Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold30
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: 2650045
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.30
Warning! 144233 characters in sequence are not A, C, G, or T
File 14 of 17
Found at i:2121564 original size:13 final size:13
Alignment explanation
Indices: 2121546--2121583 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2121536 CAGCATTCTC
* *
2121546 TGTATCGATATAT
1 TGTATCGATACAG
2121559 TGTATCGATACAG
1 TGTATCGATACAG
2121572 TGTATCGATACA
1 TGTATCGATACA
2121584 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2123461 original size:26 final size:27
Alignment explanation
Indices: 2123423--2123477 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
2123413 GTGATTAAAG
2123423 GAAATTGTTTTATTT-TATTAAGGGGGA
1 GAAATTGTTTTATTTGT-TTAAGGGGGA
2123450 GAAATT-TTTTATTTGTTTAAGGGGGA
1 GAAATTGTTTTATTTGTTTAAGGGGGA
2123476 GA
1 GA
2123478 GAAAAGGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (27 bp):
GAAATTGTTTTATTTGTTTAAGGGGGA
Found at i:2123998 original size:20 final size:20
Alignment explanation
Indices: 2123973--2124033 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
2123963 AAAGGTTAAA
*
2123973 ACCCTCAAATGTATCGATAC
1 ACCCTCAGATGTATCGATAC
2123993 ACCCTCAGATGTATCGATAC
1 ACCCTCAGATGTATCGATAC
2124013 ACCCTCAGATGTATCGATAC
1 ACCCTCAGATGTATCGATAC
2124033 A
1 A
2124034 TAATGCACTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.25
Consensus pattern (20 bp):
ACCCTCAGATGTATCGATAC
Found at i:2124060 original size:13 final size:13
Alignment explanation
Indices: 2124042--2124067 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2124032 CATAATGCAC
2124042 TGTATCGATACAT
1 TGTATCGATACAT
2124055 TGTATCGATACAT
1 TGTATCGATACAT
2124068 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2124080 original size:20 final size:21
Alignment explanation
Indices: 2124055--2124107 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2124045 ATCGATACAT
*
2124055 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
2124075 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
2124096 TGTATCGATACA
1 TGTATCGATACA
2124108 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:2124190 original size:32 final size:34
Alignment explanation
Indices: 2124149--2124211 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
2124139 CTTAACTGCT
2124149 TGTATCGATACAT-A-CAAGAT-GTATCGATATAA
1 TGTATCGATACATGACCAA-ATCGTATCGATATAA
2124181 TGTATCGATACATGACCAAATCGTATCGATA
1 TGTATCGATACATGACCAAATCGTATCGATA
2124212 CATTGGCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.46
33 3 0.11
34 12 0.43
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (34 bp):
TGTATCGATACATGACCAAATCGTATCGATATAA
Found at i:2127863 original size:9 final size:9
Alignment explanation
Indices: 2127837--2127884 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
2127827 ATTTTCAACA
2127837 CAAAAAATT
1 CAAAAAATT
2127846 C--AAAA-T
1 CAAAAAATT
*
2127852 CAAAAAGTT
1 CAAAAAATT
2127861 CAAAAAATT
1 CAAAAAATT
*
2127870 CAAAAAAAT
1 CAAAAAATT
2127879 CAAAAA
1 CAAAAA
2127885 TAATAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 2 0.06
7 4 0.12
8 3 0.09
9 24 0.73
ACGTcount: A:0.69, C:0.12, G:0.02, T:0.17
Consensus pattern (9 bp):
CAAAAAATT
Found at i:2130439 original size:193 final size:193
Alignment explanation
Indices: 2130202--2130604 Score: 621
Period size: 193 Copynumber: 2.1 Consensus size: 193
2130192 CCCCGTTTTT
*
2130202 AATTTAAATCTTATTTTCAATTAAATTGTCATCATCAAGGACACTCTAACCCCATTCCTCCGAGG
1 AATTTAAATCTTATTTTCAATTAAATTGTCATCATCAAGGACACTCCAACCCCATTCCTCCGAGG
* *
2130267 GGATACTCAAACCCCGTTTTTAAACTTATCAAAATTTAAATCCTA-TTTC-GATTAAATTGTCAT
66 GGATACTCAAACCCCATTTTTAAACTTATAAAAATTTAAATCCTATTTTCAG-TTAAATTGTCAT
* * * **
2130330 TATCGGGAACACTCCAACCCCATTCCTCCGAGGGGATATTCAAACCCTGTTTTTAAACTTATCAA
130 CATCGGGAACACTCCAACCCCA-TCCTCCGAGGGGACACTCAAACCCCATTTTTAAACTTATCAA
* *
2130395 AATTTAAATCTTATTTTCAGTTAAATTGTCATCATCAGGGACACTCCAACCCCATTCCTCCGAGG
1 AATTTAAATCTTATTTTCAATTAAATTGTCATCATCAAGGACACTCCAACCCCATTCCTCCGAGG
* * *
2130460 GGATACTCCAACCCTATTTTTAAACTTATAAAAATTTAAATCTTATTTTCAGTTAAATTGTCATC
66 GGATACTCAAACCCCATTTTTAAACTTATAAAAATTTAAATCCTATTTTCAGTTAAATTGTCATC
* * *
2130525 GTCGGGGACACTCCAACCCCATCCTCCGAGGGGACACTCCAACCCCATTTTTAAACTTATCAA
131 ATCGGGAACACTCCAACCCCATCCTCCGAGGGGACACTCAAACCCCATTTTTAAACTTATCAA
*
2130588 AATTCAAATCTTATTTT
1 AATTTAAATCTTATTTT
2130605 GTCCAAATTA
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
193 155 0.81
194 35 0.18
195 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (193 bp):
AATTTAAATCTTATTTTCAATTAAATTGTCATCATCAAGGACACTCCAACCCCATTCCTCCGAGG
GGATACTCAAACCCCATTTTTAAACTTATAAAAATTTAAATCCTATTTTCAGTTAAATTGTCATC
ATCGGGAACACTCCAACCCCATCCTCCGAGGGGACACTCAAACCCCATTTTTAAACTTATCAA
Found at i:2130463 original size:97 final size:97
Alignment explanation
Indices: 2130202--2130604 Score: 607
Period size: 96 Copynumber: 4.2 Consensus size: 97
2130192 CCCCGTTTTT
* * *
2130202 AATTTAAATCTTATTTTCAATTAAATTGTCATCATCAAGGACACTCTAACCCCATTCCTCCGAGG
1 AATTTAAATCTTATTTTCAGTTAAATTGTCATCATCAGGGACACTCCAACCCCATTCCTCCGAGG
*
2130267 GGATACTCAAACCCCGTTTTTAAACTTATCAA
66 GGATACTCAAACCCCATTTTTAAACTTATCAA
* *
2130299 AATTTAAATCCTA-TTTC-GATTAAATTGTCATTATC-GGGAACACTCCAACCCCATTCCTCCGA
1 AATTTAAATCTTATTTTCAG-TTAAATTGTCATCATCAGGG-ACACTCCAACCCCATTCCTCCGA
* **
2130361 GGGGATATTCAAACCCTGTTTTTAAACTTATCAA
64 GGGGATACTCAAACCCCATTTTTAAACTTATCAA
2130395 AATTTAAATCTTATTTTCAGTTAAATTGTCATCATCAGGGACACTCCAACCCCATTCCTCCGAGG
1 AATTTAAATCTTATTTTCAGTTAAATTGTCATCATCAGGGACACTCCAACCCCATTCCTCCGAGG
* * *
2130460 GGATACTCCAACCCTATTTTTAAACTTATAAA
66 GGATACTCAAACCCCATTTTTAAACTTATCAA
* *
2130492 AATTTAAATCTTATTTTCAGTTAAATTGTCATCGTCGGGGACACTCCAACCCCA-TCCTCCGAGG
1 AATTTAAATCTTATTTTCAGTTAAATTGTCATCATCAGGGACACTCCAACCCCATTCCTCCGAGG
* *
2130556 GGACACTCCAACCCCATTTTTAAACTTATCAA
66 GGATACTCAAACCCCATTTTTAAACTTATCAA
*
2130588 AATTCAAATCTTATTTT
1 AATTTAAATCTTATTTT
2130605 GTCCAAATTA
Statistics
Matches: 282, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
95 2 0.01
96 140 0.50
97 136 0.48
98 4 0.01
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (97 bp):
AATTTAAATCTTATTTTCAGTTAAATTGTCATCATCAGGGACACTCCAACCCCATTCCTCCGAGG
GGATACTCAAACCCCATTTTTAAACTTATCAA
Found at i:2130692 original size:69 final size:68
Alignment explanation
Indices: 2130560--2130703 Score: 200
Period size: 69 Copynumber: 2.1 Consensus size: 68
2130550 CCGAGGGGAC
* **
2130560 ACTCCAACCCCATTTTTAAACTTATCAAAATTCAAATCTTATTTTGTCCAAATTATCTTTGTCAA
1 ACTCCAACCCCATTTTTAAACTCATCAAAATTCAAATCTTATTTTGTCCAAATTATCAGTGTC-A
*
2130625 GTAT
65 GGAT
* * *
2130629 ACTCTAACCCCATTTTTAAACTCATCAAAATTTAAGTCTTATTTTG-CCTAAATTATCAGTGTCA
1 ACTCCAACCCCATTTTTAAACTCATCAAAATTCAAATCTTATTTTGTCC-AAATTATCAGTGTCA
2130693 GGAT
65 GGAT
2130697 ACTCCAA
1 ACTCCAA
2130704 TCTCATTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
68 12 0.18
69 54 0.82
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (68 bp):
ACTCCAACCCCATTTTTAAACTCATCAAAATTCAAATCTTATTTTGTCCAAATTATCAGTGTCAG
GAT
Found at i:2133909 original size:21 final size:22
Alignment explanation
Indices: 2133841--2133908 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
2133831 TCAAAAAGTC
2133841 AAAAGT-CAAAAGCAAAAGCACAA
1 AAAAGTGCAAAAGCAAAA-CA-AA
*
2133864 AAAA-TG-AAAAGAAAAACAAA
1 AAAAGTGCAAAAGCAAAACAAA
*
2133884 AAAAGTGCAAAAGCAAAATAAA
1 AAAAGTGCAAAAGCAAAACAAA
2133906 AAA
1 AAA
2133909 GGGAACAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.15
21 4 0.10
22 25 0.64
23 4 0.10
ACGTcount: A:0.72, C:0.10, G:0.12, T:0.06
Consensus pattern (22 bp):
AAAAGTGCAAAAGCAAAACAAA
Found at i:2133935 original size:20 final size:21
Alignment explanation
Indices: 2133898--2133936 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2133888 GTGCAAAAGC
**
2133898 AAAATAAAAAAGGGAACAACA
1 AAAATAAAAAAGAAAACAACA
2133919 AAAATAAAAAA-AAAACAA
1 AAAATAAAAAAGAAAACAA
2133937 GGACATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.79, C:0.08, G:0.08, T:0.05
Consensus pattern (21 bp):
AAAATAAAAAAGAAAACAACA
Found at i:2135252 original size:29 final size:28
Alignment explanation
Indices: 2135166--2135694 Score: 326
Period size: 29 Copynumber: 18.0 Consensus size: 28
2135156 ATGTAACCTC
* * *
2135166 TTCAAAGTCCACAACTTC-GTGGCATCCT
1 TTCAAAGCCCACAA-GTCAGTGGCACCCT
* *
2135194 TT-TAAGTCCACAAGTCAGTGGCATCCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA--CCCT
* *
2135223 TTCAAAGACCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
**
2135252 TTCTAAAGCCCACAAGTCAGTGGCAGTCT
1 TTC-AAAGCCCACAAGTCAGTGGCACCCT
* *
2135281 TTTAAAGCCCACAAGTCAGTGGCACCTTT
1 TTCAAAGCCCACAAGTCAGTGGCACC-CT
*
2135310 TTCAAAGCCCACTAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
2135339 TTCAAAACCCACAAGTTAGTGGCACCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * * *
2135368 TTCAAAAGCACACAAGTCGGTGACAACTCTT
1 TTC-AAAGCCCACAAGTCAGTGGC-AC-CCT
* *
2135399 TTCAAAGCCCACACAAATCGGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
* * *
2135429 TCCAAAGCCCACAAGTTAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** *
2135457 TTCCAAAGCCCACACAAGTTGGTGGCACCTT
1 TT-CAAAG-CC-CACAAGTCAGTGGCACCCT
** * *
2135488 TCTCAAAGCCCGCACAAGTTGGCGGCACCCA
1 T-TCAAAG-CC-CACAAGTCAGTGGCACCCT
* * * **
2135519 GTCAAAGCCTCCACAAAT-TGACAGCACCCT
1 TTCAAAG-C-CCACAAGTCAG-TGGCACCCT
* * ** ** * *
2135549 AATCGAAGCCTGCATGAGTTGGCGGCACCCA
1 -TTCAAAGCC--CACAAGTCAGTGGCACCCT
*
2135580 ATCAAAGCCCACAAGTCAGTGGCACCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * *
