Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 96 of 250
Found at i:31198084 original size:22 final size:22
Alignment explanation
Indices: 31198033--31198074 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
31198023 GACTCAACGC
*
31198033 CGTAAACAGGACAGCACATAGT
1 CGTAAACAGGACAACACATAGT
31198055 CGTAAACAGGACAACACATA
1 CGTAAACAGGACAACACATA
31198075 TATGTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (22 bp):
CGTAAACAGGACAACACATAGT
Found at i:31198550 original size:41 final size:41
Alignment explanation
Indices: 31198493--31198574 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
31198483 TAAAAGCCAC
*
31198493 CGGTGGATCCACGGTCGTCAAGTAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
31198534 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
31198575 TTCTTCCTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
Found at i:31198879 original size:54 final size:53
Alignment explanation
Indices: 31198821--31199017 Score: 177
Period size: 54 Copynumber: 3.7 Consensus size: 53
31198811 ACAAGGGTGG
* *
31198821 TTTGGTAAATCTACAAACCAAGGGTATTTAGATAATTTTCTAAATTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTATTTAG-TAATTTTCTAAATTAGGGGTAT
* *** * * *
31198875 TTTGGTAATTTTAGAAATTGATGGTATTTTAGTAATTTTAC-AAATCATGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTA-TTTAGTAATTTT-CTAAATTAGGGGTAT
* * *
31198929 TTCGGTAATTTTACAAACC-AGGGTATTTTGGTGATTTTTCT-AATT-GAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTA-TTTAGT-AATTTTCTAAATTAG-GGGTAT
** *
31198982 TTTGGTAATTTTGTAAACCAAGGGTATTCAGTAATT
1 TTTGGTAATTTTACAAACCAAGGGTATTTAGTAATT
31199018 ATACCCTACA
Statistics
Matches: 113, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
52 3 0.03
53 41 0.36
54 63 0.56
55 6 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (53 bp):
TTTGGTAATTTTACAAACCAAGGGTATTTAGTAATTTTCTAAATTAGGGGTAT
Found at i:31198892 original size:27 final size:27
Alignment explanation
Indices: 31198842--31198993 Score: 132
Period size: 27 Copynumber: 5.7 Consensus size: 27
31198832 TACAAACCAA
* *
31198842 GGGTATTTAGATAATTTT-CTAAATTAG
1 GGGTATTTTGGTAATTTTAC-AAATTAG
*
31198869 GGGTATTTTGGTAATTTTAGAAATT-G
1 GGGTATTTTGGTAATTTTACAAATTAG
* * * *
31198895 ATGGTATTTTAGTAATTTTACAAATCAT
1 -GGGTATTTTGGTAATTTTACAAATTAG
* **
31198923 GGGTATTTCGGTAATTTTACAAACCA-
1 GGGTATTTTGGTAATTTTACAAATTAG
* * *
31198949 GGGTATTTTGGTGATTTTTCTAATT-G
1 GGGTATTTTGGTAATTTTACAAATTAG
31198975 AGGGTATTTTGGTAATTTT
1 -GGGTATTTTGGTAATTTT
31198994 GTAAACCAAG
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
26 20 0.20
27 81 0.80
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTAG
Found at i:31199005 original size:27 final size:27
Alignment explanation
Indices: 31198812--31199009 Score: 130
Period size: 27 Copynumber: 7.4 Consensus size: 27
31198802 TTTCATCCTA
** * * * *
31198812 CAAGGGTGGTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
31198839 CAAGGGTATTTAGATAATTTTCTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
31198866 TAGGGGTATTTTGGTAATTTTAGAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
31198893 TGATGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
31198920 CATGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
31198946 CCAGGGTATTTTGGTGATTTT-TCTAAT
1 CAAGGGTATTTTGGTAATTTTAT-AAAT
** * *
31198973 TGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
31199000 CAAGGGTATT
1 CAAGGGTATT
31199010 CAGTAATTAT
Statistics
Matches: 129, Mismatches: 39, Indels: 6
0.74 0.22 0.03
Matches are distributed among these distances:
26 19 0.15
27 109 0.84
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:31199007 original size:80 final size:81
Alignment explanation
Indices: 31198832--31199017 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 81
31198822 TTGGTAAATC
* * ** * *
31198832 TACAAACCAAGGGTATTTAGATAATTTTCTAAATTAGGGGTATTTTGGTAATTTTAGAAATTGAT
1 TACAAACCAAGGGTATTTCGGTAATTTTCTAAACCAGGGGTATTTTGGTAATTTTACAAATTGAG
31198897 GGTATTTTAGTAATTT
66 GGTATTTTAGTAATTT
* * * * *
31198913 TACAAATCATGGGTATTTCGGTAATTTTAC-AAACCA-GGGTATTTTGGTGATTTTTCTAATTGA
1 TACAAACCAAGGGTATTTCGGTAATTTT-CTAAACCAGGGGTATTTTGGTAATTTTACAAATTGA
*
31198976 GGGTATTTTGGTAATTT
65 GGGTATTTTAGTAATTT
** *
31198993 TGTAAACCAAGGGTA-TTCAGTAATT
1 TACAAACCAAGGGTATTTCGGTAATT
31199018 ATACCCTACA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
79 9 0.10
80 49 0.56
81 28 0.32
82 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
TACAAACCAAGGGTATTTCGGTAATTTTCTAAACCAGGGGTATTTTGGTAATTTTACAAATTGAG
GGTATTTTAGTAATTT
Found at i:31203188 original size:30 final size:30
Alignment explanation
Indices: 31203152--31203211 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31203142 TTCCCGAGCC
*
31203152 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
31203182 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
31203212 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:31210709 original size:30 final size:31
Alignment explanation
Indices: 31210673--31210732 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
31210663 TTCCCGAGCC
*
31210673 TAGGGGCAAAAGTGTAATTATG-CAAAGTTT
1 TAGGGGCAAAAATGTAATTATGCCAAAGTTT
*
31210703 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCCAAAGTT
31210733 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAATTATGCCAAAGTTT
Found at i:31215354 original size:46 final size:45
Alignment explanation
Indices: 31215304--31215478 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
31215294 ATGGTTGGCA
31215304 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
31215350 TCCGAACTCGTTGAGTTGAGT-CGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
31215396 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
31215442 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31215479 GGGTTACATG
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 8 0.07
46 85 0.78
47 8 0.07
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:31215457 original size:92 final size:93
Alignment explanation
Indices: 31215300--31215470 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
31215290 TAGGATGGTT
* *
31215300 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31215365 TTGAGT-CGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
31215392 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31215457 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
31215471 ACTTATGGGG
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:31218396 original size:15 final size:15
Alignment explanation
Indices: 31218376--31218438 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
31218366 CGTATCTTGG
31218376 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
31218391 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
31218406 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
31218421 TTT-TTTATTC-GG-
1 TTTCTTTATTCTGGA
31218433 TTTCTT
1 TTTCTT
31218439 GTTATCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.07
13 4 0.09
14 5 0.12
15 31 0.72
ACGTcount: A:0.11, C:0.14, G:0.13, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:31222695 original size:5 final size:5
Alignment explanation
Indices: 31222685--31222709 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31222675 AGGTGCTCAT
31222685 GGGCC GGGCC GGGCC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGGCC GGGCC
31222710 CAAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:31222900 original size:16 final size:16
Alignment explanation
Indices: 31222862--31222902 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
31222852 ATTTTTAAAC
* *
31222862 TTAAAACTAATTGTTA
1 TTAAAATTAATTATTA
31222878 TTAAAATTAATTATTA
1 TTAAAATTAATTATTA
31222894 TTAAAATTA
1 TTAAAATTA
31222903 TATAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TTAAAATTAATTATTA
Found at i:31224459 original size:18 final size:20
Alignment explanation
Indices: 31224431--31224468 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
31224421 GCATTCACAT
31224431 CTTTCCTCTCTTCT-TTCCA
1 CTTTCCTCTCTTCTGTTCCA
31224450 CTTT-CTCTCTTCTGTTCCA
1 CTTTCCTCTCTTCTGTTCCA
31224469 TTCCAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.05, C:0.39, G:0.03, T:0.53
Consensus pattern (20 bp):
CTTTCCTCTCTTCTGTTCCA
Found at i:31226099 original size:28 final size:28
Alignment explanation
Indices: 31226013--31226101 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
31226003 CTATTCAGTA
*
31226013 ACAGTAA-AGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
**
31226040 ACAACAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
31226068 ACAGTAACAATGTGGGACTTAGCCCTAA-
1 ACAGTAACAATGTGGGCCTTAGCCC-AAT
31226096 ACAGTA
1 ACAGTA
31226102 TCAGTACCGT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
27 5 0.09
28 47 0.87
29 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:31226264 original size:25 final size:25
Alignment explanation
Indices: 31226210--31226288 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
31226200 AACACACCAA
* *
31226210 TATCACAACAAAGCTG-CAGTAATAA
1 TATCAC-ACAAAGCTGCCAGTAACAG
*
31226235 AATCACACAAAGCTGCCAGTAACAG
1 TATCACACAAAGCTGCCAGTAACAG
* *
31226260 TATCACAGGAAAGTTGCCAGTAACAG
1 TATCACA-CAAAGCTGCCAGTAACAG
31226286 TAT
1 TAT
31226289 ACTTCCTCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 9 0.20
25 18 0.39
26 19 0.41
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (25 bp):
TATCACACAAAGCTGCCAGTAACAG
Found at i:31226441 original size:27 final size:27
Alignment explanation
Indices: 31226411--31226953 Score: 326
Period size: 27 Copynumber: 20.3 Consensus size: 27
31226401 GGTACAATAG
*
31226411 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
* *
31226438 TCATTTTACCCTATTAGGGTAATTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
31226465 TCATTTTACCCT-TCGAGGGTATTTCGA
1 TCATTTTACCCTAT-GAGGGTATTTCGA
* * *
31226492 TTATTTGACCCT-TTAGGGTATTTC-A
1 TCATTTTACCCTATGAGGGTATTTCGA
*
31226517 GTCATTTTACCCTATGGGGGTATTTC-A
1 -TCATTTTACCCTATGAGGGTATTTCGA
*
31226544 GTCATTTCT-CCCTACGAGGGTATTTC-A
1 -TCATTT-TACCCTATGAGGGTATTTCGA
* * * * *
31226571 GTTATTTCACACTTTG-GGGATATTTCGG
1 -TCATTTTACCCTATGAGGG-TATTTCGA
* * *
31226599 TTATTTTACCC-ATCGAGGGTATTTTGG
1 TCATTTTACCCTAT-GAGGGTATTTCGA
* * *
31226626 T-AATTTACCCT-TCAAGGGCATTTC-A
1 TCATTTTACCCTAT-GAGGGTATTTCGA
* * *
31226651 GTCATTTTACCCCAT-AGGGGTGTTTCGG
1 -TCATTTTACCCTATGA-GGGTATTTCGA
* *
31226679 TCATTTTACCC-ATTGAGGATATATT-GG
1 TCATTTTACCCTA-TGAGGGTAT-TTCGA
* *
31226706 TCTTTTTACCCT-TCGAGGGCATTTCTG-
