Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 5 of 14
Found at i:485451 original size:24 final size:22
Alignment explanation
Indices: 485418--485512 Score: 88
Period size: 23 Copynumber: 4.1 Consensus size: 22
485408 CTTAAGTAGA
*
485418 TTTTTCTTTT-TTTTTTCTCTTTT
1 TTTTTGTTTTGTTTTTT-T-TTTT
485441 TTCTTTGTTTTGTTTTTTGTTTTT
1 TT-TTTGTTTTGTTTTTT-TTTTT
485465 TTGTTT-TTTTGTTTTTTTGTTTT
1 TT-TTTGTTTTGTTTTTTT-TTTT
*
485488 TTTGTTGTTTT-TTTGTTTTTTT
1 TTT-TTGTTTTGTTTTTTTTTTT
485510 TTT
1 TTT
485513 AAAAAGAACG
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
22 9 0.14
23 27 0.43
24 20 0.32
25 7 0.11
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.86
Consensus pattern (22 bp):
TTTTTGTTTTGTTTTTTTTTTT
Found at i:485466 original size:8 final size:8
Alignment explanation
Indices: 485427--485512 Score: 97
Period size: 8 Copynumber: 10.6 Consensus size: 8
485417 ATTTTTCTTT
*
485427 TTTTTTTC
1 TTTTTTTG
*
485435 TCTTTTTTC
1 T-TTTTTTG
485444 TTTGTTTTG
1 TTT-TTTTG
485453 -TTTTTTG
1 TTTTTTTG
485460 TTTTTTTG
1 TTTTTTTG
485468 TTTTTTTG
1 TTTTTTTG
485476 TTTTTTTG
1 TTTTTTTG
485484 TTTTTTTG
1 TTTTTTTG
485492 TTGTTTTT-
1 TT-TTTTTG
485500 TTGTTTTT-
1 TT-TTTTTG
485508 TTTTT
1 TTTTT
485513 AAAAAGAACG
Statistics
Matches: 73, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
7 8 0.11
8 48 0.66
9 17 0.23
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.86
Consensus pattern (8 bp):
TTTTTTTG
Found at i:487385 original size:51 final size:52
Alignment explanation
Indices: 487309--487440 Score: 175
Period size: 51 Copynumber: 2.6 Consensus size: 52
487299 GAAGTATCCC
* *
487309 TTTGGAAAT--AAT-GGGGTTGGAGTATCCCCT-ATTGTGAAAAATTTGTGT
1 TTTGGAAATAAAATCGGGGTTGGAGTATCCCCTGATTGTGAAAAATTGGTAT
* *
487357 TTTGGAAATAAAATCGGAGTTGGAGTAT-CCCTGATTGTGGAAAATTGGTAT
1 TTTGGAAATAAAATCGGGGTTGGAGTATCCCCTGATTGTGAAAAATTGGTAT
* *
487408 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
1 TTTGGAAATAAAATCGGGGTTGGAGTATCCCCT
487441 CGAAAATAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
48 9 0.12
50 7 0.10
51 52 0.72
52 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.33
Consensus pattern (52 bp):
TTTGGAAATAAAATCGGGGTTGGAGTATCCCCTGATTGTGAAAAATTGGTAT
Found at i:487388 original size:79 final size:79
Alignment explanation
Indices: 487085--487387 Score: 299
Period size: 79 Copynumber: 3.8 Consensus size: 79
487075 AGATAACAAC
* * * * **
487085 GGGGCTGGAGTATCCCCGATTATGGAAAATTGGTGTTCCAGAAATAAAATCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATC
* *
487150 CCCTAAAAAATAAC
66 CCCTAGAAAATAAT
* * * *
487164 AGGGTTTGAGTATCCCTGATTAT-AAAAATCGGTATTTT-GAAAATGAAATCGAGGTTGGAGTAT
1 GGGGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTAG-AAATAAAATCGAGGTTGGAGTAT
*
487227 CCCCTCGAAAATAAT
65 CCCCTAGAAAATAAT
* * * * *** *
487242 GGGGTTGGAGTATCCCTGATTTTGAAAAATCGATAATTTAGAAATAAGGCCGAGGTTGAAGTATC
1 GGGGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATC
* * *
487307 CCTTTGGAAATAAT
66 CCCTAGAAAATAAT
* * * *
487321 GGGGTTGGAGTATCCCCT-ATTGTGAAAAATTTGTGTTTTGGAAATAAAATCG-GAGTTGGAGTA
1 GGGGTTGGAGTAT-CCCTGATTATGAAAAATTGGTATTTTAGAAATAAAATCGAG-GTTGGAGTA
487384 TCCC
64 TCCC
