Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 152 of 290
Found at i:48657884 original size:28 final size:28
Alignment explanation
Indices: 48657826--48657885 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
48657816 AAAGATCTCT
**
48657826 TTTATTGTTTAACAATTTAAAAATGTTA
1 TTTATTGTTTAACAATTTAAAAATGGCA
* * **
48657854 TTTATTGTTTAATAGTTTAAATTTGGCA
1 TTTATTGTTTAACAATTTAAAAATGGCA
48657882 TTTA
1 TTTA
48657886 CTATTTAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (28 bp):
TTTATTGTTTAACAATTTAAAAATGGCA
Found at i:48658717 original size:16 final size:15
Alignment explanation
Indices: 48658696--48658728 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
48658686 TCATCTTAAC
48658696 AACTAACTAACTGTCT
1 AACTAACTAACTG-CT
48658712 AACTAACTAACTGCT
1 AACTAACTAACTGCT
48658727 AA
1 AA
48658729 TTTCTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (15 bp):
AACTAACTAACTGCT
Found at i:48663192 original size:28 final size:28
Alignment explanation
Indices: 48663152--48663207 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
48663142 ATGGGTGAAA
48663152 ACCATATTTCTTACTTACTTCATTAACG
1 ACCATATTTCTTACTTACTTCATTAACG
48663180 ACCATATTTCTTACTTACTTCATTAACG
1 ACCATATTTCTTACTTACTTCATTAACG
48663208 CAAGCAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.43
Consensus pattern (28 bp):
ACCATATTTCTTACTTACTTCATTAACG
Found at i:48666455 original size:25 final size:25
Alignment explanation
Indices: 48666410--48666458 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
48666400 AATCAAACTA
* *
48666410 AGACTTAATTAGTATATATAATTTG
1 AGACTTAATTAGCATAAATAATTTG
48666435 AGACTTAATTTA-CATAAATAATTT
1 AGACTTAA-TTAGCATAAATAATTT
48666459 CTTCTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (25 bp):
AGACTTAATTAGCATAAATAATTTG
Found at i:48680713 original size:43 final size:43
Alignment explanation
Indices: 48680662--48680785 Score: 142
Period size: 44 Copynumber: 2.9 Consensus size: 43
48680652 TAGGATTCCG
48680662 ATATGTGATTTCGTGTAAGACCATGTTTGGGACGTTGACATCA
1 ATATGTGATTTCGTGTAAGACCATGTTTGGGACGTTGACATCA
* * * * * *
48680705 ATTTGTGATTTATGTGTAAGACCCTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTT-CGTGTAAGACCATGTTTGGGAC-GTTGACATCA
* * *
48680749 ATATGTGATTACATGTAAGACCACGTTTGGGACGTTG
1 ATATGTGATTTCGTGTAAGACCATGTTTGGGACGTTG
48680786 GCGTTGTACG
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
42 1 0.02
43 29 0.45
44 34 0.52
45 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
ATATGTGATTTCGTGTAAGACCATGTTTGGGACGTTGACATCA
Found at i:48681886 original size:51 final size:51
Alignment explanation
Indices: 48681826--48681926 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
48681816 GCATCTGTAC
*
48681826 AGGAACACTTAACAGTTTTTAAAGAAATTCTCTCAAACTTGGAGGCCATGG
1 AGGAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATGG
48681877 AGGAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATG
1 AGGAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATG
48681927 AAGGTTCAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (51 bp):
AGGAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATGG
Found at i:48685889 original size:13 final size:13
Alignment explanation
Indices: 48685871--48685895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48685861 TATGTGTTCT
48685871 TTATTTTATTTTA
1 TTATTTTATTTTA
48685884 TTATTTTATTTT
1 TTATTTTATTTT
48685896 TTTCACAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:48687632 original size:53 final size:54
Alignment explanation
Indices: 48687551--48687749 Score: 215
Period size: 53 Copynumber: 3.7 Consensus size: 54
48687541 TTTCCTTTTT
* * * *
48687551 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTAGTACCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATAGTACCCTTGCCTTATA
* *
48687604 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAG-ACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACAT-AGTACCCTTGCCTTATA
* ** * **
48687658 GTAACTCATCAATATCATGTCTTGACATGGTCTTACAT-GATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATAG-TACCCTTGCCTTATA
* * *
48687713 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACAT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACAT
48687750 GATATCCTTA
Statistics
Matches: 122, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
53 45 0.37
54 34 0.28
55 43 0.35
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATAGTACCCTTGCCTTATA
Found at i:48687691 original size:55 final size:53
Alignment explanation
Indices: 48687562--48687751 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 53
48687552 AACTTACCAT
* * *
48687562 TGCCATGTCTTGACATGGTCTTACGT-AGTACCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGAG-A-CCTTGCCTTATAGAACTCATCAA
*
48687615 TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGAGACC-TTGCCTTATAG-AACTCATCAA
** * ** *
48687670 TATCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGA-GACCTTGCCTTATAGAACTCATCAA
*
48687724 TGCCATGCCTTGGCATGGTCTTACATGA
1 TGCCATGCCTTGACATGGTCTTACATGA
48687752 TATCCTTATC
Statistics
Matches: 117, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 36 0.31
55 44 0.38
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGAGACCTTGCCTTATAGAACTCATCAA
Found at i:48687792 original size:47 final size:47
Alignment explanation
Indices: 48687737--48687858 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
48687727 CATGCCTTGG
*
48687737 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
48687784 CATGGTCTTACAT-AGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGA-TATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
48687831 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
48687859 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.01
47 70 0.99
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:48690399 original size:15 final size:15
Alignment explanation
Indices: 48690379--48690408 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48690369 ATGTTTAGAG
48690379 TTAAATGATATTTAT
1 TTAAATGATATTTAT
*
48690394 TTAAATGATGTTTAT
1 TTAAATGATATTTAT
48690409 GAAAATGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (15 bp):
TTAAATGATATTTAT
Found at i:48692353 original size:131 final size:131
Alignment explanation
Indices: 48692047--48692491 Score: 421
Period size: 132 Copynumber: 3.4 Consensus size: 131
48692037 GTGAAATTCC
* * * *** * * *
48692047 GAAGAGATATTCGATTGTTTTGAACAAACGAGAGATTGCAACCCAGTGCGATAGGGCACGATTCT
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGTATGATTCC
* * * *
48692112 TGAATTGCCAAACATCGAACA-TAGCCTTTGTTTTAAAGGGTTTTCTTAAAAGACATGAGTGAAA
66 TGAATTGCCAAACACCGAATATTA-CCTTCGTTTTAAA-GGATTT-TTAAAAGACATGAGTG-AA
*
48692176 ACCTA
127 ATCTA
* * * * ** *
48692181 -AAAGAATATTTGATTGTTTTGAACAAACGAGAAATCACAACCTAACACGATAGGGTATGATTCC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGTATGATTCC
* * * * * * *
48692245 TGAATTGTCAAACACCGAGTATTACCTTCGTTTTAGAGGATTTTTAGAAGACCTGAATGGAATCT
66 TGAATTGCCAAACACCGAATATTACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATCT
48692310 A
131 A
* *
48692311 GAAGGGATATTTGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTAGGGTATGATTCC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGTATGATTCC
* * * * * * * *
48692376 GCGAATTGCCAAATATCAAACT-TTGCATTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAG
66 -TGAATTGCCAAACACCGAA-TATTACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAA-
*
48692440 T-TT
128 TCTA
* * *
48692443 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACAC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACAC
48692492 ATTTGGGCAC
Statistics
Matches: 253, Mismatches: 53, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
130 5 0.02
131 70 0.28
132 96 0.38
133 80 0.32
134 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (131 bp):
GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGTATGATTCC
TGAATTGCCAAACACCGAATATTACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATCT
A
Found at i:48692471 original size:132 final size:132
Alignment explanation
Indices: 48692311--48692556 Score: 354
Period size: 132 Copynumber: 1.9 Consensus size: 132
48692301 ATGGAATCTA
* * * *
48692311 GAAGGGATATTTGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGTTAGGGTA-TGATTC
1 GAAGGGATATTCGATTATTTCGAACAAACGAGAAATTGCAACCCAACACATTAGGGCACT-ATTC
*
48692375 CGCGAATTGCCAAATATCAAA-CT-TTGCATTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAA
65 CGCGAATTGCCAAATATCAAATCTCGT-CA-TCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAA
48692438 AGTTT
128 AGTTT
* * * *
48692443 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACATTTGGGCACTATTTC
1 GAAGGGATATTCGATTATTTCGAACAAACGAGAAATTGCAACCCAACACATTAGGGCACTATTCC
*
48692508 GCGAATTGCCAAATATCTAATCTCGTCATCGTTTTAAAGAATTTTTAAA
66 GCGAATTGCCAAATATCAAATCTCGTCATCGTTTTAAAGAATTTTTAAA
48692557 TGTATAATCA
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
132 95 0.94
133 5 0.05
134 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (132 bp):
GAAGGGATATTCGATTATTTCGAACAAACGAGAAATTGCAACCCAACACATTAGGGCACTATTCC
GCGAATTGCCAAATATCAAATCTCGTCATCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
TT
Found at i:48693562 original size:7 final size:7
Alignment explanation
Indices: 48693550--48693578 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
48693540 AGTAACAAAT
48693550 ATTACAA
1 ATTACAA
48693557 ATTACAA
1 ATTACAA
48693564 ATTACAA
1 ATTACAA
48693571 ATTACAA
1 ATTACAA
48693578 A
1 A
48693579 CCTTGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
ATTACAA
Found at i:48698157 original size:45 final size:45
Alignment explanation
Indices: 48698092--48698223 Score: 164
Period size: 45 Copynumber: 3.0 Consensus size: 45
48698082 ATTATCGTAC
*
48698092 GACACTATTCGGGCCCTTGAGCCTAGCAGGCTATAATGCTGGTGA
1 GACACTATTCGGGCCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
48698137 GACACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
** * *
48698182 -A-AGGATATCGGG-CCTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 GACACTAT-TCGGGCCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
48698224 ATGGATTCGG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 11 0.14
43 19 0.25
44 5 0.06
45 42 0.55
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.22
Consensus pattern (45 bp):
GACACTATTCGGGCCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:48705890 original size:23 final size:25