1 TCATTTTACCCTAT-GAGGGTATTTC-GA
*
31226733 TCATTTTACCCT-TCGAGGGTATTTCAA
1 TCATTTTACCCTAT-GAGGGTATTTCGA
*
31226760 TCATTTT-CCCT-TCGAGGGTATTTCGG
1 TCATTTTACCCTAT-GAGGGTATTTCGA
* * *
31226786 TCATTTTACCCTTTGGGGGTA-TTCTGG
1 TCATTTTACCCTATGAGGGTATTTC-GA
* * *
31226813 TCATTTTACCC-ATCGAAGATATTTTTG-
1 TCATTTTACCCTAT-GAGGGTA-TTTCGA
* * *
31226840 TCA-TTTACCCTTTGAGGGCATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
* * * *
31226866 TTATTTTACCCTCTGAGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCGA
31226893 TCATTTTACCCTAT-AGGGGTATTTCGA
1 TCATTTTACCCTATGA-GGGTATTTCGA
* * *
31226920 TCATTTTACCCGT-CGAGGGTATTTTGG
1 TCATTTTACCC-TATGAGGGTATTTCGA
31226947 TCATTTT
1 TCATTTT
31226954 CCCACAAATC
Statistics
Matches: 415, Mismatches: 66, Indels: 70
0.75 0.12 0.13
Matches are distributed among these distances:
25 5 0.01
26 91 0.22
27 304 0.73
28 13 0.03
29 2 0.00
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:31226527 original size:80 final size:80
Alignment explanation
Indices: 31226409--31226953 Score: 416
Period size: 80 Copynumber: 6.8 Consensus size: 80
31226399 AGGGTACAAT
** * * *
31226409 AGTCATTTTACCCTATGGGGGTATTTC-GATCATTTTACCCTATTAGGGTAATTCGATCATTTTA
1 AGTCATTTTACCCT-TTAGGGTATTTCAG-TCATTTTACCCTATGAGGGTATTTCGGTCATTTTA
31226473 CCCTTCGAGGGTATTTC
64 CCCTTCGAGGGTATTTC
* * * *
31226490 -GATTATTTGACCCTTTAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTCT-
1 AG-TCATTTTACCCTTTAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTT-TA
*
31226553 CCCTACGAGGGTATTTC
64 CCCTTCGAGGGTATTTC
* * * * * * * *
31226570 AGTTATTTCACACTTTGGGGATATTTCGGTTATTTTACCC-ATCGAGGGTATTTTGGT-AATTTA
1 AGTCATTTTACCCTTTAGGG-TATTTCAGTCATTTTACCCTAT-GAGGGTATTTCGGTCATTTTA
* *
31226633 CCCTTCAAGGGCATTTC
64 CCCTTCGAGGGTATTTC
** * * * *
31226650 AGTCATTTTACCCCATAGGGGTGTTTCGGTCATTTTACCC-ATTGAGGATATATT-GGTCTTTTT
1 AGTCATTTTACCCTTTA-GGGTATTTCAGTCATTTTACCCTA-TGAGGGTAT-TTCGGTCATTTT
*
31226713 ACCCTTCGAGGGCATTTC
63 ACCCTTCGAGGGTATTTC
* * *
31226731 TGTCATTTTACCCTTCGAGGGTATTTCAATCATTTT-CCCT-TCGAGGGTATTTCGGTCATTTTA
1 AGTCATTTTACCCTT-TAGGGTATTTCAGTCATTTTACCCTAT-GAGGGTATTTCGGTCATTTTA
* *
31226794 CCCTTTGGGGGTA-TTC
64 CCCTTCGAGGGTATTTC
* ** * * ** * * *
31226810 TGGTCATTTTACCCATCGAAGATATTTTTGTCA-TTTACCCTTTGAGGGCATTTCGGTTATTTTA
1 -AGTCATTTTACCC-TTTAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTA
*
31226874 CCC-TCTGAGGGTATTTT
64 CCCTTC-GAGGGTATTTC
* * * *
31226891 GGTCATTTTACCCTATAGGGGTATTTC-GATCATTTTACCCGT-CGAGGGTATTTTGGTCATTTT
1 AGTCATTTTACCCTTTA-GGGTATTTCAG-TCATTTTACCC-TATGAGGGTATTTCGGTCATTTT
31226954 CCCACAAATC
Statistics
Matches: 372, Mismatches: 67, Indels: 50
0.76 0.14 0.10
Matches are distributed among these distances:
79 14 0.04
80 234 0.63
81 122 0.33
82 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (80 bp):
AGTCATTTTACCCTTTAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
CTTCGAGGGTATTTC
Found at i:31226595 original size:107 final size:107
Alignment explanation
Indices: 31226409--31226953 Score: 436
Period size: 107 Copynumber: 5.1 Consensus size: 107
31226399 AGGGTACAAT
* ** * *
31226409 AGTCATTTTACCCTAT-GGGGGTATTTC-GATCATTTTACCCTATTAGGGTAATTCGATCATTTT
1 AGTCATTTTACCCT-TCGAGGGTATTTCAG-TCATTTTACCCTACGAGGGTATTTCGGTCATTTT
* * * *
31226472 ACCCTTCGAGGG-TATTTCGATTATTTGACCCTTTAGGGTATTTC
64 ACCCTTTG-GGGATATTTCGGTTATTTTACCCTTGAGGGTATTTC
* * * *
31226516 AGTCATTTTACCCTAT-GGGGGTATTTCAGTCATTTCT-CCCTACGAGGGTATTTCAGTTATTTC
1 AGTCATTTTACCCT-TCGAGGGTATTTCAGTCATTT-TACCCTACGAGGGTATTTCGGTCATTTT
* * *
31226579 ACACTTTGGGGATATTTCGGTTATTTTACCCATCGAGGGTATTTT
64 ACCCTTTGGGGATATTTCGGTTATTTTACCC-TTGAGGGTATTTC
* * * * *
31226624 GGT-AATTTACCCTTCAAGGGCATTTCAGTCATTTTACCCCATA-G-GGGTGTTTCGGTCATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTA-CCC-TACGAGGGTATTTCGGTCATTTT
* * *
31226686 ACCCATTGAGGATATATT-GGTCT-TTTTACCCTTCGAGGGCATTTC
64 ACCCTTTGGGGATAT-TTCGGT-TATTTTACCCTT-GAGGGTATTTC
* * *
31226731 TGTCATTTTACCCTTCGAGGGTATTTCAATCATTTT-CCCTTCGAGGGTATTTCGGTCATTTTAC
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTAC
* * * * * *
31226795 CCTTTGGGGGTA-TTCTGGTCATTTTACCCATCGAAGATATTTT
66 CCTTTGGGGATATTTC-GGTTATTTTACCC-TTGAGGGTATTTC
* * * * * *
31226838 TGTCA-TTTACCCTTTGAGGGCATTTCGGTTATTTTACCCT-CTGAGGGTATTTTGGTCATTTTA
1 AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTAC-GAGGGTATTTCGGTCATTTTA
* * * * *
31226901 CCCTATAGGGG-TATTTCGATCATTTTACCCGTCGAGGGTATTTT
65 CCCT-TTGGGGATATTTCGGTTATTTTACCC-TTGAGGGTATTTC
*
31226945 GGTCATTTT
1 AGTCATTTT
31226954 CCCACAAATC
Statistics
Matches: 358, Mismatches: 57, Indels: 45
0.78 0.12 0.10
Matches are distributed among these distances:
105 3 0.01
106 36 0.10
107 256 0.72
108 61 0.17
109 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (107 bp):
AGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTACGAGGGTATTTCGGTCATTTTAC
CCTTTGGGGATATTTCGGTTATTTTACCCTTGAGGGTATTTC
Found at i:31227889 original size:56 final size:56
Alignment explanation
Indices: 31227824--31227943 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
31227814 ACAAGGGATG
31227824 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
31227880 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
31227936 ACGGGCAA
1 ATGGGCAA
31227944 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:31229171 original size:39 final size:40
Alignment explanation
Indices: 31229075--31229292 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
31229065 AATGATGTCC
* * * *
31229075 GGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
31229114 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
31229154 GGCTAAG-CCCGAAGGCA-TTGGGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
31229192 GGTTAAGTCCCGAAGGCATTAGTGCGAGTTACTAAAT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
31229231 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
31229271 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
31229293 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 24 0.15
39 60 0.39
40 64 0.41
41 7 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:31229205 original size:78 final size:79
Alignment explanation
Indices: 31229075--31229292 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 79
31229065 AATGATGTCC
* * * * * *
31229075 GGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGGGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGT
*
31229137 GCGAGATACTAATTCCG
64 GCGAGATACTAAAT-CG
* *
31229154 GGCTAAG-CCCGAAGGCA-TTGGGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTAGTG
1 GGCTAAGTCCCGAAGGCATTTGGGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTG
*
31229216 CGAGTTACTAAATCG
65 CGAGATACTAAATCG
* * *
31229231 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGGGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
31229293 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
77 10 0.09
78 49 0.42
79 56 0.48
80 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGGGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGATACTAAATCG
Found at i:31229299 original size:79 final size:77
Alignment explanation
Indices: 31229109--31229325 Score: 233
Period size: 79 Copynumber: 2.8 Consensus size: 77
31229099 AAGTGACCAT
* * *
31229109 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAAT-CGGGTTAAGTCCCGAAGGCAT
31229172 TGGGCGAGTTACTAA
63 TGGGCGAGTTACTAA
* *
31229187 ATCCGGGTTAAGTCCCGAAGGCATTAGTGCGAGTTACTAAATCGGGTTAAGTCCCGAAGGCATTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCGGGTTAAGTCCCGAAGGCA-TT
*
31229252 GTGCGAGTTACTATA
64 GGGCGAGTTACTA-A
* ** * * * *
31229267 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCGGGTTAAGTCCCGAAGG
31229326 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
77 9 0.08
78 47 0.40
79 60 0.51
80 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (77 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCGGGTTAAGTCCCGAAGGCATTGG
GCGAGTTACTAA
Found at i:31234139 original size:16 final size:16
Alignment explanation
Indices: 31234099--31234166 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
31234089 GGTTCACTGG
31234099 AATGGAATA-AGGCTGT
1 AATGGAATAGA-GCTGT
** *
31234115 AATAAAATAGAGTTGT
1 AATGGAATAGAGCTGT
*
31234131 AATGGAATAAAGCTGT
1 AATGGAATAGAGCTGT
*
31234147 AGTGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
31234163 AATG
1 AATG
31234167 AGTAATTCAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 40 0.98
17 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:31234140 original size:32 final size:32
Alignment explanation
Indices: 31234099--31234166 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
31234089 GGTTCACTGG
* *
31234099 AATGGAATAAGGCTGTAATAAAATAGAGTTGT
1 AATGGAATAAAGCTGTAATAAAATAGAGCTGT
* **
31234131 AATGGAATAAAGCTGTAGTGGAATAGAGCTGT
1 AATGGAATAAAGCTGTAATAAAATAGAGCTGT
31234163 AATG
1 AATG
31234167 AGTAATTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.04, G:0.28, T:0.26
Consensus pattern (32 bp):
AATGGAATAAAGCTGTAATAAAATAGAGCTGT
Found at i:31234203 original size:46 final size:44
Alignment explanation
Indices: 31234144--31234235 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 44
31234134 GGAATAAAGC
* * *
31234144 TGTAGTGGAATAGAGCTGTAATGAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAACTATAAT-AGT-ATT-AATGTGTTTGGTTGAA
*
31234190 TGTAATGGAATAGAACTATAATAGTATTATTGTGTTTGGTTGAA
1 TGTAATGGAATAGAACTATAATAGTATTAATGTGTTTGGTTGAA
31234234 TG
1 TG
31234236 GAATAGATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 17 0.41
45 3 0.07
46 19 0.46
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.39
Consensus pattern (44 bp):
TGTAATGGAATAGAACTATAATAGTATTAATGTGTTTGGTTGAA
Found at i:31240033 original size:47 final size:46
Alignment explanation
Indices: 31239939--31240210 Score: 156
Period size: 47 Copynumber: 5.7 Consensus size: 46
31239929 GATTTCTTGT
***
31239939 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTAGAGATGA
* *
31239987 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTAGA-GATGA
** * * * ** *
31240034 CAGCCAATGTAAGACGTGTTTGGGACATGCATCG-GTTA-AGA-GTC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTAGAGATG-A
** * * * * *
31240078 GTGTTAGTGTAAGACATGTCCGGGACATGCATCAGCACATATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACCTAGAGATGA
* * * * *
31240126 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTTGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTAGA-GATGA