487388 TGATTGTGGA
Statistics
Matches: 182, Mismatches: 37, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
77 1 0.01
78 65 0.36
79 111 0.61
80 5 0.03
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATC
CCCTAGAAAATAAT
Found at i:487401 original size:130 final size:127
Alignment explanation
Indices: 487244--487514 Score: 321
Period size: 130 Copynumber: 2.1 Consensus size: 127
487234 AAAATAATGG
* **
487244 GGTTGGAGTATCCCTGATTTTGAAAAATCGATAATTTAGAAATAAGGCCGAGGTTGAAGTATCCC
1 GGTTGGAGTATCCCTGATTGTGAAAAATCGATAATTTAGAAATAAAACCGAGGTTGAAGTATCCC
* * * * * * *
487309 TTTGGAAATAATGGGGTTGGAGTATCCCCTATTGTGAAAAATTTG-TGTTTTGGAAATAAAATCG
66 CTCGAAAATAACGGGGTTAGAGTATCCCCGA---TGAAAAA-TTGATGTTTTGGAAATAAAACCG
487373 -
127 A
* * * * * *
487373 GAGTTGGAGTATCCCTGATTGTGGAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 G-GTTGGAGTATCCCTGATTGTGAAAAATCGATAATTTAGAAATAAAACCGAGGTTGAAGTATCC
*
487438 CCTCGAAAATAACGGGGTTAGAGTATCCCCGATGAAAAATTGATGTTTTGGAAATGAAACCGA
65 CCTCGAAAATAACGGGGTTAGAGTATCCCCGATGAAAAATTGATGTTTTGGAAATAAAACCGA
*
487501 GGTTGAAGTATCCC
1 GGTTGGAGTATCCC
487515 CGAGATGAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
126 3 0.02
127 36 0.30
128 1 0.01
129 1 0.01
130 80 0.66
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (127 bp):
GGTTGGAGTATCCCTGATTGTGAAAAATCGATAATTTAGAAATAAAACCGAGGTTGAAGTATCCC
CTCGAAAATAACGGGGTTAGAGTATCCCCGATGAAAAATTGATGTTTTGGAAATAAAACCGA
Found at i:489856 original size:20 final size:19
Alignment explanation
Indices: 489813--489919 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 19
489803 AAAATGCCTG
* *
489813 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
489833 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
*
489853 AATG-A---AT-CGAT-AC
1 AATGTATCGATACAATGAC
489866 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
* * *
489886 AATGTATTGATATAATGCAA
1 AATGTATCGATACAATG-AC
489906 AATGTATCGATACA
1 AATGTATCGATACA
489920 TCTGCGTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
13 5 0.07
14 2 0.03
15 3 0.04
16 2 0.03
17 2 0.03
18 3 0.04
19 3 0.04
20 48 0.70
21 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:489868 original size:13 final size:13
Alignment explanation
Indices: 489852--489883 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
489842 ATACAATGAG
489852 CAATGAATCGATA
1 CAATGAATCGATA
*
489865 CAATGTATCGATA
1 CAATGAATCGATA
489878 CAATGA
1 CAATGA
489884 GCAATGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (13 bp):
CAATGAATCGATA
Found at i:489915 original size:53 final size:53
Alignment explanation
Indices: 489813--489919 Score: 128
Period size: 53 Copynumber: 2.0 Consensus size: 53
489803 AAAATGCCTG
* *
489813 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGCAATGAATCGATAC
1 AATGTATCGATACAATGTAAAATGTATCGATACAATGAGAAATGAATCGATAC
* * * *
489866 AATGTATCGATACAATG-AGCAATGTATTGATATAATGCA-AAATGTATCGATAC
1 AATGTATCGATACAATGTA-AAATGTATCGATACAATG-AGAAATGAATCGATAC
489919 A
1 A
489920 TCTGCGTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.96
54 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (53 bp):
AATGTATCGATACAATGTAAAATGTATCGATACAATGAGAAATGAATCGATAC
