CCATACTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATACATATACATTT
Found at i:48906135 original size:20 final size:20
Alignment explanation
Indices: 48906112--48906156 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
48906102 ACTTCAATTC
* *
48906112 ATATACATACTTATGTACAT
1 ATATACATACCTATATACAT
* *
48906132 ATATACGTACCTATATATAT
1 ATATACATACCTATATACAT
48906152 ATATA
1 ATATA
48906157 TGTTTACTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (20 bp):
ATATACATACCTATATACAT
Found at i:48907713 original size:14 final size:14
Alignment explanation
Indices: 48907689--48907730 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
48907679 AAATATATTT
48907689 TATAT-TAAAAAAA
1 TATATGTAAAAAAA
48907702 TATATGT-AAAAAA
1 TATATGTAAAAAAA
*
48907715 -ATATGTAAAAATA
1 TATATGTAAAAAAA
48907728 TAT
1 TAT
48907731 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 6 0.24
13 16 0.64
14 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TATATGTAAAAAAA
Found at i:48907718 original size:12 final size:12
Alignment explanation
Indices: 48907696--48907730 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
48907686 TTTTATATTA
48907696 AAAAAATATATGT
1 AAAAAA-ATATGT
48907709 AAAAAAATATGT
1 AAAAAAATATGT
*
48907721 AAAAATATAT
1 AAAAAAATAT
48907731 TATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (12 bp):
AAAAAAATATGT
Found at i:48913325 original size:19 final size:19
Alignment explanation
Indices: 48913288--48913325 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
48913278 GAGCTTTCAA
48913288 TCAAAAAAAGTAAAAAGAAG
1 TCAAAAAAAG-AAAAAGAAG
48913308 TCAAAAAAA-AAAACAGAA
1 TCAAAAAAAGAAAA-AGAA
48913326 AAAAGTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.74, C:0.08, G:0.11, T:0.08
Consensus pattern (19 bp):
TCAAAAAAAGAAAAAGAAG
Found at i:48913328 original size:26 final size:25
Alignment explanation
Indices: 48913290--48913339 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
48913280 GCTTTCAATC
*
48913290 AAAAAAAGTAAAAAG-AAGTCAAAAA
1 AAAAAAAGAAAAAAGTAA-TCAAAAA
48913315 AAAAAACAGAAAAAAGTAATCAAAA
1 AAAAAA-AGAAAAAAGTAATCAAAA
48913340 GTTTCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 14 0.64
27 2 0.09
ACGTcount: A:0.76, C:0.06, G:0.10, T:0.08
Consensus pattern (25 bp):
AAAAAAAGAAAAAAGTAATCAAAAA
Found at i:48914143 original size:24 final size:24
Alignment explanation
Indices: 48914116--48914188 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
48914106 ATAAATGTAC
48914116 TTTATAGTTAAATTTCCAATGAAA
1 TTTATAGTTAAATTTCCAATGAAA
* * * *
48914140 TTTATAGTTAAATAT-GACATGTAC
1 TTTATAGTTAAATTTCCA-ATGAAA
*
48914164 TTTGTAGTTAAATTTCCAATGAAA
1 TTTATAGTTAAATTTCCAATGAAA
48914188 T
1 T
48914189 GGTACCTTCA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (24 bp):
TTTATAGTTAAATTTCCAATGAAA
Found at i:48914435 original size:56 final size:54
Alignment explanation
Indices: 48914306--48914475 Score: 295
Period size: 56 Copynumber: 3.1 Consensus size: 54
48914296 TTTAGAAACA
*
48914306 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATATTGCATGACCCAAATATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
*
48914360 ATAAATGAAAGAGCCCAAAAATTTAAAGAAAAATCTTGCATGACCCCCAAATATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGA--CCCAAATATTT
48914416 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATTGACCCAAATATTT
1 ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCA-TGACCCAAATATTT
48914471 ATAAA
1 ATAAA
48914476 CTCATATTAG
Statistics
Matches: 110, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
54 41 0.37
55 16 0.15
56 50 0.45
57 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (54 bp):
ATAAATGAAAGAGCCCAAAAATTTAAAGAAGAATCTTGCATGACCCAAATATTT
Found at i:48914500 original size:3 final size:3
Alignment explanation
Indices: 48914488--48914527 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
48914478 CATATTAGAG
48914488 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
48914528 CTTGAGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:48922305 original size:18 final size:18
Alignment explanation
Indices: 48922282--48922320 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48922272 TCATTGTATT
*
48922282 TGAC-AAGAAACTAGAAAA
1 TGACAAAGAAAAT-GAAAA
48922300 TGACAAAGAAAATGAAAA
1 TGACAAAGAAAATGAAAA
48922318 TGA
1 TGA
48922321 AATACAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.62, C:0.08, G:0.18, T:0.13
Consensus pattern (18 bp):
TGACAAAGAAAATGAAAA
Found at i:48923097 original size:12 final size:12
Alignment explanation
Indices: 48923080--48923113 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
48923070 TTTATATTAA
*
48923080 AAAAATATCTGT
1 AAAAATATATGT
48923092 AAAAATATATGT
1 AAAAATATATGT
48923104 AAAAATATAT
1 AAAAATATAT
48923114 TATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (12 bp):
AAAAATATATGT
Found at i:48935695 original size:597 final size:585
Alignment explanation
Indices: 48934433--48935705 Score: 1830
Period size: 586 Copynumber: 2.2 Consensus size: 585
48934423 TCAATTATCT
* * * * * * * *
48934433 GGTCAGGTTCCATCTTCCATTTTCAAGATTTCTTCTTTGAA-AGCTATTAGTCTCTCCAGCAATA
1 GGTCAGATTCCAACTTCAATCTTCAACATTTCTTCTCTGAAGA-CCATT-GTCTCTCCAACAATA
* * *
48934497 GCTTATCAAGTAGTTTGCCTAATGATATGTGTCAACACCTTCCCAAGCTTGAAGGGCTTTACCTG
64 GCCTATCAGGTAGTTTGCCTAATGATAAGTGTCAACACCTTCCCAAGCTTGAAGGGCTTTACCTG
*
48934562 AGTTCGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAATGCAACAACCTTAAAAATTT
129 AGTTCGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAAGGCAACAACCTTAAAAATTT
* * * ** **
48934627 GTCATTGTCTTATAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATTTGATTCAACTTG
194 GTCATTGTCCTATAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTAACACAACTCC
* * * * * *
48934692 AAGAATTATATTTGGGGTTTAATAATTTAGAAGGTACTGAATTTCTTTTGTTTCTTTAATTTAAA
259 AAGAATTATATTTGGGGTCTAATAATCTAGAAGGTAATCAATTTCTCTTGTTTCTTGAATTTAAA
* * *
48934757 GTATTTTGTTTATATAAGAGTTTGATTTGTAATAGATAACAAAAAGTAAGAACTTTGATGAAAAA
324 GTATTTTGTTTATAAAAGAGTTTGATTTGTAATAGATAACAAAAAGAAAAAACTTTGATGAAAAA
48934822 ATATGCTGAAATATATTAAAATCTAACATCTCCAAATTATTGTAGAACAGAAAAGAAAACCTCTT
389 ATATGCTGAAATATATTAAAATCTAACATCTCCAAATTATTGTAGAACAGAAAAGAAAACCTCTT
* *
48934887 TGACTTATGCTAAAAAAATAGGAAGTTTAACACATTGATTTTTTGACTATGTCTGCAGGTCAAAT
454 TGACTTATGCTAAAAAAATAGGAAGTTTAACACATTGATTTTTCGACTATGTCTACAGGTCAAAT
* * * *
48934952 TCTTGAGGAAACCGGTAATCTTCTTGGTTTGGAACTGGTTAATATTCAAGCAATTAAAGGCCTTA
519 TCCTGAGGAAACCGGTAATCTTCTTGGTTTGGAACTGCTTAATATTAAAGCAACTAAAGGCCTTA
48935017 TA
584 TA
* *
48935019 GGTCAGATTCCAGCTTCAATCTTCAACATTTCTTCTCTGAAGACCATTAATCTCTCCAACAATAG
1 GGTCAGATTCCAACTTCAATCTTCAACATTTCTTCTCTGAAGACCATT-GTCTCTCCAACAATAG
* *
48935084 CCTATTAGGTAGTTTGCCTAATGATAAGTGTCAACATCTTCCCAAGCTTGAAGGGCTTTACCTGA
65 CCTATCAGGTAGTTTGCCTAATGATAAGTGTCAACACCTTCCCAAGCTTGAAGGGCTTTACCTGA
* * *
48935149 GTTTGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAAGGCAACAACCTTATAACTTTG
130 GTTCGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAAGGCAACAACCTTAAAAATTTG
* * * *
48935214 TCGTTGTCCTGTAATCAATTTATGGGGGTCATTCCAAGAAGTATTGGAAATCTAACACAACTCCA
195 TCATTGTCCTATAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTAACACAACTCCA
*
48935279 GGAATTATATTTGGGGTCTAATAATCTAGAAGGTAATCAATTTC-CTTGATTTCTTGAATTTAAA
260 AGAATTATATTTGGGGTCTAATAATCTAGAAGGTAATCAATTTCTCTTG-TTTCTTGAATTTAAA
* * *
48935343 GTATTTTTTTTATAAAAGAGTTTGATTTGTAATAGGTAACAAAAGGAAAAACTTTTTATTTCATT
324 GTATTTTGTTTATAAAAGAGTTTGATTTGTAATAGATAACAAAAAGAAAAA------A---C-TT
* *
48935408 TGATGAAAAACATATGCTGAAATATATTAAAATCTAACATCTCCAAATTCTTGTAGAACAGAACA
379 TGATGAAAAA-ATATGCTGAAATATATTAAAATCTAACATCTCCAAATTATTGTAGAACAGAAAA
* * * * * * *
48935473 GAAAACCTCTTTGACTTATGGTAACAAAATAGGTAGTTTGACACCTTGATTTTTCGACTTTGTGT
443 GAAAACCTCTTTGACTTATGCTAAAAAAATAGGAAGTTTAACACATTGATTTTTCGACTATGTCT
* * *
48935538 ACAGGTCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAGCTGCTTAGTATTAAAGCAAC
508 ACAGGTCAAATTCCTGAGGAAACCGGTAATCTTCTTGGTTTGGAACTGCTTAATATTAAAGCAAC
48935603 TAAAGGCCTTATA
573 TAAAGGCCTTATA
*
48935616 GGTCAGATTCCAACTTCGATCTTCAACATTTCTTCTCTGAAGACCATTGTTCTCTCCAACAATAG
1 GGTCAGATTCCAACTTCAATCTTCAACATTTCTTCTCTGAAGACCATTG-TCTCTCCAACAATAG
48935681 CCTATCAGGTAGTTTGCCTAATGAT
65 CCTATCAGGTAGTTTGCCTAATGAT
48935706 CTTCCCAAAC
Statistics
Matches: 609, Mismatches: 64, Indels: 17
0.88 0.09 0.02
Matches are distributed among these distances:
585 3 0.00
586 327 0.54
587 1 0.00
592 1 0.00
595 1 0.00
596 12 0.02
597 264 0.43
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (585 bp):
GGTCAGATTCCAACTTCAATCTTCAACATTTCTTCTCTGAAGACCATTGTCTCTCCAACAATAGC
CTATCAGGTAGTTTGCCTAATGATAAGTGTCAACACCTTCCCAAGCTTGAAGGGCTTTACCTGAG
TTCGAATGAATTATCTGGTAACATTCCATTTGGCATGGGCAAAGGCAACAACCTTAAAAATTTGT
CATTGTCCTATAATCAATTTACGGGGATCATTCCAAGAAGTATTGGAAATCTAACACAACTCCAA
GAATTATATTTGGGGTCTAATAATCTAGAAGGTAATCAATTTCTCTTGTTTCTTGAATTTAAAGT
ATTTTGTTTATAAAAGAGTTTGATTTGTAATAGATAACAAAAAGAAAAAACTTTGATGAAAAAAT
ATGCTGAAATATATTAAAATCTAACATCTCCAAATTATTGTAGAACAGAAAAGAAAACCTCTTTG
ACTTATGCTAAAAAAATAGGAAGTTTAACACATTGATTTTTCGACTATGTCTACAGGTCAAATTC
CTGAGGAAACCGGTAATCTTCTTGGTTTGGAACTGCTTAATATTAAAGCAACTAAAGGCCTTATA
Found at i:48939723 original size:16 final size:16
Alignment explanation
Indices: 48939702--48939756 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
48939692 TTGATTTGCT
*
48939702 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
48939718 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
* *
48939734 ATTACACATCTAATCC
1 ATTACACAGCTATTCC
*