** *
31240175 -TAGCTTGTGTGAGATCATGTCTGGGACATGGCATCG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
31240211 GCAACTTATC
Statistics
Matches: 171, Mismatches: 42, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
43 1 0.01
44 27 0.16
45 2 0.01
46 10 0.06
47 48 0.28
48 30 0.18
49 48 0.28
50 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTAGAGATGA
Found at i:31242583 original size:56 final size:55
Alignment explanation
Indices: 31242513--31242639 Score: 175
Period size: 56 Copynumber: 2.3 Consensus size: 55
31242503 ACCTGGAAAC
*
31242513 ATATGTGATCCCGATATATATGTGCGAGTAAGACCACATTTTATACATT-GCCATCG
1 ATATGTGAT-CCGATATATATGTGCGAGTAAGACCACATTTTATACATTGGCAAT-G
* * *
31242569 ATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCAATG
1 ATATGTGA-TCCGATATATATGTGCGAGTAAGACCACATTTTATACATTGGCAATG
31242625 ATATGTGATTCCGAT
1 ATATGTGA-TCCGAT
31242640 GTGTTTACGA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
56 59 0.92
57 5 0.08
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (55 bp):
ATATGTGATCCGATATATATGTGCGAGTAAGACCACATTTTATACATTGGCAATG
Found at i:31257183 original size:25 final size:25
Alignment explanation
Indices: 31257135--31257183 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
31257125 AAATTGAAGA
*
31257135 TATTGTAGATAGTATATTCTGAAAC
1 TATTGTAGATAGTATATGCTGAAAC
*
31257160 TATTGTAGGTAGTATACTGC-GAAA
1 TATTGTAGATAGTATA-TGCTGAAA
31257184 ACACTCTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (25 bp):
TATTGTAGATAGTATATGCTGAAAC
Found at i:31261338 original size:37 final size:37
Alignment explanation
Indices: 31261269--31261420 Score: 232
Period size: 37 Copynumber: 4.1 Consensus size: 37
31261259 GCCTTTAGCT
* * * *
31261269 CGGACGAAATCTCCACACGAAGTTATCTGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
31261306 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
31261343 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
31261380 CGGACATACTCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
31261417 CGGA
1 CGGA
31261421 ATATATTTCC
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:31261635 original size:47 final size:47
Alignment explanation
Indices: 31261583--31261862 Score: 402
Period size: 47 Copynumber: 6.0 Consensus size: 47
31261573 TTTCACACTA
* * ** * *
31261583 GCCATTCGGCTTTACCACATATATGCATATTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
31261630 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
31261677 GCCATTCGGCCTTATCACATATATGCATGCTCAAATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
31261724 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
31261771 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
31261818 GCCATTCGGGCTTATCACATATATACGCAT--TCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATAT--GCATGCTCACATTCATCACAT
31261863 AAAATCCTAA
Statistics
Matches: 211, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
47 207 0.98
49 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:31261782 original size:141 final size:140
Alignment explanation
Indices: 31261583--31261862 Score: 472
Period size: 141 Copynumber: 2.0 Consensus size: 140
31261573 TTTCACACTA
* *
31261583 GCCATTCGGCTTTACCACATATATGCATATTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTACCACATATATACATATTCATATTCACCACATTGGCCATTCGGCCTTATCAC
31261648 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT-GCATGCTCAAA
66 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAGCAT--TCAAA
31261712 TTCATCACATTG
129 TTCATCACATTG
* *
31261724 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTACCACATATATACATATTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* *
31261789 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGGCTTATCACATATATACGCATTCACAT
66 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA-GCATTCAAAT
31261854 TCATCACAT
130 TCATCACAT
31261863 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
141 127 0.97
143 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (140 bp):
GCCATTCGGCCTTACCACATATATACATATTCATATTCACCACATTGGCCATTCGGCCTTATCAC
ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAGCATTCAAATT
CATCACATTG
Found at i:31261894 original size:141 final size:137
Alignment explanation
Indices: 31261601--31261892 Score: 387
Period size: 141 Copynumber: 2.1 Consensus size: 137
31261591 GCTTTACCAC
* *
31261601 ATATATGCATATTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACAT
1 ATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACAT
** *
31261666 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCAAATTCATCACATTGGCCATTC
66 TCATCACATTGGCCATTCGGCCTTATCACATATATGCAT-CTCAAATTCATCACATT-GAAAAT-
* *
31261731 GGCCTTATCAC
128 -GCCTAATCAA
31261742 ATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACAT
1 ATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACAT
* *
31261807 TCATCACATTGGCCATTCGGGCTTATCACATATATACGCAT-TCACATTCATCACA-T-AAAAT-
66 TCATCACATTGGCCATTCGGCCTTATCACATATAT--GCATCTCAAATTCATCACATTGAAAATG
31261868 CCTAAATCAA
129 CCT-AATCAA
* *
31261878 A-ATATAAATTTTCAT
1 ATATATACATGTTCAT
31261893 GTATTCACAT
Statistics
Matches: 137, Mismatches: 11, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
135 15 0.11
136 5 0.04
138 2 0.01
140 1 0.01
141 110 0.80
143 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (137 bp):
ATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACAT
TCATCACATTGGCCATTCGGCCTTATCACATATATGCATCTCAAATTCATCACATTGAAAATGCC
TAATCAA
Found at i:31268546 original size:21 final size:21
Alignment explanation
Indices: 31268495--31268546 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
31268485 AGTCTGCAGC
**
31268495 ACGGGCGTGTCCTATGGTCAA
1 ACGGGCGTGTCCTATGACCAA
* *
31268516 ACTGGTGTGTCCCT-TGACCAA
1 ACGGGCGTGT-CCTATGACCAA
31268537 ACGGGCGTGT
1 ACGGGCGTGT
31268547 AAACCCTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (21 bp):
ACGGGCGTGTCCTATGACCAA
Found at i:31273059 original size:29 final size:28
Alignment explanation
Indices: 31273000--31273089 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 28
31272990 CACATACCTA
* *
31273000 TATATGGCCCACTAGGCCCAATCAAATT
1 TATATGGCCCATTAGGCCCAATCACATT
* *
31273028 TATATGGACCATTATGCCCGAATCACATT
1 TATATGGCCCATTAGGCCC-AATCACATT
*
31273057 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAA-TCACATT
31273086 TATA
1 TATA
31273090 GTCATGCTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 18 0.34
29 35 0.66
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATCACATT
Found at i:31286914 original size:4 final size:4
Alignment explanation
Indices: 31286905--31286931 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
31286895 TGTAATAATG
31286905 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
31286932 GATGACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:31290404 original size:32 final size:29
Alignment explanation
Indices: 31290307--31290410 Score: 100
Period size: 31 Copynumber: 3.4 Consensus size: 29
31290297 GATTGAATCA
* * * *
31290307 AAATTAATATTTCATATATACATTTAAATC
1 AAATTAAAATTT-ATATATAAAATTATATC
*
31290337 ACAATCAAAATTTTATATATAAAATTATATC
1 A-AATTAAAA-TTTATATATAAAATTATATC
*
31290368 AAATTAAAATTTATATATCAAAATTATATATT
1 AAATTAAAATTTATATAT-AAAA-T-TATATC
31290400 AAATTAAAATT
1 AAATTAAAATT
31290411 AATGTACAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
29 9 0.15
30 12 0.19
31 22 0.35
32 19 0.31
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATTAAAATTTATATATAAAATTATATC
Found at i:31296795 original size:12 final size:12
Alignment explanation
Indices: 31296766--31296800 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
31296756 TATACTTCGT
*
31296766 AATATTTTTTTA
1 AATATTTTTATA
31296778 AA-ATTTTTATA
1 AATATTTTTATA
31296789 AATATTTTTATA
1 AATATTTTTATA
31296801 TTTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AATATTTTTATA
Found at i:31296932 original size:121 final size:123
Alignment explanation
Indices: 31296780--31297001 Score: 385
Period size: 121 Copynumber: 1.8 Consensus size: 123
31296770 TTTTTTTAAA
31296780 ATTTTTATAAATATTTTTATATTTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATA
1 ATTTTTATAAATATTTTTATATTTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATA
*
31296845 CCATATCAGCATAAATTGTATATGGAATGTTGCATATAATACAAGTATACTTTGTGAT
66 CCATATCAGCATAAATTGTACATGGAATGTTGCATATAATACAAGTATACTTTGTGAT
* *
31296903 ATTTTTTTAAA-ATTTTTATA-TTTTTTAATTTATTTTTTGGTGTGACATATAATATAAATAATA
1 ATTTTTATAAATATTTTTATATTTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATA
* *
31296966 TCATATCAGTATAAATTGTACATGGAATGTTGCATA
66 CCATATCAGCATAAATTGTACATGGAATGTTGCATA
31297002 AGTTGTGGGC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
121 75 0.80
122 9 0.10
123 10 0.11
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (123 bp):
ATTTTTATAAATATTTTTATATTTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATA
CCATATCAGCATAAATTGTACATGGAATGTTGCATATAATACAAGTATACTTTGTGAT
Found at i:31298867 original size:87 final size:86
Alignment explanation
Indices: 31298733--31298984 Score: 407
Period size: 87 Copynumber: 2.9 Consensus size: 86
31298723 GTTTATTGGA
* * *
31298733 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAG
31298798 GCTTTTAGCGGCGTTTGTGGG
66 GCTTTTAGCGGCGTTTGTGGG
*
31298819 AAAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAA
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAA
*
31298884 GGCTTTTTAGCGGCGTTTGTGGT
65 GGC-TTTTAGCGGCGTTTGTGGG
* *
31298907 AAAAGTGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGCGT-AAAGCGCCGCTAAACGTCAA
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GTAAAAGCGCCGCTAAACGTCAA
31298971 GGCTTTTAGCGGCG
65 GGCTTTTAGCGGCG
31298985 CTTTTTTTAC
Statistics
Matches: 155, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
86 33 0.21
87 80 0.52
88 42 0.27
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAG
GCTTTTAGCGGCGTTTGTGGG
Found at i:31299007 original size:43 final size:43
Alignment explanation
Indices: 31298733--31298984 Score: 398
Period size: 43 Copynumber: 5.8 Consensus size: 43
31298723 GTTTATTGGA
* * *
31298733 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGT
* *
31298776 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGT
31298819 AAAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGT
31298863 AAAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGT
* * *
31298907 AAAAGTGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTTGCGT
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTG-GT