Alignment explanation
Indices: 48705864--48705910 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48705854 TATCATTCAT
*
48705864 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
48705887 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
48705911 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:48706231 original size:46 final size:45
Alignment explanation
Indices: 48706171--48706428 Score: 294
Period size: 46 Copynumber: 6.0 Consensus size: 45
48706161 TTTGACGTGA
* * * * *
48706171 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA-TTTCATATCAGGT
48706217 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CATTTCATATCAGGT
48706263 TGCCATGGTATCTTTCAACCATGGTCTTA-CA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTTCATATCAGGT
* *
48706301 TGCCATGGTATCTTTCAACCATGATCTTACATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CATTTCATATCAGGT
*
48706347 TTCCATGGTATCTTTCAACCATGGTCTTA-CA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTTCATATCAGGT
48706385 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CATTTCATATCAG
48706429 AGAGCACACT
Statistics
Matches: 183, Mismatches: 12, Indels: 34
0.80 0.05 0.15
Matches are distributed among these distances:
38 66 0.36
39 2 0.01
40 3 0.02
41 2 0.01
43 2 0.01
44 3 0.02
45 6 0.03
46 99 0.54
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTTCATATCAGGT
Found at i:48706309 original size:38 final size:38
Alignment explanation
Indices: 48706258--48706417 Score: 230
Period size: 38 Copynumber: 4.0 Consensus size: 38
48706248 CATTTCATAT
48706258 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
48706296 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACATATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTAC--A---C--A
*
48706341 TCAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
48706380 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
48706418 TTTCATATCA
Statistics
Matches: 110, Mismatches: 4, Indels: 16
0.85 0.03 0.12
Matches are distributed among these distances:
38 71 0.65
39 1 0.01
40 1 0.01
41 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
46 33 0.30
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:48706356 original size:84 final size:84
Alignment explanation
Indices: 48706215--48706428 Score: 401
Period size: 84 Copynumber: 2.5 Consensus size: 84
48706205 TTTCTGTCAT
48706215 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
48706280 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
* * *
48706299 GTTGCCATGGTATCTTTCAACCATGATCTTACATATTTCATATCAGGTTTCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
48706364 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
48706383 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
48706429 AGAGCACACT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 125 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:48708583 original size:24 final size:24
Alignment explanation
Indices: 48708547--48708597 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
48708537 TTCTTTCTTT
48708547 ATATACTTATAAAATAATAATAAA
1 ATATACTTATAAAATAATAATAAA
* *
48708571 ATAT-CTTATTAAAGTATTAATAAA
1 ATATACTTA-TAAAATAATAATAAA
48708595 ATA
1 ATA
48708598 ATATTATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
ATATACTTATAAAATAATAATAAA
Found at i:48708606 original size:30 final size:29
Alignment explanation
Indices: 48708559--48708626 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
48708549 ATACTTATAA
*
48708559 AATAATAATAAAATATCTTATTAAAGT-ATT
1 AATAA-AATAAAATATCTAATTAAA-TAATT
*
48708589 AATAAAATAATATTATCTAATTAAATAATT
1 AATAAAATAA-AATATCTAATTAAATAATT
48708619 -ATAAAATA
1 AATAAAATA
48708627 TCAAAATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (29 bp):
AATAAAATAAAATATCTAATTAAATAATT
Found at i:48709949 original size:15 final size:16
Alignment explanation
Indices: 48709919--48709951 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48709909 AAAAATGGTA
48709919 GGCCCGAGCCCAGCCC
1 GGCCCGAGCCCAGCCC
*
48709935 GGCCCG-GCCCGGCCC
1 GGCCCGAGCCCAGCCC
48709950 GG
1 GG
48709952 TCATATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.06, C:0.55, G:0.39, T:0.00
Consensus pattern (16 bp):
GGCCCGAGCCCAGCCC
Found at i:48710007 original size:24 final size:25
Alignment explanation
Indices: 48709980--48710028 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
48709970 CTTTTTTTAT
*
48709980 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
48710004 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
48710029 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:48710021 original size:25 final size:23
Alignment explanation
Indices: 48709992--48710056 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
48709982 AATAAAAAAC
*
48709992 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
48710017 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
48710038 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
48710057 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:48710055 original size:19 final size:20
Alignment explanation
Indices: 48710018--48710056 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
48710008 TCAAATACAT
48710018 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
48710038 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
48710057 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:48710293 original size:17 final size:17
Alignment explanation
Indices: 48710248--48710295 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
48710238 TACTAAAGTT
*
48710248 ATTTAAAATTAAAAATA
1 ATTTAATATTAAAAATA
*** *
48710265 AAAAAATTTTAAAAATA
1 ATTTAATATTAAAAATA
48710282 ATTTAATATTAAAA
1 ATTTAATATTAAAA
48710296 TTAGGCCGGG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAATATTAAAAATA
Found at i:48712255 original size:10 final size:10
Alignment explanation
Indices: 48712232--48712291 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
48712222 TAATTTTAGG
48712232 ATTTAT-TTT
1 ATTTATCTTT
*
48712241 CATTTACCTTT
1 -ATTTATCTTT
48712252 ATTTATCTTT
1 ATTTATCTTT
*
48712262 AATTATCTTT
1 ATTTATCTTT
48712272 ATTTAT-TTGT
1 ATTTATCTT-T
48712282 ATTTATCTTT
1 ATTTATCTTT
48712292 TAGAATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:48713039 original size:17 final size:18
Alignment explanation
Indices: 48713008--48713041 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48712998 TATTCCTCAT
48713008 TTTAATTTTTGCAATTTA
1 TTTAATTTTTGCAATTTA
48713026 TTTAATTTTT-CAATTT
1 TTTAATTTTTGCAATTT
48713042 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTAATTTTTGCAATTTA
Found at i:48714872 original size:10 final size:9
Alignment explanation
Indices: 48714857--48714917 Score: 58
Period size: 10 Copynumber: 6.9 Consensus size: 9
48714847 CAACCCAATT
48714857 TTTATTTTA
1 TTTATTTTA
48714866 GTTTATTTTA
1 -TTTATTTTA
*
48714876 TTTTTATTTA
1 TTTAT-TTTA
48714886 TTTATTCTTA
1 TTTATT-TTA
48714896 -TTATTTTA
1 TTTATTTTA
48714904 -TTA-TTTA
1 TTTATTTTA
48714911 -TTATTTT
1 TTTATTTT
48714918 CAGATATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
7 7 0.15
8 9 0.20
9 10 0.22
10 20 0.43
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:48716525 original size:10 final size:10
Alignment explanation
Indices: 48716510--48716569 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
48716500 TAATTTTAGG
48716510 ATTTAT-TTT
1 ATTTATCTTT
48716519 CATTTATCTTT
1 -ATTTATCTTT
48716530 ATTTATCTTT
1 ATTTATCTTT
*
48716540 AATTATCTTT
1 ATTTATCTTT
48716550 ATTTAT-TTGT
1 ATTTATCTT-T
48716560 ATTTATCTTT
1 ATTTATCTTT
48716570 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:48722234 original size:3 final size:3
Alignment explanation
Indices: 48722226--48722268 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
48722216 TAATCCTACT
48722226 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48722269 CTTAAAGCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48723633 original size:25 final size:25
Alignment explanation
Indices: 48723599--48723686 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 25
48723589 TTAAAAATAT
*
48723599 AAATTTATTATCATAAATTATATTA
1 AAATTCATTATCATAAATTATATTA
* *
48723624 AAATTCATTA--ATACATTTTATTA
1 AAATTCATTATCATAAATTATATTA
* *
48723647 AAA-T-ATTTTTAT-AATTATATTA
1 AAATTCATTATCATAAATTATATTA
*
48723669 AAGTATCATTATCA-AAAT
1 AAAT-TCATTATCATAAAT
48723687 AATAATTATA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.06
22 11 0.23
23 16 0.33
24 1 0.02
25 17 0.35
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.47
Consensus pattern (25 bp):
AAATTCATTATCATAAATTATATTA
Found at i:48723680 original size:22 final size:22
Alignment explanation
Indices: 48723607--48723680 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
48723597 ATAAATTTAT
48723607 TATCA-TA-AATTATATTAAAA
1 TATCATTATAATTATATTAAAA
*
48723627 T-TCATTAATACATTTTATTAAAA
1 TATCATT-ATA-ATTATATTAAAA
** *
48723650 TATTTTTATAATTATATTAAAG
1 TATCATTATAATTATATTAAAA
48723672 TATCATTAT
1 TATCATTAT
48723681 CAAAATAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.07
20 2 0.05
21 1 0.02
22 18 0.43
23 15 0.36
24 3 0.07
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (22 bp):
TATCATTATAATTATATTAAAA
Found at i:48723849 original size:2 final size:2
Alignment explanation
Indices: 48723838--48723866 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
48723828 TAAGTTTTAT
48723838 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48723867 AGTAGATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:48726896 original size:23 final size:22
Alignment explanation
Indices: 48726844--48726896 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48726834 TCCACGTCTT
*
48726844 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48726866 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48726889 TTTCTTTT
1 TTTCTTTT
48726897 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48731925 original size:29 final size:28
Alignment explanation
Indices: 48731885--48731946 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
48731875 ACTCTGAAAC
*
48731885 CTCT-TCACTTTCCACCC-AAAACTTTATT
1 CTCTCTCACTTTCC-CCCTAAAACTTT-TA
*
48731913 CTCTCTCAGTTTCCCCCTAAAACTTTTA
1 CTCTCTCACTTTCCCCCTAAAACTTTTA
48731941 CTCTCT
1 CTCTCT
48731947 TCTCATCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.21, C:0.37, G:0.02, T:0.40
Consensus pattern (28 bp):