48939750 AATACAC
1 ATTACAC
48939757 CTCTAATCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:48939761 original size:16 final size:16
Alignment explanation
Indices: 48939715--48939771 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
48939705 ACACAGCTTT
* *
48939715 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
* *
48939731 TCCATTACACATCTAA
1 TCCAATACACCTCTAA
48939747 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
48939763 TCCAATACA
1 TCCAATACA
48939772 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:48951103 original size:27 final size:27
Alignment explanation
Indices: 48951073--48951130 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
48951063 ATTCAATAAA
48951073 AAAAACAAAAAAGAAAAAATCAAAATC
1 AAAAACAAAAAAGAAAAAATCAAAATC
* * *
48951100 AAAAATAAAAAAGAAAAAGTCAAAATT
1 AAAAACAAAAAAGAAAAAATCAAAATC
48951127 AAAA
1 AAAA
48951131 GAATCAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (27 bp):
AAAAACAAAAAAGAAAAAATCAAAATC
Found at i:48951131 original size:19 final size:19
Alignment explanation
Indices: 48951101--48951157 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
48951091 ATCAAAATCA
48951101 AAAATAAAAAAGAAAAAGTC
1 AAAAT-AAAAAGAAAAAGTC
* *
48951121 AAAATTAAAAGAATCAA-TC
1 AAAATAAAAAGAA-AAAGTC
*
48951140 AAAATAAAAATAAAAAGT
1 AAAATAAAAAGAAAAAGT
48951158 ATAAAAATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.07
19 21 0.70
20 7 0.23
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.16
Consensus pattern (19 bp):
AAAATAAAAAGAAAAAGTC
Found at i:48951177 original size:46 final size:44
Alignment explanation
Indices: 48951079--48951182 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 44
48951069 TAAAAAAAAC
48951079 AAAAAAGAAAAAATCAAAATCAAAAATAAAAAAGAAAAAGTCAA
1 AAAAAAGAAAAAATCAAAATCAAAAATAAAAAAGAAAAAGTCAA
** *
48951123 AATTAAAAGAATCAATCAAAAT-AAAAATAAAAAGTATAAAAATGAT-AA
1 AA--AAAAGAAAAAATCAAAATCAAAAATAAAAA--AGAAAAA-G-TCAA
48951171 AAAAAAGAAAAA
1 AAAAAAGAAAAA
48951183 GAAAAGGAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
44 2 0.04
45 11 0.22
46 24 0.49
47 6 0.12
48 5 0.10
49 1 0.02
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.13
Consensus pattern (44 bp):
AAAAAAGAAAAAATCAAAATCAAAAATAAAAAAGAAAAAGTCAA
Found at i:48953408 original size:44 final size:44
Alignment explanation
Indices: 48953356--48953568 Score: 317
Period size: 44 Copynumber: 4.8 Consensus size: 44
48953346 TGAAGTTATA
*
48953356 AATCCTATCTCCCTGGTCAGAAGTGAAATAGGTTGAAGATTGT-
1 AATCCTATCTCCCTGGTCAGAAGTGGAATAGGTTGAAGATTGTG
48953399 AAGTCCTATCTCCCTGGTCA-ACAGTGGAATAGGTTGAAGATTGTG
1 AA-TCCTATCTCCCTGGTCAGA-AGTGGAATAGGTTGAAGATTGTG
*
48953444 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AATCCTATCTCCCTGGTCAGAAGTGGAATAGGTTGAAGATTGTG
*
48953488 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AATCCTATCTCCCTGGTCAGAAGTGGAATAGGTTGAAGATTGTG
* *
48953532 AATTCTATCTCCCTAGG-CA-ATAGTGGAATAGATTGAA
1 AATCCTATCTCCCT-GGTCAGA-AGTGGAATAGGTTGAA
48953569 AATTACAGAT
Statistics
Matches: 159, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
43 3 0.02
44 152 0.96
45 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
AATCCTATCTCCCTGGTCAGAAGTGGAATAGGTTGAAGATTGTG
Found at i:48953601 original size:88 final size:88
Alignment explanation
Indices: 48953356--48953603 Score: 249
Period size: 88 Copynumber: 2.8 Consensus size: 88
48953346 TGAAGTTATA
* * * *
48953356 AATCCTATCTCCCTGGTCAGA-AGTGAAATAGGTTGAAGATT--GTAAGTCCTATCTCCCTGGTC
1 AATCCTATCTCCCTGGTCA-ACAGTGGAATAGATTGAAAATTCAG-AA-TCCTATCTCCCTAGT-
48953418 AA-CAGTGGAATAGGTTGAAGATTGTG
62 AAGCAGTGGAATAGGTTGAAGATTGTG
* * * ** * *
48953444 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGC
1 AATCCTATCTCCCTGGTCAACAGTGGAATAGATTGAAAATTCAGAATCCTATCTCCCTAGTAAGC
48953509 AGTGGAATAGGTTGAAGATTGTG
66 AGTGGAATAGGTTGAAGATTGTG
* * *
48953532 AATTCTATCTCCCTAGG-CAATAGTGGAATAGATTGAAAATTACAG-ATCTTATCTCCCTAAG-A
1 AATCCTATCTCCCT-GGTCAACAGTGGAATAGATTGAAAATT-CAGAATCCTATCTCCCT-AGTA
*
48953594 AGTAGTGGAA
63 AGCAGTGGAA
48953604 CAGATCGAAG
Statistics
Matches: 139, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
87 1 0.01
88 131 0.94
89 6 0.04
90 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (88 bp):
AATCCTATCTCCCTGGTCAACAGTGGAATAGATTGAAAATTCAGAATCCTATCTCCCTAGTAAGC
AGTGGAATAGGTTGAAGATTGTG
Found at i:48953601 original size:132 final size:132
Alignment explanation
Indices: 48953356--48953603 Score: 324
Period size: 132 Copynumber: 1.9 Consensus size: 132
48953346 TGAAGTTATA
48953356 AATCCTATCTCCCTGGTCAGAAGTGAAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAAC
1 AATCCTATCTCCCTGGTCAGAAGTGAAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAAC
* * ** * *
48953421 AGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTG
66 AGTGGAATAGATTGAAAATTCAGAATCCTATCTCCCTAGTAAGCAGTGGAATAGGTTGAAGATTG
48953486 TG
131 TG
* * *
48953488 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TTCTATCTCCCTAGG-CA
1 AATCCTATCTCCCTGGTCAGAAGTGAAATAGGTTGAAGATTGT-AAGTCCTATCTCCCT-GGTCA
* * *
48953551 ATAGTGGAATAGATTGAAAATTACAG-ATCTTATCTCCCTAAG-AAGTAGTGGAA
64 ACAGTGGAATAGATTGAAAATT-CAGAATCCTATCTCCCT-AGTAAGCAGTGGAA
48953604 CAGATCGAAG
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
132 94 0.94
133 6 0.06
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (132 bp):
AATCCTATCTCCCTGGTCAGAAGTGAAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAAC
AGTGGAATAGATTGAAAATTCAGAATCCTATCTCCCTAGTAAGCAGTGGAATAGGTTGAAGATTG
TG
Found at i:48953808 original size:219 final size:219
Alignment explanation
Indices: 48953494--48953899 Score: 577
Period size: 219 Copynumber: 1.9 Consensus size: 219
48953484 TGTGAATCCT
* *
48953494 ATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATTCTATCTCCCTAGGCAATAGTGGA
1 ATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAATTCTATCTCCCTAGACAATAGTGGA
* * *
48953559 ATAGATTGAAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAACAGATCGAAG-CCCCTAGCC
66 ATAGAGTCAAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAACAGATCGAAGACACC-AGCC
* *
48953623 TTGCCTCCCTAGTTTGCAACGGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGTACCGACGGC
130 TTGCCTCCCTAGGTTGCAACAGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGTACCGACGGC
48953688 GAAATAGATCGAAGATATCAGTCCC
195 GAAATAGATCGAAGATATCAGTCCC
*
48953713 ATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AGA-TCATATCTCCCTAGACAGTAGTG
1 ATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGA-ATTC-TATCTCCCTAGACAATAGTG
* * *
48953776 GAATAG-GTCAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACACCGG
64 GAATAGAGTCAAA-ATTACAGATCTTATCTCCCTAAGAAGTAGTGGAACAGATCGAAGACACCAG
* * ** * ** *
48953840 CCTTGCCTCCCTCGGTTGTAGTAGAGCAGGTTGAAGATAGTAGATGTTGCCTTCCTGTAC
128 CCTTGCCTCCCTAGGTTGCAACAGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGTAC
48953900 TGATAGTGAA
Statistics
Matches: 164, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
218 7 0.04
219 154 0.94
220 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (219 bp):
ATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAATTCTATCTCCCTAGACAATAGTGGA
ATAGAGTCAAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAACAGATCGAAGACACCAGCCT
TGCCTCCCTAGGTTGCAACAGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTGTACCGACGGCG
AAATAGATCGAAGATATCAGTCCC
Found at i:48953821 original size:44 final size:44
Alignment explanation
Indices: 48953713--48953809 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
48953703 TATCAGTCCC
* * ** **
48953713 ATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAGATCAT
1 ATCTCCCTAGACAGTAGTGGAATAGGTCAAAGATTACAGATCAT
*
48953757 ATCTCCCTAGACAGTAGTGGAATAGGTCAAAGATTACAGATCTT
1 ATCTCCCTAGACAGTAGTGGAATAGGTCAAAGATTACAGATCAT
48953801 ATCTCCCTA
1 ATCTCCCTA
48953810 AGTAGTAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTCCCTAGACAGTAGTGGAATAGGTCAAAGATTACAGATCAT
Found at i:48953907 original size:88 final size:87
Alignment explanation
Indices: 48953815--48954097 Score: 275
Period size: 88 Copynumber: 3.2 Consensus size: 87
48953805 CCCTAAGTAG
* *
48953815 TAGTGGAGCAGATCGAAGACACCGGCCTTGCCTCCCTCGGTTGTAGTAGAGCAGGTTGAAGATAG
1 TAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GGTTGTAGTAGAGCAGGTTGAAGATAG
* *
48953880 TAGATGTTGCCTTCCTGTACTGA
65 CAGATCTTGCCTTCCTGTACTGA
* * * * * ** *
48953903 TAGTGAAGCAGATCAAAGACACTAGCATTG-ATCCCCTGGGTTGCAGCGGAGCAGGTTGAAGAAA
1 TAGTGAAGCAGATCGAAGACACCAGCCTTGCCT-CCCT-GGTTGTAGTAGAGCAGGTTGAAGATA
* *
48953967 GCAGATCTTACCTTCCTGCA-TCGA
64 GCAGATCTTGCCTTCCTGTACT-GA
* * *
48953991 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGTTTGTAGTAGCA-CAGGTTGAAAATA
1 TAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGG-TTGTAGTAG-AGCAGGTTGAAGATA
* * *
48954055 ACAGATCTTGTCTTCCTATACTGA
64 GCAGATCTTGCCTTCCTGTACTGA
** * *
48954079 CGGTAAAGCAGATCAAAGA
1 TAGTGAAGCAGATCGAAGA
48954098 TATCAGTCCT
Statistics
Matches: 154, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
87 4 0.03
88 147 0.95
89 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (87 bp):
TAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGTTGTAGTAGAGCAGGTTGAAGATAGC
AGATCTTGCCTTCCTGTACTGA
Found at i:48954137 original size:176 final size:176
Alignment explanation
Indices: 48953821--48954140 Score: 389
Period size: 176 Copynumber: 1.8 Consensus size: 176
48953811 GTAGTAGTGG
* * ** *
48953821 AGCAGATCGAAGACACCGGCCTTGCCTCCCTCGGTTGTAGTAGAGCAGGTTGAAGATAGTAGATG
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGTAGTAGAGCAGGTTGAAAATAACAGATC