31298951 -AAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
31298985 CTTTTTTTAC
Statistics
Matches: 199, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
43 113 0.57
44 86 0.43
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGT
Found at i:31299094 original size:31 final size:31
Alignment explanation
Indices: 31299059--31299139 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
31299049 CTTCCTGCAT
* *
31299059 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
31299090 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
31299121 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
31299140 TATTAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:31299409 original size:21 final size:21
Alignment explanation
Indices: 31299385--31299430 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
31299375 GCTCGTGCCT
*
31299385 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
31299406 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
31299427 CTGC
1 CTGC
31299431 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:31305534 original size:37 final size:37
Alignment explanation
Indices: 31305484--31305562 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31305474 TTATTACGAA
* * *
31305484 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31305521 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31305558 GTCTT
1 GTCTT
31305563 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31305754 original size:47 final size:47
Alignment explanation
Indices: 31305680--31305899 Score: 406
Period size: 47 Copynumber: 4.7 Consensus size: 47
31305670 GCCCTTCGGG
31305680 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
31305728 ACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
31305774 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
31305821 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
31305868 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
31305900 ATACTATCAT
Statistics
Matches: 170, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
46 46 0.27
47 120 0.71
48 4 0.02
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:31305844 original size:93 final size:94
Alignment explanation
Indices: 31305680--31305899 Score: 415
Period size: 93 Copynumber: 2.3 Consensus size: 94
31305670 GCCCTTCGGG
31305680 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCAC
31305745 ATCGGCCATTAGGCC-TATCACATATATAC
65 ATCGGCCATTAGGCCTTATCACATATATAC
*
31305774 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
31305839 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
31305868 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
31305900 ATACTATCAT
Statistics
Matches: 124, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
93 74 0.60
94 50 0.40
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATAC
Found at i:31309448 original size:40 final size:40
Alignment explanation
Indices: 31309418--31309834 Score: 429
Period size: 40 Copynumber: 10.4 Consensus size: 40
31309408 AGCATGATTA
* * *
31309418 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* ** *
31309458 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
31309498 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
31309538 CTCCTCGGGACTTAGCCCGAATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
31309578 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
31309618 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * * *
31309658 CTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATG
* * * * *
31309699 C-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATG
* *
31309739 C-CTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATG
1 CTCTTCGGGACTTAGCCCGGATA-TA-TCA-CTAGCACGAATG
* * *
31309778 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAATG
31309818 C-CTTCGGGACTTAGCCC
1 CTCTTCGGGACTTAGCCC
31309835 AGACATCATT
Statistics
Matches: 322, Mismatches: 45, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
38 3 0.01
39 30 0.09
40 267 0.83
41 22 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:31310651 original size:37 final size:37
Alignment explanation
Indices: 31310601--31310679 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31310591 TTATTACGAA
* * *
31310601 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31310638 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31310675 GTCTT
1 GTCTT
31310680 CAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31310954 original size:47 final size:47
Alignment explanation
Indices: 31310796--31311065 Score: 472
Period size: 47 Copynumber: 5.7 Consensus size: 47
31310786 GCCCTTCGGG
*
31310796 ACTTATCACATTCATC-CATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
31310845 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
31310893 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
31310940 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
31310987 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
31311034 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
31311066 ATACTATCAT
Statistics
Matches: 219, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
47 134 0.61
48 59 0.27
49 26 0.12
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:31314446 original size:27 final size:27
Alignment explanation
Indices: 31314407--31314624 Score: 204
Period size: 27 Copynumber: 7.9 Consensus size: 27
31314397 AATTATATAT
*
31314407 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
31314434 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * * *
31314466 TATTATGTAATTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
31314494 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
31314521 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
31314548 TTATATATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
31314575 TTATATAAGTTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
31314602 TTTTGTAAGTTTTATAAATTATG
1 TTATGTAAGTTATATAAGTTATG
31314625 ATATCAAATA
Statistics
Matches: 161, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 21 0.13
27 100 0.62
28 4 0.02
29 5 0.03
30 7 0.04
31 6 0.04
32 8 0.05
33 4 0.02
34 6 0.04
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:31314464 original size:114 final size:114
Alignment explanation
Indices: 31314330--31314551 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
31314320 ACTAGTTATG
* * * *
31314330 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
31314394 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* * *
31314444 TATGATATAAAATATATTTAAGTATTATGTAATTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
31314509 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
31314552 ATATGTTATA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 72 0.77
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:31314612 original size:18 final size:18
Alignment explanation
Indices: 31314354--31314599 Score: 192
Period size: 18 Copynumber: 13.4 Consensus size: 18
31314344 TATTTAAGTA
* *
31314354 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
31314372 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
31314390 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
31314407 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
31314425 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
31314443 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
* *
31314466 TATTATGTAATTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
31314486 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
31314503 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
31314521 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
31314539 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* *
31314557 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
*
31314575 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
31314593 TTATGTA
1 TTATGTA
31314600 CGTTTTGTAA
Statistics
Matches: 188, Mismatches: 30, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
17 38 0.20
18 117 0.62
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.03
25 5 0.03
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:31314614 original size:9 final size:9
Alignment explanation
Indices: 31314354--31314612 Score: 173
Period size: 9 Copynumber: 28.2 Consensus size: 9
31314344 TATTTAAGTA
31314354 TTATGTAAG
1 TTATGTAAG
*
31314363 TTATGTAAT
1 TTATGTAAG
*
31314372 TTATGATATG
1 TTATG-TAAG
* * *
31314382 ATATAT-AT
1 TTATGTAAG
*
31314390 TTATGTAAA
1 TTATGTAAG
* *
31314399 TTATAT-AT
1 TTATGTAAG
*
31314407 TTATCTAAG
1 TTATGTAAG
*
31314416 TTATATAAG
1 TTATGTAAG
31314425 TTATGTAAG
1 TTATGTAAG
*
31314434 TTATGTAAA
1 TTATGTAAG
*
31314443 TTATGATATAAAA
1 TTATG---T-AAG
*
31314456 TATATTTAAG
1 T-TATGTAAG
*
31314466 TATTATGTAAT
1 --TTATGTAAG
31314477 TTATGTAAG
1 TTATGTAAG
* *
31314486 TTATAT-AT
1 TTATGTAAG
*
31314494 TTATCTAAG
1 TTATGTAAG
*
31314503 TTATATAAG
1 TTATGTAAG
*
31314512 TTATATAAG
1 TTATGTAAG
*
31314521 TTATGTATG
1 TTATGTAAG
*
31314530 TTATATAAG
1 TTATGTAAG
31314539 TTATGTAAG
1 TTATGTAAG
* *
31314548 TTATATATG
1 TTATGTAAG
*
31314557 TTATATAAG
1 TTATGTAAG
31314566 TTATGTAAG
1 TTATGTAAG
*
31314575 TTATATAAG
1 TTATGTAAG
*
31314584 TTATATAAG
1 TTATGTAAG
*
31314593 TTATGTACG
1 TTATGTAAG
*
31314602 TTTTGTAAG
1 TTATGTAAG
31314611 TT
1 TT
31314613 TTATAAATTA
Statistics
Matches: 198, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
8 16 0.08
9 159 0.80
10 7 0.04
11 7 0.04
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:31314749 original size:15 final size:15
Alignment explanation
Indices: 31314729--31314784 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
31314719 AAGTACCGGG
31314729 ATTAAATAATATTTA
1 ATTAAATAATATTTA
31314744 ATTAAATAATATTT-
1 ATTAAATAATATTTA
31314758 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
31314773 ATTAAGTAATAT
1 ATTAAATAATAT
31314785 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:31318849 original size:40 final size:39
Alignment explanation
Indices: 31318763--31318971 Score: 246
Period size: 39 Copynumber: 5.3 Consensus size: 39
31318753 TCTTCGGAAT
* *
31318763 TTAG-CCGGATATAACCACAAGCACAAATGCC-TCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
31318801 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
31318841 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
31318881 TTA-CCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
31318920 TT-GCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