Found at i:490661 original size:35 final size:33
Alignment explanation
Indices: 490629--490697 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 33
490619 GAAGAAAAGG
490629 AAAGT-GTCCTGCTTCTTAAGGACAAAGTGAAAA
1 AAAGTAGTCCTGCTTCTTAAGGACAAAG-GAAAA
* * *
490662 AGAGTACGTCCTGCTTTTTAAGGATAAAGGAAAA
1 AAAGTA-GTCCTGCTTCTTAAGGACAAAGGAAAA
490696 AA
1 AA
490698 GGAAAACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
33 4 0.13
34 6 0.20
35 20 0.67
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.25
Consensus pattern (33 bp):
AAAGTAGTCCTGCTTCTTAAGGACAAAGGAAAA
Found at i:490715 original size:42 final size:43
Alignment explanation
Indices: 490668--490948 Score: 272
Period size: 42 Copynumber: 6.5 Consensus size: 43
490658 AAAAAGAGTA
* * * *
490668 CGTCCTGCTTTTTAAGGATAAAGGAAAAAAGGAAAACA-AAA-TG
1 CGTCCTGCTCTTTGAGGACAAAAG-AAAAAGGAAAA-ATAAAGTG
*
490711 -GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAAATAAAGTG
* *
490753 CGTCCTGCTCTTTGAGGACAAAAGAGAAAA-GAAGGGAAT-AATTG
1 CGTCCTGCTCTTTGAGGACAAAAGA-AAAAGGAA--AAATAAAGTG
* * * *
490797 TGTCCTGCTCTTTGAGGACAAAGGAGAGAGG-AAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAAATAAAGTG
* * *
490839 CGTCCTGCTCTTTGAGGACAAAAGAGAAAA-TAAGGGAATGAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGA-AAAAGGAA--AAATAAAGTG
* * * *
490884 TGTCCTGCTCTTTGAGGACAAAGGAGAGAGG-AAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAAATAAAGTG
490926 CGTCCTGCTCTTTGAGGACAAAA
1 CGTCCTGCTCTTTGAGGACAAAA
490949 AAGTGCTACC
Statistics
Matches: 195, Mismatches: 30, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 16 0.08
42 77 0.39
43 33 0.17
44 34 0.17
45 34 0.17
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAAATAAAGTG
Found at i:490862 original size:86 final size:87
Alignment explanation
Indices: 490711--490948 Score: 424
Period size: 87 Copynumber: 2.7 Consensus size: 87
490701 AAACAAAATG
* *
490711 GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAGAGG-AAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
*
490776 GAGAAAAGAAGGGAAT-AATTGT
65 GAGAAAAGAAGGGAATGAAGTGT
490798 GTCCTGCTCTTTGAGGACAAAGGAGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAG
1 GTCCTGCTCTTTGAGGACAAAGGAGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAG
*
490863 AGAAAATAAGGGAATGAAGTGT
66 AGAAAAGAAGGGAATGAAGTGT
490885 GTCCTGCTCTTTGAGGACAAAGGAGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
490949 AAGTGCTACC
Statistics
Matches: 146, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
86 49 0.34
87 97 0.66
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (87 bp):
GTCCTGCTCTTTGAGGACAAAGGAGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAG
AGAAAAGAAGGGAATGAAGTGT
Found at i:490931 original size:129 final size:127
Alignment explanation
Indices: 490561--490947 Score: 327
Period size: 129 Copynumber: 3.1 Consensus size: 127
490551 TTCCCACTTT
* ** * * * *
490561 TTTGAGGACAAAGGAAAAGA-GAATGCAATA-GGTCTTGCTCCTTGAGGACAAAGGAAGAGAAGA
1 TTTGAGGACAAAGGAAAAAAGGAAAACAAAATGGTCCTGCTCTTTGAGGACAAAAGAA-AGAAGA
** * * * *
490624 AAAGGAAAGT--GTCCTGCT-TCTTAAGGAC-AAAGTG-AAA-AAG----AGTACGTCCTGCTT