CTCTCTCACTTTCCCCCTAAAACTTTTA
Found at i:48733820 original size:20 final size:21
Alignment explanation
Indices: 48733775--48733821 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
48733765 AACGGTATAT
*
48733775 AAATATATACATATATGTATTA
1 AAATATATACATATA-GTAATA
48733797 AAATATATACATA-A-TAATA
1 AAATATATACATATAGTAATA
48733816 GAAATA
1 -AAATA
48733822 AAAATGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 5 0.22
21 1 0.04
22 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATATATACATATAGTAATA
Found at i:48734199 original size:20 final size:20
Alignment explanation
Indices: 48734170--48734218 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
48734160 TATTAAAAAT
* *
48734170 ATATACATAAAATTTA-ATAA
1 ATATATATAAAATATATAT-A
*
48734190 ATATATATAATATATATATA
1 ATATATATAAAATATATATA
48734210 ATATATATA
1 ATATATATA
48734219 CATAATATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATATATAAAATATATATA
Found at i:48734200 original size:13 final size:13
Alignment explanation
Indices: 48734163--48734225 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
48734153 AATACGATAT
*
48734163 TAAAAATATATACA
1 TAAATATATATA-A
48734177 TAAA-AT-T-TAA
1 TAAATATATATAA
48734187 TAAATATATATAA
1 TAAATATATATAA
48734200 T--ATATATATAA
1 TAAATATATATAA
* *
48734211 TATATATACATAA
1 TAAATATATATAA
48734224 TA
1 TA
48734226 TAGTTTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
10 5 0.12
11 15 0.35
12 2 0.05
13 17 0.40
14 4 0.09
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATATATAA
Found at i:48734226 original size:13 final size:12
Alignment explanation
Indices: 48734134--48734227 Score: 60
Period size: 11 Copynumber: 8.1 Consensus size: 12
48734124 TATTTACATA
*
48734134 ATATAA-AAAAT
1 ATATAATAATAT
*
48734145 ATATGAATAATACG
1 ATAT-AATAATA-T
48734159 ATATTAA-AA-AT
1 ATA-TAATAATAT
48734170 ATATACATAA-A-
1 ATATA-ATAATAT
*
48734181 ATTTAATAA-AT
1 ATATAATAATAT
48734192 ATAT-ATAATAT
1 ATATAATAATAT
48734203 ATAT-ATAATAT
1 ATATAATAATAT
48734214 ATATACATAATAT
1 ATATA-ATAATAT
48734227 A
1 A
48734228 GTTTTAAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
10 11 0.16
11 32 0.47
12 6 0.09
13 13 0.19
14 5 0.07
15 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:48734426 original size:12 final size:12
Alignment explanation
Indices: 48734407--48734474 Score: 66
Period size: 12 Copynumber: 5.7 Consensus size: 12
48734397 TATATAAGTG
*
48734407 TAATAATAGTAA
1 TAATAATACTAA
*
48734419 TTATAATACTAA
1 TAATAATACTAA
*
48734431 TACTAATACTAA
1 TAATAATACTAA
48734443 TAATAGATA-TAA
1 TAATA-ATACTAA
* *
48734455 TAATAGTAGTAA
1 TAATAATACTAA
*
48734467 AAATAATA
1 TAATAATA
48734475 TAAATAATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.89
13 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (12 bp):
TAATAATACTAA
Found at i:48736269 original size:44 final size:44
Alignment explanation
Indices: 48736219--48737531 Score: 1085
Period size: 44 Copynumber: 30.0 Consensus size: 44
48736209 AGATTCGCTG
** * * * *
48736219 TCTTCGATCTGCTCTCTGTCAATACAGAGACGCTAGATCTATCA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * ** *** *
48736263 TCTTCGATTTGCTCTCTGACAATACAGAGACGCTGGATCTGTCA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
*
48736307 TCTTCGATCTGCTCTCCT-CCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCT-CTGTCGCTACAGAGACGCCAAATCTGTTA
* * *
48736351 TCTTTGATCTGCTCTCCG-CTGCTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTC-GCTACAGAGACGCCAAATCTGTTA
** *
48736395 TCTTCGATCTGCTCTC-CACTTCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTC-GCTACAGAGACGCCAAATCTGTTA
* * *
48736439 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *
48736483 TCTTCGATCTGCTCTCCGTTGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *
48736527 TCTTCGATCTGCTCT-TCGCCGCTATAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCT-GTCGCTACAGAGACGCCAAATCTGTTA
* *
48736571 TCTTCGATCTGCTCACCGTCGCTACAGAGACGCCAAATC-G---
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * * * *** * * ** *
48736611 TCTTGGATTTGCTTCACCGTAAATAC-GTGAAAGCCAAATCAACTATG
1 TCTTCGATCTGC-TCTCTGTCGCTACAGAG-ACGCCAAATC-TGT-TA
* * *
48736658 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* ***
48736702 TCTTCGATTTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *
48736746 TCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC-G---
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * ** * * ** *
48736786 TCTTGGATTTGCT-TC-ACCG-TAAACACGTGAAAGCCAAATCAACTATG
1 TCTTCGATCTGCTCTCTGTCGCT--ACA-GAG-ACGCCAAATC-TGT-TA
* * *
48736833 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *
48736877 TCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTATTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
*
48736921 TCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
*
48736965 TCTTCGATCTGCTCT-TCGCCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCT-GTCGCTACAGAGACGCCAAATCTGTTA
* *
48737009 TCTTCGATCTGCTCACCGTCGCTACAGAGACGCCAAATC-G---
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * ** * * ** *
48737049 TCTTGGATTTGCT-TC-ACCG-TAAACACGTAAAAGCCAAATCAACTATG
1 TCTTCGATCTGCTCTCTGTCGCT--ACA-G-AGACGCCAAATC-TGT-TA
* * *
48737096 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *** *
48737140 TCTTCGATTTGCTCTCCACCGCTACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *
48737184 TCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC-G---
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * ** * * ** *
48737224 TCTTGGATTTGCT-TC-ACCG-TAAACACGTGAAAGCCAAATCAACTATG
1 TCTTCGATCTGCTCTCTGTCGCT--ACA-GAG-ACGCCAAATC-TGT-TA
* * * *
48737271 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCAGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *
48737315 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * * * * *
48737359 CCTTCGATCTGCTCTCCGCCGTTATAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* *
48737403 TCTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * *
48737447 TCTTCGATCTACTCTCCGTCGCTACAGAGATGCCAAA----TTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
* * *
48737487 TCTTCGATTTGCTCTCTGCCGCTACTGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
48737531 T
1 T
48737532 TTGTTTCAAG
Statistics
Matches: 1067, Mismatches: 141, Indels: 122
0.80 0.11 0.09
Matches are distributed among these distances:
37 3 0.00
38 8 0.01
39 14 0.01
40 84 0.08
41 47 0.04
43 6 0.01
44 775 0.73
45 8 0.01
46 45 0.04
47 50 0.05
48 15 0.01
49 9 0.01
50 3 0.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTTA
Found at i:48736733 original size:175 final size:172
Alignment explanation
Indices: 48736306--48737531 Score: 1211
Period size: 175 Copynumber: 7.0 Consensus size: 172
48736296 TGGATCTGTC
* * * *
48736306 ATCTTCGATCTGCTCTCCTCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * ** *
48736371 GCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACTTCTACAGAGACGCCAAATCTG
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
* *
48736436 TTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTA-TT
131 -T-TCTTCGATTTGCT-T-CACCGCTACAGAGACGCCAAATC-AGTT
** * *
48736482 ATCTTCGATCTGCTCTCCGTTGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * * *
48736547 GCTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCACCGTCGCTACAGAGACGCCAAATC-G
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
* * * * *
48736611 -TCTTGGATTTGCTTCACCG-TAAATACGTGAAAGCCAAATCAACTAT
131 TTCTTCGATTTGCTTCACCGCT--ACA-GAG-ACGCCAAATC-AGT-T
* * *
48736657 GTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCACC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
48736722 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC-G
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
* * * *
48736786 -TCTTGGATTTGCTTCACCG-TAAACACGTGAAAGCCAAATCAACTAT
131 TTCTTCGATTTGCTTCACCGCT--ACA-GAG-ACGCCAAATC-AGT-T
* *
48736832 GTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * *
48736897 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTG
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
* * *
48736962 TTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTT
131 -T-TCTTCGATTTG--CTTCACCGCTACAGAGACGCCAAATCAGTT
* * * * * *
48737008 ATCTTCGATCTGCTCACCGTCGCTACAGAGACGCCAAATC-G---TCTTGGATTTGCT-T-CACC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * ** *
48737067 G-TAAACACGTAAAAGCCAAATCAACTATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCA
66 GCT--ACA-G-AGACGCCAAATC-TGT-TATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCA
* *
48737131 AATCTGTTATCTTCGATTTGCTCTCCACCGCTACAGAGATGCCAAATCTGTT
125 AATCTG-T-TCTTCGATTTGCT-T-CACCGCTACAGAGACGCCAAATCAGTT
* * * *
48737183 ATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC-G---TCTTGGATTTGCT-T-CACC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * ** *
48737242 G-TAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCA
66 GCT--ACA-GAG-ACGCCAAATC-TGT-TATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCA
* * * *
48737306 AATCAGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
125 AATCTG-T-TCTTCGATTTGCT-T-CACCGCTACAGAGACGCCAAATCAGTT
* * * * *
48737358 ACCTTCGATCTGCTCTCCGCCGTTATAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* *
48737423 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGTCGCTACAGAGATGCCAAAT-T-
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
* * * *
48737486 ATCTTCGATTTGCTCTCTGCCGCTACTGAGACGCCAAATCTGTT
131 TTCTTCGATTTGCT-TC-ACCGCTACAGAGACGCCAAATCAGTT
48737530 AT
1 AT
48737532 TTGTTTCAAG
Statistics
Matches: 924, Mismatches: 96, Indels: 64
0.85 0.09 0.06
Matches are distributed among these distances:
169 2 0.00
170 7 0.01
171 8 0.01
172 65 0.07
173 22 0.02
174 3 0.00
175 564 0.61
176 191 0.21
177 2 0.00
178 18 0.02
179 23 0.02
180 7 0.01
181 10 0.01
182 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (172 bp):
ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
TTCTTCGATTTGCTTCACCGCTACAGAGACGCCAAATCAGTT
Found at i:48737033 original size:438 final size:438
Alignment explanation
Indices: 48736395--48737499 Score: 1978
Period size: 438 Copynumber: 2.5 Consensus size: 438
48736385 AAATCTGTTA
* ** *
48736395 TCTTCGATCTGCTCTCCACTTCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
*
48736460 CTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTTGCTACAGAGACGCCAAATCTGT
66 CTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGT
