Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008152.1 Hibiscus syriacus cultivar Beakdansim tig00110718_pilon, whole genome shotgun sequence
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: 877984
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 5
Found at i:8390 original size:15 final size:15
Alignment explanation
Indices: 8372--8455 Score: 71
Period size: 15 Copynumber: 5.2 Consensus size: 15
8362 AAAAAATAAC
8372 AAATAAAAAGATGAA
1 AAATAAAAAGATGAA
*
8387 AAATGAAAAAAAATGAA
1 AAAT--AAAAAGATGAA
* *
8404 AAAGAAAAAAATGAA
1 AAATAAAAAGATGAA
8419 AAATGAAAAAAGAAATGAAA
1 AAAT--AAAAAG--ATG-AA
8439 AAATAAAAAGA-GAA
1 AAATAAAAAGATGAA
8453 AAA
1 AAA
8456 GGAGGGTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
14 5 0.09
15 19 0.33
16 1 0.02
17 18 0.31
18 6 0.10
19 3 0.05
20 6 0.10
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
AAATAAAAAGATGAA
Found at i:8399 original size:32 final size:33
Alignment explanation
Indices: 8359--8455 Score: 128
Period size: 32 Copynumber: 2.9 Consensus size: 33
8349 TGCTTGAAGA
8359 AAAAAAAAAT-AACAAATAAAAAGATGAAAAATG
1 AAAAAAAAATGAA-AAATAAAAAGATGAAAAATG
* *
8392 -AAAAAAAATGAAAAAGAAAAAAATGAAAAATG
1 AAAAAAAAATGAAAAATAAAAAGATGAAAAATG
8424 AAAAAAGAAATGAAAAAATAAAAAGA-GAAAAA
1 AAAAAA-AAATG-AAAAATAAAAAGATGAAAAA
8456 GGAGGGTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
32 27 0.48
33 7 0.12
34 11 0.20
35 11 0.20
ACGTcount: A:0.78, C:0.01, G:0.11, T:0.09
Consensus pattern (33 bp):
AAAAAAAAATGAAAAATAAAAAGATGAAAAATG
Found at i:8400 original size:25 final size:25
Alignment explanation
Indices: 8355--8421 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
8345 ACTATGCTTG
8355 AAGAAAAAAA--AAATAACAAAT-AAA
1 AAGAAAAAAATGAAA-AA-AAATGAAA
*
8379 AAGATGAAAAATGAAAAAAAATGAAA
1 AAGA-AAAAAATGAAAAAAAATGAAA
8405 AAGAAAAAAATGAAAAA
1 AAGAAAAAAATGAAAAA
8422 TGAAAAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 4 0.11
25 21 0.57
26 9 0.24
27 3 0.08
ACGTcount: A:0.79, C:0.01, G:0.10, T:0.09
Consensus pattern (25 bp):
AAGAAAAAAATGAAAAAAAATGAAA
Found at i:9657 original size:35 final size:35
Alignment explanation
Indices: 9611--9695 Score: 170
Period size: 35 Copynumber: 2.4 Consensus size: 35
9601 TCCAGTGAAG
9611 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
9646 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
1 AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
9681 AGTTCATAATGAGAA
1 AGTTCATAATGAGAA
9696 AAACATGTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (35 bp):
AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
Found at i:9828 original size:105 final size:105
Alignment explanation
Indices: 9642--9876 Score: 445
Period size: 105 Copynumber: 2.2 Consensus size: 105
9632 GTCCTAAAGG
9642 AGAA-AGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
1 AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
9706 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
66 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
9746 AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
1 AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
*
9811 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACGTTTCC
66 TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
*
9851 AAAAGAGTTCATAATGAGAAGAACTC
1 AGAAGAGTTCATAATGAGAAGAACTC
9877 ATCCACGAGA
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
104 4 0.03
105 124 0.97
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (105 bp):
AGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
TTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCC
Found at i:10059 original size:3 final size:3
Alignment explanation
Indices: 10044--10086 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
10034 AAGTTAAAAA
* *
10044 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10087 AGTGTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:11441 original size:14 final size:16
Alignment explanation
Indices: 11417--11449 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11407 TGTTATTTTG
11417 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTATAT
11432 TTTTAA-TATTTATAT
1 TTTTAAGTATTTATAT
11447 TTT
1 TTT
11450 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTATAT
Found at i:11997 original size:2 final size:2
Alignment explanation
Indices: 11990--12018 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11980 TGTTAACGTG
11990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12019 TTTATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12085 original size:47 final size:47
Alignment explanation
Indices: 12011--12222 Score: 334
Period size: 47 Copynumber: 4.4 Consensus size: 47
12001 ATATATATAT
* * **
12011 ATATATATTTTATTTATTTAATGTGTCTTGGAAACTGATTTTTTGTTC
1 ATATATA-TATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTC
12059 ATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTC
1 ATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTC
12106 ATATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTC
1 --ATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTC
*
12155 ATATATATATATTTGTTTAACATGTCTTGGAAACTGATTCTTTGTTC
1 ATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTC
*
12202 ATATACATATATATTGTTTAA
1 ATATATATATAT-TTGTTTAA
12223 TGTGTCTTAG
Statistics
Matches: 155, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
47 93 0.60
48 15 0.10
49 47 0.30
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (47 bp):
ATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTC
Found at i:12141 original size:96 final size:96
Alignment explanation
Indices: 12009--12222 Score: 358
Period size: 96 Copynumber: 2.2 Consensus size: 96
11999 ATATATATAT
* * **
12009 ATATATATATTTTATTTATTTAATGTGTCTTGGAAACTGATTTTTTGTTCATATATATATATTTG
1 ATATATATA-TATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTCATATATATATATTTG
*
12074 TTTAACATGTCTTGGAAACTGATTTTTTGTTC
65 TTTAACATGTCTTGGAAACTGATTCTTTGTTC
12106 ATATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTCATATATATATATTTGT
1 ATATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTCATATATATATATTTGT
12171 TTAACATGTCTTGGAAACTGATTCTTTGTTC
66 TTAACATGTCTTGGAAACTGATTCTTTGTTC
*
12202 ATATACATATATA-TTGTTTAA
1 ATATATATATATATTTGTTTAA
12223 TGTGTCTTAG
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 8 0.07
96 94 0.85
97 9 0.08
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (96 bp):
ATATATATATATATTTGTTTAACATGTCTTGGAAACTGATTTTTTGTTCATATATATATATTTGT
TTAACATGTCTTGGAAACTGATTCTTTGTTC
Found at i:12416 original size:53 final size:48
Alignment explanation
Indices: 12288--12398 Score: 179
Period size: 48 Copynumber: 2.3 Consensus size: 48
12278 TTGTTAAACG
12288 TATATATATAT-TTTATTTAATGTGTCTTGGAAACTGATTTTTGTTCA
1 TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTGTTCA
*
12335 TATATATATATATTTATTTAATGTGTCTTGTAAACTGATTTTTTTTGTTCA
1 TATATATATATATTTATTTAATGTGTCTTGGAAACTGA---TTTTTGTTCA
12386 TATATATATATAT
1 TATATATATATAT
12399 ATTTGTTTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
47 11 0.19
48 25 0.42
51 23 0.39
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (48 bp):
TATATATATATATTTATTTAATGTGTCTTGGAAACTGATTTTTGTTCA
Found at i:12608 original size:24 final size:24
Alignment explanation
Indices: 12581--12626 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
12571 ATATTCTTTA
12581 TATCATTTATTTAATAAGTATAGT
1 TATCATTTATTTAATAAGTATAGT
12605 TATCATTTATTTAATAAGTATA
1 TATCATTTATTTAATAAGTATA
12627 ATGTTCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (24 bp):
TATCATTTATTTAATAAGTATAGT
Found at i:16254 original size:791 final size:798
Alignment explanation
Indices: 14721--16282 Score: 2673
Period size: 791 Copynumber: 2.0 Consensus size: 798
14711 AAGTATATAG
14721 TTGAATTTAATTACAAATATTCAATAAAATTATTTTAAATTTGAAATAAATTTAAAATCTTGTGT
1 TTGAATTTAATTACAAATATTCAATAAAATTATTTTAAATTTGAAATAAATTTAAAATCTTGTGT
*
14786 TGAGTTCGTATCAATTTTTCTACATGTGTTGTCTTCGCTAAAATAAGCATATCTTGAGTTCTCGA
66 TGAGTTCGTATCAATTTTTCTACATGTGTTGTATTCGCTAAAATAAGCATATCTTGAGTTCTCGA
* *
14851 CGTTCGATTGAGGCATTTTAAAAATAAGTTGGAAAGCTAACTAAAAGCTTGTCATATTTCAAGAA
131 CGTTCGATTGAGACAGTTTAAAAATAAGTTGGAAAGCTAACTAAAAGCTTGTCATATTTCAAGAA
* *
14916 GATATCATGCCATGAAAATACACGAATATCACTTGAAAATTTGTTGCAAGTCGGATGATGTTTCA
196 GACATCATGCCATGAAAATACACGAACATCACTTGAAAATTTGTTGCAAGTCGGATGATGTTTCA
* * *
14981 TGTTTCAAAATCAGCTTCAATAAAATGTTGGGAGTTAGAAAAAAGTAGGGCATACAAAAATCAGT
261 TGTTTCAAAATCAGCTTCAATAAAAAGTTGGGACTTAGAAAAAAGTAGGGCAGACAAAAATCAGT
*** * *
15046 TAATACAGTCCTTAAAATTTTGAATTTTGATTGCATCCCTAAACTATTACCCTCTTTCTAGATTG
326 TAATACAGTCCTTAAAAAAATGAATTTTAATTGCATCCCTAAACTATGACCCTCTTTCTAGATTG
15111 GTCCCCAAACTATTTGAACATTCTAATTTCATCCCCATATTCATCCAAATATGTGAGTAGCATCA
391 GTCCCCAAACTATTTGAACA-TC-AA-TT-ATCCCCATATTCATCCAAATATGTGAGTAGCATCA
15176 ACCATAGTTTAACCTAAATGTTGTTTTTTCAAACATACAATAATATAACTTGGTTTAAAGATTCA
452 ACCATAGTTTAACCTAAATGTTGTTTTTTCAAACATACAATAATATAACTTGGTTTAAAGATTCA
15241 ATAAACAACTAGTGCGATTAGTATATACGTATAGTTTAGGATAAAATTGGAACGTCAAAAAGTTT
517 ATAAACAACTAGTGCGATTAGTATATACGTATAGTTTAGGATAAAATTGGAACGTCAAAAAGTTT
15306 GGGGATCAATTTGGAATGAAGGTCATAATTTAAGAAAGAAATTGAAATTTTCAAAAGTCTAAGGA