65 AAAATAAAGTGCGTCCTGCTCT-TTGAGGACAAAAGAGAAAAGAAGAATAAGTGCGTCCTGCTC
* * *
490678 TTTAAGGATAAAGGAAAAAAGGAAAACAAAATGGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAA
1 TTTGAGGACAAAGGAAAAAAGGAAAACAAAATGGTCCTGCTCTTTGAGGACAAAAGAAAGAAGAA
* *
490743 AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAATAATTGTGTCCTGCTC
66 AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAA--GAATAAGTGCGTCCTGCTC
* * * * *
490807 TTTGAGGACAAAGG-AGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAA-AAT
1 TTTGAGGACAAAGGAAAAAAGGAAAACAAAATG-GTCCTGCTCTTTGAGGACAAAAGA-AAGAAG
* * * * * *
490870 AAGGGAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAGAGAGGAA-AATAAAGTGCGTCCTGC
64 AA--AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGAAT-AAGTGCGTCCTGC
490934 TC
126 TC
490936 TTTGAGGACAAA
1 TTTGAGGACAAA
490948 AAAGTGCTAC
Statistics
Matches: 217, Mismatches: 34, Indels: 26
0.78 0.12 0.09
Matches are distributed among these distances:
117 17 0.08
118 20 0.09
119 23 0.11
120 15 0.07
121 6 0.03
122 3 0.01
123 2 0.01
125 1 0.00
128 17 0.08
129 74 0.34
130 2 0.01
131 37 0.17
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.20
Consensus pattern (127 bp):
TTTGAGGACAAAGGAAAAAAGGAAAACAAAATGGTCCTGCTCTTTGAGGACAAAAGAAAGAAGAA
AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGAATAAGTGCGTCCTGCTC
Found at i:491023 original size:61 final size:61
Alignment explanation
Indices: 490920--491135 Score: 245
Period size: 61 Copynumber: 3.5 Consensus size: 61
490910 AGAGGAAAAT
*** * **
490920 AAAGTGCGTCCTGCTCTTTGAGGACAAAAAAGTGCTACCAACTCATGTGGGCTTTAGAAAAG-
1 AAAG-GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-GAAAAGA
* * * *
490982 AAAGGCGTCTTGCTCTTTGAGGACTGGAAGGTGCCAGCAACTTGTGTGGGCTTTGCAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
* * * * *
491043 AAAAGCATCCTGCTCTTTAATGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA
* *
491105 AAAGGCGTCCTGCACTTTGAGGACTAGAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAG
491136 GAAAAGAAGG
Statistics
Matches: 126, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
60 5 0.04
61 91 0.72
62 30 0.24
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
Found at i:491244 original size:273 final size:271
Alignment explanation
Indices: 490833--491334 Score: 672
Period size: 273 Copynumber: 1.8 Consensus size: 271
490823 AGAGGAAAAT
* * * *
490833 AAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAATAAGGGAATGAAGTGTGTCCTGCTCTTTG
1 AAAGTGCGTCCTGCACTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTG
* * * *
490898 AGGACAAAGGAGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAAAGTGCTACCAACT
66 AGGACAAAGGAGAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACAAAAAAGTGCTACCAACT
* * * * *
490963 CATGTGGGCTTTAGAAAAG-AAAGGCGTCTTGCTCTTTGAGGACTGGAAGGTGCCAGCAACTTGT
131 CATGTGGGCTTTA-AAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAAATCGT
491027 GTGGGCTTTGCAAAGAAAAAGCATCCTGCTCTTTAATGACTGGAAAATGCCACCAACTTGTGTGG
195 GTGGGCTTTG-AAAGAAAAAGCATCCTGCTCTTTAATGACTGGAAAATGCCACCAACTTGTGTGG
491092 GCTTTGAAAAGGA
259 GCTTTGAAAAGGA
*
491105 AAAG-GCGTCCTGCACTTTGAGGACTAGAAAG-GAAAAGAAGGAAATGAAGTGCGTCTTGCTCTT