*
48736525 TATCTTCGATCTGCTCTTCGCCGCTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCACCGT
131 TATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCACCGT
* *
48736590 CGCTACAGAGACGCCAAATCGTCTTGGATTTGCTTCACCGTAAATACGTGAAAGCCAAATCAACT
196 CGCTACAGAGACGCCAAATCGTCTTGGATTTGCTTCACCGTAAACACGTAAAAGCCAAATCAACT
48736655 ATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCA
261 ATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCA
48736720 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC
326 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC
48736785 GTCTTGGATTTGCTTCACCGTAAACACGTGAAAGCCAAATCAACTATG
391 GTCTTGGATTTGCTTCACCGTAAACACGTGAAAGCCAAATCAACTATG
*
48736833 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCG
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
48736898 CTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGT
66 CTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGT
48736963 TATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCACCGT
131 TATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCACCGT
48737028 CGCTACAGAGACGCCAAATCGTCTTGGATTTGCTTCACCGTAAACACGTAAAAGCCAAATCAACT
196 CGCTACAGAGACGCCAAATCGTCTTGGATTTGCTTCACCGTAAACACGTAAAAGCCAAATCAACT
48737093 ATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCA
261 ATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCA
*
48737158 CCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC
326 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC
48737223 GTCTTGGATTTGCTTCACCGTAAACACGTGAAAGCCAAATCAACTATG
391 GTCTTGGATTTGCTTCACCGTAAACACGTGAAAGCCAAATCAACTATG
*
48737271 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCAGTTATCTTCGATCTGCTCTCCGCCG
1 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
* * * * * *
48737336 CTACAGAGACGCCAAATCTGTTACCTTCGATCTGCTCTCCGCCGTTATAGAGATGCCAAATCTGT
66 CTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGT
* * *
48737401 TATCTTCGATCTACTC-TCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCG
131 TATCTTCGATCTGCTCTTC-GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCACCG
* ** *
48737465 TCGCTACAGAGATGCCAAATTATCTTCGATTTGCT
195 TCGCTACAGAGACGCCAAATCGTCTTGGATTTGCT
48737500 CTCTGCCGCT
Statistics
Matches: 641, Mismatches: 25, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
437 2 0.00
438 639 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (438 bp):
TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
CTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGT
TATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCACCGT
CGCTACAGAGACGCCAAATCGTCTTGGATTTGCTTCACCGTAAACACGTAAAAGCCAAATCAACT
ATGTCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCA
CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC
GTCTTGGATTTGCTTCACCGTAAACACGTGAAAGCCAAATCAACTATG
Found at i:48739382 original size:13 final size:13
Alignment explanation
Indices: 48739364--48739390 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48739354 TGAATTTCTC
48739364 CGTAGATTTGACA
1 CGTAGATTTGACA
48739377 CGTAGATTTGACA
1 CGTAGATTTGACA
48739390 C
1 C
48739391 TTATGACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CGTAGATTTGACA
Found at i:48745690 original size:18 final size:19
Alignment explanation
Indices: 48745654--48745693 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
48745644 TATGGCCTTT
48745654 TAATGCATAATGAATGATG
1 TAATGCATAATGAATGATG
48745673 TAATGCA-AATGCAA-GATG
1 TAATGCATAATG-AATGATG
48745691 TAA
1 TAA
48745694 AGGAGGCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (19 bp):
TAATGCATAATGAATGATG
Found at i:48750086 original size:20 final size:21
Alignment explanation
Indices: 48750041--48750087 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
48750031 AACGGTATAT
*
48750041 AAATATATACATATATGTATTA
1 AAATATATACATATA-GTAATA
48750063 AAATATATACATA-A-TAATA
1 AAATATATACATATAGTAATA
48750082 GAAATA
1 -AAATA
48750088 AAAATGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 5 0.22
21 1 0.04
22 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATATATACATATAGTAATA
Found at i:48750457 original size:25 final size:23
Alignment explanation
Indices: 48750400--48750468 Score: 59
Period size: 25 Copynumber: 2.9 Consensus size: 23
48750390 ATATTTACAT
*
48750400 AATATAA-AAAAATATAAATAAT
1 AATATAATAAAAATATAAATAAA
** *
48750422 ACGATATTAAAAATATATACATAAA
1 AATATAATAAAAATATA-A-ATAAA
*
48750447 AATATAATAAATATAATAAATA
1 AATATAATAAAAAT-ATAAATA
48750469 TATATATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
22 4 0.11
23 9 0.26
24 4 0.11
25 15 0.43
26 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (23 bp):
AATATAATAAAAATATAAATAAA
Found at i:48750460 original size:9 final size:9
Alignment explanation
Indices: 48750442--48750489 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
48750432 AAATATATAC
48750442 ATAA-AAAT
1 ATAATAAAT
48750450 ATAATAAAT
1 ATAATAAAT
48750459 ATAATAAAT
1 ATAATAAAT
*
48750468 ATATATATAT
1 ATA-ATAAAT
48750478 ATACAT-AAT
1 ATA-ATAAAT
48750487 ATA
1 ATA
48750490 GTTTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
8 4 0.11
9 21 0.60
10 10 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAATAAAT
Found at i:48750713 original size:12 final size:11
Alignment explanation
Indices: 48750673--48750764 Score: 60
Period size: 12 Copynumber: 7.9 Consensus size: 11
48750663 TATAAGTGTA
*
48750673 ATAATAGTAATT
1 ATAATAATAA-T
*
48750685 ATAATACTAAT
1 ATAATAATAAT
48750696 ACTAATAATAGAT
1 A-TAATAATA-AT
*
48750709 ATAATAATAGT
1 ATAATAATAAT
*
48750720 AGTAAAAATAAT
1 A-TAATAATAAT
*
48750732 ATAAATAAT-GT
1 AT-AATAATAAT
*
48750743 GTACATAATAAT
1 ATA-ATAATAAT
*
48750755 ATGATAATAA
1 ATAATAATAA
48750765 AAAAGGACGA
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
10 1 0.02
11 19 0.30
12 40 0.63
13 3 0.05
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:48759693 original size:17 final size:16
Alignment explanation
Indices: 48759674--48759716 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48759664 TTTTTTGATT
48759674 TTTTTGTAAGATATTA
1 TTTTTGTAAGATATTA
*
48759690 TTTTTGTAAGGTATTA
1 TTTTTGTAAGATATTA
* *
48759706 GTTTTGCAAGA
1 TTTTTGTAAGA
48759717 AAGGAAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTTTGTAAGATATTA
Found at i:48765089 original size:13 final size:13
Alignment explanation
Indices: 48765071--48765095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48765061 GAATTAGTAT
48765071 GTGTGAAAATTTC
1 GTGTGAAAATTTC
48765084 GTGTGAAAATTT
1 GTGTGAAAATTT
48765096 AATCATATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:48772410 original size:46 final size:46
Alignment explanation
Indices: 48772357--48772447 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
48772347 TATATATACA
* *
48772357 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* *
48772403 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
48772448 ATACACTTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:48772495 original size:47 final size:47
Alignment explanation
Indices: 48772421--48772866 Score: 689
Period size: 47 Copynumber: 9.5 Consensus size: 47
48772411 ACACATTTCG
* * * * * * *
48772421 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCA-TGTTCACATTCATCA
* * *
48772468 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
48772515 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* *
48772562 CACTGGACATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* * *
48772609 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
48772656 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
48772703 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA-TCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* * * *
48772749 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTATCC
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
48772796 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
48772843 CATTGGCCATTCGGCCTTATCACA
1 CATTGGCCATTCGGCCTTATCACA
48772867 CTGGCCATTC
Statistics
Matches: 368, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 45 0.12
47 323 0.88
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
Found at i:48772889 original size:22 final size:22
Alignment explanation
Indices: 48772839--48772889 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
48772829 GTTCACATTC
*
48772839 ATCACATTGGCCATTCGGCCTT
1 ATCACACTGGCCATTCGGCCTT
48772861 ATCACACTGGCCATTCGGCCTT
1 ATCACACTGGCCATTCGGCCTT
48772883 ATCACAC
1 ATCACAC
48772890 ATATGCATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.27
Consensus pattern (22 bp):
ATCACACTGGCCATTCGGCCTT
Found at i:48776858 original size:28 final size:28
Alignment explanation
Indices: 48776827--48776922 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
48776817 CTGATTTCCA
48776827 ACACATAGTGCTCGATTAAAGAACTCGC
1 ACACATAGTGCTCGATTAAAGAACTCGC
* * ** ** *
48776855 ACACATAGTGCCTCAACTACTGATGTGGC
1 ACACATAGTG-CTCGATTAAAGAACTCGC
* * *
48776884 ACACATAGTGCTCGGTTGAAGAACTTGC
1 ACACATAGTGCTCGATTAAAGAACTCGC
*
48776912 ACACACAGTGC
1 ACACATAGTGC
48776923 CTCATGATTC
Statistics
Matches: 50, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
28 29 0.58
29 21 0.42
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (28 bp):
ACACATAGTGCTCGATTAAAGAACTCGC
Found at i:48777606 original size:40 final size:40
Alignment explanation
Indices: 48776954--48777606 Score: 1022
Period size: 40 Copynumber: 16.3 Consensus size: 40
48776944 GCTTCGAGGT
*
48776954 TTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
48776994 TTAGCCCGGATACATCACTAGCACGAATGCTTTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48777034 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * *
48777074 TTAGCCCAGATATATCACTAGCTCGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * *
48777114 TTAGCCCGGATACATCACTAGCACGAATGCTTTTCAGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
48777154 TT-GTCCCGGATACATCACTAGCACGAATGCTTTTCGGGAC
1 TTAG-CCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48777194 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48777234 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
48777274 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
48777314 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* *
48777354 TTAGCCCGAATATATCACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
* * *