* * * * ***
48953886 TTGCCTTCCTGTACTGATAGTGAAGCAGATCAAAGACACTAGCATTGATCCCCTGGGTTGCAGCG
66 TTGCCTTCCTATACTGACAGTAAAGCAGATCAAAGACACTAGCACTGATCCCCTGGACAGCAGCG
*
48953951 GAGCAGGTTGAAGAAAGCAGATCTTACCTTCCTGCATCGACAGCGA
131 GAACAGGTTGAAGAAAGCAGATCTTACCTTCCTGCATCGACAGCGA
48953997 AGCAGATCGAAGACACCAGCCTTGCCTCCCT-GGTTTGTAGTAGCA-CAGGTTGAAAATAACAGA
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTCGG-TTGTAGTAG-AGCAGGTTGAAAATAACAGA
* * *
48954060 TCTTGTCTTCCTATACTGACGGTAAAGCAGATCAAAGATA-TCAGTC-CT-ATCTCCCTGGACAG
64 TCTTGCCTTCCTATACTGACAGTAAAGCAGATCAAAGACACT-AG-CACTGATC-CCCTGGACAG
* * *
48954122 TAGTGGAATAGGTTGAAGA
126 CAGCGGAACAGGTTGAAGA
48954141 TTGTAGATCA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
175 6 0.05
176 112 0.93
177 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (176 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGTAGTAGAGCAGGTTGAAAATAACAGATC
TTGCCTTCCTATACTGACAGTAAAGCAGATCAAAGACACTAGCACTGATCCCCTGGACAGCAGCG
GAACAGGTTGAAGAAAGCAGATCTTACCTTCCTGCATCGACAGCGA
Found at i:48954137 original size:395 final size:395
Alignment explanation
Indices: 48953604--48954488 Score: 1173
Period size: 395 Copynumber: 2.3 Consensus size: 395
48953594 AGTAGTGGAA
* *
48953604 CAGATCGAAG-CCCCTAGCCTTGCCTCCCTAGTTTGCA-ACGGAGCAGGTTGAAAATAACAGATC
1 CAGATCGAAGACACC-AGCCTTGCCTCCCTGGTTTGCAGA-GGAGCAGGTTGAAAATAACAGATC
* * * *
48953667 TTGCCTTCCTGTACCGACGGCGAAA-TAGATCGAAGATATCAGTCCCATCTCCCTGGACAGCAGT
64 TTGCCTTCCTGTACTGACGG-TAAAGCAGATCAAAGATATCAGTCCCATCTCCCTGGACAGCAGT
*
48953731 GGAATAGGTTGAAGATTGTAGATCATATCTCCCTAGACAGTAGTGGAATAGGTCAAAGATTACAG
128 GGAATAGGTTGAAGATTGTAGATCATATCTCCCTAGACAGCAGTGGAATAGGTCAAAGATTACAG
* * *
48953796 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACACCGGCCTTGCCTCCCTCGGTTGTAG
193 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAG
* * * * * *
48953861 TAGAGCAGGTTGAAGATAGTAGATGTTGCCTTCCTGTA-CTGATAGTGAAGCAGATCAAAGACAC
258 TAGAGCAGGTTAAAGATAGTAGATCTGGCCTTCCTGCATC-GACAGCGAAGCAGATCAAAGACAC
* * * *
48953925 TAGCATTG-ATCCCCTGGGTTGCAGCGGAGCAGGTTGAA-GAAAGCAGATCTTACCTTCCTGCA-
322 CAGCATTGCCT-CCCTAGGTTACAGCGGAGCAGGTTGAAGGAAA-CAGATCTTACCTTCCTGCAC
48953987 TCGACAGCGAAG
385 T-GACAGCGAAG
* *
48953999 CAGATCGAAGACACCAGCCTTGCCTCCCTGGTTTGTAGTAGCA-CAGGTTGAAAATAACAGATCT
1 CAGATCGAAGACACCAGCCTTGCCTCCCTGGTTTGCAG-AGGAGCAGGTTGAAAATAACAGATCT
* * * *
48954063 TGTCTTCCTATACTGACGGTAAAGCAGATCAAAGATATCAGTCCTATCTCCCTGGACAGTAGTGG
65 TGCCTTCCTGTACTGACGGTAAAGCAGATCAAAGATATCAGTCCCATCTCCCTGGACAGCAGTGG
*
48954128 AATAGGTTGAAGATTGTAGATCATATCTCCCTGGACAGCAGTGGAATAGGTCAAAGATTACAGAT
130 AATAGGTTGAAGATTGTAGATCATATCTCCCTAGACAGCAGTGGAATAGGTCAAAGATTACAGAT
* * *
48954193 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACACCAGCCTTGCCTCCCTTGGTTGCAGTG
195 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTA
* *
48954258 GAGCAGGTTAAAGATAGTAGATCTGGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAG
260 GAGCAGGTTAAAGATAGTAGATCTGGCCTTCCTGCATCGACAGCGAAGCAGATCAAAGACACCAG
* * * * * * *
48954323 CCTTGCCTCCCTAGGTTACAGTGGAGTAGGTTGAAGGTAATAGATCTTGCCTTCCTGTACTGACA
325 CATTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAGGAAACAGATCTTACCTTCCTGCACTGACA
*
48954388 GTGAAG
390 GCGAAG
* * * * * *
48954394 C----CGAAGACACTAGCCTTGTCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTT
1 CAGATCGAAGACACCAGCCTTGCCTCCCTGGTTTGCAGAGGAGCAGGTTGAAAATAACAGATCTT
* * *
48954455 GCCTTCCTGTACTGACAGTGAAGCAAATCAAAGA
66 GCCTTCCTGTACTGACGGTAAAGCAGATCAAAGA
48954489 CACTAGCCTT
Statistics
Matches: 428, Mismatches: 53, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
390 2 0.00
391 78 0.18
394 3 0.01
395 333 0.78
396 11 0.03
397 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (395 bp):
CAGATCGAAGACACCAGCCTTGCCTCCCTGGTTTGCAGAGGAGCAGGTTGAAAATAACAGATCTT
GCCTTCCTGTACTGACGGTAAAGCAGATCAAAGATATCAGTCCCATCTCCCTGGACAGCAGTGGA
ATAGGTTGAAGATTGTAGATCATATCTCCCTAGACAGCAGTGGAATAGGTCAAAGATTACAGATC
TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTAG
AGCAGGTTAAAGATAGTAGATCTGGCCTTCCTGCATCGACAGCGAAGCAGATCAAAGACACCAGC
ATTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAGGAAACAGATCTTACCTTCCTGCACTGACAG
CGAAG
Found at i:48954157 original size:44 final size:44
Alignment explanation
Indices: 48954091--48954216 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 44
48954081 GTAAAGCAGA
*
48954091 TCAAAGA-TATCAG-TCCTATCTCCCTGGACAGTAGTGGAATAGG
1 TCAAAGATTA-CAGATCATATCTCCCTGGACAGTAGTGGAATAGG
** ** *
48954134 TTGAAGATTGTAGATCATATCTCCCTGGACAGCAGTGGAATAGG
1 TCAAAGATTACAGATCATATCTCCCTGGACAGTAGTGGAATAGG
* *
48954178 TCAAAGATTACAGATCTTATCTCCCT-AAGCAGTAGTGGA
1 TCAAAGATTACAGATCATATCTCCCTGGA-CAGTAGTGGA
48954217 GTAGATCGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
43 8 0.12
44 59 0.88
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
TCAAAGATTACAGATCATATCTCCCTGGACAGTAGTGGAATAGG
Found at i:48954692 original size:260 final size:263
Alignment explanation
Indices: 48954219--48955077 Score: 1135
Period size: 260 Copynumber: 3.3 Consensus size: 263
48954209 GTAGTGGAGT
* * * * * * *
48954219 AGATCGAAGACACCAGCCTTGCCTCCCTTGGTTGCAGTGGAGCAGGTTAAAGATAGTAGATCTGG
1 AGATCAAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
* *
48954284 CCTTCCTGCA-TCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTACAGTGGA
66 CCTTCCTGCACT-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGTGGA
* * ** *
48954348 GTAGGTTGAAGGTAATAGATCTTGCCTTCCTGTACTGACAGTGAAGC----CGAAGACACTAGCC
130 GCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACTAGCC
* * *
48954409 TTGTCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGT
195 TTGCCTCCCTCGGTT-CAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGT
48954474 GAAGC
259 GAAGC
* * * *
48954479 AAATCAAAGACACTAGCCTTGCCTCCATAGGTTGCAGCGGAGTAGGTTGAAGATAGGAGATCTTG
1 AGATCAAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
* * * *
48954544 CCTTCCTGCACTGACAGCGAAGCAGATCGAAAACACCAACCTTGTCTCCCTAGGTTGC-TTCGGA
66 CCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGT-GGA
* * * * *
48954608 GCATGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACTAGCC
130 GCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACTAGCC
* * * *
48954673 TTGCCTCCCT-GG-T-AGCGGAGCAAGTTGAAGATAGCAGATCTTTCCTTCCTGCACCGACAGCG
195 TTGCCTCCCTCGGTTCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTG
48954735 AAGC
260 AAGC
* * *
48954739 AGATTAAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTT
1 AGATCAAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
* * ** *
48954804 CCTTCCTACACCGACAATGAAGCAGATCGAAGACACCAGCCTTACCTCCCTCA-GTTGCAGTGGA
66 CCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-AGGTTGCAGTGGA
* *
48954868 GCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGATAGTGAAGCAGATCGAAGACACTAGCC
130 GCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACTAGCC
* * * *
48954933 TTACCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATTGACAGT
195 TTGCCTCCCTCGGTT-CAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGT
48954998 GAAGC
259 GAAGC
* * * *
48955003 AGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGATCTTG
1 AGATCAAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
48955068 CCTTCCTGCA
66 CCTTCCTGCA
48955078 TTGGCAATGA
Statistics
Matches: 517, Mismatches: 70, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
259 1 0.00
260 371 0.72
261 5 0.01
262 2 0.00
263 2 0.00
264 136 0.26
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (263 bp):
AGATCAAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
CCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGTGGAG
CAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACTAGCCT
TGCCTCCCTCGGTTCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGTGA
AGC
Found at i:48954863 original size:348 final size:347
Alignment explanation
Indices: 48954219--48955077 Score: 1172
Period size: 348 Copynumber: 2.5 Consensus size: 347
48954209 GTAGTGGAGT
* *
48954219 AGATCGAAGACACCAGCCTTGCCTCCCTTGGTTGCAGTGGAGCAGGTT-AAAGATAGTAGATCTG
1 AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAA-ATAGTAGATCTT
* *
48954283 GCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTACAGTGGA
65 GCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTT-CAGTGGA
* * * ** * * * * *
48954348 GTAGGTTGAAGGTAATAGATCTTGCCTTCCTGTACTGACAGTGAAGCCGAAGACACTAGCCTTGT
129 GCAAGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAAGACACTAGCCTTGC
** * *
48954413 CTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAG
194 CTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACACCGACAATGAAG
* * * *
48954478 CAAATCAAAGACACTAGCCTTGCCTCCATAGGTTGCAGCGGAGTAGGTTGAAGATAGGAGATCTT
259 CAAATCAAAGACACCAGCCTTACCTCCATAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTT
48954543 GCCTTCCTGCACTGACAGCGAAGC
324 GCCTTCCTGCACTGACAGCGAAGC
* * * * * *
48954567 AGATCGAAAACACCAACCTTGTCTCCCTAGGTTGC-TTCGGAGCATGTTGAAAATAGCAGATCTT
1 AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGT-GGAGCAGGTTGAAAATAGTAGATCTT
* * *
48954631 GCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACTAGCCTTGCCTCCCT-GG-T-AGCGGAG
65 GCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTCAGTGGAG
*
48954693 CAAGTTGAAGATAGCAGATCTTTCCTTCCTGCACCGACAGCGAAGCAGATTAAAGACACTAGCCT
130 CAAGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAG----AAGACACTAGCCT
*
48954758 TGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTTCCTTCCTACACCGACAATG
191 TGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACACCGACAATG
* * * *