1 AAAGTGCGTCCTGCACTTTGAGGAC-A-AAAGAGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTT
* * * ** *
491168 TGAGGACAAGGGGGAAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACTAGGAGGTG-TCACC
64 TGAGGACAAAGGAG-AAAGGAAAATAAAATGCATCCTACTCTTTGAGGACAAAAAAGTGCT-ACC
* *
491232 AACAT-GTGTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTCTTTGAGGACTGGAGGGTGCCACCA
127 AAC-TCATGTGGGCTTTAAAAAG--AAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCA
* *
491296 AATCGTGTGGGCTTTGAAGGAGAAAGCATCCTGCTCTTT
189 AATCGTGTGGGCTTTGAAAGAAAAAGCATCCTGCTCTTT
491335 GAAGACTAGG
Statistics
Matches: 198, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
271 19 0.10
272 51 0.26
273 57 0.29
274 22 0.11
275 49 0.25
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (271 bp):
AAAGTGCGTCCTGCACTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTG
AGGACAAAGGAGAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACAAAAAAGTGCTACCAACT
CATGTGGGCTTTAAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAAATCGTG
TGGGCTTTGAAAGAAAAAGCATCCTGCTCTTTAATGACTGGAAAATGCCACCAACTTGTGTGGGC
TTTGAAAAGGA
Found at i:491304 original size:63 final size:60
Alignment explanation
Indices: 491193--491344 Score: 182
Period size: 63 Copynumber: 2.5 Consensus size: 60
491183 AAAGGAAAAT
* * *
491193 AAAATGCATCCTACTCTTTGAGGACTAGGAGGTGTCACCAACATGTGTGGGCTTTAAAAAGA
1 AAAAAGCATCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACATGTGTGGGCTTT--AAAGA
* *
491255 AAAAAGGCATCCTGCTCTTTGAGGACT-GGAGGGTGCCACCAA-ATCGTGTGGGCTTTGAAGG
1 AAAAA-GCATCCTGCTCTTTGAGGACTAGGA-GGTGCCACCAACAT-GTGTGGGCTTTAAAGA
* *
491316 AGAAAGCATCCTGCTCTTTGAAGACTAGG
1 AAAAAGCATCCTGCTCTTTGAGGACTAGG
491345 GGGAAGAGGA
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
60 20 0.25
61 9 0.11
62 9 0.11
63 41 0.52
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (60 bp):
AAAAAGCATCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACATGTGTGGGCTTTAAAGA
Found at i:491441 original size:166 final size:166
Alignment explanation
Indices: 491161--491502 Score: 522
Period size: 166 Copynumber: 2.1 Consensus size: 166
491151 AAGTGCGTCT
*
491161 TGCTCTTTGAGGACAAGGGGGAAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACTAGGAGGT
1 TGCTCTTTGAAGACAAGGGGGAAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACTAGGAGGT
* * *
491226 GTCACCAACATGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTGCTCTTTGAGGACTGGAGGGTGC
66 GCCACCAACATGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTACTCTTTGAGGACTAGAGGGTGC
*
491291 CACCAAATCGTGTGGGCTTTGAAGGAGAAAGCATCC
131 CACCAAATCGTGTGGGCTTTGAACGAGAAAGCATCC
* * * ** * *
491327 TGCTCTTTGAAGACTAGGGGGAAGAGGAAAATAAAGTGTGTCCTGCTTTTTGAGGACTAGGAGGT
1 TGCTCTTTGAAGACAAGGGGGAAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACTAGGAGGT
491392 GCCACCAACATGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTACTCTTTGAGGACTAGAGGGTGC
66 GCCACCAACATGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTACTCTTTGAGGACTAGAGGGTGC
* ** * *
491457 CACCAACTTTTGTGGGCTTTGAACGAGAAGGCGTCC
131 CACCAAATCGTGTGGGCTTTGAACGAGAAAGCATCC
*
491493 TGCTATTTGA
1 TGCTCTTTGA
491503 GGATTAAAAA
Statistics
Matches: 158, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