31318959 TTAGCCCGGATAT
1 TTAGCCCGGATAT
31318972 CATTCAAATG
Statistics
Matches: 145, Mismatches: 18, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
38 9 0.06
39 79 0.54
40 53 0.37
41 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:31318888 original size:79 final size:80
Alignment explanation
Indices: 31318763--31318971 Score: 327
Period size: 79 Copynumber: 2.7 Consensus size: 80
31318753 TCTTCGGAAT
* * * * *
31318763 TTAG-CCGGATATAACCACAAGCACAAATGCC-TCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
31318826 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
31318841 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTA-CCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
31318905 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
31318920 TT-GCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
31318972 CATTCAAATG
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
78 43 0.36
79 67 0.56
80 10 0.08
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:31328432 original size:39 final size:40
Alignment explanation
Indices: 31328336--31328563 Score: 315
Period size: 39 Copynumber: 5.8 Consensus size: 40
31328326 ATAACCACAA
31328336 GCACAAATGCC-TCGGGTCTTAGCCC-GATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31328374 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
31328414 GCACAAATGCCTTC-GGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
31328453 GCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
31328492 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
31328532 GCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
31328564 CATTCAAATG
Statistics
Matches: 168, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
38 14 0.08
39 76 0.45
40 75 0.45
41 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:31328511 original size:79 final size:80
Alignment explanation
Indices: 31328336--31328563 Score: 358
Period size: 79 Copynumber: 2.9 Consensus size: 80
31328326 ATAACCACAA
* * *
31328336 GCACAAATGCC-TCGGGTCTTAGCCC-GAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAGC
*
31328398 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
*
31328414 GCACAAATGCCTTC-GGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
31328478 CGG-TATAGCAACTC
66 CGGATATAGCAACTC
*
31328492 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
31328557 CGGATAT
66 CGGATAT
31328564 CATTCAAATG
Statistics
Matches: 138, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
78 46 0.33
79 85 0.62
80 7 0.05
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:31332163 original size:10 final size:11
Alignment explanation
Indices: 31332142--31332192 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
31332132 ACTAAACCAC
31332142 TTTTCATATATA
1 TTTT-ATATATA
31332154 TATTTATATATA
1 T-TTTATATATA
*
31332166 TTTTAAAATAATA
1 TTTT-ATAT-ATA
31332179 TTTTATATATA
1 TTTTATATATA
31332190 TTT
1 TTT
31332193 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:31332201 original size:15 final size:15
Alignment explanation
Indices: 31332181--31332212 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31332171 AAATAATATT
*
31332181 TTATATATATTTATC
1 TTATATACATTTATC
31332196 TTATATACATTTATC
1 TTATATACATTTATC
31332211 TT
1 TT
31332213 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:31333269 original size:41 final size:41
Alignment explanation
Indices: 31333223--31333523 Score: 421
Period size: 41 Copynumber: 7.4 Consensus size: 41
31333213 GTTATGAGAT
* *
31333223 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*** *
31333264 TTTTAGCGGCGTTTTACTTCACGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* *
31333305 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
31333346 TTTTAGCGGTGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
31333387 TTTTAGCGGTGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
31333428 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* **
31333468 TTTTAGCGGCGTTTTTTACTA-AAA-CGCCGCTATTGCTCT-AT
1 TTTTAGCGGCG--TTTTAC-AGAAAGCGCCGCTAATGCTCTGGC
31333509 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
31333524 TTTAGAACGC
Statistics
Matches: 240, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 4 0.02
40 12 0.05
41 214 0.89
42 9 0.04
43 1 0.00
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
Found at i:31333884 original size:21 final size:22
Alignment explanation
Indices: 31333832--31333886 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
31333822 AAAAAAAGTT
* **
31333832 TAAAAATAAAAAAATGTAAATA
1 TAAATATAAAAAAATCAAAATA
*
31333854 TAAATTTAAAAAAATCAAAATA
1 TAAATATAAAAAAATCAAAATA
*
31333876 T-TATATAAAAA
1 TAAATATAAAAA
31333887 TTGAAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATATAAAAAAATCAAAATA
Found at i:31336373 original size:39 final size:39
Alignment explanation
Indices: 31336330--31336407 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
31336320 AATTAATCTT
*
31336330 TATTACTTAGTATATAAGGAAATTAAAAGTGGATGGAGA
1 TATTACTTAATATATAAGGAAATTAAAAGTGGATGGAGA
*
31336369 TATTACTTAATATATAAGGAAATTGAAAGTGGATGGAGA
1 TATTACTTAATATATAAGGAAATTAAAAGTGGATGGAGA
31336408 GATAATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.31
Consensus pattern (39 bp):
TATTACTTAATATATAAGGAAATTAAAAGTGGATGGAGA
Found at i:31338868 original size:35 final size:35
Alignment explanation
Indices: 31338812--31338886 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
31338802 ATAAATGTTT
* *
31338812 TACTGGCTCTACGAAGTGACACCATGGAAATCATC
1 TACTGGCTCTACGAAGCGACACCATGAAAATCATC
* * **
31338847 TACTGGCTCTATGAAGCGACACTATGAAAATGGTC
1 TACTGGCTCTACGAAGCGACACCATGAAAATCATC
31338882 TACTG
1 TACTG
31338887 ACTCAGTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (35 bp):
TACTGGCTCTACGAAGCGACACCATGAAAATCATC
Found at i:31339328 original size:28 final size:28
Alignment explanation
Indices: 31339296--31339370 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
31339286 GAAAAGGGAA
*
31339296 GTCCACTAAGGACTATCTTAGGTGAAAT
1 GTCCACTAAGGACTATCTTAGATGAAAT
* * *
31339324 GTCCACCAAGGACTATCTTATATGGAAT
1 GTCCACTAAGGACTATCTTAGATGAAAT
31339352 GTCCACTAAGGACTATCTT
1 GTCCACTAAGGACTATCTT
31339371 GACAACTGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (28 bp):
GTCCACTAAGGACTATCTTAGATGAAAT
Found at i:31339395 original size:30 final size:27
Alignment explanation
Indices: 31339292--31339397 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 27
31339282 ACTAGAAAAG
**
31339292 GGAA-GTCCACTAAGGACTATCTTAGGT
1 GGAATGTCCAC-AAGGACTATCTTAAAT
* *
31339319 GAAATGTCCACCAAGGACTATCTTATAT
1 GGAATGTCCA-CAAGGACTATCTTAAAT
31339347 GGAATGTCCACTAAGGACTATCTTGACAACT
1 GGAATGTCCAC-AAGGACTATCTT-A-AA-T
* *
31339378 GGAATGTTCTCAAGGACTAT
1 GGAATGTCCACAAGGACTAT
31339398 TTGTTTTGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.06
28 40 0.61
29 2 0.03
30 10 0.15
31 10 0.15
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (27 bp):
GGAATGTCCACAAGGACTATCTTAAAT
Found at i:31351185 original size:28 final size:27
Alignment explanation
Indices: 31351153--31351210 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
31351143 ATAAAAGTAT
31351153 TTTTACTATATTCAAAGTACAATATAAA
1 TTTTA-TATATTCAAAGTACAATATAAA
* * *
31351181 TTTTATATTTTTAAAGTACAGTATAAA
1 TTTTATATATTCAAAGTACAATATAAA
31351208 TTT
1 TTT
31351211 ACTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (27 bp):
TTTTATATATTCAAAGTACAATATAAA
Found at i:31353096 original size:168 final size:168
Alignment explanation
Indices: 31352817--31353119 Score: 464
Period size: 168 Copynumber: 1.8 Consensus size: 168
31352807 ATATTTATAA
* * *
31352817 AAAATTTAATATTTAATTAAATTGTAAAATATGTTTATTTTCCTTTGGTTTTGACACATAAATTA
1 AAAATTTAATATTTAATTAAATTATAAAATATATTTATTTTCCTTTGGTTGTGACACATAAATTA
*
31352882 AGAATAAATAAATAAATTTATATATTATAAAATAAATTACCAATATATTGATATTATC-TTATAT
66 AGAATAAATAAATAAATTTATACATTATAAAATAAATTACCAATATATTGATATTATCTTTATAT
31352946 ATATAATATTAATATCACACATTTAATTTTTGTTAATT
131 ATATAATATTAATATCACACATTTAATTTTTGTTAATT
* * * * *
31352984 AAAATTTGATGTTTAATTTAATTATAAAATATATTTATTTTCTTTTGAGTTGTGACATATAAATT
1 AAAATTTAATATTTAATTAAATTATAAAATATATTTATTTTCCTTTG-GTTGTGACACATAAATT
* * * * *
31353049 AAGAATAAATAAGTAAATTTATACATTATAGATTAGATTATCAATATATTGATATTATCTTTATA
65 AAGAATAAATAAATAAATTTATACATTATAAAATAAATTACCAATATATTGATATTATCTTTATA
31353114 TATATA
130 TATATA
31353120 CACATTTTTA
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
167 41 0.34
168 68 0.57
169 11 0.09
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (168 bp):
AAAATTTAATATTTAATTAAATTATAAAATATATTTATTTTCCTTTGGTTGTGACACATAAATTA
AGAATAAATAAATAAATTTATACATTATAAAATAAATTACCAATATATTGATATTATCTTTATAT
ATATAATATTAATATCACACATTTAATTTTTGTTAATT
Found at i:31354625 original size:42 final size:42
Alignment explanation
Indices: 31354549--31354628 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
31354539 AACTATGGGG
* *
31354549 ACTTCTACCTATACATCCTGTGCGATATATCGATACAATTCC
1 ACTTCTACCTATACATCCTGTGAGATATACCGATACAATTCC
* * *
31354591 ACTTCTACCTATACATCTTGTGAGTTGTACCGATACAA
1 ACTTCTACCTATACATCCTGTGAGATATACCGATACAA
31354629 GTCTATATGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (42 bp):
ACTTCTACCTATACATCCTGTGAGATATACCGATACAATTCC
Found at i:31357224 original size:34 final size:34
Alignment explanation
Indices: 31357186--31357254 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 34
31357176 ACATTAATTG
31357186 AATACATAGCCTATA-CTCAAACATGCTATTTGTC
1 AATACATAGCCTATATC-CAAACATGCTATTTGTC
*
31357220 AATACATAGCTTATATCCAAACATGCTATTTGTC
1 AATACATAGCCTATATCCAAACATGCTATTTGTC
31357254 A
1 A
31357255 CAAGTATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (34 bp):
AATACATAGCCTATATCCAAACATGCTATTTGTC
Found at i:31357226 original size:17 final size:16
Alignment explanation
Indices: 31357202--31357254 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
31357192 TAGCCTATAC
31357202 TCAAACATGCTATTTG
1 TCAAACATGCTATTTG
*
31357218 TCAATACATAGCTTATAT-
1 TCAA-ACAT-GC-TATTTG
*
31357236 CCAAACATGCTATTTG
1 TCAAACATGCTATTTG
31357252 TCA
1 TCA
31357255 CAAGTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 4 0.14
16 8 0.28
17 8 0.28
18 5 0.17
19 4 0.14
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (16 bp):
TCAAACATGCTATTTG
Found at i:31357457 original size:12 final size:11
Alignment explanation
Indices: 31357440--31357540 Score: 51
Period size: 11 Copynumber: 8.9 Consensus size: 11
31357430 AATAAACGAG