48777394 TTAGCCCGGATACATCACTAGCATGAATGCTCTTCGCGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48777434 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48777474 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
*
48777514 TTAGCCCGGATATATCACCAGCACGAATGCTCATT-GGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTC-TTCGGGAC
* *
48777554 TTAGCCCGGATATATCACCAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
48777594 TTAGCCCGGATAT
1 TTAGCCCGGATAT
48777607 CATTCGAATA
Statistics
Matches: 579, Mismatches: 30, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
39 3 0.01
40 573 0.99
41 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
Found at i:48780956 original size:57 final size:57
Alignment explanation
Indices: 48780865--48780996 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 57
48780855 GAAACACACT
* * * *
48780865 TCGCATACGCAGTGCC-C-ACTGACTGATTTCGCACACATTGTGCTCGATTAAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATGTCGCACACATAGTGCTCGATTAAAGAAC
* * * *
48780921 TCGCACACATAGTGCCTCAACTACTGATGTGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACACAGTGCCTCAACTACTGATGTCGCACACATAGTGCTCGATTAAAGAAC
*
48780978 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
48780997 TGATTCCAGT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 13 0.20
57 48 0.75
58 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATGTCGCACACATAGTGCTCGATTAAAGAAC
Found at i:48781481 original size:40 final size:40
Alignment explanation
Indices: 48781007--48781479 Score: 731
Period size: 40 Copynumber: 11.9 Consensus size: 40
48780997 TGATTCCAGT
* * *
48781007 ACGAATGC-CTTCGAGG-TTTAGCCCGGTTATATCACTAGC
1 ACGAATGCTCTTCG-GGACTTAGCCCGGATACATCACTAGC
* *
48781046 ACGAATGCTCTTTGGGACTTAGCCCGGATACATTACTAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
*
48781086 ACGAATGCTTTTCGGGAC--AGCCCGGATACATCACTAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
48781124 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
*
48781164 ACGAATGCTTTTCGGGACTTAGCCCGGATACATCACTAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
* *
48781204 ACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
*
48781244 ACGAATGCTCTTTGGGACTTAGCCCGGATACATCACTAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
*
48781284 ACGAATGCTTTTCGGGACTT-GTCCCGGATACATCACTAGC
1 ACGAATGCTCTTCGGGACTTAG-CCCGGATACATCACTAGC
*
48781324 ACGAATGCTCTTCGGGACTTAGCCTGGATACATCACTAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
* *
48781364 ACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
* * *
48781404 ACGAATGCTCTTTGGGACTTAGCCCGGATATATCACCAGC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
*
48781444 ACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
1 ACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
48781480 CACTTAGCCT
Statistics
Matches: 401, Mismatches: 27, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
38 36 0.09
39 11 0.03
40 353 0.88
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
Found at i:48781486 original size:21 final size:21
Alignment explanation
Indices: 48781460--48781502 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
48781450 GCTCTTCGAG
48781460 ACTTAGCCCGGATACATCACC
1 ACTTAGCCCGGATACATCACC
*
48781481 ACTTAGCCTGGATACATCACC
1 ACTTAGCCCGGATACATCACC
48781502 A
1 A
48781503 GCACGAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.35, G:0.14, T:0.21
Consensus pattern (21 bp):
ACTTAGCCCGGATACATCACC
Found at i:48781515 original size:61 final size:61
Alignment explanation
Indices: 48781420--48781540 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
48781410 GCTCTTTGGG
*
48781420 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACC
1 ACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACC
* *
48781481 ACTTAGCCTGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 ACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCAC
48781541 TAGCACGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.21
Consensus pattern (61 bp):
ACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACC
Found at i:48781555 original size:101 final size:101
Alignment explanation
Indices: 48781380--48781582 Score: 343
Period size: 101 Copynumber: 2.0 Consensus size: 101
48781370 GCTCTTCGGG
* * *
48781380 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATATCACCAGCA
1 ACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCA
48781445 CGAATGCTCTTCGAGACTTAGCCCGGATACATCACC
66 CGAATGCTCTTCGAGACTTAGCCCGGATACATCACC
* *
48781481 ACTTAGCCTGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA
1 ACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCA
* *
48781546 CGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
66 CGAATGCTCTTCGAGACTTAGCCCGGATACATCACC
48781582 A
1 A
48781583 GCACGAATGC
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (101 bp):
ACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCA
CGAATGCTCTTCGAGACTTAGCCCGGATACATCACC
Found at i:48781594 original size:141 final size:141
Alignment explanation
Indices: 48781340--48781622 Score: 512
Period size: 141 Copynumber: 2.0 Consensus size: 141
48781330 GCTCTTCGGG
* *
48781340 ACTTAGCCTGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCA
1 ACTTAGCCTGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCA
*
48781405 CGAATGCTCTTTGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGAGACTTAGCCCG
66 CGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGAGACTTAGCCCG
48781470 GATACATCACC
131 GATACATCACC
*
48781481 ACTTAGCCTGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA
1 ACTTAGCCTGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCA
*
48781546 CGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCG
66 CGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGAGACTTAGCCCG
*
48781611 GATATATCACC
131 GATACATCACC
48781622 A
1 A
48781623 GCACGAATGC
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 136 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (141 bp):
ACTTAGCCTGGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCA
CGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGAGACTTAGCCCG
GATACATCACC
Found at i:48781613 original size:181 final size:181
Alignment explanation
Indices: 48781309--48781654 Score: 656
Period size: 181 Copynumber: 1.9 Consensus size: 181
48781299 GACTTGTCCC
* *
48781309 GGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAATGCTC
1 GGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTC
*
48781374 TTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATATCA
66 TTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
48781439 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACCACTTAGCCT
131 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACCACTTAGCCT
48781490 GGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTC
1 GGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTC
48781555 TTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
66 TTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
*
48781620 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
131 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
48781655 TCATTCGAAT
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 161 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (181 bp):
GGATACATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTC
TTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACCACTTAGCCT
Found at i:48781655 original size:40 final size:40
Alignment explanation
Indices: 48781481--48781655 Score: 314
Period size: 40 Copynumber: 4.4 Consensus size: 40
48781471 ATACATCACC
* *
48781481 ACTTAGCCTGGATACATCACCAGCACGAATGCTCTTCGGG
1 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGG
* *
48781521 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
1 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGG
48781561 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGG
1 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGG
48781601 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGG
1 ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGG
48781641 ACTTAGCCCGGATAT
1 ACTTAGCCCGGATAT
48781656 CATTCGAATA
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGG
Found at i:48783414 original size:46 final size:46
Alignment explanation
Indices: 48783361--48783451 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
48783351 TATATATACA
* * *
48783361 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCAATCGGCTTTACCACATATC
* **
48783407 CATCTCATACACATTTTGCATTAGCCAATCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCAATCGGCTTTACCACATAT
48783452 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCAATCGGCTTTACCACATATC
Found at i:48783494 original size:22 final size:22
Alignment explanation
Indices: 48783468--48783636 Score: 77
Period size: 22 Copynumber: 7.3 Consensus size: 22
48783458 TTCCACGCTC
48783468 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
48783490 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
48783515 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
48783537 ATCACATATGTG-CATGT-T-CACATTT
1 ATCACAT-TG-GCCAT-TCTGC-C--TT
*
48783562 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
48783584 ATCACATATGTG-CATGT-T-CACATT
1 ATCACAT-TG-GCCAT-TCTGC-C-TT
*
48783608 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCTGCCTT
48783631 ATCACA
1 ATCACA
48783637 CATATGCATG
Statistics
Matches: 113, Mismatches: 7, Indels: 54
0.65 0.04 0.31
Matches are distributed among these distances:
22 34 0.30
23 26 0.23
24 25 0.22
25 28 0.25
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:48783519 original size:47 final size:47
Alignment explanation
Indices: 48783466--48783757 Score: 485
Period size: 47 Copynumber: 6.2 Consensus size: 47
48783456 ACTTCCACGC
*
48783466 TCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* *
48783513 TTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* *
48783560 TTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* *
48783607 TCATCACATTGGCCATTCAGCCTTATCACACATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* * *
48783654 TTATCACATTAGCCATTCGGCCTTATCACATATGTGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
*
48783701 TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
48783748 TCATCACATT
1 TCATCACATT
48783758 TGCCTTGGCT
Statistics
Matches: 229, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