582 GGGGATCAATTTGGAATGAAGGTCATAATTTAAGAAAGAAATTGAAATTTTCAAAAGTCTAAGGA
15371 CTAATTTAGAATAATAGTCATGCTTTAGGAACGAAATTGAAACATTTAAAAGTTTAAGGACTAAT
647 CTAATTTAGAATAATAGTCATGCTTTAGGAACGAAATTGAAACATTTAAAAGTTTAAGGACTAAT
15436 TTAAAATGAGATTTATAGTTTGGGGACATGTGATGCAATTAACTAAAAAATATTGCATTAATTAC
712 TTAAAATGAGATTTATAGTTTGGGGACATGTGATGCAATTAACT-AAAAATATTGCATTAATTAC
15501 AAATAAAATTAATGCAATATTTT
776 AAATAAAATTAATGCAATATTTT
*
15524 TTGAATTTAATTACAAATATTCAATAAAATTATTTTAAATTTGAAATAAA-TTAAAATTTTGTGT
1 TTGAATTTAATTACAAATATTCAATAAAATTATTTTAAATTTGAAATAAATTTAAAATCTTGTGT
*
15588 TGAGTTCGTATCAATTTTTCTACATGTGTTGTATTCGTTAAAATAAGCATATCTTGAGTTCTCGA
66 TGAGTTCGTATCAATTTTTCTACATGTGTTGTATTCGCTAAAATAAGCATATCTTGAGTTCTCGA
* *
15653 CGTTCGATTGAGAC-GTTTAAAAATGAGTTGGAAAGCTAACTAAAAGTTTGTCATATTTCAAGAA
131 CGTTCGATTGAGACAGTTTAAAAATAAGTTGGAAAGCTAACTAAAAGCTTGTCATATTTCAAGAA
**
15717 GACATCATGCCATGAAAATACACGAACATTGCTTGAAAATTTGTTGCAAGTC-GACTGATGTTTC
196 GACATCATGCCATGAAAATACACGAACATCACTTGAAAATTTGTTGCAAGTCGGA-TGATGTTTC
* *
15781 ATGTTTCAAAATCAG-TTACAATAAAAAGTTTGGGTCTTAGAAAAAAGTAGGGCGGACAAAAATC
260 ATGTTTCAAAATCAGCTT-CAATAAAAAG-TTGGGACTTAGAAAAAAGTAGGGCAGACAAAAATC
* * *
15845 GGTTAATACAGTCCTTAAAACAAATGAATTTTAATTGCATCCCTAAACTGTGACCCTCTTTTTAG
323 AGTTAATACAGTCCTTAAAA-AAATGAATTTTAATTGCATCCCTAAACTATGACCCTCTTTCTAG
* *
15910 ATTGGTCCCCAAACTGTTTG-A-A-C-A-T-T-CCGAT-TTCATCCAAATATGTGAGTAGCATCA
387 ATTGGTCCCCAAACTATTTGAACATCAATTATCCCCATATTCATCCAAATATGTGAGTAGCATCA
*
15967 ACCATAGTTTAACCTAAATTTTGTTTTTTCAAACATACAATAATATAACTTGGTTTAAAGATTCA
452 ACCATAGTTTAACCTAAATGTTGTTTTTTCAAACATACAATAATATAACTTGGTTTAAAGATTCA
*
16032 ATAAACAAGTAGTGCGATTAGTATATACGTATAGTTTAGGATAAAATTGGAACGTTCAAAAAGTT
517 ATAAACAACTAGTGCGATTAGTATATACGTATAGTTTAGGATAAAATTGGAACG-TCAAAAAGTT
16097 TGGGGATCAATTTGGAATGAAGGTCATAATTTAAGAAAGAAATTGAAATTTTCAAAAGTCTAAGG
581 TGGGGATCAATTTGGAATGAAGGTCATAATTTAAGAAAGAAATTGAAATTTTCAAAAGTCTAAGG
* *
16162 ACTAATTTAGAATAATAGTCATGGTTTAGGAATGAAATTGAAACATTTAAAAGTTTAAGGACTAA
646 ACTAATTTAGAATAATAGTCATGCTTTAGGAACGAAATTGAAACATTTAAAAGTTTAAGGACTAA
16227 TTT-AAATGAGATTTATAGTTTGGGGACATGTGATGCAATTAACTAAAAATATTGCA
711 TTTAAAATGAGATTTATAGTTTGGGGACATGTGATGCAATTAACTAAAAATATTGCA
16283 CGGCAAAAAA
Statistics
Matches: 724, Mismatches: 30, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
790 12 0.02
791 184 0.25
792 145 0.20
793 1 0.00
795 1 0.00
797 1 0.00
799 1 0.00
800 4 0.01
801 129 0.18
802 140 0.19
803 106 0.15
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (798 bp):
TTGAATTTAATTACAAATATTCAATAAAATTATTTTAAATTTGAAATAAATTTAAAATCTTGTGT
TGAGTTCGTATCAATTTTTCTACATGTGTTGTATTCGCTAAAATAAGCATATCTTGAGTTCTCGA
CGTTCGATTGAGACAGTTTAAAAATAAGTTGGAAAGCTAACTAAAAGCTTGTCATATTTCAAGAA
GACATCATGCCATGAAAATACACGAACATCACTTGAAAATTTGTTGCAAGTCGGATGATGTTTCA
TGTTTCAAAATCAGCTTCAATAAAAAGTTGGGACTTAGAAAAAAGTAGGGCAGACAAAAATCAGT
TAATACAGTCCTTAAAAAAATGAATTTTAATTGCATCCCTAAACTATGACCCTCTTTCTAGATTG
GTCCCCAAACTATTTGAACATCAATTATCCCCATATTCATCCAAATATGTGAGTAGCATCAACCA
TAGTTTAACCTAAATGTTGTTTTTTCAAACATACAATAATATAACTTGGTTTAAAGATTCAATAA
ACAACTAGTGCGATTAGTATATACGTATAGTTTAGGATAAAATTGGAACGTCAAAAAGTTTGGGG
ATCAATTTGGAATGAAGGTCATAATTTAAGAAAGAAATTGAAATTTTCAAAAGTCTAAGGACTAA
TTTAGAATAATAGTCATGCTTTAGGAACGAAATTGAAACATTTAAAAGTTTAAGGACTAATTTAA
AATGAGATTTATAGTTTGGGGACATGTGATGCAATTAACTAAAAATATTGCATTAATTACAAATA
AAATTAATGCAATATTTT
Found at i:17781 original size:20 final size:20
Alignment explanation
Indices: 17738--17782 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17728 TTCATTTATT
*
17738 TATTTTTTTATCTATTTTCT
1 TATTTTTTTATCTATTTTCA
*
17758 TATTTTTTT-TCTTTTTTACA
1 TATTTTTTTATCTATTTT-CA
17778 TATTT
1 TATTT
17783 ACTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTTTTTTATCTATTTTCA
Found at i:21727 original size:106 final size:106
Alignment explanation
Indices: 21564--22719 Score: 1900
Period size: 106 Copynumber: 10.9 Consensus size: 106
21554 TCCAATTTCA
* * * * * *
21564 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
21629 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCACT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
21670 TTTAGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
21735 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * *
21776 TTCAGAGCCAATTTCAACTTCA-AGCGAAGGATATTAGACTCCAGACAACCCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
21840 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * *
21881 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCATGTTCAACATCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
21946 CGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
21987 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
22052 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
*
22093 TTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
22158 CGACGAATGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
22199 TTTAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
22264 CGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
**
22305 TTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
22370 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * *
22411 TTCAAAGCCAATTTCAACTTCACAGCGAAGGATAATGGACTCAAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
22476 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* * *
22517 TTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
22582 CGACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
* *
22623 TTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
22688 CGATGAAGGGACCGCTGGTTGTCAATAAACAA
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAA
22720 TTTCAACTTT
Statistics
Matches: 979, Mismatches: 70, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 102 0.10
106 877 0.90
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
Found at i:23236 original size:84 final size:83
Alignment explanation
Indices: 23003--23388 Score: 420
Period size: 84 Copynumber: 4.7 Consensus size: 83
22993 GCCAAAAAAA
* * * * ** *
23003 AAAGACATTTGAGTTCGACTACGCTCAGCT-CAACGGCATATCATTTGCAGCATAGCTTAAATCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGGCT
* *
23067 AGAAGGATTGTCTG-C--C
65 AGAAGGGTTATCTGCCAAC
** * * * * * *
23083 AAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCACGTCATTTGCAGCATAACTTAAGTCA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGGCT
23148 AGAAGGGTTATCTGCCAAC
65 AGAAGGGTTATCTGCCAAC
*
23167 TAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCT
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGCT
* *
23232 AGAAGGGTTATCTGTCACC
65 AGAAGGGTTATCTGCCAAC
* * ***
23251 AAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCGGCATAACGCCAGGCT
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGCT
*
23316 AGGAGGGTTATCTGCCAAC
65 AGAAGGGTTATCTGCCAAC
* * * ** *
23335 AAAGATCTTCAAGTTCGACTACGCTCATCTCTTAGGCACATCATTTACAGCATA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATA
23389 GCCCCAGGCA
Statistics
Matches: 258, Mismatches: 43, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
80 24 0.09
81 40 0.16
82 1 0.00
83 46 0.18
84 118 0.46
85 29 0.11
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (83 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGGCTA
GAAGGGTTATCTGCCAAC
Found at i:23382 original size:167 final size:167
Alignment explanation
Indices: 23014--23415 Score: 454
Period size: 167 Copynumber: 2.4 Consensus size: 167
23004 AAGACATTTG
* * ** * * *
23014 AGTTCGACTACGCTCAGCTCAACGGCATATCATTTGCAGCATAGCTTAAATCGAGAAGGATTGTC
1 AGTTCGACTACGCTCAGCTCAA-GGCACATCATTTACAGCATAGCTTAAGGCAAGAAGGGTTATC
* * * *
23079 TG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCACGTCATTTGCAGCATAACT
65 TGTCACCAAAGACCCCCGAGTTCGACTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAACG
* * *
23141 TAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCTTCG
130 CAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCTTCA
* *
23179 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGGCTAGAAGGGTTATC
1 AGTTCGACTACGCTCAGCT-CAAGGCACATCATTTACAGCATAGCTTAAGGCAAGAAGGGTTATC
** ** *
23244 TGTCACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAA-GGCACATCATTTGCGGCATAAC
65 TGTCACC-AAAGACCCCCGAGTTCGACTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAAC
* * * *
23308 GCCAGGCTAGGAGGGTTATCTGCCAAC-AAAGATCTTCA
129 GCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCTTCA
* * *** *
23346 AGTTCGACTACGCTCATCTCTTAGGCACATCATTTACAGCATAGCCCCAGGCAAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTC-AAGGCACATCATTTACAGCATAGCTTAAGGCAAGAAGGGTTATC
23411 TGTCA
65 TGTCA
23416 AGAAGATATC
Statistics
Matches: 199, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
165 55 0.28
166 4 0.02
167 69 0.35
168 43 0.22
169 28 0.14
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (167 bp):
AGTTCGACTACGCTCAGCTCAAGGCACATCATTTACAGCATAGCTTAAGGCAAGAAGGGTTATCT
GTCACCAAAGACCCCCGAGTTCGACTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAACGC
AAGGCAAGAAGGGTTATCTGCCAACTAAAGACCTTCA
Found at i:25263 original size:2 final size:2
Alignment explanation
Indices: 25256--25284 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25246 TGTTTTGTTT