166 158 1.00
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (166 bp):
TGCTCTTTGAAGACAAGGGGGAAAAGGAAAATAAAATGCATCCTACTCTTTGAGGACTAGGAGGT
GCCACCAACATGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTACTCTTTGAGGACTAGAGGGTGC
CACCAAATCGTGTGGGCTTTGAACGAGAAAGCATCC
Found at i:491456 original size:63 final size:61
Alignment explanation
Indices: 491375--491541 Score: 176
Period size: 63 Copynumber: 2.7 Consensus size: 61
491365 TGTCCTGCTT
* *
491375 TTTGAGGACTAG-GAGGTGCCACCAACATGTGTGGGCTTTAAAAAGAAAAAAGGCATCCTACTC
1 TTTGAGGACTAGAG-GGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAGGCATCCTACTA
* * * * * *
491438 TTTGAGGACTAGAGGGTGCCACCAACTTTTGTGGGCTTT-GAACGAGAAGGCGTCCTGCTA
1 TTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTACTA
* * **
491498 TTTGAGGATTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 TTTGAGGACT-AGAGGGTGCCACCAACTTGTGTGGGCTTTAAAA
491542 GGCGTCCTGC
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
60 21 0.24
61 25 0.29
62 5 0.06
63 35 0.40
64 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (61 bp):
TTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTACTA
Found at i:491526 original size:61 final size:56
Alignment explanation
Indices: 491422--491566 Score: 157
Period size: 56 Copynumber: 2.5 Consensus size: 56
491412 TTAAAAAGAA
* * * * ** *
491422 AAAAGGCATCCTACTCTTTGAGGACT-AGAGGGTGCCACCAACTTTTGTGGGCTTT
1 AAAAGGCGTCCTGCTATTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTT
*
491477 GAACGAGAAGGCGTCCTGCTATTTGAGGATTAAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 --A--A-AAGGCGTCCTGCTATTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTT
*
491538 AAAAGGCGTCCTGCTCTTTGAGGACTAAA
1 AAAAGGCGTCCTGCTATTTGAGGACTAAA
491567 GGGTGAAAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
56 25 0.34
57 2 0.03
59 2 0.03
60 20 0.27
61 25 0.34
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (56 bp):
AAAAGGCGTCCTGCTATTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:491711 original size:155 final size:154
Alignment explanation
Indices: 491427--491823 Score: 575
Period size: 155 Copynumber: 2.6 Consensus size: 154
491417 AAGAAAAAAG
* * *
491427 GCATCCTACTCTTTGAGGACTAGAGG--GTGCCACCAACTTTTGTGGGCTTT-GAACGAGAAGGC
1 GCATCCTACTCTTTGAGGACT-G-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGC
* *
491489 GTCCTGCTATTTGAGGATTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
64 GTCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
* *
491554 TTTGAGGACTAAAGGGTGAAAGGAGAGA
127 TTTGAGGACTAAAGAGCGAAAGGAGAGA
*
491582 GCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGTTTTAAAAAGAGAAGGCGT
1 GCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGT
* *
491647 CCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTCAAAGGCGTCCTGTTCTTT
66 CCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
*
491712 GAGTACTAAAGAGCGAAAGGAGAGA
130 GAGGACTAAAGAGCGAAAGGAGAGA
* * * * * *
491737 GCATCTTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGCGTGAGCTTTAAAAGGAGAAGGCGT
1 GCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGT
491802 CCTGCTCTTTGAGGACTAAAAG
66 CCTGCTCTTTGAGGACTAAAAG