Found at i:48790240 original size:33 final size:33
Alignment explanation
Indices: 48790198--48790260 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
48790188 TTATATTGTC
*
48790198 ATTGGTTAGCTAGTGTAAGGGCTTGAATGAAAT
1 ATTGGTTAGCCAGTGTAAGGGCTTGAATGAAAT
48790231 ATTGGTTAGCCAGTGTAAGGGCTTGAATGA
1 ATTGGTTAGCCAGTGTAAGGGCTTGAATGA
48790261 TATACCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.32
Consensus pattern (33 bp):
ATTGGTTAGCCAGTGTAAGGGCTTGAATGAAAT
Found at i:48793769 original size:47 final size:47
Alignment explanation
Indices: 48793689--48794046 Score: 585
Period size: 47 Copynumber: 7.6 Consensus size: 47
48793679 TATTTGAATA
*
48793689 AATGTGAAAGTGTATATATATCTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
48793738 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48793785 AA--TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48793830 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
48793879 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48793926 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
48793973 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48794020 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
48794047 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 11, Indels: 10
0.93 0.03 0.03
Matches are distributed among these distances:
45 45 0.15
47 190 0.65
49 59 0.20
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:48796853 original size:29 final size:29
Alignment explanation
Indices: 48796818--48796891 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
48796808 GTTGTGAGAT
* *
48796818 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
48796847 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
48796876 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48796892 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:48801697 original size:40 final size:40
Alignment explanation
Indices: 48801613--48801837 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
48801603 TTGAATGATG
* * * *
48801613 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
48801653 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48801693 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48801732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48801772 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48801813 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48801838 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48801859 original size:119 final size:119
Alignment explanation
Indices: 48801613--48801870 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
48801603 TTGAATGATG
* *
48801613 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
48801678 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
48801732 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
48801795 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
48801852 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48801871 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:48812832 original size:10 final size:10
Alignment explanation
Indices: 48812819--48812843 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48812809 ATATGTGTAA
48812819 AAATGTGAAT
1 AAATGTGAAT
48812829 AAATGTGAAT
1 AAATGTGAAT
48812839 AAATG
1 AAATG
48812844 AAAAATGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (10 bp):
AAATGTGAAT
Found at i:48816562 original size:40 final size:40
Alignment explanation
Indices: 48816490--48816700 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
48816480 TCTTCGGAAT
* * * *
48816490 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * * *
48816529 TTAACCCGGGT-ATAGCAACTCGTACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
48816569 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
48816609 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
48816649 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
48816689 TTAGCCCGGATA
1 TTAGCCCGGATA
48816701 TCATTCAAAT
Statistics
Matches: 149, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 5 0.03
40 140 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:48824693 original size:40 final size:40
Alignment explanation
Indices: 48824648--48824839 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 40
48824638 ATAACCACAA
* *
48824648 GCACAATTGCCTTCGGGTCTTAAACCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAAACCGGATATAGCAACTC
** *
48824688 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAAACCGGATATAGCAACTC
** * * *
48824728 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAAACCGGAT-ATAGCAACTC
* * * * *
48824768 GCATAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAAACCGGAT-ATAGCAACTC
* * **
48824808 GCACAAATGCCTTCAGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAAACCGGATAT
48824840 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAAACCGGATATAGCAACTC
Found at i:48824732 original size:80 final size:80
Alignment explanation
Indices: 48824632--48824821 Score: 222
Period size: 80 Copynumber: 2.4 Consensus size: 80
48824622 CGGAATTTAG
* * * * * * *
48824632 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAACCGGGT-ATAGCAACTCGCACAAAT
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAACCGGATAAAAGC-ACTAGCACAAAT
*
48824696 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAAC
* * ** * *
48824712 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAAT
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAACCGGATAAAAGCACTAGCACAAAT
48824776 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
48824792 CCGGATAAAATCACTAGCACAAATGCCTTC
1 CCGGATAAAATCACTAGCACAAATGCCTTC
48824822 AGGACTTAGC
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.02
80 82 0.90
81 7 0.08
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (80 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAACCGGATAAAAGCACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:48831122 original size:14 final size:14
Alignment explanation
Indices: 48831103--48831133 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48831093 TAATTGATTT
48831103 TTTAATTAATTAAA
1 TTTAATTAATTAAA
48831117 TTTAATTAATTAAA
1 TTTAATTAATTAAA
48831131 TTT
1 TTT
48831134 TCTAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:48831618 original size:3 final size:3
Alignment explanation
Indices: 48831610--48831717 Score: 143
Period size: 3 Copynumber: 36.7 Consensus size: 3
48831600 AGTCCATTTT
*
48831610 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
48831658 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TT- TATC TGTC TAC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC T-TC TTC TTC
48831703 TTC -TC TTC -TC TTC TT
1 TTC TTC TTC TTC TTC TT
48831718 TGATGGTAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
2 6 0.06
3 83 0.89
4 4 0.04
ACGTcount: A:0.02, C:0.31, G:0.01, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:48835980 original size:5 final size:5
Alignment explanation
Indices: 48835970--48836005 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
48835960 AATTTGTGTG
48835970 TTATT TTATT TT-TCT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT T
48836006 ACAAATTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 27 0.93
6 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:48840432 original size:5 final size:5
Alignment explanation
Indices: 48840422--48840459 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
48840412 AATTTGTGTG
*
48840422 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
48840460 TTTCACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:48843663 original size:21 final size:20
Alignment explanation
Indices: 48843621--48843659 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48843611 ATTTAGCCAT
*
48843621 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAATA
*
48843641 TTTTTGTTTTTAATTTAAT
1 TTTTTATTTTTAATTTAAT
48843660 TATTACACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTATTTTTAATTTAATA
Found at i:48855877 original size:16 final size:16
Alignment explanation
Indices: 48855858--48855889 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48855848 ATATAATAAA
48855858 ATATTTATTTATTATT
1 ATATTTATTTATTATT
48855874 ATATTTATTTATTATT
1 ATATTTATTTATTATT
48855890 TTTCTCATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATATTTATTTATTATT
Found at i:48856077 original size:29 final size:28
Alignment explanation
Indices: 48856017--48856126 Score: 80
Period size: 28 Copynumber: 3.8 Consensus size: 28
48856007 TAATATAATT
* *
48856017 TTTGGTATCTAAACTTGATTTTTTT--TAA
1 TTTGGTACCTAAACTT--TTTTTTTCCCAA
48856045 TTTGGTACCTAAACTTTTTTTTTGCCCAA
1 TTTGGTACCTAAACTTTTTTTTT-CCCAA
* * ** *
48856074 TTTGGTATCTGAACTTGACGCTTTTTCCTAA
1 TTTGGTACCTAAACTT---TTTTTTTCCCAA
*
48856105 TTTGGTACCTAAGCTTTTTTTT
1 TTTGGTACCTAAACTTTTTTTT
48856127 AGGTTCAATT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
26 7 0.11
28 19 0.30
29 16 0.25
31 17 0.27
32 5 0.08
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (28 bp):
TTTGGTACCTAAACTTTTTTTTTCCCAA
Found at i:48856123 original size:57 final size:55
Alignment explanation
Indices: 48856017--48856125 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 55
48856007 TAATATAATT
**
48856017 TTTGGTATCTAAACTTGATTTTTTTTAATTTGGTACCTAAACTTTTTTTTTGCCCAA
1 TTTGGTATCTAAACTTGATTTTTCCTAATTTGGTACCTAAAC--TTTTTTTGCCCAA
* *
48856074 TTTGGTATCTGAACTTGACGCTTTTTCCTAATTTGGTACCTAAGCTTTTTTT
1 TTTGGTATCTAAACTTGA---TTTTTCCTAATTTGGTACCTAAACTTTTTTT
48856126 TAGGTTCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
57 17 0.38
58 7 0.16
60 21 0.47
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (55 bp):
TTTGGTATCTAAACTTGATTTTTCCTAATTTGGTACCTAAACTTTTTTTGCCCAA
Found at i:48862579 original size:19 final size:20
Alignment explanation
Indices: 48862552--48862592 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
48862542 GTCCCCTATA
* *
48862552 TTTTGTAAAATTTTC-TAAG
1 TTTTCTAAAAATTTCATAAG
48862571 TTTTCTAAAAATTTCATAAG
1 TTTTCTAAAAATTTCATAAG
48862591 TT
1 TT
48862593 ATCGGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTTCTAAAAATTTCATAAG
Found at i:48892982 original size:30 final size:30
Alignment explanation
Indices: 48892925--48892982 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48892915 TTTTCGGGCC
* **
48892925 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