25256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25285 TTACTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28165 original size:15 final size:15
Alignment explanation
Indices: 28147--28180 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
28137 GGTGCAGCAA
*
28147 TTGGTGGTGAAGAAG
1 TTGGTGGAGAAGAAG
*
28162 TTGGTGGAGAAGCAG
1 TTGGTGGAGAAGAAG
28177 TTGG
1 TTGG
28181 AGCCGCGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.47, T:0.26
Consensus pattern (15 bp):
TTGGTGGAGAAGAAG
Found at i:28617 original size:21 final size:20
Alignment explanation
Indices: 28590--28687 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
28580 AATCAGTGTC
28590 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
28611 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
28631 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
28651 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
28672 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
28688 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:28640 original size:41 final size:41
Alignment explanation
Indices: 28532--28687 Score: 124
Period size: 41 Copynumber: 3.9 Consensus size: 41
28522 AATGACCAAT
* **
28532 AAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTCC
* ** * * *
28571 AGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTCC
* * **
28612 AAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTCC
*
28653 AAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 AAAATCGCAACGCGAATATCAAAATCGCAACGCGA
28688 ACACATAAAT
Statistics
Matches: 86, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 11 0.13
40 17 0.20
41 53 0.62
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (41 bp):
AAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTCC
Found at i:28697 original size:20 final size:20
Alignment explanation
Indices: 28674--28844 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
28664 GCGAATATGA
28674 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
28694 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
28714 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
28734 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
28754 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
28774 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
28794 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
28814 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
28834 AAATCGCAACG
1 AAATCGCAACG
28845 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:28739 original size:60 final size:58
Alignment explanation
Indices: 28654--28858 Score: 207
Period size: 60 Copynumber: 3.4 Consensus size: 58
28644 CGATTTTCCA
* ** * *
28654 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
28714 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
28774 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* *
28834 AAATCGCAACGAGAATCTGTAAATC
1 AAATCGCAACGTGAATCCGTAAATC
28859 ACAATACTGA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 116 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:28845 original size:20 final size:20
Alignment explanation
Indices: 28708--28858 Score: 173
Period size: 20 Copynumber: 7.5 Consensus size: 20
28698 CGCAATGCGT
*
28708 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
28728 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
28748 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
28768 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
28788 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
28808 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
28828 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
28848 ATCTGTAAATC
1 ATCCGTAAATC
28859 ACAATACTGA
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
19 1 0.01
20 115 0.98
22 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:28845 original size:40 final size:40
Alignment explanation
Indices: 28674--28858 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
28664 GCGAATATGA
* *
28674 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
28714 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
28754 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
28794 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
28834 AAATCGCAACGAGAATCTGTAAATC
1 AAATCGCAACGAGAATCCGTAAATC
28859 ACAATACTGA
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 125 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:29584 original size:24 final size:24
Alignment explanation
Indices: 29545--29591 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
29535 AAATTTGGTC
29545 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
29569 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
29592 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:32089 original size:19 final size:20
Alignment explanation
Indices: 32048--32095 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
32038 GCATTTGACT
* *
32048 ATCGCAACACGGAAATTACA
1 ATCGCAACACGGAAATGAAA
*
32068 ATCGCAACGC-GAAATGAAA
1 ATCGCAACACGGAAATGAAA
*
32087 ATCCCAACA
1 ATCGCAACA
32096 TGAAAATCGC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (20 bp):
ATCGCAACACGGAAATGAAA
Found at i:32663 original size:14 final size:14
Alignment explanation
Indices: 32644--32733 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
32634 TTGAAATGAA
32644 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
32658 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
32677 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
32691 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
32710 AATCGCAACGAGAG
1 AATCGCAACGAGAG
32724 AATCGCAACG
1 AATCGCAACG
32734 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:32681 original size:33 final size:33
Alignment explanation
Indices: 32636--32750 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
32626 TCTTTTGGTT
32636 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
32669 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
32702 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
32735 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
32751 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:32682 original size:19 final size:19
Alignment explanation
Indices: 32658--32755 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
32648 GCAACGAGAG
*
32658 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
32677 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
32691 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
32710 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
32724 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
32743 AATCGCAATGCGA
1 AATCGCAACGCGA
32756 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:32786 original size:14 final size:14
Alignment explanation
Indices: 32767--32823 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
32757 TTTGGTTTCG
32767 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
32781 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
32800 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
32814 CGTTGCGATT
1 CGTTGCGATT
32824 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:32805 original size:19 final size:19
Alignment explanation
Indices: 32781--32869 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
32771 GCGATTCTCT
32781 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
32800 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
32814 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
32833 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
32853 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
32870 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.45
20 15 0.27
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:32861 original size:39 final size:33
Alignment explanation
Indices: 32751--32869 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
32741 AAAATCGCAA
**
32751 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
32784 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
32817 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
32856 TGCGATTTTCATTT
1 TGCGATTTTCATTT
32870 ATCTCGTTGC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 50 0.66
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.30
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:33003 original size:33 final size:33
Alignment explanation
Indices: 32961--33031 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
32951 AATACTAACT
32961 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
32994 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
33027 TGAAA
1 TGAAA
33032 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:33265 original size:22 final size:22
Alignment explanation
Indices: 33225--33268 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33215 ATTTCGCCGG
*
33225 AGATGGGGATGGAAATCTTCGC
1 AGATGGGGACGGAAATCTTCGC
**
33247 AGATGGGGACGGATTTCTTCGC
1 AGATGGGGACGGAAATCTTCGC
33269 CGTAGAGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (22 bp):