2135609 TTCAAATCCCACAAGTTAGTGGCACACTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
2135638 TTCAAAGTCCACAAGTCAGTGGCACCCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCC-T
* *
2135668 TTCGAAGCCCACAAGTTAGTGGCACCC
1 TTCAAAGCCCACAAGTCAGTGGCACCC
2135695 ATTTTTGGAT
Statistics
Matches: 400, Mismatches: 74, Indels: 53
0.76 0.14 0.10
Matches are distributed among these distances:
26 2 0.00
27 16 0.04
28 50 0.12
29 126 0.31
30 125 0.31
31 67 0.17
32 14 0.04
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:2135298 original size:58 final size:58
Alignment explanation
Indices: 2135166--2135498 Score: 275
Period size: 60 Copynumber: 5.7 Consensus size: 58
2135156 ATGTAACCTC
* * * * *
2135166 TTCAAAGTCCACAACTTC-GTGGCATCCTTT-T-AAGTCCACAAGTCAGTGGCATCCCCT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCTTTCTAAAGCCCACAAGTCAGTGGCA-CTCTT
* *
2135223 TTCAAAGACCACAAGTCAGTGGCATTCCTTTCTAAAGCCCACAAGTCAGTGGCAGTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCTAAAGCCCACAAGTCAGTGGCACTCTT
* * *
2135282 TT-AAAGCCCACAAGTCAGTGGCA-CCTTTTTCAAAGCCCACTAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCT-AAAGCCCACAAGTCAGTGGCACTCTT
* * * * * * *
2135339 TTCAAAACCCACAAGTTAGTGGCACCCCTTTCAAAAGCACACAAGTCGGTGACAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCTAAAGCCCACAAGTCAGTGGC-ACTCTT
* * * * * * *
2135399 TTCAAAGCCCACACAAATCGGTGGCA-CCCTTCCAAAGCCCACAAGTTAATGGCACCCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTTTCTAAAGCCCACAAGTCAGTGGCACTCTT
* **
2135458 TCCAAAGCCCACACAAGTTGGTGGCA-CCTTTCTCAAAGCCC
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCTTTCT-AAAGCCC
2135499 GCACAAGTTG
Statistics
Matches: 227, Mismatches: 37, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
56 8 0.04
57 44 0.19
58 45 0.20
59 54 0.24
60 62 0.27
61 2 0.01
62 12 0.05
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.23
Consensus pattern (58 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCTAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:2135515 original size:90 final size:88
Alignment explanation
Indices: 2135202--2135694 Score: 303
Period size: 88 Copynumber: 5.5 Consensus size: 88
2135192 CTTTTAAGTC
* * * * * *
2135202 CACAAGTCAGTGGCATCCCCTTTCAAAG-ACCACAAGTCAGTGGCATTCCTTTCTAAAGCCCACA
1 CACAAGTCGGTGGCA--CCTTTTCAAAGCCCCACAAGTCGGTGGCA-CCCTTTCCAAAGCCCACA
* ** *
2135266 AGTCAGTGGCAGTCTTT-TAAAGCC-
63 AGTTAGTGGCACCCTTTCAAAAGCCA
* * * * *
2135290 CACAAGTCAGTGGCACCTTTTTCAAAG-CCCACTAGTCAGTGGCACCCTTTTCAAAACCCACAAG
1 CACAAGTCGGTGGCACC-TTTTCAAAGCCCCACAAGTCGGTGGCACCCTTTCCAAAGCCCACAAG
2135354 TTAGTGGCACCCCTTTCAAAAG-CA
65 TTAGTGGCA-CCCTTTCAAAAGCCA
* *
2135378 CACAAGTCGGTGACAACTCTTTTCAAAGCCCACACAAATCGGTGGCACCC-TTCCAAAGCCCACA
1 CACAAGTCGGTGGC-AC-CTTTTCAAAGCCC-CACAAGTCGGTGGCACCCTTTCCAAAGCCCACA
* *
2135442 AGTTAATGGCACCCTTTCCAAAGCCCA
63 AGTTAGTGGCACCCTTTCAAAAG-CCA
* * * **
2135469 CACAAGTTGGTGGCACCTTTCTCAAAGCCCGCACAAGTTGGCGGCACCCAGT-CAAAGCCTCCAC
1 CACAAGTCGGTGGCACCTTT-TCAAAGCCC-CACAAGTCGGTGGCACCCTTTCCAAAG-C-CCAC
* ** * * *
2135533 AAATT-GACAGCACCCTAATC-GAAGCCTG
62 AAGTTAG-TGGCACCCT-TTCAAAAGCC-A
** * * *** * *
2135561 CATGAGTTGGCGGCACCCAATCAAAG-CCCACAAGTCAGTGGCACCCCTTT-CAAATCCCACAAG
1 CACAAGTCGGTGGCACCTTTTCAAAGCCCCACAAGTCGGTGGCA-CCCTTTCCAAAGCCCACAAG
* *
2135624 TTAGTGGCACACTTTTC-AAAGTC-
65 TTAGTGGCAC-CCTTTCAAAAGCCA
* * **
2135647 CACAAGTCAGTGGCACCCCTTTTCGAAG-CCCACAAGTTAGTGGCACCC
1 CACAAGTCGGTGGCA--CCTTTTCAAAGCCCCACAAGTCGGTGGCACCC
2135695 ATTTTTGGAT
Statistics
Matches: 320, Mismatches: 63, Indels: 45
0.75 0.15 0.11
Matches are distributed among these distances:
86 36 0.11
87 31 0.10
88 72 0.22
89 42 0.13
90 66 0.21
91 39 0.12
92 32 0.10
93 2 0.01
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (88 bp):
CACAAGTCGGTGGCACCTTTTCAAAGCCCCACAAGTCGGTGGCACCCTTTCCAAAGCCCACAAGT
TAGTGGCACCCTTTCAAAAGCCA
Found at i:2136960 original size:156 final size:155
Alignment explanation
Indices: 2136498--2137229 Score: 776
Period size: 156 Copynumber: 4.7 Consensus size: 155
2136488 TAGGGTAAAA
* * * *
2136498 TTCATCCCATTTATGATCATTTTTAAGTCTTTTAGGGTTATCAAGATATTTTTATGTCGAAGGTA
1 TTCATCCCATTTATGATCATTTTTAAGTC-TTTAAGGTTATCAAGATACTTTCATGTCGAAAGTA
* * * * * * ***
2136563 TACTTTAAGGGTATTTTTGTAATTTTTTTAGAACCAAGACTTAGGTTGTCACTGGGATGCTTTTA
65 TACCTTAAGGGCATTTTCGTAATTTTTTTAGAACTAAGTCCTAGGTTGTCACCAAGATGCTTTTA
2136628 TGCCAAAGGTGTGCATTTAGGATAGG
130 TGCCAAAGGTGTGCATTTAGGATAGG
* * * * *
2136654 TTTATCCCATTTATGACCATTTTTAAGTCTTTAAGG-TAACAAGATACTTTCACGTCG-AAGTTT
1 TTCATCCCATTTATGATCATTTTTAAGTCTTTAAGGTTATCAAGATACTTTCATGTCGAAAG-TA
* * *
2136717 TACCCTAAGGGCATTTTTGTAA-TTTTTTAAAACTAAGTCCTAGGTTGTCACCAAGATGCTTTTA
65 TACCTTAAGGGCATTTTCGTAATTTTTTTAGAACTAAGTCCTAGGTTGTCACCAAGATGCTTTTA
2136781 TGCCAAAGGTGTGCATTTAGGATAGG
130 TGCCAAAGGTGTGCATTTAGGATAGG
* * *
2136807 TCCATTCCATTTATGATCATTTTTAAGTACTTT-AGTGTTATC-AGAATACTTTCATGTCAAAAG
1 TTCATCCCATTTATGATCATTTTTAAGT-CTTTAAG-GTTATCAAG-ATACTTTCATGTCGAAAG
* * * * *
2136870 TATACCTTAAGGGCATTTTCATAATTTTTTTAGAACTGAGT-CTGAGGTTATCATCGAGATGCTT
63 TATACCTTAAGGGCATTTTCGTAATTTTTTTAGAACTAAGTCCT-AGGTTGTCACCAAGATGCTT
* * *
2136934 TTATGCCAAAGGTATGTATTTAGGATAGA
127 TTATGCCAAAGGTGTGCATTTAGGATAGG
** * * * * *
2136963 TTCATCTATATTTATGATCATTTTTAAGTTCTTTAAGGTTACCGAGATAGTTTCTTGTCGAAGGT
1 TTCATC-CCATTTATGATCATTTTTAAG-TCTTTAAGGTTATCAAGATACTTTCATGTCGAAAGT
* * * * * * *
2137028 ATA-TTTTAGGGATATTTTCGTAAATTTTCTAGAACTGAGTCCTAGGTTGTCACCAAGATGTTTT
64 ATACCTTAAGGG-CATTTTCGTAATTTTTTTAGAACTAAGTCCTAGGTTGTCACCAAGATGCTTT
* *
2137092 TACGCCAAAGGTGTGCATTTAGGATATG
128 TATGCCAAAGGTGTGCATTTAGGATAGG
* * * * *
2137120 TTCATCCCATTTATGATCATTTTTAAGTCTTTTAAAGTTACCGAGATACTTTCACGTCGAAGGTA
1 TTCATCCCATTTATGATCATTTTTAAGTC-TTTAAGGTTATCAAGATACTTTCATGTCGAAAGTA
* * * * **
2137185 TACCCTAGGGGTATTTTGGTAACTTTGCATTAGAACTAAGTCCTA
65 TACCTTAAGGGCATTTTCGTAA-TTT-TTTTAGAACTAAGTCCTA
2137230 TGTGATCACT
Statistics
Matches: 480, Mismatches: 78, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
153 89 0.19
154 44 0.09
155 45 0.09
156 159 0.33
157 122 0.25
158 21 0.04
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (155 bp):
TTCATCCCATTTATGATCATTTTTAAGTCTTTAAGGTTATCAAGATACTTTCATGTCGAAAGTAT
ACCTTAAGGGCATTTTCGTAATTTTTTTAGAACTAAGTCCTAGGTTGTCACCAAGATGCTTTTAT
GCCAAAGGTGTGCATTTAGGATAGG
Found at i:2138306 original size:19 final size:19
Alignment explanation
Indices: 2138262--2138317 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2138252 CTGTCATTTT
**
2138262 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
2138282 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
2138301 CATGTATCAATACAATG
1 CATGTATCGATACAATG
2138318 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2139616 original size:19 final size:19
Alignment explanation
Indices: 2139592--2139642 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
2139582 TTTCAACGAT
2139592 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2139611 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2139630 TTGTATCGATACA
1 TTGTATCGATACA
2139643 ATGTATCGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2139713 original size:13 final size:13
Alignment explanation
Indices: 2139695--2139719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2139685 ATTACTCAAA
2139695 TGTATCGATACAT
1 TGTATCGATACAT
2139708 TGTATCGATACA
1 TGTATCGATACA
2139720 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2139857 original size:52 final size:52
Alignment explanation
Indices: 2139728--2139858 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
2139718 CACTGATCTT
*
2139728 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
* *
2139780 TGTATCGATACATACAGGCAAATTTTCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
2139832 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
2139859 ATATTTCGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:2144281 original size:141 final size:141
Alignment explanation
Indices: 2144027--2144308 Score: 555
Period size: 141 Copynumber: 2.0 Consensus size: 141
2144017 TGTTGTCCAT
2144027 AGCTTGCACTTATAGTCATCTCATCCTACTTTCATTTGGTTGCTATAACCTCATTGCATCACTTG
1 AGCTTGCACTTATAGTCATCTCATCCTACTTTCATTTGGTTGCTATAACCTCATTGCATCACTTG
2144092 CCTTACCCATCAGGGCAATACTTGCATTTGCATTGTCAACTTCATTCATTTAAATGTCTTGATCA
66 CCTTACCCATCAGGGCAATACTTGCATTTGCATTGTCAACTTCATTCATTTAAATGTCTTGATCA
2144157 TGCATCCATGC
131 TGCATCCATGC
*
2144168 AGCTTGCACTTATAGTCATCTCATCGTACTTTCATTTGGTTGCTATAACCTCATTGCATCACTTG
1 AGCTTGCACTTATAGTCATCTCATCCTACTTTCATTTGGTTGCTATAACCTCATTGCATCACTTG
2144233 CCTTACCCATCAGGGCAATACTTGCATTTGCATTGTCAACTTCATTCATTTAAATGTCTTGATCA
66 CCTTACCCATCAGGGCAATACTTGCATTTGCATTGTCAACTTCATTCATTTAAATGTCTTGATCA
2144298 TGCATCCATGC
131 TGCATCCATGC
2144309 CATGAGTCAT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (141 bp):
AGCTTGCACTTATAGTCATCTCATCCTACTTTCATTTGGTTGCTATAACCTCATTGCATCACTTG
CCTTACCCATCAGGGCAATACTTGCATTTGCATTGTCAACTTCATTCATTTAAATGTCTTGATCA
TGCATCCATGC
Found at i:2146896 original size:15 final size:15
Alignment explanation
Indices: 2146878--2146920 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
2146868 AGTCAAAAGT
2146878 AAACACAAAAAAACA
1 AAACACAAAAAAACA
*
2146893 AAACAAAAAAAAACA
1 AAACACAAAAAAACA
*
2146908 ACACACAAAAAAA
1 AAACACAAAAAAA
2146921 GTGCAAAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACACAAAAAAACA
Found at i:2148278 original size:31 final size:31
Alignment explanation
Indices: 2148212--2148363 Score: 168
Period size: 30 Copynumber: 4.9 Consensus size: 31
2148202 ATACCTTCTT
*
2148212 AAAGTCCACGACTCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