48954823 AAGCAGATCGAAGACACCAGCCTTACCTCCCTCA-GTTGCAGTGGAGCAGGTTGAAGATAGCAGA
256 AAGCAAATCAAAGACACCAGCCTTACCTCCAT-AGGTTGCAGCGGAGCAGGTTGAAGATAGCAGA
* * *
48954887 TCTTGCCTTCCTGCATTGATAGTGAAGC
320 TCTTGCCTTCCTGCACTGACAGCGAAGC
* * * *
48954915 AGATCGAAGACACTAGCCTTACCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGTAGATCTTG
1 AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAAATAGTAGATCTTG
* * *
48954980 CCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGTGGAG
66 CCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTT-CAGTGGAG
48955045 CAAGTTGAAGATAGCAGATCTTGCCTTCCTGCA
130 CAAGTTGAAGATAGCAGATCTTGCCTTCCTGCA
48955078 TTGGCAATGA
Statistics
Matches: 443, Mismatches: 56, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
344 44 0.10
346 1 0.00
347 3 0.01
348 349 0.79
349 7 0.02
350 1 0.00
352 38 0.09
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (347 bp):
AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAAATAGTAGATCTTG
CCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTCAGTGGAGC
AAGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAAGACACTAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACACCGACAATGAAGCA
AATCAAAGACACCAGCCTTACCTCCATAGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGC
CTTCCTGCACTGACAGCGAAGC
Found at i:48955068 original size:44 final size:44
Alignment explanation
Indices: 48954756--48955070 Score: 157
Period size: 44 Copynumber: 7.2 Consensus size: 44
48954746 AGACACTAGC
* * *
48954756 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGAT
* * *** * * * * * *
48954800 CTTTCCTTCCTAC-ACCGACAATGAAGC-AGATCGAAGACACCAG-C
1 CTTGCCTCCCT-CGGTTG-CAGTGGAGCAAG-TTGAAGATAGCAGAT
* * *
48954844 CTTACCTCCCTCAGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGAT
* * * * * * *
48954888 CTTGCCTTCCT-GCATTGATAGTGAAGC-AGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTCG-GTTG-CAGTGGAGCAAG-TTGAAGATAGC-AGAT
* * *
48954932 CTTACCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGTAGAT
1 CTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGAT
* * * * * *
48954976 CTTGCCTTCCT-GCATTGACAGTGAAGC-AGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTCG-GTTG-CAGTGGAGCAAG-TTGAAGATAGC-AGAT
48955020 CTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGAT
48955064 CTTGCCT
1 CTTGCCT
48955071 TCCTGCATTG
Statistics
Matches: 188, Mismatches: 61, Indels: 44
0.64 0.21 0.15
Matches are distributed among these distances:
43 52 0.28
44 85 0.45
45 51 0.27
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGAT
Found at i:48955079 original size:88 final size:88
Alignment explanation
Indices: 48954219--48955091 Score: 1093
Period size: 88 Copynumber: 10.0 Consensus size: 88
48954209 GTAGTGGAGT
* * * * *
48954219 AGATCGAAGACACCAGCCTTGCCTCCCTTGGTTGCAGTGGAGCAGGTTAAAGATAGTAGATCTGG
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
48954284 CCTTCCTGCA-TCGACAGCGAAGC
66 CCTTCCTGCACT-GACAGTGAAGC
* * * * * **
48954307 AGATCGAAGATACCAGCCTTGCCTCCCTAGGTTACAGTGGAGTAGGTTGAAGGTAATAGATCTTG
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
48954372 CCTTCCTGTACTGACAGTGAAGC
66 CCTTCCTGCACTGACAGTGAAGC
* * *
48954395 ----CGAAGACACTAGCCTTGTCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
48954456 CCTTCCTGTACTGACAGTGAAGC
66 CCTTCCTGCACTGACAGTGAAGC
* * * * * *
48954479 AAATCAAAGACACTAGCCTTGCCTCCATAGGTTGCAGCGGAGTAGGTTGAAGATAGGAGATCTTG
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
48954544 CCTTCCTGCACTGACAGCGAAGC
66 CCTTCCTGCACTGACAGTGAAGC
* * * * * * *
48954567 AGATCGAAAACACCAACCTTGTCTCCCTAGGTTGC-TTCGGAGCATGTTGAAAATAGCAGATCTT
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGT-GGAGCAGGTTGAAGATAGCAGATCTT
* *
48954631 GCCTTCCTGCACCGACAGCGAAGC
65 GCCTTCCTGCACTGACAGTGAAGC
* * * *
48954655 AGATTGAAGACACTAGCCTTGCCTCCCT-GG-T--AGCGGAGCAAGTTGAAGATAGCAGATCTTT
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
48954716 CCTTCCTGCACCGACAGCGAAGC
66 CCTTCCTGCACTGACAGTGAAGC
** * * *
48954739 AGATTAAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTT
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
48954804 CCTTCCTACACCGACAATGAAGC
66 CCTTCCTGCACTGACAGTGAAGC
* *
48954827 AGATCGAAGACACCAGCCTTACCTCCCTCA-GTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTT
1 AGATCGAAGACACTAGCCTTGCCTCCCT-AGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
48954891 GCCTTCCTGCATTGATAGTGAAGC
65 GCCTTCCTGCACTGACAGTGAAGC
* * *
48954915 AGATCGAAGACACTAGCCTTACCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGTAGATCTTG
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
48954980 CCTTCCTGCATTGACAGTGAAGC
66 CCTTCCTGCACTGACAGTGAAGC
* *
48955003 AGATCGAAGACACTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAAGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
48955068 CCTTCCTGCATTGGCAATGAAGC
66 CCTTCCTGCACTGACAGTGAAGC
48955091 A
1 A
48955092 AATCAAAGCC
Statistics
Matches: 694, Mismatches: 78, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
84 148 0.21
85 2 0.00
86 2 0.00
87 2 0.00
88 539 0.78
89 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (88 bp):
AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
CCTTCCTGCACTGACAGTGAAGC
Found at i:48955715 original size:15 final size:15
Alignment explanation
Indices: 48955695--48955727 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
48955685 TTAAACTTTC
48955695 AAAAATTTATAATTT
1 AAAAATTTATAATTT
48955710 AAAAATTTATAATTT
1 AAAAATTTATAATTT
48955725 AAA
1 AAA
48955728 CCTCTAACAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAAATTTATAATTT
Found at i:48968477 original size:44 final size:44
Alignment explanation
Indices: 48968420--48970106 Score: 790
Period size: 44 Copynumber: 38.8 Consensus size: 44
48968410 TAGGTTGAGA
*
48968420 ATTATAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
** * * *
48968464 ATGGCAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
***** * * * * *
48968508 CCGGTA-ATCCTATCTCCCTGAAG--TTACCGTGGAGCAGAT-TAAA
1 ATTACAGATCTTATCTCCCT-AAGCAGTA--GTGGATCAGATCGAAG
* * * ** * * *
48968551 ATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGT-AGATCG--C
1 ATTACAGATCTTATCTCCCT-AAGCAGTAGTGGA-TCAGATCGAAG
* * * *
48968594 A-T-CAGGTCTTATCTCCCTAA--AGTGCAGTGAAGCAGACCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGT--AGTGGATCAGATCGAAG
* * *
48968636 AATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAG
1 -ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*
48968681 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * * * * *
48968725 ACCCCAG-CCATGTCTCCCTGAGCAGCAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
* * *
48968768 ATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * ** * * *
48968812 ACCCCAG-TCTTGTCTCCATGAGCAGCCGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
** * *
48968855 ATTACAGATCTTATCTTTCTAATCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
* * * * * *
48968899 ATTGCAGATATTATCTTCCTAAGCAGTAGTGGAGCATATCAAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * * * *
48968943 ACCCCAG-CCTTGTCTCCCTGAGCAGCAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
*
48968986 ATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGT-AGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
** * *
48969030 ATGGCAGATCTTATCTCCCTAAGTAGTAGTGGAGT-AGATCAAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
*** * * * * * *
48969074 ACCCCA-ACCTTGTCTCCCTCAGCAGTAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
* * *
48969117 ATTGCAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
** * * * * ** *
48969161 A-CCCTA-ACCTTGTCTCCCTGAA-CAGCAGTGGAGT-AGGTTAAAA
1 ATTAC-AGATCTTATCTCCCT-AAGCAGTAGTGGA-TCAGATCGAAG
*
48969204 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * * *
48969248 ACCCCAG-CCTTGTTTCCCTAAGCAATAGTGGAGTCAG-TTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
*
48969291 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * * * * *
48969335 ACCCCA-ACCTTGTCTCCTTGAGCAGCAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
* *
48969378 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
* * * * * * ** *
48969422 ACCT-CA-ACCTTATCTCCCTAAGTAGCAATGGAGT-AGGTTAAAA
1 A-TTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
* * * * * * *
48969465 ATAACATATCTTGTCTCCCTGAGCAGCT-GTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAG-TAGTGGA-TCAGATCGAAG
* * * *
48969509 ATTACAGATCTTATCTCTCTAACCAGTAGTGGAGCAGATCGAAT
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
* * *
48969553 ATTGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * * * *
48969597 ACCCCAG-CCTTGTCTCCCTGAGCAGCAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
*
48969640 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
** * * *
48969684 ATGGCAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * * * *
48969728 ACCCCAG-CCTTGTCTCCCTCAGCAGCAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
* *
48969771 ATTGCAAATCTTATCTCCCTAAGCAGTAGTGGAGT-AGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
*** * * ** * ** *
48969815 ACCCCAG--CGTTGT-TCCCTGAGCAACAGTGGAGT-AGGTTAAAA
1 ATTACAGATC-TTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
* * *
48969857 ATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * * * *
48969901 ACCCCAG-CCTTGTCTCCCTGAGTAGTAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
* * *
48969944 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCATACCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