AGATGGGGACGGAAATCTTCGC
Found at i:33467 original size:20 final size:20
Alignment explanation
Indices: 33413--33529 Score: 76
Period size: 20 Copynumber: 5.8 Consensus size: 20
33403 GCTTTAAATA
* *
33413 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTTCAGAT
* *
33433 ACGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAGAT
* * *
33453 TCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTT-CAGAT
** *
33474 TCGCAATGCGAATTT--GACT
1 TCGCGTTGCGATTTTCAGA-T
* *
33493 ATCGCATTGCGATTTTCAAGAA
1 -TCGCGTTGCGATTTTC-AGAT
33515 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
33530 GGACACTGAT
Statistics
Matches: 74, Mismatches: 17, Indels: 11
0.73 0.17 0.11
Matches are distributed among these distances:
18 1 0.01
20 43 0.58
21 28 0.38
23 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAGAT
Found at i:33483 original size:21 final size:20
Alignment explanation
Indices: 33438--33530 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 20
33428 CGGATACGCG
* * * *
33438 TTGCGATTTTCATATTCGCG
1 TTGCGATTTTGAAAATCGCA
33458 TTGCGATTTTGGAAAATCGCA
1 TTGCGATTTT-GAAAATCGCA
* * **
33479 ATGCGAATTTGACTATCGCA
1 TTGCGATTTTGAAAATCGCA
* *
33499 TTGCGATTTTCAAGAATCGCG
1 TTGCGATTTTGAA-AATCGCA
33520 TTGCGATTTTG
1 TTGCGATTTTG
33531 GACACTGATT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 27 0.48
21 29 0.52
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTGAAAATCGCA
Found at i:33525 original size:41 final size:41
Alignment explanation
Indices: 33434--33589 Score: 108
Period size: 41 Copynumber: 3.9 Consensus size: 41
33424 TTTACGGATA
* * *
33434 CGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAAT
** *
33475 CGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAAT
1 CGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AAT
* * * ***
33516 CGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGAT
1 CGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAAT
* *
33556 CGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 CGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
33590 TTGGTCATTT
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 19 0.22
41 51 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (41 bp):
CGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAAT
Found at i:37596 original size:47 final size:47
Alignment explanation
Indices: 37527--37621 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
37517 CATAATTTCA
37527 ATTTAATGCAGATATTTTCAGTCTCTCATTCGTTGTCATTCCACTCC
1 ATTTAATGCAGATATTTTCAGTCTCTCATTCGTTGTCATTCCACTCC
37574 ATTTAATGCAGATATTTTCAGTCTCTCATTCGTTGTCATTCCACTCC
1 ATTTAATGCAGATATTTTCAGTCTCTCATTCGTTGTCATTCCACTCC
37621 A
1 A
37622 GGATGAACTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (47 bp):
ATTTAATGCAGATATTTTCAGTCTCTCATTCGTTGTCATTCCACTCC
Found at i:38371 original size:31 final size:31
Alignment explanation
Indices: 38336--38394 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
38326 CAATGACTAT
* *
38336 ATCTTAATTAAAATGAAATAAAAGTGATCAC
1 ATCTTAATTAAAACGAAACAAAAGTGATCAC
*
38367 ATCTTAATTAAAACGAAACGAAAGTGAT
1 ATCTTAATTAAAACGAAACAAAAGTGAT
38395 TACGAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (31 bp):
ATCTTAATTAAAACGAAACAAAAGTGATCAC
Found at i:43012 original size:18 final size:19
Alignment explanation
Indices: 42977--43013 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
42967 CACGGAATGT
42977 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
42997 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
43014 GGATTACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:43193 original size:36 final size:36
Alignment explanation
Indices: 43160--43227 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
43150 TACAAATTGT
43160 AAAATATTTATAT-ATTTTCTTTA-AAAATTAAATTC
1 AAAATATTTATATAATTTT-TTTACAAAATTAAATTC
*
43195 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTACAAAATTAAA
43228 AATATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTACAAAATTAAATTC
Found at i:53082 original size:20 final size:20
Alignment explanation
Indices: 53059--53099 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
53049 GTATTTGTCG
53059 ATGGTAGAGAAGAAGCTACA
1 ATGGTAGAGAAGAAGCTACA
*
53079 ATGGTAGAGTAGAAGCTACA
1 ATGGTAGAGAAGAAGCTACA
53099 A
1 A
53100 CCATTGTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.29, T:0.17
Consensus pattern (20 bp):
ATGGTAGAGAAGAAGCTACA
Found at i:53160 original size:20 final size:20
Alignment explanation
Indices: 53135--53175 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
53125 TTATTTGTCG
53135 ATGGTAGA-TAAGAAGCTACA
1 ATGGTAGAGT-AGAAGCTACA
53155 ATGGTAGAGTAGAAGCTACA
1 ATGGTAGAGTAGAAGCTACA
53175 A
1 A
53176 CCATTGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.20
Consensus pattern (20 bp):
ATGGTAGAGTAGAAGCTACA
Found at i:53176 original size:76 final size:76
Alignment explanation
Indices: 53050--53202 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
53040 AAGTAGCATG
53050 TATTTGTCGATGGTAGAGAAGAAGCTACAATGGTAGAGTAGAAGCTACAACCATTGTAACTTTGA
1 TATTTGTCGATGGTAGAGAAGAAGCTACAATGGTAGAGTAGAAGCTACAACCATTGTAACTTTGA
53115 ATTCTGTCTCT
66 ATTCTGTCTCT
*
53126 TATTTGTCGATGGTAGATAAGAAGCTACAATGGTAGAGTAGAAGCTACAACCATTGTAACTTTGA
1 TATTTGTCGATGGTAGAGAAGAAGCTACAATGGTAGAGTAGAAGCTACAACCATTGTAACTTTGA
53191 ATTCTGTCTCT
66 ATTCTGTCTCT
53202 T
1 T
53203 GTTAGGCTTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (76 bp):
TATTTGTCGATGGTAGAGAAGAAGCTACAATGGTAGAGTAGAAGCTACAACCATTGTAACTTTGA
ATTCTGTCTCT
Found at i:55698 original size:22 final size:22
Alignment explanation
Indices: 55666--55711 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
55656 GATAAAATCC
* *
55666 TTTCATGAAAAGGTTAAGCTCT
1 TTTCATCAAAAGGATAAGCTCT
*
55688 TTTCATCAAAAGGATAAGTTCT
1 TTTCATCAAAAGGATAAGCTCT
55710 TT
1 TT
55712 AATTGAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (22 bp):
TTTCATCAAAAGGATAAGCTCT
Found at i:55740 original size:21 final size:21
Alignment explanation
Indices: 55666--55741 Score: 52
Period size: 21 Copynumber: 3.6 Consensus size: 21
55656 GATAAAATCC
*
55666 TTTCAT-GAAAAGGTTAAGCTCT
1 TTTCATAG-AAAGATTAAG-TCT
55688 TTTCATCA-AAAGGA-TAAGT-T
1 TTTCAT-AGAAA-GATTAAGTCT
* *
55708 CTTTAATTGAAAGATTAAGTCT
1 -TTTCATAGAAAGATTAAGTCT
55730 TTTCATAGAAAG
1 TTTCATAGAAAG
55742 TTCTTAACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 15
0.68 0.08 0.24
Matches are distributed among these distances:
20 3 0.07
21 24 0.57
22 14 0.33
23 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (21 bp):
TTTCATAGAAAGATTAAGTCT
Found at i:56076 original size:13 final size:13
Alignment explanation
Indices: 56058--56084 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56048 TTCATACAGG
56058 CCTCAACAAAATT
1 CCTCAACAAAATT
56071 CCTCAACAAAATT
1 CCTCAACAAAATT
56084 C
1 C
56085 TTCTTCGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (13 bp):
CCTCAACAAAATT
Found at i:59317 original size:22 final size:21
Alignment explanation
Indices: 59265--59341 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
59255 AACAATTCTC
* * *
59265 TTCATGAAAAGATTAAATCCT
1 TTCATCAAAAGGTTAAGTCCT
*
59286 TTCATGAAAAGGTTAAG-CACTT
1 TTCATCAAAAGGTTAAGTC-C-T
*
59308 TTCATCAAAAGGATAAGTCCT
1 TTCATCAAAAGGTTAAGTCCT
*
59329 TTCATCGAAAGGT
1 TTCATCAAAAGGT
59342 CTTAACATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 28 0.60
22 17 0.36
23 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (21 bp):
TTCATCAAAAGGTTAAGTCCT
Found at i:67006 original size:3 final size:3
Alignment explanation
Indices: 66998--67022 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
66988 CGGAAAAAGT
66998 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
67023 AAAAAGGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:71964 original size:12 final size:13
Alignment explanation
Indices: 71937--71993 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 13
71927 ACTTGCAAAC
71937 TCTTTATTCATTCT
1 TCTTTATTC-TTCT
71951 TCTTT-TTCTTCT
1 TCTTTATTCTTCT
* *
71963 TC-TCATTCTGCT
1 TCTTTATTCTTCT
71975 TCTTCTCATTCTTCT
1 TCTT-T-ATTCTTCT
71990 TCTT
1 TCTT
71994 CTCATCCACC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
11 1 0.03
12 14 0.40
13 4 0.11
14 5 0.14
15 11 0.31
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.63
Consensus pattern (13 bp):
TCTTTATTCTTCT
Found at i:71976 original size:15 final size:15
Alignment explanation
Indices: 71958--71998 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
71948 TCTTCTTTTT
71958 CTTCTTCTCATTCTG
1 CTTCTTCTCATTCTG
*
71973 CTTCTTCTCATTCTT
1 CTTCTTCTCATTCTG
71988 CTTCTTCTCAT
1 CTTCTTCTCAT
71999 CCACCTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.34, G:0.02, T:0.56
Consensus pattern (15 bp):
CTTCTTCTCATTCTG
Found at i:74355 original size:66 final size:66
Alignment explanation
Indices: 74247--74379 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
74237 AGCCACAAGC
*
74247 AACATGTAAATGATATAAATGTCCATCCACCACTTATTATATGCATTCCAAGTTGTGATTCATAA
1 AACATGTAAATGATATAAATGTCCATCCACCACTTATCATATGCATTCCAAGTTGTGATTCATAA
74312 T
66 T
74313 AACATGTAAATGATATAAATGTCCATCCACCACTTATCATATGCATTCCAAGTTGTGATTCATAA