2148242 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
2148273 AAAGT-CACAACTCAGTGGCAATCTCTTT-T-C
1 AAAGTCCACGACTCAGTGGC-AT-TTTTTCTCC
* *
2148303 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* * * *
2148334 AAAGCCCACAACTCCGTGGCACCTTTTTCT
1 AAAGTCCACGACTCAGTGGCA-TTTTTTCT
2148364 TTTCAAAGCC
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.03
30 49 0.47
31 42 0.40
32 10 0.10
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTCC
Found at i:2148374 original size:34 final size:34
Alignment explanation
Indices: 2148296--2148495 Score: 235
Period size: 35 Copynumber: 5.9 Consensus size: 34
2148286 AGTGGCAATC
* * * *
2148296 TCTTTTCAAAGTCCACGACTCAGTGGCATC-TTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
2148329 TC--TTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
2148361 TCTTTTCAAAGCCCATAATTCCGTGGCACCCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCA-CCTTTT
* *
2148396 TCTTTTTAAAGCCCACCACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* *
2148431 TCTTTTTAAAGTCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* * *
2148466 TCTTTTTAAAGTCCACAACTCTGTGGCACC
1 TCTTTTCAAAGCCCACAACTCCGTGGCACC
2148496 CCCTCTAAAG
Statistics
Matches: 149, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
31 22 0.15
32 5 0.03
33 2 0.01
34 24 0.16
35 96 0.64
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.35
Consensus pattern (34 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:2148401 original size:35 final size:35
Alignment explanation
Indices: 2148334--2148496 Score: 238
Period size: 35 Copynumber: 4.7 Consensus size: 35
2148324 TCTTTTCTTC
*
2148334 AAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
* *
2148368 AAAGCCCATAATTCCGTGGCACCCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
* *
2148403 AAAGCCCACCACTCCGTGGCACTCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
* *
2148438 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
* *
2148473 AAAGTCCACAACTCTGTGGCACCC
1 AAAGCCCACAACTCCGTGGCACCC
2148497 CCTCTAAAGC
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
34 19 0.16
35 98 0.84
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACCCTTTTTCTTTTT
Found at i:2148459 original size:70 final size:69
Alignment explanation
Indices: 2148296--2148495 Score: 264
Period size: 70 Copynumber: 2.9 Consensus size: 69
2148286 AGTGGCAATC
* * *
2148296 TCTTTTCAAAGTCCACGACTCAGTGGCA-TC-TTTTC--TTCAAAGCCCACAACTCCGTGGCACC
1 TCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
2148357 TTTT
66 TTTT
* * * * *
2148361 TCTTTTCAAAGCCCATAATTCCGTGGCACCCTTTTTCTTTTTAAAGCCCACCACTCCGTGGCACT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-
2148426 CTTTT
65 CTTTT
* * *
2148431 TCTTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGTCCACAACTCTGTGGCACC
1 TCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
2148496 CCCTCTAAAG
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
65 23 0.20
66 1 0.01
67 5 0.04
69 24 0.21
70 61 0.54
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.35
Consensus pattern (69 bp):
TCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
TTTT
Found at i:2148536 original size:33 final size:33
Alignment explanation
Indices: 2148498--2148626 Score: 222
Period size: 33 Copynumber: 3.9 Consensus size: 33
2148488 GTGGCACCCC
* *
2148498 CTCTAAAGCCCATACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCATT
2148531 CTCTAAAGCCCACACAAGTCGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCATT
*
2148564 CTCTAAAGCCCACACAAGTCGGTGGCAACCACT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCATT
*
2148597 CTCTAAAGCCCACACAAGTTGGTGGCAACC
1 CTCTAAAGCCCACACAAGTCGGTGGCAACC
2148627 CTTCAAAGCC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (33 bp):
CTCTAAAGCCCACACAAGTCGGTGGCAACCATT
Found at i:2148699 original size:49 final size:48
Alignment explanation
Indices: 2148645--2149640 Score: 1052
Period size: 49 Copynumber: 21.5 Consensus size: 48
2148635 CCCAATATCA
2148645 CTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* * *
2148694 TTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCTAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
* *
2148737 CTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
** *
2148780 CTACCCTTAAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* * *
2148829 CTGGCCTTGAATCAACACATTGGCA-C----CTTTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
*
2148872 CTGGCCTTGAAACAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* *
2148921 CTGGCCTTGAATCAGCACATTGGCA-C----C-TTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
* *
2148963 CTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTAAGACCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* * *
2149012 CTGGCCTTGAATCAGCACATTGGC-GC----CTTTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
2149055 CTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* *
2149104 CTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
*
2149147 CTGGCCTTGAATCAGTATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* * *
2149196 CTGGCCTTGAATTAGCACATTGGCA-C----CTTTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
* * * *
2149239 CTGGCCTTGAATTAGCATATTAGCACCTTTATCTTTAAGACCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* *
2149288 CTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
*
2149331 CTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* * *
2149380 CTGGCCTTGAATCAACACATTGGCA-C----CTTTAAGTCCAATATAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
* *
2149423 CTGGCCTTGAATCAGGATATTGGCACCTTTATCTTTAAGTCCAATGTAA
1 CTGGCCTTGAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAG
* * * *
2149472 CTCGCCTTGAATCAGCATATTGGCACC--TTC---AAGCCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
* * * ** *
2149515 TTGGCCGTGAATCAGCATATTGGCATCTTCACCTTTAAGTCCAATAG-CG
1 CTGGCCTTGAATCAGCATATTGGCACCTT-TTCTTTAAGTCCAAT-GTAG
*
2149564 CTGGCCTTGAATCAGCATATTGGCACCTTTTCCGTCTTGAGTCCAATGTAG
1 CTGGCCTTGAATCAGCATATTGGCACCTTTT-C-T-TTAAGTCCAATGTAG
* *
2149615 CTGGCCTTGAATCAGCACATTAGCAC
1 CTGGCCTTGAATCAGCATATTGGCAC
2149641 AAGCCCAATA
Statistics
Matches: 796, Mismatches: 91, Indels: 118
0.79 0.09 0.12
Matches are distributed among these distances:
42 37 0.05
43 340 0.43
44 7 0.01
46 3 0.00
47 1 0.00
48 9 0.01
49 362 0.45
50 2 0.00
51 35 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (48 bp):
CTGGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAG
Found at i:2148816 original size:92 final size:92
Alignment explanation
Indices: 2148677--2149593 Score: 1463
Period size: 92 Copynumber: 10.0 Consensus size: 92
2148667 GCACCTTTAT
* * * *
2148677 CTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCTAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
2148736 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
** *
2148763 CTTTAAGTCCAATATAGCTACCCTTAAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
*
2148828 GCTGGCCTTGAATCAACACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
2148855 CTTTAAGTCCAATATAGCTGGCCTTGAAACAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
2148920 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
2148947 C-TTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTAAGACCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
*
2149011 GCTGGCCTTGAATCAGCACATTGGCGC
66 GCTGGCCTTGAATCAGCACATTGGCAC
2149038 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
2149103 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
2149130 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
*
2149195 GCTGGCCTTGAATTAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
2149222 CTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTAGCACCTTTATCTTTAAGACCAATGTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
2149287 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
2149314 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
*
2149379 GCTGGCCTTGAATCAACACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
2149406 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGGATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
* * *
2149471 ACTCGCCTTGAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * * * * * *
2149498 CTTCAAGCCCAATATCGTTGGCCGTGAATCAGCATATTGGCATCTTCACCTTTAAGTCCAATAG-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT-GT
* *
2149562 CGCTGGCCTTGAATCAGCATATTGGCAC
65 AGCTGGCCTTGAATCAGCACATTGGCAC
2149590 CTTT
1 CTTT
2149594 TCCGTCTTGA
Statistics
Matches: 770, Mismatches: 53, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
86 36 0.05
87 1 0.00
91 87 0.11
92 645 0.84
93 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:2148879 original size:22 final size:22
Alignment explanation
Indices: 2148812--2148879 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
2148802 GCACCTTTAT
*
2148812 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
2148834 CTTGAA-T-CAACACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
2148855 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
2148877 CTT
1 CTT
2148880 GAAACAGCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 10 0.31
23 5 0.16
24 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:2149316 original size:21 final size:20
Alignment explanation
Indices: 2149292--2149359 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
2149282 ATGTCGCTGG
2149292 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
2149313 CCTTTAAGTC--CAATATAGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