31357440 AAAAATGAAAAT
1 AAAAAT-AAAAT
*
31357452 AAAAATAAAAG
1 AAAAATAAAAT
***
31357463 AAGTTTAAAATT
1 AAAAATAAAA-T
*
31357475 AAAAACTAAATT
1 AAAAA-TAAAAT
*
31357487 AAAATTAAAAT
1 AAAAATAAAAT
* *
31357498 TAAAATAAAGT
1 AAAAATAAAAT
* * *
31357509 AAAAAGAGATT
1 AAAAATAAAAT
*
31357520 GTAAAATAAAAT
1 -AAAAATAAAAT
31357532 -AAAATAAAA
1 AAAAATAAAA
31357541 CCACAATGTA
Statistics
Matches: 64, Mismatches: 22, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
10 9 0.14
11 31 0.48
12 20 0.31
13 4 0.06
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:31357484 original size:24 final size:23
Alignment explanation
Indices: 31357441--31357506 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
31357431 ATAAACGAGA
*
31357441 AAAATGAAAA-TAAAAATAAAAG
1 AAAATTAAAATTAAAAATAAAAG
** **
31357463 AAGTTTAAAATTAAAAACTAAATT
1 AAAATTAAAATTAAAAA-TAAAAG
31357487 AAAATTAAAATT-AAAATAAA
1 AAAATTAAAATTAAAAATAAA
31357507 GTAAAAAGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 11 0.31
23 10 0.29
24 14 0.40
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.24
Consensus pattern (23 bp):
AAAATTAAAATTAAAAATAAAAG
Found at i:31357550 original size:28 final size:29
Alignment explanation
Indices: 31357492--31357551 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
31357482 AAATTAAAAT
* * * *
31357492 TAAAATTAAAATAAAGTAAAAAGAGATTG
1 TAAAATTAAAATAAAATAAAAACACAATG
*
31357521 TAAAA-TAAAATAAAATAAAACCACAATG
1 TAAAATTAAAATAAAATAAAAACACAATG
31357549 TAA
1 TAA
31357552 CAAAGCTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (29 bp):
TAAAATTAAAATAAAATAAAAACACAATG
Found at i:31358444 original size:21 final size:20
Alignment explanation
Indices: 31358420--31358458 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31358410 GAATATTTTG
31358420 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATA-ATTATGA
*
31358441 ATGTTTGATGATAATTAT
1 ATGTTTAATGATAATTAT
31358459 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAATTATGA
Found at i:31361738 original size:40 final size:40
Alignment explanation
Indices: 31361693--31361912 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
31361683 TATTCGAATG
* *
31361693 ATATCCGGGCTAAGTCCCGAAGGCTTTTATTCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * *
31361733 ATATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACT
* * *
31361773 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
31361813 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * * * **
31361853 ATATCCGGGCTAAGACGCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
31361892 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
31361913 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 12 0.08
39 16 0.11
40 119 0.79
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:31369824 original size:40 final size:40
Alignment explanation
Indices: 31369764--31369947 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
31369754 TATTCGAATG
*
31369764 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
31369804 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
31369844 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
31369884 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
31369924 ATATCCGGGCTAAGA-CGCGAAGGC
1 ATATCCGGGCTAAGATC-CGAAGGC
31369948 CTTGTGTGAG
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 2 0.02
40 121 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:31394086 original size:42 final size:42
Alignment explanation
Indices: 31394025--31394232 Score: 292
Period size: 42 Copynumber: 5.0 Consensus size: 42
31394015 GAAAATATTT
*
31394025 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGTGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * *
31394067 GGGATAGCCTCGACTATGCATTGGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
*
31394109 GGGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT-
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * * * *
31394150 AAGATAGCTTCGGCTATGCATTGGCATTTAATGTGCGTGATT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * *
31394192 GAGTTAGCTTCGGCTACGTATTGGCACTTAGTGTGCGAGAT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
31394233 TCCCAAGTAA
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 36 0.24
42 111 0.76
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (42 bp):
GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
Found at i:31394215 original size:83 final size:84
Alignment explanation
Indices: 31394023--31394232 Score: 296
Period size: 83 Copynumber: 2.5 Consensus size: 84
31394013 ACGAAAATAT
* **
31394023 TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGTGAGATCGGGATAGCCTCGACTATGCAT
1 TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATCAAGATAGCCTCGACTATGCAT
*
31394088 TGGCACTTAGTGTGCGAGA
66 TGGCACTTAATGTGCGAGA
* * * *
31394107 TCGGGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT-AAGATAGCTTCGGCTATGCAT
1 TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATCAAGATAGCCTCGACTATGCAT
* *
31394171 TGGCATTTAATGTGCGTGA
66 TGGCACTTAATGTGCGAGA
* * *
31394190 TTGAGTTAGCTTCGGCTACGTATTGGCACTTAGTGTGCGAGAT
1 TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
31394233 TCCCAAGTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 71 0.64
84 40 0.36
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (84 bp):
TTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATCAAGATAGCCTCGACTATGCAT
TGGCACTTAATGTGCGAGA
Found at i:31394335 original size:32 final size:32
Alignment explanation
Indices: 31394298--31394361 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
31394288 TGAGTATGAG
* *
31394298 ATTGGTACAAGATGGTACATGTATGTATGAAA
1 ATTGGTACAAGATGGTACAAGTATGTACGAAA
*
31394330 ATTGGTACGAGATGGTACAAGTATGTACGAAA
1 ATTGGTACAAGATGGTACAAGTATGTACGAAA
31394362 CTTCAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.28
Consensus pattern (32 bp):
ATTGGTACAAGATGGTACAAGTATGTACGAAA
Found at i:31396421 original size:37 final size:37
Alignment explanation
Indices: 31396371--31396493 Score: 151
Period size: 37 Copynumber: 3.4 Consensus size: 37
31396361 CATGTTAGTA
* *
31396371 CGTGTAAGACCATAACTGGGCTATGGCATCGTAATAG
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
* * * *
31396408 CGTGTAAGACCATAGTTAGGTTATGGCATCTTGAT-G
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
* *
31396444 ACATGTAAGACCATAGCTGGGCTATGGCATTGTGATA-
1 -CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
31396481 CGTGTAAGACCAT
1 CGTGTAAGACCAT
31396494 GTCTAGGACA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
36 13 0.18
37 58 0.82
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (37 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
Found at i:31396583 original size:42 final size:42
Alignment explanation
Indices: 31396481--31396678 Score: 170
Period size: 42 Copynumber: 4.7 Consensus size: 42
31396471 CATTGTGATA
* * * * *
31396481 CGTGTAAGACCATGTCTAGGACATGGAATCAATATGAGA-TC
1 CGTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
* * * *
31396522 CTGTGTAAGACTATATCTGGGATATGGCTTCGGTATGAGATTT
1 C-GTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
* ***
31396565 CGTGTAAGACCGTGTCTGGGATGCAGCATCGATATGTA-ATTT
1 CGTGTAAGACCATGTCTGGGATATGGCATCGATATG-AGATTT
* * * * *
31396607 CGTATAAGACCATGCCTGGGACATGGCATCGATGTGAGACTT
1 CGTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
31396649 CGTGTAAGACCATAGT-T-GGACTATGGCATC
1 CGTGTAAGACCAT-GTCTGGGA-TATGGCATC
31396679 AAGTAAACGA
Statistics
Matches: 122, Mismatches: 29, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
41 5 0.04
42 113 0.93
43 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
Found at i:31400862 original size:42 final size:42
Alignment explanation
Indices: 31400794--31401002 Score: 319
Period size: 42 Copynumber: 5.0 Consensus size: 42
31400784 GGAAATATTT
*
31400794 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGTGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * *
31400836 GGGATATCCTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
*
31400878 GGGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* *
31400920 AAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGTGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * * *
31400962 GAGTTAGCTTCGGCTACGTATTGGTACTTAGTGTGCGAGAT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
31401003 TCCCGAGTAA
Statistics
Matches: 152, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 152 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (42 bp):
GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
Found at i:31401105 original size:32 final size:32
Alignment explanation
Indices: 31401068--31401134 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
31401058 TGAGTATGAG
* *
31401068 ATTGGTACAATATGGTACAGGTATGTATGAAA
1 ATTGGTACAAGATGGTACAAGTATGTATGAAA
* *
31401100 ATTGGTACGAGATGGTACAAGTATGTATGGAA
1 ATTGGTACAAGATGGTACAAGTATGTATGAAA
31401132 ATT
1 ATT
31401135 CAATTGAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (32 bp):
ATTGGTACAAGATGGTACAAGTATGTATGAAA
Found at i:31403879 original size:12 final size:12
Alignment explanation
Indices: 31403862--31403891 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31403852 CCATACACGC
31403862 CCGTGTGCTAGG
1 CCGTGTGCTAGG
31403874 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
31403886 CTGTGT
1 CCGTGT
31403892 CAAACCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:31405690 original size:21 final size:20
Alignment explanation
Indices: 31405666--31405706 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
31405656 ACTTGTATAA
31405666 CTATCATCAAA-CATTCAAAAT
1 CTATCAT-AAATCA-TCAAAAT
31405687 CTATCATAAATCATCAAAAT
1 CTATCATAAATCATCAAAAT
31405707 ACATGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
CTATCATAAATCATCAAAAT
Found at i:31408658 original size:21 final size:21
Alignment explanation
Indices: 31408632--31408689 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
31408622 TTTCCAATAC
31408632 CAAATCATAGTCGAATCATT-T
1 CAAATCAT-GTCGAATCATTGT
*
31408653 CAAATCACTGTCTAATCATTGT
1 CAAATCA-TGTCGAATCATTGT
31408675 -AGAATCATGGTCGAA
1 CA-AATCAT-GTCGAA
31408690 CAAGTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (21 bp):
CAAATCATGTCGAATCATTGT
Found at i:31409480 original size:17 final size:18
Alignment explanation
Indices: 31409446--31409480 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31409436 CATAATGCGG
31409446 GCCCATGTGGCTCCACAT
1 GCCCATGTGGCTCCACAT
*