1 AACATGTAAATGATATAAATGTCCATCCACCACTTATCATATGCATTCCAAGTTGTGATTCATAA
74378 T
66 T
74379 A
1 A
74380 TACCTTTTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.34
Consensus pattern (66 bp):
AACATGTAAATGATATAAATGTCCATCCACCACTTATCATATGCATTCCAAGTTGTGATTCATAA
T
Found at i:75525 original size:5 final size:5
Alignment explanation
Indices: 75515--75545 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
75505 CCAATGGTTG
75515 TCAGC TCAGC TCAGC TCAGC TCAGC TCAGC T
1 TCAGC TCAGC TCAGC TCAGC TCAGC TCAGC T
75546 AGCGGCTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.23
Consensus pattern (5 bp):
TCAGC
Found at i:81731 original size:20 final size:19
Alignment explanation
Indices: 81680--81731 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
81670 AATAAGAGAG
* *
81680 AATAAAG-TTTAATTTTAT
1 AATAAAGTTTTAAATTAAT
*
81698 AATAATGTTATTAAATTAAT
1 AATAAAGTT-TTAAATTAAT
81718 AACTAAAGTTTTAA
1 AA-TAAAGTTTTAA
81732 CCTAAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.22
19 1 0.04
20 14 0.52
21 6 0.22
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (19 bp):
AATAAAGTTTTAAATTAAT
Found at i:82088 original size:21 final size:21
Alignment explanation
Indices: 81994--82088 Score: 52
Period size: 21 Copynumber: 4.6 Consensus size: 21
81984 GCGAAATAAA
*
81994 AATCGCAACGCGA-TCTCCAT
1 AATCGCAACGCGATTTTCCAT
** * * *
82014 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAT
* ** *
82034 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAT
**
82054 AATTCGCATTGCGATTTTCCAT
1 AA-TCGCAACGCGATTTTCCAT
82076 AATCGCAACGCGA
1 AATCGCAACGCGA
82089 ATATAAAAAT
Statistics
Matches: 53, Mismatches: 18, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.02
20 24 0.45
21 26 0.49
22 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAT
Found at i:82165 original size:20 final size:19
Alignment explanation
Indices: 82117--82347 Score: 194
Period size: 20 Copynumber: 11.5 Consensus size: 19
82107 GATTCTGACT
* *
82117 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGAAT-CGT-AA
* *
82138 ATCACAACGCGTATCTGTAA
1 ATCGCAACGCGAATC-GTAA
*
82158 ATTGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGAAT-CGT-AA
* *
82179 ATCGTAACGCGTATCCGTAA
1 ATCGCAACGCGAAT-CGTAA
*
82199 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAAT-CGTAA
*
82219 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGAATC-GTAA
*
82239 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGAAT-CGTAA
* *
82259 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGAAT-CGTAA
*
82279 ATCGCAATGCGAATACGTAA
1 ATCGCAACGCGAAT-CGTAA
*
82299 ATCGCAATGCGAATCTGTAA
1 ATCGCAACGCGAATC-GTAA
*
82319 ATCGCAATGCGAATCTGTAA
1 ATCGCAACGCGAATC-GTAA
82339 ATCGCAACG
1 ATCGCAACG
82348 AGATTCTGAC
Statistics
Matches: 178, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.01
20 145 0.81
21 31 0.17
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (19 bp):
ATCGCAACGCGAATCGTAA
Found at i:82232 original size:40 final size:40
Alignment explanation
Indices: 82117--82347 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
82107 GATTCTGACT
* * *
82117 ATCGCAACGAGTATCCGTAAAATCACAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
* * * *
82158 ATTGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
82199 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAA
* *
82239 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAA
* * * *
82279 ATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAA
* *
82319 ATCGCAATGCGAAT-CTGTAAATCGCAACG
1 ATCGCAACGAGAATAC-GTAAATCGCAACG
82348 AGATTCTGAC
Statistics
Matches: 171, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 120 0.70
41 50 0.29
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAA
Found at i:82278 original size:60 final size:60
Alignment explanation
Indices: 82117--82347 Score: 232
Period size: 60 Copynumber: 3.8 Consensus size: 60
82107 GATTCTGACT
* * * * *
82117 ATCGCAACGAGTATCCGTAAAATCACAACGCGTATCTGTAAATTGCAACGAC-AATACGTAAA
1 ATCGCAACGAGAATCCGT-AAATCGCAACGCGAATCCGTAAATCGCAACG-CGAATACGT-AA
* * * * * *
82179 ATCGTAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTAT-CTGTAA
1 ATCGCAACGAGAATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATAC-GTAA
* * * *
82239 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAAATCGCAATGCGAATACGTAA
1 ATCGCAACGAGAATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACGTAA
* * * * *
82299 ATCGCAATGCGAATCTGTAAATCGCAATGCGAATCTGTAAATCGCAACG
1 ATCGCAACGAGAATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACG
82348 AGATTCTGAC
Statistics
Matches: 140, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
60 94 0.67
61 30 0.21
62 16 0.11
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (60 bp):
ATCGCAACGAGAATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACGTAA
Found at i:82366 original size:60 final size:60
Alignment explanation
Indices: 82076--82355 Score: 212
Period size: 60 Copynumber: 4.6 Consensus size: 60
82066 GATTTTCCAT
* ** * * * *
82076 AATCGCAACGCGAATATAAAAATTGCAACGCGATTCTG-ACTATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATCTGTAAATCGCAACGAGATTCTGTA-AATCGCAACGAGAATCCGT-A
* * * * * * * *
82137 AATCACAACGCGTATCTGTAAATTGCAACGACAATAC-GTAAAATCGTAACGCGTATCCGTA
1 AATCGCAACGCGAATCTGTAAATCGCAACGA-GATTCTGT-AAATCGCAACGAGAATCCGTA
* * *
82198 AATCGCAACGAGAATAC-GTAAATCGCAACGCG-TATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGAAT-CTGTAAATCGCAACGAGAT-TCTGTAAATCGCAACGAGAATCCGTA
* * * * * * *
82258 AATCGCAATGCGTATCCGTAAATCGCAATGCGA-ATAC-GTAAATCGCAATGCGAATCTGTA
1 AATCGCAACGCGAATCTGTAAATCGCAA--CGAGATTCTGTAAATCGCAACGAGAATCCGTA
*
82318 AATCGCAATGCGAATCTGTAAATCGCAACGAGATTCTG
1 AATCGCAACGCGAATCTGTAAATCGCAACGAGATTCTG
82356 ACTATCGCAA
Statistics
Matches: 173, Mismatches: 34, Indels: 25
0.75 0.15 0.11
Matches are distributed among these distances:
58 3 0.02
59 5 0.03
60 87 0.50
61 54 0.31
62 23 0.13
63 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (60 bp):
AATCGCAACGCGAATCTGTAAATCGCAACGAGATTCTGTAAATCGCAACGAGAATCCGTA
Found at i:84626 original size:20 final size:20
Alignment explanation
Indices: 84601--84650 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
84591 CATTCATTTA
*
84601 ACTATCGCAATG-AGAAATTG
1 ACTATCGCAAAGCAGAAA-TG
*
84621 ACTATCGCAAAGCGGAAATG
1 ACTATCGCAAAGCAGAAATG
84641 ACTATCGCAA
1 ACTATCGCAA
84651 CGACAGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
ACTATCGCAAAGCAGAAATG
Found at i:84719 original size:34 final size:33
Alignment explanation
Indices: 84624--84719 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
84614 GAAATTGACT
* **
84624 ATCGCAAAGCGGAAATGACTATCGCAACGACAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGACAGA
* **
84658 ATCGCAATGCGAAATGAAAATCACAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAGA
* *
84691 ATCGCATTGCGAAAATGAAAATTGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
84720 CGAACTTAGT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 28 0.54
34 24 0.46
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAGA
Found at i:84794 original size:19 final size:19
Alignment explanation
Indices: 84729--84853 Score: 170
Period size: 19 Copynumber: 6.7 Consensus size: 19
84719 GCGAACTTAG
*
84729 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
84748 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
84766 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
84782 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
84801 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
84820 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
84839 TTTCCGCGTTGCGAT
1 TTT-CGCATTGCGAT
84854 AGTCTTTTTG
Statistics
Matches: 95, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.06
16 7 0.07
17 3 0.03
18 4 0.04
19 53 0.56
20 22 0.23
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:86382 original size:21 final size:21
Alignment explanation
Indices: 86358--86432 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
86348 GTGGGAGGGA
*
86358 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGAGG
* * *
86379 CCTCTTGAACGGTGAGAGAGG
1 CCTCTTCAACGATGACAGAGG
* * * *
86400 -CTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGAGG
86420 CCTCTTCAACGAT
1 CCTCTTCAACGAT
86433 AGGAGTGGAC
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 3 0.08
20 10 0.26
21 22 0.56
22 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGAGG
Found at i:88445 original size:20 final size:20
Alignment explanation
Indices: 88420--88492 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
88410 TTTTGGTTGA
*
88420 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGCGAG
88440 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGCGAG
**
88459 AAATGACTATCGCAACGCGA-
1 -AATGAAAATCGCAACGCGAG
*
88479 AATTAAAATCGCAA
1 AATGAAAATCGCAA
88493 TGGGAGAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.27
20 33 0.73
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGAG
Found at i:88561 original size:14 final size:14
Alignment explanation
Indices: 88542--88598 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
88532 TTTGGTTTCG
88542 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