2149334 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
2149356 CCTT
1 CCTT
2149360 TATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:2149430 original size:22 final size:22
Alignment explanation
Indices: 2149363--2149430 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
2149353 GCACCTTTAT
*
2149363 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
2149385 CTTGAA-T-CAACACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
2149406 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
2149428 CTT
1 CTT
2149431 GAATCAGGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 10 0.31
23 5 0.16
24 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:2150551 original size:19 final size:18
Alignment explanation
Indices: 2150526--2150590 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
2150516 ATTTCAACGA
2150526 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2150544 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2150560 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2150576 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2150591 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2150564 original size:32 final size:32
Alignment explanation
Indices: 2150528--2150598 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2150518 TTCAACGATT
2150528 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2150560 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2150592 TGTATCG
1 TGTATCG
2150599 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2150565 original size:13 final size:13
Alignment explanation
Indices: 2150547--2150571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2150537 ACATAAGTGT
2150547 TGTATCGATACAA
1 TGTATCGATACAA
2150560 TGTATCGATACA
1 TGTATCGATACA
2150572 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2150661 original size:13 final size:13
Alignment explanation
Indices: 2150643--2150667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2150633 ATTACTCAAA
2150643 TGTATCGATACAT
1 TGTATCGATACAT
2150656 TGTATCGATACA
1 TGTATCGATACA
2150668 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2150720 original size:52 final size:52
Alignment explanation
Indices: 2150676--2150804 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2150666 CACTGATCTT
2150676 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
2150728 TGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2150780 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2150805 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2158252 original size:20 final size:19
Alignment explanation
Indices: 2158206--2158262 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2158196 ATGTATCGAT
* *
2158206 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGC
*
2158225 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
2158244 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2158263 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:2159484 original size:28 final size:28
Alignment explanation
Indices: 2159444--2159515 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2159434 AAAAAAAAAT
* ** *
2159444 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2159472 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2159500 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2159516 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2159635 original size:52 final size:52
Alignment explanation
Indices: 2159505--2159673 Score: 148
Period size: 52 Copynumber: 3.2 Consensus size: 52
2159495 AATAACGAGG
* * * * * *
2159505 TTGGAGTATCCTCGATTG-TGAAAAATTGGTATTTTTGGAAATAGAATC-GGA
1 TTGGAGTATCCCCGATTGAGGAAAAATTGG-AGTTTTGAAAATAAAACCGGGA
* * *
2159556 GTTGGAATATCCCCGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCGGGA
1 -TTGGAGTATCCCCGATT-GAGGAAAAATTGGAGTTTTGAAAATAAAACCGGGA
* * ** *
2159609 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTT-AGCGATAAAACCGGGG
1 TTGGAGTATCCCCGATTGAGGAAAAATTGGAGTTTTGA-AAATAAAACCGGGA
2159661 TTGGAGTATCCCC
1 TTGGAGTATCCCC
2159674 TCGGAAATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
51 4 0.04
52 80 0.83
53 11 0.11
54 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (52 bp):
TTGGAGTATCCCCGATTGAGGAAAAATTGGAGTTTTGAAAATAAAACCGGGA
Found at i:2159719 original size:27 final size:28
Alignment explanation
Indices: 2159656--2159731 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
2159646 GCGATAAAAC
***
2159656 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2159684 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
2159711 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2159732 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2159786 original size:56 final size:51
Alignment explanation
Indices: 2159719--2159847 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
2159709 AACGGGGTTG
* *
2159719 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTG-AGAAATTAGTG----TTTTGAAAATAAAATCGGAGTTA
* *
2159775 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGAGTTA
*
2159826 GAATATCCCCGATTGTGGAGAA
1 GAGTATCCCCGATTGT-GAGAA
2159848 TTGATAAACT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
51 35 0.55
52 2 0.03
53 2 0.03
54 2 0.03
55 8 0.12
56 15 0.23
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Found at i:2162070 original size:19 final size:18
Alignment explanation
Indices: 2162046--2162113 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2162036 CAGTAGCTAA
2162046 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2162065 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2162080 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2162097 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2162114 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2162086 original size:13 final size:13
Alignment explanation
Indices: 2162068--2162092 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2162058 ACAATACTTA
2162068 TGTATCGATACAT
1 TGTATCGATACAT
2162081 TGTATCGATACA
1 TGTATCGATACA
2162093 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2162090 original size:32 final size:32
Alignment explanation
Indices: 2162049--2162111 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2162039 TAGCTAATTA
*
2162049 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2162081 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2162112 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2162193 original size:21 final size:21
Alignment explanation
Indices: 2162169--2162225 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2162159 CCTTTGTAGG
2162169 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2162190 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2162211 ATGTATCGATACATT
1 ATGTATCGATACATT
2162226 TGGATAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2162258 original size:15 final size:15
Alignment explanation
Indices: 2162238--2162267 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2162228 GATAAAATTT
2162238 TTTTTTTTTTTTCAA
1 TTTTTTTTTTTTCAA
2162253 TTTTTTTTTTTTCAA
1 TTTTTTTTTTTTCAA
2162268 ACACTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTTTTCAA
Found at i:2162824 original size:55 final size:55
Alignment explanation
Indices: 2162738--2162979 Score: 380
Period size: 55 Copynumber: 4.4 Consensus size: 55
2162728 GAAAAGGAAA
* * *
2162738 GTGTCCTGCTCTTTGGGGAAT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAG
1 GTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAG
2162793 GTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AG
1 GTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAG
* *
2162848 GTGTCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAATAG
1 GTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAG
* *
2162903 GTGTCCTGCTCTTTGAGGACTGGAAGACGCCACCAACTTGTGTGGGCTTTAAGAG
1 GTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAG
*
2162958 GTGTCCTGCTCTTTGGGGACTG
1 GTGTCCTGCTCTTTGAGGACTG
2162980 AAAGGTGGAT
Statistics
Matches: 175, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
54 2 0.01
55 167 0.95
56 6 0.03
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (55 bp):
GTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAG
Found at i:2163959 original size:1 final size:1
Alignment explanation
Indices: 2163948--2163994 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
2163938 CTTAAGCAGA
* * * *
2163948 TTTTTTGTTTTTTTTTTTATTTTTTTTGTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2163995 GAAGAGAAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.02, C:0.02, G:0.04, T:0.91
Consensus pattern (1 bp):
T
Found at i:2163969 original size:19 final size:19
Alignment explanation
Indices: 2163947--2163993 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
2163937 GCTTAAGCAG
2163947 ATTTTTTGTT-TTTTTTTTT
1 ATTTTTT-TTGTTTTTTTTT
2163966 ATTTTTTTTGTTTTTTTTT
1 ATTTTTTTTGTTTTTTTTT
*
2163985 CTTTTTTTT
1 ATTTTTTTT
2163994 TGAAGAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.04, C:0.02, G:0.04, T:0.89
Consensus pattern (19 bp):
ATTTTTTTTGTTTTTTTTT
Found at i:2163995 original size:20 final size:21
Alignment explanation
Indices: 2163948--2163995 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
2163938 CTTAAGCAGA
*
2163948 TTTTTTGTTTTTTTTTTTATT
1 TTTTTTGTTTTTTTTTCTATT
2163969 TTTTTTGTTTTTTTTTCT-TT
1 TTTTTTGTTTTTTTTTCTATT
2163989 TTTTTTG
1 TTTTTTG
2163996 AAGAGAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.90
Consensus pattern (21 bp):
TTTTTTGTTTTTTTTTCTATT