*** * * * * *
48969988 ACCCCAG-CCTTATCTCCCTGAGCAGTAGTGGAGT-AGGTTGAAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGA-TCAGATCGAAG
*
48970031 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
* * * *
48970075 ACCT-CAG-GCTTATCTCCCTGAGCAGCAGTGGA
1 A-TTACAGATCTTATCTCCCTAAGCAGTAGTGGA
48970107 GTAGGTTGAA
Statistics
Matches: 1198, Mismatches: 380, Indels: 131
0.70 0.22 0.08
Matches are distributed among these distances:
38 1 0.00
40 11 0.01
41 13 0.01
42 29 0.02
43 404 0.34
44 703 0.59
45 33 0.03
46 1 0.00
47 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
ATTACAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAG
Found at i:48968525 original size:87 final size:88
Alignment explanation
Indices: 48968365--48969722 Score: 1074
Period size: 87 Copynumber: 15.6 Consensus size: 88
48968355 CTAACGGTGA
** * * * ** * * *
48968365 AGCAGATCGAAGATACCAGTCCTT-TCTCCTTGAGCAACAGTGGAGTAGGTTGAGAATTATAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
48968429 CTTATCTCCCTAAGCAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
* *** * ******
48968452 ATCAGATCGAAGATGGCAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCGGTA-AT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
* *
48968516 CCTATCTCCCTGAAG--TTACCGTGG
66 CTTATCTCCCT-AAGCAGTA--GTGG
* * **** * * ** * * * * *
48968540 AGCAGAT-TAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCG--CA-T-CAGG
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCT-AAGCAGTAGTGGAGTAGATTGAAAATTACAGA
*
48968600 TCTTATCTCCCTAA--AGTGCAGTGA
65 TCTTATCTCCCTAAGCAGT--AGTGG
* *** * * * *
48968624 AGCAGACCGAAGAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGA-TCAAAGATTACAG
1 AGCAGATCGAAG-ACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAA-ATTACAG
48968688 ATCTTATCTCCCTAAGCAGTAGTGG
64 ATCTTATCTCCCTAAGCAGTAGTGG
* * * * *
48968713 AGCAGATCGAAGACCCCAG-CCATGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
*
48968777 CTTATCTCCCTAAGCAGTAATGG
66 CTTATCTCCCTAAGCAGTAGTGG
* * * * * ** *
48968800 AGCAGATCAAAGACCCCAG-TCTTGTCTCCATGAGCAGCCGTGGAGTAGGTTGAAAATTACAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
** *
48968864 CTTATCTTTCTAATCAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
*** ** * * * * ***
48968887 AGCAGATCGAAGATTGCAGATATTATCTTCCTAAGCAGTAGTGGAGCATA-TCAAAGACCCCAG-
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAA-ATTACAGA
* * * *
48968950 CCTTGTCTCCCTGAGCAGCAGTGG
65 TCTTATCTCCCTAAGCAGTAGTGG
* * * * **** * * * **
48968974 AGTAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
*
48969039 CTTATCTCCCTAAGTAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
* * * * * *
48969062 AGTAGATCAAAGACCCCA-ACCTTGTCTCCCTCAGCAGTAGTGGAGTAGGTTGAAAATTGCAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
*
48969126 TTTATCTCCCTAAGCAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
* * * * *
48969149 AGCAGATCGAAGACCCTA-ACCTTGTCTCCCTGAA-CAGCAGTGGAGTAGGTTAAAAATTACAGA
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCT-AAGCAGTAGTGGAGTAGATTGAAAATTACAGA
48969212 TCTTATCTCCCTAAGCAGTAGTGG
65 TCTTATCTCCCTAAGCAGTAGTGG
* * *
48969236 AGCAGATCGAAGACCCCAG-CCTTGTTTCCCTAAGCAATAGTGGAGTCAG-TTGAAAATTACAGA
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGT-AGATTGAAAATTACAGA
48969299 TCTTATCTCCCTAAGCAGTAGTGG
65 TCTTATCTCCCTAAGCAGTAGTGG
* * * * *
48969323 AGCAGATCGAAGACCCCA-ACCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
48969387 CTTATCTCCCTAAGCAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
* * * * * * * * * *
48969410 AACAGATCAAAGACCTCA-ACCTTATCTCCCTAAGTAGCAATGGAGTAGGTTAAAAATAACATAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
* *
48969474 CTTGTCTCCCTGAGCAGCT-GTGG
66 CTTATCTCCCTAAGCAG-TAGTGG
* * * * *** * * * * * * * *
48969497 AGTAGGTTGAAAATTACAGATCTTATCTCTCTAACCAGTAGTGGAGCAGATCGAATATTGCAAAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
48969562 CTTATCTCCCTAAGCAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
* * * *
48969585 AGCAGATCGAAGACCCCAG-CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
48969649 CTTATCTCCCTAAGCAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
*** ** *
48969672 AGCAGATCGAAGATGGCAGATATTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGAT
48969723 CAAAGACCCC
Statistics
Matches: 1012, Mismatches: 226, Indels: 65
0.78 0.17 0.05
Matches are distributed among these distances:
84 13 0.01
85 27 0.03
86 24 0.02
87 705 0.70
88 208 0.21
89 32 0.03
91 3 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (88 bp):
AGCAGATCGAAGACCCCAGACCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACAGAT
CTTATCTCCCTAAGCAGTAGTGG
Found at i:48968786 original size:131 final size:132
Alignment explanation
Indices: 48968600--48970107 Score: 1367
Period size: 131 Copynumber: 11.5 Consensus size: 132
48968590 TCGCATCAGG
* * *
48968600 TCTTATCTCCCTAA--AGTGCAGTGAAGCAGACCGAAGAATTACAGATCTTATCTCCCTAAGTAG
1 TCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGAA-AATTACAGATCTTATCTCCCTAAGCAG
*** * * * * * * * **
48968663 TAGTGGAGCAGATCAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
63 TAGTGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATT
*
48968728 CCAG-
128 ACAGA
* * * * * * * * *
48968732 CCATGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * **
48968797 TGGAGCAGATCAAAGACCCCAG-TCTTGTCTCCATGAGCAGCCGTGGAGTAGGTTGAAAATTACA
66 TGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
48968861 GA
131 GA
** * * * * *
48968863 TCTTATCTTTCTAATCAGTAGTGGAGCAGATCGAAGATTGCAGATATTATCTTCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * *
48968928 TGGAGCATATCAAAGACCCCAG-CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTATA
66 TGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
48968992 GA
131 GA
* * ** *
48968994 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATCTTATCTCCCTAAGTAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * *
48969059 TGGAGTAGATCAAAGACCCCA-ACCTTGTCTCCCTCAGCAGTAGTGGAGTAGGTTGAAAATTGCA
66 TGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
48969123 GA
131 GA
* * ** * * *
48969125 TTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CCCTA-ACCTTGTCTCCCTGAA-CAGC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTAC-AGATCTTATCTCCCT-AAGCAGT
* * * * *** * * * * * * * ***
48969187 AGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCC
64 AGTGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTA
48969252 CAG-
129 CAGA
* * * * *
48969255 CCTTGTTTCCCTAAGCAATAGTGGAGTCAG-TTGAAAATTACAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAG-CAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTA
* * *
48969319 GTGGAGCAGATCGAAGACCCCA-ACCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATTAC
65 GTGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTAC
48969383 AGA
130 AGA
* * * * *
48969386 TCTTATCTCCCTAAGCAGTAGTGGAACAGATC-AAAGACCT-CA-ACCTTATCTCCCTAAGTAGC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-A-TTACAGATCTTATCTCCCTAAGCAGT
* * * * * *** * *
48969448 AATGGAGTAGGTTAAAAATAACATATCTTGTCTCCCTGAGCAGCT-GTGGAGTAGGTTGAAAATT
64 AGTGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAG-TAGTGGAGTAGGTTGAAAATT
48969512 ACAGA
128 ACAGA
* * * * *
48969517 TCTTATCTCTCTAACCAGTAGTGGAGCAGATCGAATATTGCAAATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
48969582 TGGAGCAGATCGAAGACCCCAG-CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACA
66 TGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
48969646 GA
131 GA
* ** *
48969648 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATATTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * *
48969713 TGGAGCAGATCAAAGACCCCAG-CCTTGTCTCCCTCAGCAGCAGTGGAGTAGGTTGAAAATTGCA
66 TGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
*
48969777 AA
131 GA
* * *** * * **
48969779 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAG--CGTTGT-TCCCTGAGCAACA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATC-TTATCTCCCTAAGCAGTA
* * * * *** * * * * * * * ***
48969841 GTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCA-GATCAAAGACCC
65 GTGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAA-ATTA
48969905 CAG-
129 CAGA
* * * * * * *
48969908 CCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * * *
48969973 TGGAGCATACCGAAGACCCCAG-CCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
66 TGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
48970037 GA
131 GA
** * * *
48970039 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCT-CAG-GCTTATCTCCCTGAGCAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-AATTACAGATCTTATCTCCCTAAGCAGTA
48970102 GTGGAG
65 GTGGAG
48970108 TAGGTTGAAA
Statistics
Matches: 1103, Mismatches: 243, Indels: 62
0.78 0.17 0.04
Matches are distributed among these distances:
129 64 0.06
130 243 0.22
131 737 0.67
132 57 0.05
134 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (132 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGACCCCAGACCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
GA
Found at i:48968933 original size:218 final size:217
Alignment explanation
Indices: 48968403--48970020 Score: 1528
Period size: 218 Copynumber: 7.4 Consensus size: 217
48968393 CTTGAGCAAC
* * * *
48968403 AGTGGAGTAGGTTGAGAATTATAGATCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAGATGG
1 AGTGGAGTA-GTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
* * ** * *
48968468 CAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAG-CCGGTAATCC-TATCTCCCTGAAG
65 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC--CCAGCCTTGTCTCCCTG-AG