31409464 GCCCGTGTGGC-CCACAT
1 GCCCATGTGGCTCCACAT
31409481 AGCCTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.40, G:0.26, T:0.20
Consensus pattern (18 bp):
GCCCATGTGGCTCCACAT
Found at i:31416835 original size:9 final size:9
Alignment explanation
Indices: 31416815--31416845 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
31416805 AAAATATCAT
31416815 ATTAATTTTA
1 ATTAA-TTTA
31416825 ATTAATTTA
1 ATTAATTTA
31416834 ATTAATTTA
1 ATTAATTTA
31416843 ATT
1 ATT
31416846 TTACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:31418684 original size:46 final size:46
Alignment explanation
Indices: 31418612--31418730 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
31418602 TTTGGGCATT
* * * *
31418612 CGAACTCGTTAAGTTGAGTTCGAGTTCACTTATGGATGCGAACATC
1 CGAACTCATTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACATC
* *
31418658 CGAACTCATTGAGTGGAGTCTGAGTTCACTTATGGATGCGAACGTC
1 CGAACTCATTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACATC
* * *
31418704 TGAACTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCATTGAGTGGAGTCCGAGTTC
31418731 GTGAAATGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
CGAACTCATTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACATC
Found at i:31418805 original size:93 final size:92
Alignment explanation
Indices: 31418654--31418824 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 92
31418644 TGGATGCGAA
** ** *
31418654 CATCCGAACTCATTGAGTGGAGTCTGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTT
1 CATCCGAACTCATTGAGTGGAGTCCAAGTTCACTTATGGATGCGAACCCCTG-ACTCGTTAAGTT
*
31418719 GAGTCCGAGTTCGTGAAATGTAACTAGG
65 CAGTCCGAGTTCGTGAAATGTAACTAGG
* * *
31418747 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGCTGCGAACACCCATG-CTCGTTAAGT
1 CATCCGAACTCATTGAGTGGAGTCCAAGTTCACTTATGGATGCGAAC-CCC-TGACTCGTTAAGT
31418811 TCAGTCCGAGTTCG
64 TCAGTCCGAGTTCG
31418825 CTTATGGGCG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 64 0.96
94 1 0.01
95 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (92 bp):
CATCCGAACTCATTGAGTGGAGTCCAAGTTCACTTATGGATGCGAACCCCTGACTCGTTAAGTTC
AGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:31422983 original size:39 final size:40
Alignment explanation
Indices: 31422871--31423051 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
31422861 TACTCATTCA
* *
31422871 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACC
* *
31422911 AATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* *
31422951 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * * * *
31422990 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACC
*
31423030 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
31423052 AACATCATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 76 0.63
41 9 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:31423013 original size:79 final size:80
Alignment explanation
Indices: 31422871--31423051 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
31422861 TACTCATTCA
* * *
31422871 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGAT
* *
31422936 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* * **
31422951 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTTGCACCAATGCC-TTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCGG
* *
31423013 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
31423030 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
31423052 AACATCATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 6 0.07
79 54 0.64
80 25 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:31427153 original size:46 final size:46
Alignment explanation
Indices: 31427077--31427200 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
31427067 AGATATTTGG
* * *
31427077 GCATCCGAAC-TGATTGAGTTGTG-CCTGAGTTGACTTATGGATGCGA
1 GCATCCGAACTTG-TTGAGTTGAGTCC-GAGTTCACTTATGGATGCAA
*
31427123 GCATCCGAACTTGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAA
1 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
* * *
31427169 ACGTCCGAACTTGTTGAGTTGAGTCTGAGTTC
1 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTC
31427201 GTGAAATGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 64 0.94
47 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
Found at i:31430515 original size:45 final size:45
Alignment explanation
Indices: 31430445--31430532 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
31430435 AAATATGTGT
*
31430445 CACATACATCATGAACTCATACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCATACCATAACTCAATGAGTTAAGATGC
*
31430490 CACATATATCATGAACTCAGT-CCATAACTCAATGAGTTAAGAT
1 CACATACATCATGAACTCA-TACCATAACTCAATGAGTTAAGAT
31430533 CACATAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 39 0.98
46 1 0.03
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (45 bp):
CACATACATCATGAACTCATACCATAACTCAATGAGTTAAGATGC
Found at i:31433944 original size:3 final size:3
Alignment explanation
Indices: 31433936--31433974 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
31433926 TGTTTATGAA
31433936 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31433975 TAGCATGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:31435555 original size:8 final size:8
Alignment explanation
Indices: 31435542--31435574 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
31435532 CTAGATCGGC
31435542 AAAAGCCG
1 AAAAGCCG
31435550 AAAAGCCG
1 AAAAGCCG
31435558 AAAAGCCG
1 AAAAGCCG
31435566 AAAAGCCG
1 AAAAGCCG
31435574 A
1 A
31435575 CATTTGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:31436227 original size:20 final size:20
Alignment explanation
Indices: 31436184--31436231 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
31436174 GCTATTTTGT
31436184 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
31436204 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
31436223 TAT-GGCCAA
1 TATGGGCCAA
31436232 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:31436298 original size:60 final size:59
Alignment explanation
Indices: 31436222--31436358 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 59
31436212 AACTGTGTTA
* * *
31436222 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTAAGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAAT-GGGCTAAGGCCCAGATTAATACTG
* *
31436282 ATATGGGCTAGGCCCAATATACTCTGATACTGTAATGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAATGGGCTAAGGCCCAGATTAATACTG
31436342 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
31436359 GTTAACACTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.75
61 16 0.24
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAATGGGCTAAGGCCCAGATTAATACTG
Found at i:31436356 original size:28 final size:28
Alignment explanation
Indices: 31436258--31436370 Score: 99
Period size: 28 Copynumber: 3.9 Consensus size: 28
31436248 ACTTGTAATA
*
31436258 GGGCTAAGGCCCAGATTGATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
31436286 GGGCT-AGGCCCA-ATATACTCTGATACTG-TAAT
1 GGGCTAAGGCCCAGAT-TA-----ATACTGAT-AT
* *
31436318 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
*
31436346 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAATACTGAT
31436371 TTCTGAATAG
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
26 2 0.03
27 17 0.25
28 25 0.36
29 1 0.01
31 1 0.01
32 13 0.19
33 8 0.12
34 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:31441763 original size:45 final size:45
Alignment explanation
Indices: 31441699--31441821 Score: 192
Period size: 45 Copynumber: 2.7 Consensus size: 45
31441689 CGCATACATC
* *
31441699 ATGAACTTAGACCATAACTCAATGAGTTCAGATGCCATATATATA
1 ATGAACTCAGACCACAACTCAATGAGTTCAGATGCCATATATATA
* *
31441744 ATGAACTCAAACCACAACTCAATGAGTTCAGATGCCATATATATC
1 ATGAACTCAGACCACAACTCAATGAGTTCAGATGCCATATATATA
* *
31441789 CTGAAATCAGACCACAACTCAATGAGTTCAGAT
1 ATGAACTCAGACCACAACTCAATGAGTTCAGAT
31441822 CACATAGTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (45 bp):
ATGAACTCAGACCACAACTCAATGAGTTCAGATGCCATATATATA
Found at i:31457806 original size:31 final size:30
Alignment explanation
Indices: 31457737--31457808 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
31457727 GTTACTGGGC
* *
31457737 CGAAGCCTTTTCATAAATCATATCATTGGG
1 CGAAGCCTTTTCATAAATCATATCACTAGG
* *
31457767 CCAGAGCCTTTTCATAAATCATTTCACTAGG
1 CGA-AGCCTTTTCATAAATCATATCACTAGG
31457798 CTGAAGCCTTT
1 C-GAAGCCTTT
31457809 ACTGTAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.06
31 32 0.91
32 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (30 bp):
CGAAGCCTTTTCATAAATCATATCACTAGG
Found at i:31457879 original size:42 final size:42
Alignment explanation
Indices: 31457832--31457923 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
31457822 TGGCCTATAG
* ** *
31457832 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31457874 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31457916 GCCCATTT
1 GCCCATTT
31457924 GGAGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:31459012 original size:27 final size:27
Alignment explanation
Indices: 31458918--31459004 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
31458908 TATTCGTCAT
* *
31458918 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
31458945 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
31458972 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
31458999 TTTACC
1 TTTACC
31459005 TAATAGGGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:31459087 original size:27 final size:27
Alignment explanation
Indices: 31459057--31459340 Score: 131
Period size: 27 Copynumber: 10.4 Consensus size: 27
31459047 GTAAATCTAC
*
31459057 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
31459084 AAACAAATGGTATTTCCA-TAATTTTTAG
1 AAACCAAGGGTATTT-CAGTAA-TTTTAT
* * * *
31459112 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
31459140 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
31459167 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
31459194 AAACCAATGATATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
31459221 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
31459248 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ***
31459275 AAATCGAGGGTAAAACAGTAATTCTT-T
1 AAACCAAGGGTATTTCAGTAATT-TTAT
* *** *
31459302 AAATCAAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
31459329 AAATCGAGGGTA
1 AAACCAAGGGTA
31459341 AAACGATAAT
Statistics
Matches: 204, Mismatches: 47, Indels: 12
0.78 0.18 0.05
Matches are distributed among these distances:
26 1 0.00
27 173 0.85