Found at i:2174455 original size:28 final size:28
Alignment explanation
Indices: 2174415--2174486 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2174405 AAAAAAAAAT
* ** *
2174415 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2174443 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2174471 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2174487 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2174606 original size:52 final size:52
Alignment explanation
Indices: 2174476--2174644 Score: 148
Period size: 52 Copynumber: 3.2 Consensus size: 52
2174466 AATAACGAGG
* * * * *
2174476 TTGGAGTATCCTCGATTG-TGAAAAATTGGTATTTTTGGAAATAGAATC-GGA
1 TTGGAGTATCCCCGATTGAGGAAAAATTGG-AGTTTTGAAAATAAAATCGGGA
* * * *
2174527 GTTGGAATATCCCCGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCGGGA
1 -TTGGAGTATCCCCGATT-GAGGAAAAATTGGAGTTTTGAAAATAAAATCGGGA
* * ** *
2174580 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTT-AGCGATAAAATCGGGG
1 TTGGAGTATCCCCGATTGAGGAAAAATTGGAGTTTTGA-AAATAAAATCGGGA
2174632 TTGGAGTATCCCC
1 TTGGAGTATCCCC
2174645 TCGGAAATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
51 4 0.04
52 79 0.83
53 11 0.12
54 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
TTGGAGTATCCCCGATTGAGGAAAAATTGGAGTTTTGAAAATAAAATCGGGA
Found at i:2174690 original size:27 final size:28
Alignment explanation
Indices: 2174627--2174702 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
2174617 GCGATAAAAT
***
2174627 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2174655 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
2174682 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2174703 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2174757 original size:56 final size:51
Alignment explanation
Indices: 2174690--2174818 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
2174680 AACGGGGTTG
* *
2174690 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTG-AGAAATTAGTG----TTTTGAAAATAAAATCGGAGTTA
* *
2174746 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGAGTTA
*
2174797 GAATATCCCCGATTGTGGAGAA
1 GAGTATCCCCGATTGT-GAGAA
2174819 TTGATAAACT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
51 35 0.55
52 2 0.03
53 2 0.03
54 2 0.03
55 8 0.12
56 15 0.23
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Found at i:2177197 original size:13 final size:13
Alignment explanation
Indices: 2177179--2177204 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2177169 ACAAAGATCC
2177179 ATGTATCGATACA
1 ATGTATCGATACA
2177192 ATGTATCGATACA
1 ATGTATCGATACA
2177205 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2177200 original size:33 final size:33
Alignment explanation
Indices: 2177158--2177224 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2177148 AAAATTTCCA
***
2177158 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2177191 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2177224 A
1 A
2177225 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2177268 original size:19 final size:18
Alignment explanation
Indices: 2177244--2177311 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2177234 CAGTAGCTAA
2177244 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2177263 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2177278 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2177295 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2177312 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2177284 original size:13 final size:13
Alignment explanation
Indices: 2177266--2177290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2177256 ACAATACTTA
2177266 TGTATCGATACAT
1 TGTATCGATACAT
2177279 TGTATCGATACA
1 TGTATCGATACA
2177291 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2177288 original size:32 final size:32
Alignment explanation
Indices: 2177247--2177309 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2177237 TAGCTAATTA
*
2177247 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2177279 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2177310 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2177412 original size:13 final size:13
Alignment explanation
Indices: 2177394--2177419 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2177384 GATAAATTTT
2177394 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
2177407 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
2177420 ACACTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:2179088 original size:13 final size:13
Alignment explanation
Indices: 2179056--2179095 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2179046 ATAGTAACCC
2179056 ATGTATCGATACA
1 ATGTATCGATACA
* *
2179069 TTATATCGATACA
1 ATGTATCGATACA
*
2179082 ATGTATCAATACA
1 ATGTATCGATACA
2179095 A
1 A
2179096 AGAACATTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2187494 original size:32 final size:32
Alignment explanation
Indices: 2187453--2187522 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
2187443 AACATATTTG
*
2187453 AACTCAAATCTGAAAAT-ATTAAAACTTAAAAT
1 AACTCAAATCT-AAAATAATTAAAACTCAAAAT
* * *
2187485 AACTTAAATCTATAATAATTCAAACTCAAAAT
1 AACTCAAATCTAAAATAATTAAAACTCAAAAT
2187517 -ACTCAA
1 AACTCAA
2187523 TTAAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.29
Consensus pattern (32 bp):
AACTCAAATCTAAAATAATTAAAACTCAAAAT
Found at i:2191907 original size:23 final size:23
Alignment explanation
Indices: 2191881--2191930 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
2191871 GGTTCGTGTT
2191881 TGGGTTCGGGAGTTGGTTACGCG
1 TGGGTTCGGGAGTTGGTTACGCG
2191904 TGGGTTCGGGAGTTGGTTACGCG
1 TGGGTTCGGGAGTTGGTTACGCG
2191927 TGGG
1 TGGG
2191931 GAAGGATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.12, G:0.50, T:0.30
Consensus pattern (23 bp):
TGGGTTCGGGAGTTGGTTACGCG
Found at i:2192785 original size:79 final size:80
Alignment explanation
Indices: 2192643--2192994 Score: 514
Period size: 79 Copynumber: 4.4 Consensus size: 80
2192633 AAAATAAAAT
* * * *
2192643 CGGGGTTAGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGGACCGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATTGATGTTTTAGAAATAA-AACCGGGGTTGGAGT
2192708 ATCCTCGT-GAAAATAA
64 ATCCTCGTCGAAAATAA
* * * *
2192724 CGGGGTTGGACTATCCCCGATTGTGAGAAATTGATGTTTTTGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2192789 CC-CCTCGAAAATAA
66 CCTCGTCGAAAATAA
* *
2192803 CGGGGTTGGAGTATCCCCGATTCTGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
2192868 CC-CCTCGGAAATAA
66 CCTCGTCGAAAATAA
*
2192882 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2192947 CCTC-TCGGAAATAA
66 CCTCGTCGAAAATAA
*
2192961 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
2192995 GAAAATTAAA
Statistics
Matches: 250, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
78 2 0.01
79 206 0.82
80 21 0.08
81 21 0.08
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCTCGTCGAAAATAA
Found at i:2194437 original size:35 final size:35
Alignment explanation
Indices: 2194391--2194569 Score: 288
Period size: 35 Copynumber: 5.1 Consensus size: 35
2194381 TCATTTTTTT
2194391 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
2194426 ATGCCCATCATTCCATGCCTCCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
2194461 ATGCCCATCATTCCATACCTCCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* * *
2194496 ATACCTATCATTCTATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
2194531 ATGCCCATCATTCAATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2194566 -TGCC
1 ATGCC
2194570 TTCATTTTTA
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
34 4 0.03
35 130 0.97
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.42
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:2195233 original size:41 final size:41
Alignment explanation
Indices: 2195158--2195257 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
2195148 TCGTTTTTCG
* * *
2195158 AGGACAAAGGAAAAAGGGAAACGAAATACTTCCTGCTCTCTA
1 AGGACAAA-GAAAAAGGAAAACAAAATACGTCCTGCTCTCTA
* * * *
2195200 AGGACAAAGAAAAAGGAAAATAAAATGCGTCCTGCTCTTTG
1 AGGACAAAGAAAAAGGAAAACAAAATACGTCCTGCTCTCTA
2195241 AGGACAAAAGAGAAAAG
1 AGGAC-AAAGA-AAAAG
2195258 AAGGGAAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 31 0.63
42 13 0.27
43 5 0.10
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (41 bp):
AGGACAAAGAAAAAGGAAAACAAAATACGTCCTGCTCTCTA
Found at i:2195256 original size:117 final size:115
Alignment explanation
Indices: 2195036--2195256 Score: 243
Period size: 117 Copynumber: 1.9 Consensus size: 115
2195026 GGTGTCCTAC
* * * *
2195036 TTTTTTGAGGACAAAGAAAAAGAGAATGAAATAGGTCCTGCTCCTTTAGGACAAAGGAAAAGAAG
1 TTTTTCGAGGACAAAGAAAAAGAGAACGAAATACGTCCTGCTCCTTAAGGACAAAGGAAAAGAAG
* * * *
2195101 AAAAGGAAAGTGTCTTGCTTCTTGAAGACAAAGTGAAAAAGAATGTCTCG
66 AAAAGAAAAGCGTCCTGCTTCTTGAAGACAAAGAGAAAAAGAATGTCTCG
* *
2195151 TTTTTCGAGGACAAAGGAAAAAGGGAAACGAAATACTTCCTGCT-CTCTAAGGACAAA-GAAAA-
1 TTTTTCGAGGACAAA-GAAAAAGAG-AACGAAATACGTCCTGCTCCT-TAAGGACAAAGGAAAAG
* * *
2195213 AGGAAAATAAAATGCGTCCTGC-TCTTTGAGGACAAAAGAGAAAA
63 AAGAAAAGAAAA-GCGTCCTGCTTC-TTGAAGAC-AAAGAGAAAA
2195257 GAAGGGAAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
115 25 0.29
116 29 0.33
117 33 0.38
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (115 bp):
TTTTTCGAGGACAAAGAAAAAGAGAACGAAATACGTCCTGCTCCTTAAGGACAAAGGAAAAGAAG
AAAAGAAAAGCGTCCTGCTTCTTGAAGACAAAGAGAAAAAGAATGTCTCG
Found at i:2195375 original size:61 final size:60
Alignment explanation
Indices: 2195275--2195477 Score: 241
Period size: 61 Copynumber: 3.3 Consensus size: 60