* * * * * * * ** * * *
48968531 TTA-CCGTGGAGCAGATT-AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATC--
127 -CAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAA
** *
48968592 -G-CATCAGGTCTTATCTCCCTAA--AGT
190 AGACCCCA-GTCTTGTCTCCCTAAGCAGT
* * ** * *
48968617 GCAGTGAAGCAGACCGAAGAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGA
1 --AGTGGAGTAG-TTGAA-AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
* *
48968682 TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCATGTCTCCCTGAG
62 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAG
*
48968747 CAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAG
127 CAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG
* * *
48968812 ACCCCAGTCTTGTCTCCATGAGCAGC
192 ACCCCAGTCTTGTCTCCCTAAGCAGT
* ** *
48968838 CGTGGAGTAGGTTGAAAATTACAGATCTTATCTTTCTAATCAGTAGTGGAGCAGATCGAAGATTG
1 AGTGGAGTA-GTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
* * * *
48968903 CAGATATTATCTTCCTAAGCAGTAGTGGAGCATATCAAAGACCCCAGCCTTGTCTCCCTGAGCAG
65 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAG
* * * **
48968968 CAGTGGAGTAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATG
130 CAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACC
* * *
48969033 GCAGATCTTATCTCCCTAAGTAGT
195 CCAG-TCTTGTCTCCCTAAGCAGT
* * *** * * * * * * *
48969057 AGTGGAGTAGATCAAAGACCCCA-ACCTTGTCTCCCTCAGCAGTAGTGGAGTAGGTTGAAAATTG
1 AGTGGAGTAGTTGAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
* * * *
48969121 CAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCTAACCTTGTCTCCCTGAACAG
65 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAG
* *
48969186 CAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACC
130 CAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACC
* * *
48969251 CCAGCCTTGTTTCCCTAAGCAAT
195 CCAGTCTTGTCTCCCTAAGCAGT
***
48969274 AGTGGAGTCAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCC
1 AGTGGAGT-AGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
* * * * * * * * * *** * * *
48969339 CA-ACCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
65 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAG-CCTTGTCTCCCTGAGCA
* ** * * * * * * * * * * *
48969403 GTAGTGGAACA-GATCAAAGACCT-CA-ACCTTATCTCCCTAAGTAGCAATGGAGTAGGTTAAAA
129 GCAGTGGAGTAGGTTGAAA-A-TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG
*** * *
48969465 ATAACATATCTTGTCTCCCTGAGCAGCT
192 ACCCCA-GTCTTGTCTCCCTAAGCAG-T
* * *
48969493 -GTGGAGTAGGTTGAAAATTACAGATCTTATCTCTCTAACCAGTAGTGGAGCAGATCGAATATTG
1 AGTGGAGTA-GTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
*
48969557 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAG
65 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAG
* **
48969622 CAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
130 CAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACC
* * *
48969687 GCAGATATTATCTCCCTAAGCAGT
195 CCAG-TCTTGTCTCCCTAAGCAGT
* * * *** * * * * * * * *
48969711 AGTGGAGCAGATCAAAGACCCCAG-CCTTGTCTCCCTCAGCAGCAGTGGAGTAGGTTGAAAATTG
1 AGTGGAGTAGTTGAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
* * * *
48969775 CAAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCGTTGT-TCCCTGAGCAA
65 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAG
* *
48969839 CAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACC
130 CAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACC
* * *
48969904 CCAGCCTTGTCTCCCTGAGTAGT
195 CCAGTCTTGTCTCCCTAAGCAGT
* * ***
48969927 AGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCATACCGAAGACCC
1 AGTGGAGTA-GTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
* *
48969992 CAG-CCTTATCTCCCTGAGCAGTAGTGGAG
65 CAGATCTTATCTCCCTAAGCAGTAGTGGAG
48970021 TAGGTTGAAA
Statistics
Matches: 1121, Mismatches: 249, Indels: 64
0.78 0.17 0.04
Matches are distributed among these distances:
215 2 0.00
216 89 0.08
217 309 0.28
218 571 0.51
219 144 0.13
220 4 0.00
221 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (217 bp):
AGTGGAGTAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGC
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGC
AGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCC
CAGTCTTGTCTCCCTAAGCAGT
Found at i:48969326 original size:523 final size:523
Alignment explanation
Indices: 48968681--48969684 Score: 1519
Period size: 523 Copynumber: 1.9 Consensus size: 523
48968671 CAGATCAAAG
*
48968681 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCATGTCTCCCTGA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCATGTCTCCCTAA
*
48968746 GCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAA
66 GCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAA
** * **
48968811 GACCCCAGTCTTGTCTCCATGAGCAGCCGTGGAGTAGGTTGAAAATTACAGATCTTATCTTTCTA
131 GACCCCAACCTTGTCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTA
* * * * * * * * *
48968876 ATCAGTAGTGGAGCAGATCGAAGA-TTGCAGATATTATCTTCCTAAGCAGTAGTGGAGCATATCA
196 AGCAGTAGTGGAACAGATCAAAGACCT-CA-ACATTATCTCCCTAAGCAGCAATGGAGCAGATCA
* ** * *
48968940 AAGACCCCA-GCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTATAGATCTTATCTCC
259 AAAACAACATACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCC
* * * * *
48969004 CTAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGAT
324 CTAACCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
48969069 CAAAGACCCCAACCTTGTCTCCCTCAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATTTTATCTC
389 CAAAGACCCCAACCTTGTCTCCCTCAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTC
48969134 CCTAAGCAGTAGTGGAGCAGATCGAAGACCCTAACCTTGTCTCCCTGAACAGCAGTGGAGTAGGT
454 CCTAAGCAGTAGTGGAGCAGATCGAAGACCCTAACCTTGTCTCCCTGAACAGCAGTGGAGTAGGT
48969199 TAAAA
519 TAAAA
* *
48969204 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTTTCCCTAA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCATGTCTCCCTAA
* * *
48969269 GCAATAGTGGAGTCA-GTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
66 GCAACAGTGGAGT-AGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAA
*
48969333 AGACCCCAACCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCT
130 AGACCCCAACCTTGTCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCT
* * * * *
48969398 AAGCAGTAGTGGAACAGATCAAAGACCTCAACCTTATCTCCCTAAGTAGCAATGGAGTAGGTTAA
195 AAGCAGTAGTGGAACAGATCAAAGACCTCAACATTATCTCCCTAAGCAGCAATGGAGCAGATCAA
* * * *
48969463 AAATAACATATCTTGTCTCCCTGAGCAGCTGTGGAGTAGGTTGAAAATTACAGATCTTATCTCTC
260 AAACAACATACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCC
* *
48969528 TAACCAGTAGTGGAGCAGATCGAATATTGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
325 TAACCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
48969593 GAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCC
390 AAAGACCCCAACCTTGTCTCCCTCAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCC
48969658 CTAAGCAGTAGTGGAGCAGATCGAAGA
455 CTAAGCAGTAGTGGAGCAGATCGAAGA
48969685 TGGCAGATAT
Statistics
Matches: 429, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
522 29 0.07
523 398 0.93
524 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (523 bp):
ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCATGTCTCCCTAA
GCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAA
GACCCCAACCTTGTCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTA
AGCAGTAGTGGAACAGATCAAAGACCTCAACATTATCTCCCTAAGCAGCAATGGAGCAGATCAAA
AACAACATACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCT
AACCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
AAGACCCCAACCTTGTCTCCCTCAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCC
TAAGCAGTAGTGGAGCAGATCGAAGACCCTAACCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTA
AAA
Found at i:48969744 original size:87 final size:87
Alignment explanation
Indices: 48968428--48970107 Score: 906
Period size: 87 Copynumber: 19.3 Consensus size: 87
48968418 GAATTATAGA
* ** *
48968428 TCTTATCTCCCTAAGCAGTAGTGGATCAGATCGAAGATGGCAGACCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
** * *
48968493 TGGAGCAGATTGAAG--CCGGTAA
66 TGGAGCAGATCAAAGATCC--CAG
* * * * * * * **
48968515 TCCTATCTCCCTGAAG--TTACCGTGGAGCAGAT-TAAAATAAAAGATCTTATCTCTCTGAAGTT
1 TCTTATCTCCCT-AAGCAGTA--GTGGAGCAGATCGAAGATTACAGATCTTATCTCCCT-AAGCA
* * *
48968577 GCAGTAGAGTAGATC---GCAT--CAGG
62 GTAGTGGAGCAGATCAAAG-ATCCCA-G
* * *
48968600 TCTTATCTCCCTAA--AGTGCAGTGAAGCAGACCGAAGAATTACAGATCTTATCTCCCTAAGTAG
1 TCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGAAG-ATTACAGATCTTATCTCCCTAAGCAG
**
48968663 TAGTGGAGCAGATCAAAGATTACAG
63 TAGTGGAGCAGATCAAAGATCCCAG
*** * * * * *
48968688 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAG-CCATGTCTCCCTGAGCAGCA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* * * **
48968752 GTGGAGTAGGTTGAAA-ATTACAG
65 GTGGAGCA-GATCAAAGATCCCAG
* * *** * * * **
48968775 ATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGACCCCAG-TCTTGTCTCCATGAGCAGCC
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* * * **
48968839 GTGGAGTAGGTTGAAA-ATTACAG
65 GTGGAGCA-GATCAAAGATCCCAG
** * * * *
48968862 ATCTTATCTTTCTAATCAGTAGTGGAGCAGATCGAAGATTGCAGATATTATCTTCCTAAGCAGTA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* *
48968927 GTGGAGCATATCAAAGACCCCAG
65 GTGGAGCAGATCAAAGATCCCAG
* * * * * * * * *
48968950 CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* * **
48969015 TGGAGTAGATCGAAGATGGCAG
66 TGGAGCAGATCAAAGATCCCAG
* * * *** * * *
48969037 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAAAGACCCCA-ACCTTGTCTCCCTCAGCAGTA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* * * **