88556 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
88575 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
88589 CGTTGCGATT
1 CGTTGCGATT
88599 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:88574 original size:33 final size:33
Alignment explanation
Indices: 88526--88606 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
88516 AAAATTGCAA
**
88526 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
88559 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
88592 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
88607 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:88665 original size:20 final size:21
Alignment explanation
Indices: 88583--88682 Score: 127
Period size: 21 Copynumber: 4.9 Consensus size: 21
88573 CGCGTTGCGA
88583 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
88604 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* **
88625 TTCTCTCGTTGTGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
88646 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
88666 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
88683 AAGTTTAGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
20 29 0.41
21 42 0.59
ACGTcount: A:0.11, C:0.19, G:0.17, T:0.53
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:89257 original size:20 final size:20
Alignment explanation
Indices: 89232--89399 Score: 167
Period size: 20 Copynumber: 8.3 Consensus size: 20
89222 CTTTAAAAAT
*
89232 CGCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
*
89252 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
** * *
89272 TTCGTTGTGATTGACGGATA
1 CGCGTTGCGATTTACGGATA
* *
89292 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* * *
89312 CTCATTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
89332 AGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
89352 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
89372 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
89393 CTCGTTG
1 CGCGTTG
89400 TGATAGTCAG
Statistics
Matches: 115, Mismatches: 30, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
19 7 0.06
20 85 0.74
21 23 0.20
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:89291 original size:40 final size:40
Alignment explanation
Indices: 89234--89399 Score: 235
Period size: 40 Copynumber: 4.1 Consensus size: 40
89224 TTAAAAATCG
*
89234 CGTTGCGATTTATGGATACGCGTTGCGATTTTACGTATT-T
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
* *
89274 CGTTGTGATTGACGGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* * *
89314 CATTGCGATTTACAGATAAGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* *
89354 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
89395 CGTTG
1 CGTTG
89400 TGATAGTCAG
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
39 10 0.09
40 86 0.77
41 15 0.14
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:89525 original size:42 final size:40
Alignment explanation
Indices: 89411--89525 Score: 90
Period size: 42 Copynumber: 2.8 Consensus size: 40
89401 GATAGTCAGA
** *
89411 ATCGCATTGCGATTTATATGTTCGCGTTGCGATTTTCATAT
1 ATCGCATTGCGATTT-TATAATCGCGTTGCGAATTTCATAT
* * * **
89452 -TCGCGTTGCGATTATGGAAAATCGCAATGCGAATTT-ATACT
1 ATCGCATTGCGATT-T-TATAATCGCGTTGCGAATTTCATA-T
89493 ATCGCATTGCGATTCTTCATAATCGCGTTGCGA
1 ATCGCATTGCGATT-TT-ATAATCGCGTTGCGA
89526 TTCTGGGAAC
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
40 15 0.27
41 15 0.27
42 25 0.45
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (40 bp):
ATCGCATTGCGATTTTATAATCGCGTTGCGAATTTCATAT
Found at i:89529 original size:21 final size:20
Alignment explanation
Indices: 89410--89527 Score: 78
Period size: 21 Copynumber: 5.8 Consensus size: 20
89400 TGATAGTCAG
*
89410 AATCGCATTGCGATTTAT-AT
1 AATCGCGTTGCGATTT-TCAT
**
89430 GTTCGCGTTGCGATTTTCAT
1 AATCGCGTTGCGATTTTCAT
* ** *
89450 ATTCGCGTTGCGATTATGGAA
1 AATCGCGTTGCGATT-TTCAT
** *
89471 AATCGCAATGCGAATTT-AT
1 AATCGCGTTGCGATTTTCAT
*
89490 ACTATCGCATTGCGATTCTTCAT
1 A--ATCGCGTTGCGATT-TTCAT
89513 AATCGCGTTGCGATT
1 AATCGCGTTGCGATT
89528 CTGGGAACTG
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
19 3 0.04
20 30 0.39
21 38 0.50
22 2 0.03
23 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTCAT
Found at i:92065 original size:23 final size:23
Alignment explanation
Indices: 92039--92083 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
92029 TCTGCTTTTA
*
92039 TGACACATTTATCTTTGTCTTTG
1 TGACACATTTATCTTTGCCTTTG
* *
92062 TGACACGTTTTTCTTTGCCTTT
1 TGACACATTTATCTTTGCCTTT
92084 TGAAAGCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (23 bp):
TGACACATTTATCTTTGCCTTTG
Found at i:93165 original size:2 final size:2
Alignment explanation
Indices: 93160--93191 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93150 AAAAATTAAA
93160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93192 TAAATTCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96952 original size:21 final size:21
Alignment explanation
Indices: 96928--96969 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
96918 TTAGTGTCAG
*
96928 AATCGGAGGAGAAGAGGAAGA
1 AATCGGAAGAGAAGAGGAAGA
96949 AATCGGAAGAGAAGAGGAAGA
1 AATCGGAAGAGAAGAGGAAGA
96970 GCGAAGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.40, T:0.05
Consensus pattern (21 bp):
AATCGGAAGAGAAGAGGAAGA
Found at i:102109 original size:21 final size:21
Alignment explanation
Indices: 102085--102127 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
102075 GTATTGTCAG
* *
102085 AATCGGAGGAGAAGATGAAGA
1 AATCGGAAGAGAAGAGGAAGA
102106 AATCGGAAGAGAAGAGGAAGA
1 AATCGGAAGAGAAGAGGAAGA
102127 A
1 A
102128 CGAAGGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.37, T:0.07
Consensus pattern (21 bp):
AATCGGAAGAGAAGAGGAAGA
Found at i:103499 original size:2 final size:2
Alignment explanation
Indices: 103494--103541 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
103484 GTATTTTTTA
103494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103536 AT AT AT
1 AT AT AT
103542 CCCTACTCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111189 original size:121 final size:120
Alignment explanation
Indices: 110971--111209 Score: 408
Period size: 121 Copynumber: 2.0 Consensus size: 120
110961 TATAACGTAA
* * * *
110971 ACACTTAAAAGAATAACGTTAAAAATATTAGACATTCATTTTAAACAAAAATTTCTTTAGCACCT
1 ACACTTAAAAGAATAACGTTAAAAACATTAGACACTCACTTTAAACAAAAAATTCTTTAGCACCT
111036 AAAATTAATAAAAGGTATAACTTAGACACTTATTTTTGTATTAAGTCTATAGTAG
66 AAAATTAATAAAAGGTATAACTTAGACACTTATTTTTGTATTAAGTCTATAGTAG
*
111091 ACACTTAAAAGAGTAACGTTAAAAACATTAGACACTCACTTTAAACAAAAAATTCTTTAGGCACC
1 ACACTTAAAAGAATAACGTTAAAAACATTAGACACTCACTTTAAACAAAAAATTCTTTA-GCACC
111156 TAAAATTAATAAAAGGTATAACTT-GAACACTTATTTTTGTATTAAGTCTATAGT
65 TAAAATTAATAAAAGGTATAACTTAG-ACACTTATTTTTGTATTAAGTCTATAGT
111210 TATATATATA
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
120 55 0.49
121 57 0.51
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (120 bp):
ACACTTAAAAGAATAACGTTAAAAACATTAGACACTCACTTTAAACAAAAAATTCTTTAGCACCT
AAAATTAATAAAAGGTATAACTTAGACACTTATTTTTGTATTAAGTCTATAGTAG
Found at i:117785 original size:20 final size:20
Alignment explanation
Indices: 117756--117828 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
117746 TGCTGGAGCC
117756 AAAGTATCGAAACT-TTAGGG
1 AAAGTATCGAAACTCTT-GGG
* *
117776 AAAGTTTCGAAACTCTTGAG
1 AAAGTATCGAAACTCTTGGG
* * *
117796 ATAGTTTCGAAACTCTT-GA
1 AAAGTATCGAAACTCTTGGG
117815 AAAGTATCGAAACT
1 AAAGTATCGAAACT
117829 TTTTGGGACA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 12 0.27
20 31 0.69
21 2 0.04
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (20 bp):
AAAGTATCGAAACTCTTGGG
Found at i:127784 original size:25 final size:25
Alignment explanation
Indices: 127750--127818 Score: 61
Period size: 25 Copynumber: 2.7 Consensus size: 25
127740 AGAAAACGAT
*
127750 ATAACAAAAAATTAAAAAGC-ATTAA
1 ATAATAAAAAATTAAAAA-CAATTAA
**
127775 ATAATAAAAACATT-CGAACAATTAA
1 ATAATAAAAA-ATTAAAAACAATTAA
*
127800 GTAATAAAAAAATTAAAAA
1 ATAAT-AAAAAATTAAAAA
127819 ACAAAATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
24 1 0.03
25 23 0.68
26 10 0.29
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (25 bp):
ATAATAAAAAATTAAAAACAATTAA
Found at i:127861 original size:22 final size:22
Alignment explanation
Indices: 127802--127861 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
127792 ACAATTAAGT
127802 AATAAAAAAATTAAAA-AACAA
1 AATAAAAAAATTAAAATAACAA
* **
127823 AATAAATAAAAGT-AAATAATTA
1 AATAAA-AAAATTAAAATAACAA
*
127845 AATAAAAAATTTAAAAT
1 AATAAAAAAATTAAAAT
127862 TGTTGGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AATAAAAAAATTAAAATAACAA
Found at i:127886 original size:13 final size:13
Alignment explanation
Indices: 127868--127893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127858 AAATTGTTGG
127868 TAAATAAAAAAAT
1 TAAATAAAAAAAT
127881 TAAATAAAAAAAT
1 TAAATAAAAAAAT
127894 AATGAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAATAAAAAAAT
Found at i:128009 original size:3 final size:3
Alignment explanation
Indices: 128001--128053 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