2195265 AGAAGTATGC
* * *
2195275 CCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAATGTGT
1 CCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTAGTGTGGGCTTTGAAAAGAAAA-GCGT
* * *
2195336 CATGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAAGCAT
1 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGCTTTG-AAAAGA-AAAGCGT
* * * *
2195397 CCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTTTGGGCTTT-AAAAGGAAAAGGCGT
1 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGCTTTGAAAA-GAAAA-GCGT
2195458 CCTGCTCTTTGAGGACTGAA
1 CCTGCTCTTTGAGGACTGAA
2195478 GGTGAAAGGA
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
59 4 0.03
60 3 0.02
61 103 0.84
62 12 0.10
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (60 bp):
CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGCGT
Found at i:2195547 original size:29 final size:29
Alignment explanation
Indices: 2195512--2195602 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
2195502 CTTTGAGGAC
2195512 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** * ** *
2195541 TGAAA-G-G-CATCCTGCTCTTTGAAGAC--
1 TGAAAGGTGCCA-CCAACT-TGTGTGGGCTT
2195567 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
2195596 TGAAAGG
1 TGAAAGG
2195603 CGAAGGCGTC
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
26 7 0.16
27 11 0.26
28 11 0.26
29 14 0.33
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:2195579 original size:55 final size:55
Alignment explanation
Indices: 2195495--2195689 Score: 266
Period size: 55 Copynumber: 3.4 Consensus size: 55
2195485 GGAGAGAGCG
2195495 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
2195550 TCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC--A
* * * *
2195607 GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGCG
1 ----TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
2195667 TCCTGCTTTTTGAGGACT-AAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
2195690 GCGAAAGGAG
Statistics
Matches: 125, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
54 4 0.03
55 53 0.42
56 17 0.14
57 1 0.01
61 17 0.14
62 33 0.26
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:2195624 original size:154 final size:156
Alignment explanation
Indices: 2195338--2195628 Score: 433
Period size: 154 Copynumber: 1.9 Consensus size: 156
2195328 AAATGTGTCA
2195338 TGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTGCT
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGATTTG--AAAAG--AGCATCCTGCT
* * *
2195403 CTTTGAGGATTGAAAAGTGCCACCAACTTGTTTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
62 CTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
2195468 GAGGACTGAAGGTGAAAGGAGAGAGCGTCC
127 GAGGACTGAAGGTGAAAGGAGAGAGCGTCC
** * *
2195498 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GCATCCTGCTCTTT
1 TGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGATTTGAAAAGAGCATCCTGCTCTTT
* * **
2195561 GAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGG
66 GAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGG
2195626 ACT
131 ACT
2195629 AGAAAAGTGC
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
154 75 0.62
157 4 0.03
160 41 0.34
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (156 bp):
TGCTCTTTGAGGACTGAAAAATGCCACCAACTAGTGTGGGATTTGAAAAGAGCATCCTGCTCTTT
GAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGG
ACTGAAGGTGAAAGGAGAGAGCGTCC
Found at i:2195796 original size:61 final size:61
Alignment explanation
Indices: 2195706--2195851 Score: 188
Period size: 61 Copynumber: 2.4 Consensus size: 61
2195696 GGAGGGAGCG
* * *
2195706 TCCTGCTCTTTGAGGACT-AAGAAGCGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAA-AAACGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCA
* *
2195767 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAAAACGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
* *
2195828 TTCTACTCTTTGAGGACTAGAAAA
1 TCCTGCTCTTTGAGGACT-GAAAA
2195852 GTGAAAGAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
61 64 0.85
62 11 0.15
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAACGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
Found at i:2200364 original size:22 final size:22
Alignment explanation
Indices: 2200309--2200364 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
2200299 ACAGTGACCT
2200309 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2200331 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2200352 ATGAACAGTGATG
1 ATGAACAGTGATG
2200365 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:2200371 original size:10 final size:10
Alignment explanation
Indices: 2200352--2200382 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2200342 GTATCGATAC
2200352 ATGAACAGTG
1 ATGAACAGTG
*
2200362 ATGAATAGTG
1 ATGAACAGTG
2200372 ATGAACAGTG
1 ATGAACAGTG
2200382 A
1 A
2200383 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:2200522 original size:20 final size:20
Alignment explanation
Indices: 2200477--2200530 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2200467 TACATATTTG
*
2200477 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
2200497 TTTGTATCGATAC-ACTTAAA
1 TGTGTATCGATACTA-TGAAA
2200517 TGTGTATCGATACT
1 TGTGTATCGATACT
2200531 TTTCAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:2200595 original size:21 final size:21
Alignment explanation
Indices: 2200569--2200609 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2200559 GTCAACCTTG
2200569 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2200590 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2200610 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2217652 original size:18 final size:19
Alignment explanation
Indices: 2217629--2217665 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2217619 CCTTCTCTTC
*
2217629 TAAAAAAAATCAA-AAAAA
1 TAAAAAAAAACAACAAAAA
2217647 TAAAAAAAAACAACAAAAA
1 TAAAAAAAAACAACAAAAA
2217666 AAGACAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (19 bp):
TAAAAAAAAACAACAAAAA
Found at i:2218775 original size:61 final size:59
Alignment explanation
Indices: 2218642--2218785 Score: 162
Period size: 61 Copynumber: 2.4 Consensus size: 59
2218632 TTCCACTTTT
* * *
2218642 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCACACAAGTTGGTAGCATTT
1 CTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCACACAAGTTGGTAGCATTC
* ** * * * *
2218701 TTCAGGACTCAAAGAGTAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTC
1 CT-AGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCAAAG-CCACACAAGTTGGTAGC-ATTC
*
2218763 CTAGTCCTCAAAGAGCAAAACGC
1 CTAGTCCTCAAAGAGCAAGACGC
2218786 TCACTCCTTT
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
59 1 0.01
60 30 0.45
61 33 0.49
62 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (59 bp):
CTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCACACAAGTTGGTAGCATTC
Found at i:2218882 original size:55 final size:55
Alignment explanation
Indices: 2218799--2218983 Score: 250
Period size: 55 Copynumber: 3.4 Consensus size: 55
2218789 CTCCTTTCGC
* * * *
2218799 CCTTT-AGTCCTCAAAGAGCAGAACGCCTTTTAAAGCCTACACAAGTTGGTGGTA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2218853 CCTTTCAGTCTTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
2218908 CCTTTCAGTCCTGAAAGAGCAGGACT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA-TGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2218963 -CTTCTTAGTCTTCAAAGAGCA
1 CCTT-TCAGTCCTCAAAGAGCA
2218984 AGACGCTCTC
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
54 8 0.07
55 107 0.92
56 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:2219198 original size:61 final size:61
Alignment explanation
Indices: 2219004--2219207 Score: 236
Period size: 61 Copynumber: 3.4 Consensus size: 61
2218994 TCCTTTCACC
*
2219004 TTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * * *
2219065 TTCAGTCCTCAAATAGCAGGATG-C-TTTCTTTTGCAAATCGCACACTAGTTGGTGGCA-TCT
1 TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-CAAAGCCCACACAAGTTGGTGGCACT-T
* ** * * *
2219125 TTCAGTCTTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGATCACACGAGTTTGTGACACTT
1 TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
2219186 TTCAATCCTCAAAGAGCAGGAC
1 TTCAGTCCTCAAAGAGCAGGAC
2219208 ACATTTCTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
58 5 0.04
59 4 0.03
60 42 0.35
61 60 0.50
62 9 0.08
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (61 bp):
TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:2219833 original size:6 final size:6
Alignment explanation
Indices: 2219824--2219856 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
2219814 TAAAAATCAA
2219824 AAATTC AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAATTC AAA
2219857 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:2219863 original size:18 final size:18
Alignment explanation
Indices: 2219822--2219863 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2219812 AGTAAAAATC
*
2219822 AAAAATTCAAATTCAAAT
1 AAAAATTCAAATTCAAAA
**
2219840 TCAAATTCAAATTCAAAA
1 AAAAATTCAAATTCAAAA
2219858 AAAAAT
1 AAAAAT
2219864 AATAAAAATA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTCAAATTCAAAA
Found at i:2219929 original size:35 final size:35
Alignment explanation
Indices: 2219865--2220156 Score: 366
Period size: 35 Copynumber: 8.5 Consensus size: 35
2219855 AAAAAAAATA
* *
2219865 ATAAAAATAAAAGAATGGAATG-TGGGCATGGAAT
1 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
* *
2219899 ATACAAATTAAAGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