48892955 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
48892983 ATATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:48896017 original size:40 final size:40
Alignment explanation
Indices: 48895962--48896218 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
48895952 CGGATGATAA
* * *
48895962 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
48896002 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48896042 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48896082 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48896122 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48896162 CCGGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48896201 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48896219 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 166 0.85
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48904090 original size:40 final size:39
Alignment explanation
Indices: 48904035--48904285 Score: 286
Period size: 40 Copynumber: 6.5 Consensus size: 39
48904025 CGGATGATAA
* *
48904035 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTA-TAT
48904075 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAT
* *
48904115 CCGGGCTAAGT-CCGAAGGCATTTGTGC-GTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTTACTATAT
*
48904152 CCGGGCTAAGTCCCGAAGG---TTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAT
*
48904189 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAT
* *
48904229 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTA-CTATAT
* *
48904268 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48904286 TACTTGGCTT
Statistics
Matches: 187, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
35 6 0.03
37 45 0.24
38 22 0.12
39 32 0.17
40 82 0.44
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTTACTATAT
Found at i:48912770 original size:39 final size:40
Alignment explanation
Indices: 48912707--48912933 Score: 340
Period size: 39 Copynumber: 5.8 Consensus size: 40
48912697 CGGATGATAA
* *
48912707 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
48912747 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTT-CCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
48912785 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
48912825 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACC-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
48912863 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* * *
48912903 CCGGGCTATG-CCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
48912934 AGCTATATCC
Statistics
Matches: 175, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
38 30 0.17
39 106 0.61
40 37 0.21
41 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:48922311 original size:47 final size:47
Alignment explanation
Indices: 48922196--48922322 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 47
48922186 TGATATGTGT
* * *
48922196 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCATTGAGAACGAGA
* *
48922242 G-TCACTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAACGAGA
1 GCT-AGTGTAAGACATGTCTGGGACATGCATCGCCATTGAGAACGAGA
*
48922289 GCTAGTGTAAGACATGTTTGGGACATGCATCGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCC
48922323 CTCGTGATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 4 0.06
46 28 0.41
47 36 0.52
48 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCATTGAGAACGAGA
Found at i:48924885 original size:29 final size:30
Alignment explanation
Indices: 48924812--48924889 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
48924802 TTAATTTTTG
* * *
48924812 AAAAGTAAAAGGACTAAAATTTATCAATTCA
1 AAAAGTACAAGGACTAAAATTGATCAAAT-A
48924843 AAAAGTACAAGGACTAAAATTGATCAAAT-
1 AAAAGTACAAGGACTAAAATTGATCAAATA
*
48924872 AAAAGTACATGGACTAAA
1 AAAAGTACAAGGACTAAA
48924890 CCTGTAACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 17 0.40
31 26 0.60
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.22
Consensus pattern (30 bp):
AAAAGTACAAGGACTAAAATTGATCAAATA
Found at i:48930591 original size:20 final size:20
Alignment explanation
Indices: 48930562--48930606 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48930552 AGCACATGTA
* *
48930562 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
48930582 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
48930602 TTCAT
1 TTCAT
48930607 TTTAGTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:48931940 original size:19 final size:20
Alignment explanation
Indices: 48931905--48931943 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
48931895 ATATTATAAC
48931905 TTTTTTTATTTGGGAACTGTA
1 TTTTTTTATTT-GGAACTGTA
48931926 TTTTTTTATTT-GAACTGT
1 TTTTTTTATTTGGAACTGT
48931944 GGCATGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.18, C:0.05, G:0.15, T:0.62
Consensus pattern (20 bp):
TTTTTTTATTTGGAACTGTA
Found at i:48936798 original size:21 final size:22
Alignment explanation
Indices: 48936772--48936817 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
48936762 GGACAACCAA
* *
48936772 TATAAAGATT-TTATATTAATT
1 TATAAAGATTATTATAGTAAAT
*
48936793 TATAAAGGTTATTATAGTAAAT
1 TATAAAGATTATTATAGTAAAT
48936815 TAT
1 TAT
48936818 GAAATCTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (22 bp):
TATAAAGATTATTATAGTAAAT
Found at i:48944602 original size:26 final size:25
Alignment explanation
Indices: 48944572--48944627 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
48944562 TATCTAGTGT
48944572 GTTTTATCAATATACTACCCACAGTA
1 GTTTTA-CAATATACTACCCACAGTA
* * *
48944598 GTTTTAGAATATACTATCCATAGTA
1 GTTTTACAATATACTACCCACAGTA
*
48944623 TTTTT
1 GTTTT
48944628 GGTTAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (25 bp):
GTTTTACAATATACTACCCACAGTA
Found at i:48944608 original size:25 final size:25
Alignment explanation
Indices: 48944580--48944627 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48944570 GTGTTTTATC
48944580 AATATACTACCCACAGTAGTTTTAG
1 AATATACTACCCACAGTAGTTTTAG
* * *
48944605 AATATACTATCCATAGTATTTTT
1 AATATACTACCCACAGTAGTTTT
48944628 GGTTAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (25 bp):
AATATACTACCCACAGTAGTTTTAG
Found at i:48945192 original size:6 final size:6
Alignment explanation
Indices: 48945179--48945211 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
48945169 AATAAAACTA
*
48945179 ATACTC ATATTC ATACTC ATACTC ATACTC ATA
1 ATACTC ATACTC ATACTC ATACTC ATACTC ATA
48945212 GATTAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (6 bp):
ATACTC
Found at i:48962017 original size:16 final size:16
Alignment explanation
Indices: 48961996--48962029 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48961986 TAAAGGGTAG
48961996 TTAATGAAATTGAACT
1 TTAATGAAATTGAACT
48962012 TTAATGAAATTGAACT
1 TTAATGAAATTGAACT
48962028 TT
1 TT
48962030 CTTTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (16 bp):
TTAATGAAATTGAACT
Found at i:48971409 original size:39 final size:40
Alignment explanation
Indices: 48971287--48971510 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
48971277 GCTCCTCGTT
* *
48971287 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
48971327 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
48971367 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
48971406 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
48971445 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
48971486 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48971511 CATCATTCAA
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 70 0.42
40 78 0.47
41 16 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:48971494 original size:118 final size:120
Alignment explanation
Indices: 48971281--48971510 Score: 310
Period size: 118 Copynumber: 1.9 Consensus size: 120
48971271 GATATAGCTC
* *
48971281 CTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 CTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
*
48971346 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAT
66 ACCCGGATTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAT
* *
48971400 CTCGTACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCT
1 CTCGTACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CT
** *
48971462 TAGTCCGGATATT-GTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 TAACCCGGAT-TTAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
48971511 CATCATTCAA
Statistics
Matches: 98, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
117 4 0.04
118 54 0.55
119 40 0.41
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
ACCCGGATTTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAT
Found at i:48972100 original size:22 final size:21
Alignment explanation
Indices: 48972075--48972118 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
48972065 GTACCACATA
*
48972075 TAATGACA-TACATTTTACTAAC
1 TAATG-CATTACATATTA-TAAC
48972097 TAATGCATTACATATTATAAC
1 TAATGCATTACATATTATAAC
48972118 T
1 T
48972119 CAATATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.39
Consensus pattern (21 bp):
TAATGCATTACATATTATAAC
Found at i:48974215 original size:22 final size:22
Alignment explanation
Indices: 48974190--48974236 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
48974180 TTAAAGGATA
48974190 AGATAGAAAAAGAA-TTTGCAAG
1 AGATAGAAAAA-AATTTTGCAAG
48974212 AGATAGAAAAAAATTTTGCAAG
1 AGATAGAAAAAAATTTTGCAAG
48974234 AGA
1 AGA
48974237 ATGTCTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.55, C:0.04, G:0.21, T:0.19
Consensus pattern (22 bp):
AGATAGAAAAAAATTTTGCAAG
Found at i:48976911 original size:40 final size:40
Alignment explanation
Indices: 48976844--48977103 Score: 357
Period size: 40 Copynumber: 6.6 Consensus size: 40
48976834 ATTCGGATTG
*
48976844 ATAACCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48976883 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
48976923 ATAACTGAGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
48976963 ATAACCGGGCCAAGTCCCGAAGGCAATTGTCCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48977003 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48977043 ATAACTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
48977083 ATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
48977104 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 8 0.04
39 21 0.11
40 170 0.85