127991 CTCCTCACTC
* * * *
128001 TCA TCA TCA TCA CCA TTA TCA TCA TCA TCA CCA TCA GCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
128049 TCA TC
1 TCA TC
128054 GCCATCAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.36, G:0.02, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:128060 original size:18 final size:18
Alignment explanation
Indices: 128001--128053 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
127991 CTCCTCACTC
*
128001 TCATCATCATCACCATTA
1 TCATCATCATCACCATCA
128019 TCATCATCATCACCATCA
1 TCATCATCATCACCATCA
* *
128037 GCATCATCATCATCATC
1 TCATCATCATCACCATC
128054 GCCATCAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.36, G:0.02, T:0.30
Consensus pattern (18 bp):
TCATCATCATCACCATCA
Found at i:128066 original size:24 final size:24
Alignment explanation
Indices: 128001--128073 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
127991 CTCCTCACTC
* * *
128001 TCATCATCATCACCATTATCATCA
1 TCATCACCATCAACATCATCATCA
*
128025 TCATCACCATCAGCATCATCATCA
1 TCATCACCATCAACATCATCATCA
* * *
128049 TCATCGCCATCAATATCATAATCA
1 TCATCACCATCAACATCATCATCA
128073 T
1 T
128074 TAAGAGCATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (24 bp):
TCATCACCATCAACATCATCATCA
Found at i:129944 original size:17 final size:17
Alignment explanation
Indices: 129924--129971 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
129914 TTTGAGTGAA
*
129924 TTTGAGAGGGTTTGAGC
1 TTTGAGAGGGTTTAAGC
129941 TTTGAGAGGGTTTAAGC
1 TTTGAGAGGGTTTAAGC
129958 TTTGAGAGGGTTTA
1 TTTGAGAGGGTTTA
129972 GATGTTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.21, C:0.04, G:0.38, T:0.38
Consensus pattern (17 bp):
TTTGAGAGGGTTTAAGC
Found at i:131345 original size:14 final size:14
Alignment explanation
Indices: 131320--131358 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
131310 TTTATTTTTA
*
131320 TTTTAATTTAATTT
1 TTTTATTTTAATTT
131334 TTATT-TTTTAATTT
1 TT-TTATTTTAATTT
131348 TTTTATTTTAA
1 TTTTATTTTAA
131359 AAAATATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTTAATTT
Found at i:134294 original size:36 final size:36
Alignment explanation
Indices: 134180--134298 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
134170 TGGCAACCAA
*
134180 CTTTGAAAAAATGGTTTTCAAAGTTTGATAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
134217 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
134252 CTTTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
*
134289 -GTTGAAAAAT
1 CTTTGAAAAAT
134299 TGTAATGGGA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
35 34 0.44
36 16 0.21
37 27 0.35
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:135505 original size:15 final size:15
Alignment explanation
Indices: 135481--135512 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
135471 TGGCAGATCC
*
135481 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
135496 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
135511 AA
1 AA
135513 GAAAGATTTT
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:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:138829 original size:37 final size:36
Alignment explanation
Indices: 138774--138857 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 36
138764 TGGCAACCAA
138774 CTTTGACAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGA-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
138811 CTTTGAAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
*
138848 -GTTGAAAAAT
1 CTTTGAAAAAT
138858 TGTAATGGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 16 0.36
37 28 0.64
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:141366 original size:24 final size:23
Alignment explanation
Indices: 141320--141367 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
141310 ATTATTTTCC
*
141320 TTTTATATTTTTAATTCTTTATT
1 TTTTATATTTTTAATTCTATATT
* *
141343 TTTTATTATTTTTATTTGTATATT
1 TTTTA-TATTTTTAATTCTATATT
141367 T
1 T
141368 ACTATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTATATTTTTAATTCTATATT
Found at i:141499 original size:13 final size:13
Alignment explanation
Indices: 141474--141509 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
141464 TTCTTTATAC
141474 CTTTAATTTTGATT
1 CTTTAA-TTTGATT
*
141488 CTTTGATTTGATT
1 CTTTAATTTGATT
141501 CTTTAATTT
1 CTTTAATTT
141510 TATAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
CTTTAATTTGATT
Found at i:163024 original size:2 final size:2
Alignment explanation
Indices: 163017--163048 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
163007 CTTCTTTTTC
163017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
163049 AATAAAGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:164355 original size:16 final size:18
Alignment explanation
Indices: 164334--164366 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
164324 CTTGTCGTTG
164334 TTCCCT-CC-TTGCATGA
1 TTCCCTGCCGTTGCATGA
164350 TTCCCTGCCGTTGCATG
1 TTCCCTGCCGTTGCATG
164367 CCTATGCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.09, C:0.36, G:0.18, T:0.36
Consensus pattern (18 bp):
TTCCCTGCCGTTGCATGA
Found at i:164717 original size:21 final size:21
Alignment explanation
Indices: 164692--164789 Score: 58
Period size: 21 Copynumber: 4.6 Consensus size: 21
164682 AATTTAGTTA
164692 ATTAGTTTATTAGTATAAATT
1 ATTAGTTTATTAGTATAAATT
* *
164713 ATTAGTTTTTTAAGT-TATATTAT
1 ATTAGTTTATT-AGTATA-AAT-T
* * *
164736 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTATTAGTATAAATT
**
164757 ATATA-TTATATTA-TATAAAAA
1 AT-TAGTT-TATTAGTATAAATT
*
164778 ATTAGTTAATTA
1 ATTAGTTTATTA
164790 TTTTCTAGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
20 6 0.10
21 25 0.42
22 16 0.27
23 13 0.22
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
ATTAGTTTATTAGTATAAATT
Found at i:164758 original size:23 final size:22
Alignment explanation
Indices: 164684--164760 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
164674 AAAACTAAAA
*
164684 TTTAGTTA-ATTAGTTTATTAG
1 TTTAATTATATTAGTTTATTAG
* * *
164705 TATAAAT-TATTAGTTTTTTAAG
1 TTTAATTATATTAGTTTATT-AG
*
164727 -TTATATTATATTAGTTTGTTAG
1 TTTA-ATTATATTAGTTTATTAG
164749 TTTAAGTTATAT
1 TTTAA-TTATAT
164761 ATTATATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
21 16 0.37
22 7 0.16
23 20 0.47
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (22 bp):
TTTAATTATATTAGTTTATTAG
Found at i:168634 original size:20 final size:20
Alignment explanation
Indices: 168605--168647 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
168595 ATTCCACCAT
*
168605 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
168625 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
168645 ATG
1 ATG
168648 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:173955 original size:17 final size:15
Alignment explanation
Indices: 173921--173960 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
173911 AAAGACATGC
173921 ATATTTAATATTATA
1 ATATTTAATATTATA
*
173936 ATATTTAAGTTTTAATA
1 ATATTTAA-TATT-ATA
173953 ATATTTAA
1 ATATTTAA
173961 CATTTGCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 3 0.14
17 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTAATATTATA
Found at i:176530 original size:38 final size:39
Alignment explanation
Indices: 176488--176603 Score: 99
Period size: 42 Copynumber: 2.8 Consensus size: 39
176478 CTTAATTTTT
176488 TAACTAACTACAAACTAATTAAATATTTTTTTT-ATATA
1 TAACTAACTACAAACTAATTAAATATTTTTTTTAATATA
* * *
176526 TAACTAACGACTAACAAACAAACTAATTAATTATTTTTTAATATA
1 TAACT-A--ACT-ACAAACTAATTAAAT-ATT-TTTTTTAATATA
* * * *
176571 TAAATATCAAACAAACTAATTAAATAATTTTTT
1 TAACTAAC-TACAAACTAATTAAATATTTTTTT
176604 ATTTATGTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
38 5 0.08
39 1 0.02
40 5 0.08
41 5 0.08
42 25 0.42
43 3 0.05
44 7 0.12
45 9 0.15
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (39 bp):
TAACTAACTACAAACTAATTAAATATTTTTTTTAATATA
Found at i:176548 original size:46 final size:40
Alignment explanation
Indices: 176497--176603 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 40
176487 TTAACTAACT
176497 ACAAACTAATTAAATATTTTTTTTATATATAACTAACGACTAACAA
1 ACAAACTAATTAAATATTTTTTTTA-ATAT-A-TAA--A-TAACAA
* *
176543 ACAAACTAATT-AAT-TATTTTTTAATATATAAATATCAA
1 ACAAACTAATTAAATATTTTTTTTAATATATAAATAACAA
*
176581 ACAAACTAATTAAATAATTTTTT
1 ACAAACTAATTAAATATTTTTTT
176604 ATTTATGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
38 16 0.29
39 4 0.07
40 5 0.09
41 3 0.05
42 1 0.02
43 4 0.07
44 8 0.15
45 3 0.05
46 11 0.20
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (40 bp):
ACAAACTAATTAAATATTTTTTTTAATATATAAATAACAA
Found at i:176645 original size:21 final size:21
Alignment explanation
Indices: 176615--176654 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
176605 TTTATGTATG
*
176615 ATATACCTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
176636 ATATAACTTAAACTTACAA
1 ATATAACTTAAACTAACAA
176655 ACTAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:179680 original size:3 final size:3
Alignment explanation
Indices: 179674--179707 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
179664 ATTTTTTTAG
*