*
2219934 ATAAAAATGAAAGTATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
* *
2219969 ATAAAAATG-AAGCCATGAAATGAT-GGCATTGAAT
1 ATAAAAATGAAAG-CATGGAATGATGGGCATGGAAT
* * *
2220003 ATAAAAATGAAGGTATGGAATGATGGGCATTGAAT
1 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
* *
2220038 ATAAAAATGGAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
* * * *
2220073 ATAAAAATGGAGGCACGGAATGATGGGCACGGAAT
1 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
*
2220108 ATAAAAATGAAGGCATGGAATGATGGGCAT---A-
1 ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
2220139 A-AAAAATGAAAGCATGGA
1 ATAAAAATGAAAGCATGGA
2220157 CAAAAATGGG
Statistics
Matches: 233, Mismatches: 21, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
30 16 0.07
31 1 0.00
32 1 0.00
34 49 0.21
35 166 0.71
ACGTcount: A:0.45, C:0.06, G:0.28, T:0.21
Consensus pattern (35 bp):
ATAAAAATGAAAGCATGGAATGATGGGCATGGAAT
Found at i:2221651 original size:79 final size:79
Alignment explanation
Indices: 2221537--2222046 Score: 734
Period size: 79 Copynumber: 6.4 Consensus size: 79
2221527 TTTAATTTTC
* * * *
2221537 TCAATTTTTCACAATCGGGGATACTCAAACCCCGTTATTTCCGAGGGGATACTCTAACCTCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
* *
2221602 TTATTTTTAAAATA
66 TTATTTCTAAAACA
*
2221616 TCAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
2221681 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * *
2221695 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTGCAACCTCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
2221760 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
2221774 TCAATTTTTCATAATCGGGGATACTCAAACCCCGTTATTTCCGAGGGGATACTCCAACCCCCGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
2221839 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * *
2221853 TCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTCCCGAGGGGATACTCAAACCCTGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
2221918 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * * * *
2221932 TCAATTTCTCACAATCGGGGATACTCCAATCCCGTTATTTTC-ATGAGGATACTCCAACCCCGAA
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGA-GGGGATACTCCAACCCCG-G
** *
2221996 CCTTATTTCTAAAGCA
64 TTTTATTTCTAAAACA
* *
2222012 TCAATTTTTTTATAATCGGGGATACTCTAACCCCG
1 TCAA-TTTTTCATAATCGGGGATACTCCAACCCCG
2222047 ATTTTATTTT
Statistics
Matches: 388, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
78 1 0.00
79 345 0.89
80 17 0.04
81 25 0.06
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:2223886 original size:79 final size:79
Alignment explanation
Indices: 2223778--2224184 Score: 543
Period size: 79 Copynumber: 5.2 Consensus size: 79
2223768 AACTGGGCTA
** * * * *
2223778 GAGTATCCCTAATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCTTCGG
1 GAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGG
2223843 AAATAACGGGGTTG
66 AAATAACGGGGTTG
* * * **
2223857 GAGTATCCCTGATTATGAAAAAGTAATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCAGCGG
1 GAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGG
*
2223922 AAACAACGGGGTTG
66 AAATAACGGGGTTG
* * * *
2223936 GAGTATCCCCGATTACGACAAATTGAA-GTTTTAGAAATAAAACCGGGGTTGAAATATCCCCTCG
1 GAGTATCCCCGATTATGAAAAATT-AATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCG
*
2224000 GAAATAACGGTGTTG
65 GAAATAACGGGGTTG
* *
2224015 GAGTAT-CCCGATTATAAAAAATTGAA-GTTTTAGAAATAAAACCGGGGATT-GAGTATCCCCGC
1 GAGTATCCCCGATTATGAAAAATT-AATGTTTTAGAAATAAAACCGGGG-TTGGAGTATCCCCTC
*
2224077 GGAAACAACGGGGTTG
64 GGAAATAACGGGGTTG
* * *
2224093 GAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGG
*
2224158 AAATAACGGGATTG
66 AAATAACGGGGTTG
2224172 GAGTATCCCCGAT
1 GAGTATCCCCGAT
2224185 GATTAACGGG
Statistics
Matches: 288, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
78 71 0.25
79 215 0.75
80 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
GAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGG
AAATAACGGGGTTG
Found at i:2224100 original size:157 final size:157
Alignment explanation
Indices: 2223797--2224180 Score: 578
Period size: 157 Copynumber: 2.4 Consensus size: 157
2223787 TAATTGTGAA
* * *
2223797 AAATTGATGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTA
1 AAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAAC-GGGTTGGAGTA
*
2223862 TCCCTGATTATGAAAAAGTAATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCAGCGGAAACA
65 TCCCTGATTATAAAAAAGTAATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCAGCGGAAACA
2223927 ACGGGGTTGGAGTATCCCCGATTACGAC
130 ACGGGGTTGGAGTATCCCCGATTACGAC
* *
2223955 AAATTGAAGTTTTAGAAATAAAACCGGGGTTGAAATATCCCCTCGGAAATAACGGTGTTGGAGTA
1 AAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGG-GTTGGAGTA
* *
2224020 TCCC-GATTATAAAAAATTGAA-GTTTTAGAAATAAAACCGGGGATT-GAGTATCCCCGCGGAAA
65 TCCCTGATTATAAAAAAGT-AATGTTTTAGAAATAAAACCGGGG-TTAGAGTATCCCAGCGGAAA
* *
2224082 CAACGGGGTTGGAGTATCCCCGATTATGAG
128 CAACGGGGTTGGAGTATCCCCGATTACGAC
* *
2224112 AAATT-AATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGATTGGAGT
1 AAATTGAA-GTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGG-TTGGAGT
2224176 ATCCC
64 ATCCC
2224181 CGATGATTAA
Statistics
Matches: 207, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
156 3 0.01
157 139 0.67
158 65 0.31
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (157 bp):
AAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGTTGGAGTAT
CCCTGATTATAAAAAAGTAATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCAGCGGAAACAA
CGGGGTTGGAGTATCCCCGATTACGAC
Found at i:2224199 original size:27 final size:28
Alignment explanation
Indices: 2224138--2224211 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
2224128 AATAAAACCA
***
2224138 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
* *
2224166 GGATTGGAGTATCCCCGATG-ATTAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
2224193 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
2224212 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:2225658 original size:35 final size:35
Alignment explanation
Indices: 2225619--2225729 Score: 150
Period size: 35 Copynumber: 3.2 Consensus size: 35
2225609 GCTTTCATTT
*
2225619 TTTTATGCCCATCATTCCATGCCTTCATTTTTATA
1 TTTTATGCCCATCATTTCATGCCTTCATTTTTATA
* *
2225654 TTTTATGCCCATCATTTTATACCTTCATTTTTATA
1 TTTTATGCCCATCATTTCATGCCTTCATTTTTATA
* *** *
2225689 TTTCATATTCATCATTTCATGCCTTCATTTTTATT
1 TTTTATGCCCATCATTTCATGCCTTCATTTTTATA
2225724 TTTTAT
1 TTTTAT
2225730 TTTTAATTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTTATGCCCATCATTTCATGCCTTCATTTTTATA
Found at i:2225739 original size:12 final size:12
Alignment explanation
Indices: 2225724--2225769 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
2225714 CATTTTTATT
*
2225724 TTTTATTTTTAA
1 TTTTAATTTTAA
2225736 TTTTAATTTTAA
1 TTTTAATTTTAA
2225748 TTTTAATTTTAA
1 TTTTAATTTTAA
*
2225760 TTTTTATTTT
1 TTTTAATTTT
2225770 TACTTATTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:2225751 original size:18 final size:18
Alignment explanation
Indices: 2225724--2225769 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
2225714 CATTTTTATT
*
2225724 TTTTATTTTTAATTTTAA
1 TTTTAATTTTAATTTTAA
2225742 TTTTAATTTTAATTTTAA
1 TTTTAATTTTAATTTTAA
*
2225760 TTTTTATTTT
1 TTTTAATTTT
2225770 TACTTATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTAATTTTAATTTTAA
Found at i:2225770 original size:7 final size:7
Alignment explanation
Indices: 2225715--2225771 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 7
2225705 TCATGCCTTC
2225715 ATTTTT-
1 ATTTTTA
*
2225721 ATTTTTT
1 ATTTTTA
2225728 ATTTTTA
1 ATTTTTA
2225735 A-TTTTA
1 ATTTTTA
2225741 A-TTTTA
1 ATTTTTA
2225747 A-TTTTA
1 ATTTTTA
2225753 A-TTTTA
1 ATTTTTA
2225759 ATTTTT-
1 ATTTTTA
2225765 ATTTTTA
1 ATTTTTA
2225772 CTTATTGCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
6 36 0.77
7 11 0.23
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:2227689 original size:23 final size:22
Alignment explanation
Indices: 2227639--2227682 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2227629 ATGTGGTAAA
2227639 TTAATTTTAATTAAAATTATATC
1 TTAA-TTTAATTAAAATTATATC
* *
2227662 ATAATTTAATTAAAATAATAT
1 TTAATTTAATTAAAATTATAT
2227683 ATTTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATTTAATTAAAATTATATC
Found at i:2229796 original size:24 final size:23
Alignment explanation
Indices: 2229769--2229827 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
2229759 TATTTTTAAC
2229769 TAATT-TTTAATATTTTTTACATAT
1 TAATTATTT-ATATTTTTTA-ATAT
*
2229793 TAATTCATTTTTATTTTTTAATAT
1 TAATT-ATTTATATTTTTTAATAT
2229817 TAATTAGTTTA
1 TAATTA-TTTA
2229828 AAATATGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 17 0.57
25 9 0.30
26 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (23 bp):
TAATTATTTATATTTTTTAATAT
Found at i:2234692 original size:46 final size:46
Alignment explanation
Indices: 2234634--2234726 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
2234624 GCATACTAAT
2234634 ATGAAAATGGTTAAGAGTAGACAGTGAGCCATGCTCTTACTATTTC
1 ATGAAAATGGTTAAGAGTAGACAGTGAGCCATGCTCTTACTATTTC
2234680 ATGAAAATGGTTAAGAGTAGACAGTGAGCCATGCTCTTACTATTTC
1 ATGAAAATGGTTAAGAGTAGACAGTGAGCCATGCTCTTACTATTTC
2234726 A
1 A
2234727 GGGATATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (46 bp):
ATGAAAATGGTTAAGAGTAGACAGTGAGCCATGCTCTTACTATTTC
Found at i:2235791 original size:34 final size:35
Alignment explanation
Indices: 2235753--2235819 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2235743 CCTTACAACA