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48985069 original size:40 final size:40
Alignment explanation
Indices: 48985002--48985262 Score: 357
Period size: 40 Copynumber: 6.6 Consensus size: 40
48984992 ATTCGGATTG
*
48985002 ATAACCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48985041 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
48985081 ATAACTGAGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
48985121 ATAACCGGGCCAAGTCCCGAAGGCAATTGTCCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48985161 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48985201 ATAACTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
48985241 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
48985263 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 29 0.15
40 170 0.85
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48988273 original size:8 final size:8
Alignment explanation
Indices: 48988260--48988285 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48988250 AAAAATTTAG
48988260 AATAATAA
1 AATAATAA
48988268 AATAATAA
1 AATAATAA
48988276 AATAATAA
1 AATAATAA
48988284 AA
1 AA
48988286 GTTGATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:48989514 original size:15 final size:15
Alignment explanation
Indices: 48989494--48989524 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48989484 GAATTGAAGG
*
48989494 TCATGAGTTCACCTC
1 TCATGAGTTCAACTC
48989509 TCATGAGTTCAACTC
1 TCATGAGTTCAACTC
48989524 T
1 T
48989525 AACGTTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (15 bp):
TCATGAGTTCAACTC
Found at i:48994398 original size:39 final size:40
Alignment explanation
Indices: 48994331--48994575 Score: 258
Period size: 39 Copynumber: 6.3 Consensus size: 40
48994321 ATTTGAATGA
*
48994331 TATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
48994370 TATCCGGG-TAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
48994409 TAT-CGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
48994448 TATCCGGG-TAAGACCCGAAGGCATTTGTGCTAGTGA--T
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* **
48994485 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT--TGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * * * *
48994523 TATACCTGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TAT-CC-GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
48994565 TATCC-GGCTAA
1 TATCCGGGCTAA
48994576 ATTCCGAAGA
Statistics
Matches: 174, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
37 9 0.05
38 48 0.28
39 79 0.45
40 32 0.18
41 2 0.01
42 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:48994459 original size:78 final size:78
Alignment explanation
Indices: 48994330--48994555 Score: 300
Period size: 78 Copynumber: 2.9 Consensus size: 78
48994320 CATTTGAATG
48994330 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGATTTTATCCGGGTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTAAGACCCGAAGGCAT
*
48994394 TTGTGCGAGTTGCT
66 TTGTGCGAG-TGAT
* *
48994408 ATAT-CGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTAAGACCCGAAGGCAT
*
48994472 TTGTGCTAGTGAT
66 TTGTGCGAGTGAT
* * **
48994485 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT--TGCTATACCTGGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTAT-CC-GGG-TAAGACCCGAAGG
*
48994547 CAATTGTGC
63 CATTTGTGC
48994556 TTGTGGTTAT
Statistics
Matches: 132, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
75 4 0.03
76 5 0.04
77 52 0.39
78 71 0.54
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (78 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTAAGACCCGAAGGCAT
TTGTGCGAGTGAT
Found at i:48994584 original size:117 final size:115
Alignment explanation
Indices: 48994330--48994584 Score: 352
Period size: 117 Copynumber: 2.2 Consensus size: 115
48994320 CATTTGAATG
*
48994330 ATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAGTGATTTTATCCGGGTAAGACCCGAAGGCATT
1 ATATCC-GGCTAAATCCCGAAGGCATTGTGCTAGTGA-TTTATCCGGGTAAGACCCGAAGGCATT
* * *
48994395 TGTGCGAGTTGCTATATCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
64 TGTGCGAGTTGCTATACCGGGTTAAGACCCGAAGGCAATTATGCTAGTGATT
* *
48994447 TTATCCGGGTAAGA-CCCGAAGGCATTTGTGCTAGTGA-TTATCCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGCTAA-ATCCCGAAGGCA-TTGTGCTAGTGATTTATCCGGG-TAAGACCCGAAGGCAT
* * *
48994510 TTGTGCGAGTTGCTATACCTGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
63 TTGTGCGAGTTGCTATACC-GGGTTAAGACCCGAAGGCAATTATGCTAGTGATT
*
48994564 ATATCCGGCTAAATTCCGAAG
1 ATATCCGGCTAAATCCCGAAG
48994585 AAACTTGGTT
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
115 9 0.07
116 50 0.41
117 62 0.51
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (115 bp):
ATATCCGGCTAAATCCCGAAGGCATTGTGCTAGTGATTTATCCGGGTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATACCGGGTTAAGACCCGAAGGCAATTATGCTAGTGATT
Found at i:49004118 original size:14 final size:14
Alignment explanation
Indices: 49004101--49004127 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49004091 CATAATTAAA
49004101 ATAAAATTATTATT
1 ATAAAATTATTATT
49004115 ATAAAATTATTAT
1 ATAAAATTATTAT
49004128 AAATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTATT
Found at i:49004520 original size:13 final size:14
Alignment explanation
Indices: 49004499--49004531 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49004489 TTTATGTAAT
49004499 ATTTCTTTGT-TAA
1 ATTTCTTTGTATAA
*
49004512 ATTTTTTTGTATAA
1 ATTTCTTTGTATAA
49004526 ATTTCT
1 ATTTCT
49004532 CAACATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (14 bp):
ATTTCTTTGTATAA
Found at i:49004813 original size:29 final size:29
Alignment explanation
Indices: 49004780--49004835 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
49004770 TGGTCTAATG
49004780 TGTAATTTTATATATGA-ATTTTGATTTTA
1 TGTAATTTTATATATGATA-TTTGATTTTA
49004809 TGTAATTTTATATATGATATTTGATTT
1 TGTAATTTTATATATGATATTTGATTT
49004836 GATCCAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (29 bp):
TGTAATTTTATATATGATATTTGATTTTA
Found at i:49004844 original size:29 final size:29
Alignment explanation
Indices: 49004783--49004844 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
49004773 TCTAATGTGT
* **
49004783 AATTTTATATATGAATTTTGATTTTATGT
1 AATTTTATATATGAATTTTGATTTGATCC
49004812 AATTTTATATATG-ATATTTGATTTGATCC
1 AATTTTATATATGAAT-TTTGATTTGATCC
49004841 AATT
1 AATT
49004845 CTTGTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (29 bp):
AATTTTATATATGAATTTTGATTTGATCC
Found at i:49004999 original size:31 final size:30
Alignment explanation
Indices: 49004963--49005034 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 30
49004953 GATTAAATCA
*
49004963 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * * * *
49004993 ACAATTAGACTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
49005024 AAATTAAAGTT
1 AAATTAAAGTT
49005035 CATATTTACA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:49005898 original size:21 final size:19
Alignment explanation
Indices: 49005873--49005935 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
49005863 TTTTTTAAAA
49005873 AATTATTATTTAAAGAATTTT
1 AATTATTATTT-AA-AATTTT
*
49005894 AATTAACTATTTAAAATTTT
1 AATT-ATTATTTAAAATTTT
* *
49005914 ATTTTATT-TTTAATATTTT
1 A-ATTATTATTTAAAATTTT
49005933 AAT
1 AAT
49005936 ATTTATAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.03
19 11 0.31
20 9 0.26
21 8 0.23
22 6 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTATTATTTAAAATTTT
Found at i:49006131 original size:34 final size:36
Alignment explanation
Indices: 49006073--49006148 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 36
49006063 TTTTTTTATT
* *
49006073 TTAAAT-TCAAAATATAATCTTTAAAAATATTAAAA
1 TTAAATATCAAAATATAACCTTTAAAAATATAAAAA
*
49006108 TTAAATATCAAAAT-T-ACCTTTAAAAATGTAAAAA
1 TTAAATATCAAAATATAACCTTTAAAAATATAAAAA
49006142 TTAAATA
1 TTAAATA
49006149 AGAAACATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 23 0.62
35 7 0.19
36 7 0.19
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.36
Consensus pattern (36 bp):
TTAAATATCAAAATATAACCTTTAAAAATATAAAAA
Found at i:49008159 original size:23 final size:23
Alignment explanation
Indices: 49008133--49008196 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
49008123 AAACTTAAAC
* *
49008133 AACCATGCTATAGAAGCAAACAT
1 AACCATGCCATAAAAGCAAACAT
49008156 AACCATGCCATAAAAGCAAACAT
1 AACCATGCCATAAAAGCAAACAT
49008179 AACCATGCCATAAAAGCA
1 AACCATGCCATAAAAGCA
49008197 GACAAAATCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.50, C:0.25, G:0.11, T:0.14
Consensus pattern (23 bp):
AACCATGCCATAAAAGCAAACAT
Found at i:49010004 original size:47 final size:46
Alignment explanation
Indices: 49009894--49010099 Score: 141
Period size: 46 Copynumber: 4.4 Consensus size: 46
49009884 GTTATTGTGG
* **
49009894 GCTAGTGTTAGACATGTCTGGGACATGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGA
* * *
49009940 GCCTA-TTTAAGACCATGTCTGGGATATGGCATCAG-CATCAAGATGAGT
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CAAGATGAGA
** * * * * *
49009988 GCTAGTGTAAGACATGTCCAGGACATACATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATG-AGA
* * * * ** *
49010034 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCTATGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGA
49010080 G-TCAGTGTAAGACCATGTCT
1 GCT-AGTGTAAGA-CATGTCT
49010100 AGGATATGGC
Statistics
Matches: 123, Mismatches: 27, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
45 1 0.01
46 61 0.50
47 40 0.33
48 21 0.17
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGA
Found at i:49027292 original size:76 final size:77
Alignment explanation
Indices: 49027180--49027326 Score: 183
Period size: 76 Copynumber: 1.9 Consensus size: 77
49027170 ATATCCGGAC
* * *
49027180 TAAGATCCGAAGCATTTGTGCGAGATACAAGTTCCGGG-TAAGCCCCGAAGGCCTTTGTGCGAGA
1 TAAGATCCGAAGCATTCGTGCGAGATACAAGATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGA
49027244 TACTAAATCGGGT
65 TACTAAATCGGGT
* * * * *
49027257 TAAG-TCCGAAGCATTCGTGCGAGTTATTAA-ATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGT
1 TAAGATCCGAAGCATTCGTGCGAGATA-CAAGATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGA
49027320 TACTAAA
65 TACTAAA
49027327 ACCGGGCTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 42 0.70
77 18 0.30
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (77 bp):
TAAGATCCGAAGCATTCGTGCGAGATACAAGATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGAT
ACTAAATCGGGT
Done.