28 18 0.09
29 12 0.06
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:31459208 original size:54 final size:54
Alignment explanation
Indices: 31459150--31459286 Score: 177
Period size: 54 Copynumber: 2.5 Consensus size: 54
31459140 AAATCAGGGG
*
31459150 TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGA
1 TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGA
* * * *
31459204 TATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGGG
1 TATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAGGA
* ** *
31459258 TATTTTAGTAATTTTGTAAATCGAGGGTA
1 TATTTTGGTAATTTTACAAATTGAGGGTA
31459287 AAACAGTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGA
Found at i:31459296 original size:54 final size:54
Alignment explanation
Indices: 31459238--31459459 Score: 175
Period size: 54 Copynumber: 4.1 Consensus size: 54
31459228 GGGTATTTTG
**** * *
31459238 GTAATT-TTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTT-CAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* *
31459292 GTAATTCTTTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC-
1 GTAATTCTTCAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * **
31459345 GATAATTCTGT-AAATCGAGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAATG
1 G-TAATTCT-TCAAACCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACA
* * ** * * * * *
31459400 GTAATTATGT-AAATCGGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCT-TCAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
31459454 GTAATT
1 GTAATT
31459460 ATGTAAATCG
Statistics
Matches: 146, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
53 2 0.01
54 139 0.95
55 5 0.03
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTTCAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:31459341 original size:27 final size:27
Alignment explanation
Indices: 31459264--31459475 Score: 257
Period size: 27 Copynumber: 7.9 Consensus size: 27
31459254 AGGGTATTTT
*
31459264 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
31459291 AGTAATTCTTTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
31459318 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
31459345 -GATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
31459372 -GATAATTCTATAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
31459399 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
31459426 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
31459453 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
31459476 CTTTGGTAAT
Statistics
Matches: 171, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
26 1 0.01
27 169 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:31459502 original size:27 final size:27
Alignment explanation
Indices: 31459481--31459570 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
31459471 GGGTACTTTG
*
31459481 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
31459508 ATAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
31459535 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
31459562 GTAATTTTA
1 GTAATTTTA
31459571 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:31459584 original size:27 final size:27
Alignment explanation
Indices: 31459481--31459585 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
31459471 GGGTACTTTG
* *
31459481 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
31459508 ATAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
31459535 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
31459562 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
31459586 CTAAACAGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
27 53 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:31461876 original size:31 final size:30
Alignment explanation
Indices: 31461799--31461877 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
31461789 TTTAAAGGTT
31461799 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGG-CGAAGCCTTTTCATAAATCATATC
* * * *
31461830 ACTAGGCCAGTGCCTTTTCATAAATCATTTC
1 ACTGGGCGA-AGCCTTTTCATAAATCATATC
31461861 ACTGGGCTGAAGCCTTT
1 ACTGGGC-GAAGCCTTT
31461878 ACTGTAAACG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 2 0.05
31 36 0.92
32 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (30 bp):
ACTGGGCGAAGCCTTTTCATAAATCATATC
Found at i:31461950 original size:42 final size:42
Alignment explanation
Indices: 31461901--31461992 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
31461891 TAGCCTATAG
* * ** *
31461901 GCCCATTTCAATATCCCATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
31461943 GTCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31461985 GCCCATTT
1 GCCCATTT
31461993 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:31462178 original size:26 final size:26
Alignment explanation
Indices: 31462137--31462231 Score: 149
Period size: 26 Copynumber: 3.7 Consensus size: 26
31462127 CCTCTTTAAT
31462137 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
31462162 AACTGGTGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
31462188 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
31462214 AACT-GGGCATAAGCCCTT
1 AACTGGGGCATAAGCCCTT
31462232 CTGCACTTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 23 0.37
26 40 0.63
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:31463093 original size:27 final size:27
Alignment explanation
Indices: 31463056--31463121 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
31463046 AGGGTATTAT
* *
31463056 GGTCACTTTACCCTACAGGGGCTTTAC
1 GGTCTCTTTACCCTACAGAGGCTTTAC
31463083 GGTCTCTTTACCCTACAGAGGCTTTAC
1 GGTCTCTTTACCCTACAGAGGCTTTAC
*
31463110 GGTCTTTTTACC
1 GGTCTCTTTACC
31463122 TAATAGGGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTCTCTTTACCCTACAGAGGCTTTAC
Found at i:31463205 original size:27 final size:27
Alignment explanation
Indices: 31463175--31463458 Score: 140
Period size: 27 Copynumber: 10.4 Consensus size: 27
31463165 GTAAATCTAC
*
31463175 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
31463202 AAACCAATGGTATTTCCA-TAATTTTTAG
1 AAACCAAGGGTATTT-CAGTAA-TTTTAT
* * * *
31463230 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
31463258 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
31463285 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
31463312 AAACCAATGATATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
31463339 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
31463366 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ***
31463393 AAATCGAGGGTAAAACAGTAATTCTT-T
1 AAACCAAGGGTATTTCAGTAATT-TTAT
* *** *
31463420 AAATCAAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
31463447 AAATCGAGGGTA
1 AAACCAAGGGTA
31463459 AAACGATAAT
Statistics
Matches: 206, Mismatches: 45, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.00
27 174 0.84
28 18 0.09
29 13 0.06
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:31463326 original size:54 final size:54
Alignment explanation
Indices: 31463268--31463404 Score: 177
Period size: 54 Copynumber: 2.5 Consensus size: 54
31463258 AAATCAGGGG
*
31463268 TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGA
1 TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGA
* * * *
31463322 TATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGGG
1 TATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAGGA
* ** *
31463376 TATTTTAGTAATTTTGTAAATCGAGGGTA
1 TATTTTGGTAATTTTACAAATTGAGGGTA
31463405 AAACAGTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGA
Found at i:31463414 original size:54 final size:54
Alignment explanation
Indices: 31463356--31463577 Score: 177
Period size: 54 Copynumber: 4.1 Consensus size: 54
31463346 GGGTATTTTG
**** * *
31463356 GTAATT-TTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTT-CAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* *
31463410 GTAATTCTTTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC-
1 GTAATTCTTCAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * **
31463463 GATAATTCTGT-AAATCGAGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAATG
1 G-TAATTCT-TCAAACCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACA
* * ** * *
31463518 GTAATTATGT-AAATCGGGGGTAAAAC-GATAATTATGTAAATCGAGGGTAAAACA
1 GTAATTCT-TCAAACCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACA
*
31463572 ATAATT
1 GTAATT
31463578 ATGTAAATTG
Statistics
Matches: 146, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
53 2 0.01
54 140 0.96
55 4 0.03
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (54 bp):
GTAATTCTTCAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:31463593 original size:27 final size:27
Alignment explanation
Indices: 31463384--31463585 Score: 264
Period size: 27 Copynumber: 7.5 Consensus size: 27
31463374 GGTATTTTAG
*
31463384 TAATTTTGTAAATCGAGGGTAAAAC-A
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
31463410 GTAATTCTTTAAATCAAGGGTAAAAC-A
1 -TAATTCTGTAAATCGAGGGTAAAACGA
*
31463437 GTAATTCTATAAATCGAGGGTAAAACGA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
31463465 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
31463492 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
31463519 TAATTATGTAAATCGGGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
31463546 TAATTATGTAAATCGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
31463573 TAATTATGTAAAT
1 TAATTCTGTAAAT
31463586 TGGGGGTACT
Statistics
Matches: 158, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
27 157 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:31463620 original size:27 final size:27
Alignment explanation
Indices: 31463599--31463688 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
31463589 GGGTACTTTG
*
31463599 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
31463626 GTAATTTTACAAATCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
31463653 GTATTTTTACAAA-CTATGGGTATTTCG
1 GTAATTTTACAAATCGA-AGGTATTTCA
31463680 GTAATTTTA
1 GTAATTTTA
31463689 GTAAACTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.04
27 54 0.96
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:31469894 original size:13 final size:14
Alignment explanation
Indices: 31469860--31469896 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
31469850 CAATGAATAT
31469860 ACCATTATAATTAA
1 ACCATTATAATTAA
*
31469874 ACCATTATGATTAA
1 ACCATTATAATTAA
31469888 A-CATTATAA
1 ACCATTATAA
31469897 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (14 bp):
ACCATTATAATTAA
Done.