2235753 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2235787 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2235820 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2236471 original size:20 final size:20
Alignment explanation
Indices: 2236446--2236483 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2236436 GCCAATGACC
*
2236446 TGTATCGATACATATTTGTG
1 TGTATCGATACAAATTTGTG
2236466 TGTATCGATACAAATTTG
1 TGTATCGATACAAATTTG
2236484 GCTACTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAAATTTGTG
Found at i:2236480 original size:54 final size:54
Alignment explanation
Indices: 2236393--2236530 Score: 251
Period size: 54 Copynumber: 2.6 Consensus size: 54
2236383 CTACTACCAA
2236393 TGTATCGATACATATTT-TGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
2236446 TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
2236500 TGTATCGATACATATTTGTGTATATCGATAC
1 TGTATCGATACATATTTGTGTGTATCGATAC
2236531 TATGCAATCT
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 17 0.21
54 65 0.79
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (54 bp):
TGTATCGATACATATTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:2236636 original size:21 final size:21
Alignment explanation
Indices: 2236610--2236650 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2236600 GTCAACCTTG
2236610 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2236631 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2236651 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2237093 original size:13 final size:13
Alignment explanation
Indices: 2237075--2237099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2237065 CATAAAATGT
2237075 TGTATCGATACAA
1 TGTATCGATACAA
2237088 TGTATCGATACA
1 TGTATCGATACA
2237100 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2237097 original size:33 final size:33
Alignment explanation
Indices: 2237055--2237124 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2237045 TTCAACGATT
2237055 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2237088 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2237121 TGTA
1 TGTA
2237125 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2237182 original size:13 final size:13
Alignment explanation
Indices: 2237164--2237188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2237154 ATTACTCACA
2237164 TGTATCGATACAT
1 TGTATCGATACAT
2237177 TGTATCGATACA
1 TGTATCGATACA
2237189 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2237252 original size:51 final size:52
Alignment explanation
Indices: 2237197--2237316 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
2237187 CACTGATCTT
*
2237197 TGTATCGATACATGCAGGCAAA-TTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2237248 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2237300 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2237317 TAACTTTTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 21 0.33
52 43 0.67
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2241146 original size:21 final size:21
Alignment explanation
Indices: 2241106--2241147 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2241096 CATTAGGTTG
**
2241106 GATGAAAAAATGCATTTTTTA
1 GATGAAAAAATGCAACTTTTA
*
2241127 GATGAAAAAATGTAACTTTTA
1 GATGAAAAAATGCAACTTTTA
2241148 ATAACTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (21 bp):
GATGAAAAAATGCAACTTTTA
Found at i:2242388 original size:19 final size:19
Alignment explanation
Indices: 2242364--2242401 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2242354 CAGCATTAAC
2242364 ATAATAAATAGGTGAAAGT
1 ATAATAAATAGGTGAAAGT
2242383 ATAATAAATAGGTGAAAGT
1 ATAATAAATAGGTGAAAGT
2242402 GTCATGGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (19 bp):
ATAATAAATAGGTGAAAGT
Found at i:2244489 original size:21 final size:20
Alignment explanation
Indices: 2244463--2244517 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
2244453 ATATCTTTGA
2244463 ATGAAATAATGCATTATTTAG
1 ATGAAA-AATGCATTATTTAG
*
2244484 ATGAAAAAGTGCATTTTTTAG
1 ATGAAAAA-TGCATTATTTAG
2244505 ATGAAAAAATGCA
1 ATG-AAAAATGCA
2244518 ACTTTTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.06
21 24 0.77
22 5 0.16
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGAAAAATGCATTATTTAG
Found at i:2244523 original size:21 final size:21
Alignment explanation
Indices: 2244479--2244524 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2244469 TAATGCATTA
* **
2244479 TTTAGATGAAAAAGTGCATTT
1 TTTAGATGAAAAAATGCAACT
2244500 TTTAGATGAAAAAATGCAACT
1 TTTAGATGAAAAAATGCAACT
2244521 TTTA
1 TTTA
2244525 ATAACCAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (21 bp):
TTTAGATGAAAAAATGCAACT
Found at i:2247468 original size:19 final size:18
Alignment explanation
Indices: 2247385--2247468 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 18
2247375 TTCCTAAAAA
2247385 ATTTAAAATTTTAATTAAT
1 ATTTAAAATTTTAATT-AT
*
2247404 ATTTAATTAAATTTTAA-GAT
1 ATTT-A--AAATTTTAATTAT
*
2247424 -TTTAATTAATGTTTAATTAC
1 ATTTAA--AAT-TTTAATTAT
2247444 ACTTTAAAATTTTAATTTAT
1 A-TTTAAAATTTTAA-TTAT
2247464 ATTTA
1 ATTTA
2247469 TTTACATGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
16 1 0.02
18 4 0.08
19 21 0.41
20 11 0.22
22 14 0.27
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTAAAATTTTAATTAT
Found at i:2247474 original size:30 final size:30
Alignment explanation
Indices: 2247386--2247474 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 30
2247376 TCCTAAAAAA
* *
2247386 TTTAAAATTTTAATTAATATTTAATTAAAT
1 TTTAAAATTTTAATTAATATTTAATTACAC
* *
2247416 TTTAAGATTTTAATTAATGTTTAATTACAC
1 TTTAAAATTTTAATTAATATTTAATTACAC
* *
2247446 TTTAAAATTTTAATTTATATTTATTTACA
1 TTTAAAATTTTAATTAATATTTAATTACA
2247475 TGTTAAATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTAAAATTTTAATTAATATTTAATTACAC
Found at i:2247682 original size:20 final size:21
Alignment explanation
Indices: 2247651--2247693 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
2247641 CTTAGCTTAA
*
2247651 TAATGCTTTTTATTATAAAAT
1 TAATGCTTTTTATAATAAAAT
*
2247672 TAATG-TTTTTATAATATAAT
1 TAATGCTTTTTATAATAAAAT
2247692 TA
1 TA
2247694 TATATGTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
TAATGCTTTTTATAATAAAAT
Found at i:2251683 original size:2 final size:2
Alignment explanation
Indices: 2251676--2251714 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2251666 TTTTTGGTAT
2251676 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2251715 TCATCAATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2254126 original size:2 final size:2
Alignment explanation
Indices: 2254119--2254157 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2254109 TTAATCACTA
2254119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2254158 CTTACTAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2257791 original size:20 final size:20
Alignment explanation
Indices: 2257766--2257818 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
2257756 GTTACATGCT
2257766 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
2257786 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
2257806 ATGTATCGATACA
1 ATGTATCGATACA
2257819 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:2257893 original size:19 final size:19
Alignment explanation
Indices: 2257848--2257904 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2257838 CTGCCAATTT
**
2257848 CATGTATCGATACAATTTGGC
1 CATGTATCGATACAA--TGAA
2257869 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2257888 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2257905 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2257907 original size:13 final size:13
Alignment explanation
Indices: 2257889--2257915 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2257879 TACAATGAAC
2257889 ATGTATCGATACA
1 ATGTATCGATACA
2257902 ATGTATCGATACA
1 ATGTATCGATACA
2257915 A
1 A
2257916 AGCAGCATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2257930 original size:33 final size:32
Alignment explanation
Indices: 2257870--2257934 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2257860 CAATTTGGCC
*
2257870 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
2257902 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
2257935 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:2262263 original size:13 final size:13
Alignment explanation
Indices: 2262245--2262269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2262235 ACACAAAGTA
2262245 TGTATCGATACAT
1 TGTATCGATACAT
2262258 TGTATCGATACA
1 TGTATCGATACA
2262270 CCATAAAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2262266 original size:32 final size:33
Alignment explanation
Indices: 2262225--2262292 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2262215 GTAGCCAAAC
*
2262225 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
2262257 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
2262290 TTG
1 TTG
2262293 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:2263727 original size:13 final size:13
Alignment explanation
Indices: 2263709--2263734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2263699 CAATTTTTTG
2263709 TGTATCGATACAT
1 TGTATCGATACAT
2263722 TGTATCGATACAT
1 TGTATCGATACAT
2263735 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2265739 original size:13 final size:13
Alignment explanation
Indices: 2265721--2265745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2265711 ACTGAAGCAA
2265721 TGTATCGATACAT
1 TGTATCGATACAT
2265734 TGTATCGATACA
1 TGTATCGATACA
2265746 ATCTGGAAAA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.