179674 TAT TAT TAT TAT TAT TGT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
179708 CAAAATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:180442 original size:22 final size:22
Alignment explanation
Indices: 180411--180487 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
180401 TCGGCTTATT
* *
180411 TCGTGGAGCCGGGGGTCAAATC
1 TCGTGAAGCCGGGGGTCGAATC
180433 TCGTGAAGCCGGGGGTCGAATC
1 TCGTGAAGCCGGGGGTCGAATC
* *
180455 TCGTGAAGCCAGGGGCCGAATC
1 TCGTGAAGCCGGGGGTCGAATC
180477 TCGTGAAGCCG
1 TCGTGAAGCCG
180488 AGGCCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.19, C:0.25, G:0.39, T:0.17
Consensus pattern (22 bp):
TCGTGAAGCCGGGGGTCGAATC
Found at i:184395 original size:18 final size:19
Alignment explanation
Indices: 184356--184397 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
184346 TTTTAATATT
*
184356 AAAAATAATTTTACAAATA
1 AAAAATAATATTACAAATA
184375 AAAAATAA-ATTA-AAATGA
1 AAAAATAATATTACAAAT-A
184393 AAAAA
1 AAAAA
184398 ATGTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATAATATTACAAATA
Found at i:185360 original size:19 final size:19
Alignment explanation
Indices: 185336--185377 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
185326 TGCAGTAATG
*
185336 AGTCTCCATTACAAGCTTT
1 AGTCTCCATTACAAGCTTC
185355 AGTCTCCATTACAAGCTTC
1 AGTCTCCATTACAAGCTTC
185374 AGTC
1 AGTC
185378 ATTAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (19 bp):
AGTCTCCATTACAAGCTTC
Found at i:191008 original size:19 final size:19
Alignment explanation
Indices: 190972--191009 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
190962 TCATTTTAAT
*
190972 TTATTTTTTATTTGTAAAA
1 TTATTTTTTATATGTAAAA
190991 TTATTTTTTAATAT-TAAAA
1 TTATTTTTT-ATATGTAAAA
191010 AATATGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATTTTTTATATGTAAAA
Found at i:191371 original size:21 final size:22
Alignment explanation
Indices: 191328--191381 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
191318 TCTGACTATT
191328 GCATTGCGA-TTTCCCAAATTC
1 GCATTGCGATTTTCCCAAATTC
* *
191349 GCGTTGCGATTTTCCTAAA-TC
1 GCATTGCGATTTTCCCAAATTC
*
191370 GCAATGCGATTT
1 GCATTGCGATTT
191382 ACGTAATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (22 bp):
GCATTGCGATTTTCCCAAATTC
Found at i:191414 original size:20 final size:20
Alignment explanation
Indices: 191364--191414 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
191354 GCGATTTTCC
*
191364 TAAATCGCAATGCGATTTACG
1 TAAATCGCAATGCGATCTA-G
* *
191385 TAATTTGCAATGCGAATCT-G
1 TAAATCGCAATGCG-ATCTAG
191405 TAAATCGCAA
1 TAAATCGCAA
191415 CGAGATTCTG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 9 0.38
21 12 0.50
22 3 0.12
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (20 bp):
TAAATCGCAATGCGATCTAG
Found at i:192542 original size:14 final size:14
Alignment explanation
Indices: 192517--192552 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
192507 GAAGAAAAAT
192517 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
192532 AAGAAAAATCCCCG
1 AAGAAAAATCCCCA
192546 AAGAAAA
1 AAGAAAA
192553 TGCCTCGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:194766 original size:20 final size:21
Alignment explanation
Indices: 194741--194834 Score: 124
Period size: 20 Copynumber: 4.7 Consensus size: 21
194731 GACATTCATT
194741 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAATA
* * *
194761 TGACTATTGCAACAC-GAAAA
1 TGACTATCGCAACGCGGAATA
*
194781 TGACTATCGCAATGCGGAAT-
1 TGACTATCGCAACGCGGAATA
194801 TGACTATCGCAACGCGGAA-A
1 TGACTATCGCAACGCGGAATA
194821 TGACTATCGCAACG
1 TGACTATCGCAACG
194835 AGAGAATCGC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 61 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (21 bp):
TGACTATCGCAACGCGGAATA
Found at i:194894 original size:34 final size:33
Alignment explanation
Indices: 194806--194899 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
194796 GGAATTGACT
* **
194806 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
194840 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
194873 ATCGCAATGCGAAAATGAAAATCGCAA
1 ATCGCAATGCG-AAATGAAAATCGCAA
194900 TGCGATTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 31 0.56
34 24 0.44
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:194897 original size:20 final size:19
Alignment explanation
Indices: 194839--194904 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 19
194829 GCAACGAGAG
194839 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
194858 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
194872 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
194892 AATCGCAATGCGA
1 AATCGCAATGCGA
194905 TTCACTCGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
14 8 0.21
16 5 0.13
17 2 0.05
18 3 0.08
19 9 0.23
20 12 0.31
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:194933 original size:33 final size:33
Alignment explanation
Indices: 194894--194961 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
194884 AAAATGAAAA
**
194894 TCGCAATGCGATTCACTCGTTGCGATTTTCATT
1 TCGCAATGCGATTCACTCGTTGCGATAGTCATT
*
194927 TCGCAATGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCAATGCGATTCACTCGTTGCGATAGTCATT
194960 TC
1 TC
194962 AGTATTGCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (33 bp):
TCGCAATGCGATTCACTCGTTGCGATAGTCATT
Found at i:195157 original size:34 final size:34
Alignment explanation
Indices: 195114--195209 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
195104 ATTAGTTTCG
195114 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
195148 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
195181 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
195210 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:198864 original size:21 final size:21
Alignment explanation
Indices: 198838--198877 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
198828 CAGAACCCCA
*
198838 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
198859 GGGGGGAATCGATTCCCCT
1 GGGGGGAATCGATTCCCCT
198878 TCAAAGGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:206396 original size:42 final size:42
Alignment explanation
Indices: 206292--206400 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
206282 AGAATATTGG
* * * *
206292 GAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTGT
1 GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATGT
* ** *
206334 GAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAG-
1 GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGAT-GT
206376 G-GGAGGCCTCTTGAACGATGACAGG
1 GAGG-GGCCTCTTGAACGATGACAGG
206401 TGAGTCGGGA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.94
43 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATGT
Found at i:206903 original size:20 final size:20
Alignment explanation
Indices: 206880--207006 Score: 200
Period size: 20 Copynumber: 6.3 Consensus size: 20
206870 GAAACTTAAA
*
206880 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
206900 ATCGTAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
206920 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
206940 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
206960 ATCGCAATGCGAAAATGAAT
1 ATCGCAATGCGAAAATGACT
* **
206980 ATCGTAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
207000 ATCGCAA
1 ATCGCAA
207007 CGAGAGAATC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 98 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:207078 original size:20 final size:20
Alignment explanation
Indices: 207053--207156 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 20
207043 GATTCTCTCG
207053 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
207073 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
207093 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
207107 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
207127 TTACGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
207147 TTGCGATAGT
1 TTGCGATAGT
207157 AAACTATTCT
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.10
16 6 0.08
18 6 0.08
20 54 0.74
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:207102 original size:54 final size:54
Alignment explanation
Indices: 207015--207153 Score: 226
Period size: 54 Copynumber: 2.6 Consensus size: 54
207005 AACGAGAGAA
* **
207015 TCGCAATGCGATTTTCA-TTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
207068 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
* *
207122 TCGCGTTACGATAGTCATTTTCGCATTGCGAT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGAT
207154 AGTAAACTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 14 0.17
54 66 0.82
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.40
Consensus pattern (54 bp):
TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
Found at i:209058 original size:20 final size:20
Alignment explanation
Indices: 209035--209089 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
209025 CTGAAACTTT
209035 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
209055 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
209075 CTATCGCAACGCGAA
1 AAATCGCAACACGAA
209090 TTTGACTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Done.