48969101 GTGGAGTAGGTTGAAA-ATTGCAG
65 GTGGAGCA-GATCAAAGATCCCAG
* ** * *
48969124 ATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CCCTA-ACCTTGTCTCCCTGAA-CAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTAC-AGATCTTATCTCCCT-AAGCAG
* * * * * **
48969186 CAGTGGAGTAGGTTAAAAATTACAG
63 TAGTGGAGCAGATCAAAGATCCCAG
*** * * * *
48969211 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAG-CCTTGTTTCCCTAAGCAATA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* * **
48969275 GTGGAGTCAGTTGAAA-ATTACAG
65 GTGGAG-CAGATCAAAGATCCCAG
*** * * * * *
48969298 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCA-ACCTTGTCTCCTTGAGCAGCA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* * * **
48969362 GTGGAGTAGGTTGAAA-ATTACAG
65 GTGGAGCA-GATCAAAGATCCCAG
* * * * * *
48969385 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACCT-CA-ACCTTATCTCCCTAAGTAGC
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TTACAGATCTTATCTCCCTAAGCAGT
* * * * * ** *
48969448 AATGGAGTAGGTTAAAAATAACATA
64 AGTGGAGCAGATCAAAGATCCCA-G
* * * * * * * *
48969473 TCTTGTCTCCCTGAGCAGCT-GTGGAGTAGGTTGAAAATTACAGATCTTATCTCTCTAACCAGTA
1 TCTTATCTCCCTAAGCAG-TAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
* * * * *
48969537 GTGGAGCAGATCGAATATTGCAAA
65 GTGGAGCAGATCAAAGA-TCCCAG
*** * * * *
48969561 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAG-CCTTGTCTCCCTGAGCAGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* * * **
48969625 TGGAGTAGGTTGAAA-ATTACAG
66 TGGAGCA-GATCAAAGATCCCAG
** *
48969647 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATATTATCTCCCTAAGCAGTA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
48969712 GTGGAGCAGATCAAAGACCCCAG
65 GTGGAGCAGATCAAAGATCCCAG
* * * * * * * * * *
48969735 CCTTGTCTCCCTCAGCAGCAGTGGAGTAGGTTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* * *
48969800 TGGAGTAGATCGAAGACCCCAG
66 TGGAGCAGATCAAAGATCCCAG
* * ** * * ** * *
48969822 -CGTTGT-TCCCTGAGCAACAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGTAGTA
1 TC-TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
48969885 GTGGAGCAGATCAAAGACCCCAG
65 GTGGAGCAGATCAAAGATCCCAG
* * * * * * * *
48969908 CCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
* * * *
48969973 TGGAGCATACCGAAGACCCCAG
66 TGGAGCAGATCAAAGATCCCAG
* * * * * *
48969995 CCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
*
48970060 TGGAGCAGATCGAAGA-CCTCAG
66 TGGAGCAGATCAAAGATCC-CAG
* * *
48970082 GCTTATCTCCCTGAGCAGCAGTGGAG
1 TCTTATCTCCCTAAGCAGTAGTGGAG
48970108 TAGGTTGAAA
Statistics
Matches: 1299, Mismatches: 243, Indels: 102
0.79 0.15 0.06
Matches are distributed among these distances:
84 13 0.01
85 30 0.02
86 118 0.09
87 905 0.70
88 197 0.15
89 33 0.03
91 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGATCCCAG
Found at i:48969894 original size:173 final size:174
Alignment explanation
Indices: 48969688--48970129 Score: 688
Period size: 173 Copynumber: 2.5 Consensus size: 174
48969678 TCGAAGATGG
* *
48969688 CAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCCCAGCCTTGTCTCCCTCAGCAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCCCAGCCTTGTCTCCCTGAGCAG
* * *
48969753 CAGTGGAGTAGGTTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACC
66 CAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACC
* *
48969818 CCAGCGTTGT-TCCCTGAGCAACAGTGGAGTAGGTTAAAAATTA
131 CCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATTA
* *
48969861 CAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACCCCAGCCTTGTCTCCCTGAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCCCAGCCTTGTCTCCCTGAGCAG
* * *
48969926 TAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCATACCGAAGACC
66 CAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACC
** *
48969991 CCAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTA
131 CCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATTA
* * * *
48970035 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCTCAGGCTTATCTCCCTGAGCAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCCCAGCCTTGTCTCCCTGAGCAG
* *
48970100 CAGTGGAGTAGGTTGAAAATAACAGATCTT
66 CAGTGGAGTAGGTTGAAAATTACAAATCTT
48970130 GTCTTCCTGT
Statistics
Matches: 245, Mismatches: 23, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
173 128 0.52
174 117 0.48
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (174 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACCCCAGCCTTGTCTCCCTGAGCAG
CAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACC
CCAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTAAAAATTA
Found at i:48970223 original size:44 final size:44
Alignment explanation
Indices: 48970170--48970366 Score: 172
Period size: 44 Copynumber: 4.5 Consensus size: 44
48970160 AAGACTCTAG
*
48970170 TCTTATCTCCCTGAAGTTACAGTGAAGCAGATAGAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATAGAAGAAACCAA
* * * * *
48970214 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT-TAA-AACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATAGAAGAAAC-CA-A
** * * * *
48970258 TCTTATCTTTCTGAAGTTGCAGT--AG-AG-TAGATCGCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATAGA-AGAAACCAA
* * *
48970299 TCTTATCTCCCTGAAGTTGCAGTGAAGAAGACAGAAGAAACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATAGAAGAAACCAA
* *
48970343 TCATATCTCCCTGAAGTTACAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
48970367 GTGTGGATCA
Statistics
Matches: 119, Mismatches: 25, Indels: 18
0.73 0.15 0.11
Matches are distributed among these distances:
40 1 0.01
41 23 0.19
42 7 0.06
43 8 0.07
44 77 0.65
45 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATAGAAGAAACCAA
Found at i:48970336 original size:129 final size:127
Alignment explanation
Indices: 48970168--48970496 Score: 351
Period size: 129 Copynumber: 2.6 Consensus size: 127
48970158 CGAAGACTCT
* * *
48970168 AGTCTTATCTCCCTGAAGTTACAGTGAAGCAGATAGAAGAAACCAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGAAGA-AGAAGAAACCAATCATATCTCCCTGAAGTTG
* * * * *
48970233 CAGTGGAGCGGATTAAAACCACAGATCTTATCTTTCTG-AAGTTGCAGTAGAGTAGATCGCATCC
65 CAGTGGAGCGGATCAAAACCACAGATCTCATCTCTC-GAAAGTTGCAGTAAAGCAGATCGCAT-C
* *
48970297 AGTCTTATCTCCCTGAAGTTGCAGTGAAGAAGACAGAAGAAACTAATCATATCTCCCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGAAGA-AGAAGAAACCAATCATATCTCCCTGAAGTTG
* * ** **
48970362 CAGTGGTGTGGATCAAAATGATGGATCTCATCTCTCGAAAGTTGCAGTAAAGCAGATCGCATC
65 CAGTGGAGCGGATCAAAACCACAGATCTCATCTCTCGAAAGTTGCAGTAAAGCAGATCGCATC
* * * * * * ** *
48970425 AGACTTATCT--TTAAAGTTGCAATAGAACAAGATGAAGCTA-CAAGTCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAAGAAGAAGAAGAAACCAA-TCATATCTCCCTGAAGTT
48970487 GCAGTGGAGC
64 GCAGTGGAGC
48970497 AGACTAAAGA
Statistics
Matches: 167, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
125 2 0.01
126 39 0.23
127 7 0.04
128 11 0.07
129 108 0.65
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (127 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAAGAAGAAGAAGAAACCAATCATATCTCCCTGAAGTTGC
AGTGGAGCGGATCAAAACCACAGATCTCATCTCTCGAAAGTTGCAGTAAAGCAGATCGCATC
Found at i:48971990 original size:13 final size:12
Alignment explanation
Indices: 48971974--48972014 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
48971964 TTGTGCATTA
48971974 TTATATTAAGTAT
1 TTATATTAA-TAT
*
48971987 TTATATTATTAT
1 TTATATTAATAT
48971999 TATATATTAATAT
1 T-TATATTAATAT
48972012 TTA
1 TTA
48972015 ATTTCATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:48974432 original size:19 final size:18
Alignment explanation
Indices: 48974408--48974447 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48974398 TCATTGTATT
48974408 TGAC-AAGAAACATAGAAAA
1 TGACAAAGAAA-AT-GAAAA
48974427 TGACAAAGAAAATGAAAA
1 TGACAAAGAAAATGAAAA
48974445 TGA
1 TGA
48974448 AATAAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.12
Consensus pattern (18 bp):
TGACAAAGAAAATGAAAA
Found at i:48978620 original size:44 final size:45
Alignment explanation
Indices: 48978566--48979171 Score: 458
Period size: 44 Copynumber: 13.6 Consensus size: 45
48978556 TCATTCTAAC
* * * *
48978566 CCACTACAACTTCAGAGG-TATAAGATCTGTTA-CTTCAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTTATCTTTAATCTACT
* * * * *
48978610 CCACTGCAACTTC-GAGGAGATTAGACTTG-TAGCTTTAATATGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTTATCTTTAATCTACT
* * * * ** *
48978654 CCACTGTAACTTTAGGGCGATAAGA-CTCATATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAATCTACT
* * *
48978698 CCACTGCAACTTTAGGGAGATAAGATTTG-TAACTTTAATCAACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAATCTACT
* * * **
48978742 CCACTGTAACTTCAGAGAAATAAGATTTGTGGT-TTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAATCTACT
* * * * ** *
48978786 CTACTGTAACTTTAGGGAGATAAGATTTATGGT-TTTAATTTGA-T
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAATCT-ACT
* * * *
48978830 CTACTACAACTTCAGAGG-GATAAGATTTGTTATCTTCAATCTGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTTATCTTTAATCTACT
* * *
48978875 CCACTGCAACTTCAGGGAGATAAGATTTGTAACCTGATTTAATCCGAC-
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTA--T-CTTTAAT-CTACT
* * *
48978923 CCACTGTAACTTCAGAGG-TATAGGATTTG---TCTTTAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTTATCTTTAATCTACT
* * * *
48978965 CCACTGCAACTTTAGGGAAATAAGATTTGTTATCTTTAACCGACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAATCTACT
* * *
48979010 CCACTGCAACTTCAGGGAGATAAGGTTTG-TAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAATCTACT
* * * * *
48979054 CTACTGCAACTTTAGAGAGATAAGATTT-TCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-TATCTTTAATCTACT
* ** * *
48979099 GCACTGCAACTTCAGGGAGATAA-ATTT-TGTGCCTTTATTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-TATCTTTAATCTACT
48979143 CCACTGCAACTTCAGGGAGATAAGATTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
48979172 CCACGATAAC
Statistics
Matches: 448, Mismatches: 89, Indels: 48
0.77 0.15 0.08
Matches are distributed among these distances:
41 5 0.01
42 28 0.06
43 8 0.02
44 263 0.59
45 111 0.25
47 1 0.00
48 28 0.06
49 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTTAATCTACT
Found at i:48979659 original size:16 final size:16
Alignment explanation
Indices: 48979638--48979672 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
48979628 GCAAAAATCC
48979638 TTTTACTTGAATATTA
1 TTTTACTTGAATATTA
48979654 TTTTACTTGAATATTA
1 TTTTACTTGAATATTA
48979670 TTT
1 TTT
48979673 GTCTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (16 bp):
TTTTACTTGAATATTA
Found at i:48980081 original size:13 final size:13
Alignment explanation
Indices: 48980063--48980104 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
48980053 AAATATATTT
48980063 TATATGTAAAAAA
1 TATATGTAAAAAA
48980076 TATATGTAAAAAA
1 TATATGTAAAAAA
*
48980089 -ATAAGT-AAAAA
1 TATATGTAAAAAA
48980100 TATAT
1 TATAT
48980105 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 13 0.50
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (13 bp):
TATATGTAAAAAA
Found at i:48981530 original size:9 final size:9
Alignment explanation
Indices: 48981516--48981546 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48981506 GTTAAACGAA
48981516 TCGAGTTAT
1 TCGAGTTAT
*
48981525 TCGAGTTAA
1 TCGAGTTAT
48981534 TCGAGTTAT
1 TCGAGTTAT
48981543 TCGA
1 TCGA
48981547 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:48981621 original size:18 final size:18
Alignment explanation
Indices: 48981598--48981634 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
48981588 TGAGTTTTCA
48981598 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
48981616 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
48981634 A
1 A
48981635 TCAAACTATA
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:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:48987797 original size:624 final size:624
Alignment explanation
Indices: 48985860--48987948 Score: 3826
Period size: 624 Copynumber: 3.4 Consensus size: 624
48985850 AAAACATTGG
* * * * * * *
48985860 TTTTTCGAC--TGTCTGCAGGTCAAATTCCTAAGGAAATTGGTAATCTTCTTAGTCTGGAAATGC
1 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
*
48985923 TTAATATTCAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
66 TTAATATTAAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
*
48985988 CTGAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
131 CTAAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
48986053 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACGTTCCATCAAGTA
196 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACGTTCCATCAAGTA
48986118 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
261 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
48986183 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
326 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
48986248 TAAATTTTCTTGGTTTTTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
391 TAAATTTTCTTGGTTTTTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
48986313 ACAAAAGTAAGAGCATTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
456 ACAAAAGTAAGAGCATTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
*
48986378 CAAATATGCTTAAAATATTAAAATCTAACATTTGCAAATTATGTAAAACAAAAAATAAAACCTCT
521 CAAATATGCTTAAAATATTAAAATCTAACATTTGCAAATTATGTAAAACAAAAAAGAAAACCTCT
48986443 TTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGA
586 TTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGA
*
48986482 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAAATGC
1 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
* *
48986547 TTAATATTCAAGAAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
66 TTAATATTAAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
48986612 CTAAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
131 CTAAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
48986677 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACGTTCCATCAAGTA
196 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACGTTCCATCAAGTA
48986742 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCT-ATCAATTGATGGGGATCATTCCA
261 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
* *
48986806 AAAAGTATTGGAAACCTGACACGACTCAAAGAATTATATTTGGGGTTGAATAACCTAGAAGGTAT
326 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
* *
48986871 TAAATTTTATTGGTTTCTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
391 TAAATTTTCTTGGTTTTTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
*
48986936 ACAAAAGTAAGAGCATTTTATTTCATTCAAGGAAAAATAGTTCAAAATAGTTAATTTGATGAAAA
456 ACAAAAGTAAGAGCATTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
48987001 CAAATATGCTTAAAATATTAAAATCTAACATTTGCAAATTATGTAAAACAAAAAAGAAAACCTCT
521 CAAATATGCTTAAAATATTAAAATCTAACATTTGCAAATTATGTAAAACAAAAAAGAAAACCTCT
48987066 TTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGA
586 TTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGA
48987105 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
1 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
*
48987170 TTAATATTAAAGCAATTAAAGGCCTTACAGGTCCGATTCCAACTTCGATCTTCAACATTTCTTCT
66 TTAATATTAAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
48987235 CTAAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
131 CTAAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
* *
48987300 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATTTGGTAACATTCCATCAAGTA
196 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACGTTCCATCAAGTA
**
48987365 TGGGCAAATGTTGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
261 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
48987430 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
326 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
*
48987495 TAAATTTTCTTGGTTTTTGAGTTTAAAGTATTTTTTTTATAAAAGAGTTTGATTAGTAATAGATA
391 TAAATTTTCTTGGTTTTTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
* *
48987560 A-TAAAGTAAGAGCAGTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
456 ACAAAAGTAAGAGCATTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
*
48987624 CAAATATGCTTAAAAATATTAAAATCTAACATCTGCAAATTATGTAAAACAAAAAAGAAAACCTC
521 CAAATATGCTT-AAAATATTAAAATCTAACATTTGCAAATTATGTAAAACAAAAAAGAAAACCTC
*
48987689 TTTGACTTATGATAACAAAATAGGTAGTTTGACACCTTGA
585 TTTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGA
48987729 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
1 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
*
48987794 TTAATATTAAAGCAATTAAAGGCCTTACAGGTCCGATTCCAACTTCGATCTTCAACATTTCTTCT
66 TTAATATTAAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
* * * *
48987859 CTGAAGGCCATTGATCTCTCCAGCAATAGCCTATTAGGTAGTTTGCCTAATGATATGTGTCAACA
131 CTAAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
* *
48987924 TCTTCCCAAACTTGAAGTGCTTTAC
196 TCTTCCCAAGCTTGAAGGGCTTTAC
48987949 TTAGAAGATA
Statistics
Matches: 1425, Mismatches: 38, Indels: 6
0.97 0.03 0.00
Matches are distributed among these distances:
622 9 0.01
623 680 0.48
624 736 0.52
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (624 bp):
TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
TTAATATTAAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
CTAAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACGTTCCATCAAGTA
TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
TAAATTTTCTTGGTTTTTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
ACAAAAGTAAGAGCATTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
CAAATATGCTTAAAATATTAAAATCTAACATTTGCAAATTATGTAAAACAAAAAAGAAAACCTCT
TTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGA
Found at i:48988934 original size:2 final size:2
Alignment explanation
Indices: 48988927--48988961 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48988917 TACATTTATT
48988927 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48988962 TTAATGGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48989321 original size:10 final size:10
Alignment explanation
Indices: 48989306--48989377 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
48989296 AATAAATAAT
48989306 AAAATTATTA
1 AAAATTATTA
*
48989316 AAAATTGTTA
1 AAAATTATTA
* *
48989326 GAAATTTTTA
1 AAAATTATTA
* * *
48989336 AATATTGTAA
1 AAAATTATTA
48989346 AAAATTATTA
1 AAAATTATTA
48989356 AAAATTATTA
1 AAAATTATTA
*
48989366 GAAATTA-TA
1 AAAATTATTA
48989375 AAA
1 AAA
48989378 GACGATAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
9 4 0.08
10 46 0.92
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:48989336 original size:20 final size:20
Alignment explanation
Indices: 48989307--48989377 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
48989297 ATAAATAATA
48989307 AAATTATTAAAAATTGTTAG
1 AAATTATTAAAAATTGTTAG
* * * *
48989327 AAATTTTTAAATATTGTAAA
1 AAATTATTAAAAATTGTTAG
*
48989347 AAATTATTAAAAATTATTAG
1 AAATTATTAAAAATTGTTAG
48989367 AAATTA-TAAAA
1 AAATTATTAAAA
48989378 GACGATAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 5 0.12
20 37 0.88
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (20 bp):
AAATTATTAAAAATTGTTAG
Done.