491824 GCGAAAGGAG
Statistics
Matches: 220, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
153 2 0.01
154 6 0.03
155 185 0.84
156 27 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (154 bp):
GCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGT
CCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
AGGACTAAAGAGCGAAAGGAGAGA
Found at i:491837 original size:100 final size:100
Alignment explanation
Indices: 491646--491924 Score: 383
Period size: 100 Copynumber: 2.9 Consensus size: 100
491636 AGAGAAGGCG
* * * * *
491646 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-----CA-AAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGCGTGAGCTTTAAAAAGAGAAGGCGTCCT
* *
491705 GTTCTTTGAGTACT-AAAGAGCGAAAGGAGAGAGCA
66 GCTCTTTGAGGACTAAAAG-GCGAAAGGAGAGAGCA
* * *
491740 TCTTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGCGTGAGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGCGTGAGCTTTAAAAAGAGAAGGCGTCCT
491805 GCTCTTTGAGGACTAAAAGGCGAAAGGAGAGAGCA
66 GCTCTTTGAGGACTAAAAGGCGAAAGGAGAGAGCA
* *
491840 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGAGCTTTAAAAAGAGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGCGTGAGCTTTAAAAAGAGAAGGCGTCCT
*
491905 GCTCTTTGAGGACTAGAAGG
66 GCTCTTTGAGGACTAAAAGG
491925 TGCCACCAAC
Statistics
Matches: 163, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
94 41 0.25
99 1 0.01
100 117 0.72
101 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (100 bp):
TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGCGTGAGCTTTAAAAAGAGAAGGCGTCCT
GCTCTTTGAGGACTAAAAGGCGAAAGGAGAGAGCA
Found at i:491935 original size:61 final size:61
Alignment explanation
Indices: 491840--492354 Score: 568
Period size: 61 Copynumber: 8.4 Consensus size: 61
491830 GGAGAGAGCA
* * * *
491840 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTTAAAAAGAGAAGGTG
1 TCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
* * *
491901 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTCGGCTATAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
* * * * * *
491962 TCATGCTCTTTGAGGACTGGAAGGTGGCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
* * **
492023 TCCTACTCTTTGAGGACTA-AAGGTGCCACGAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAAAC
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-----AAAAGGC
492087 G
61 G
* * *
492088 TCCTGCTCTTTTAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAG--AAAAGGCG
* * * *
492151 TCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
*
492212 TCCTGCTCTTTGAGAACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAGGC
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-----AAAAGGC
492276 G
61 G
*
492277 TCCTGTTCTTTGAGGACT-GAATGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
*
492332 TCCTACTCTTTGAGGACTA-AAGG
1 TCCTGCTCTTTGAGGACTAGAAGG
492355 GTGAAAGTAG
Statistics
Matches: 391, Mismatches: 47, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
54 2 0.01
55 25 0.06
60 61 0.16
61 146 0.37
63 29 0.07
64 24 0.06
65 73 0.19
66 31 0.08
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
Found at i:492074 original size:122 final size:122
Alignment explanation
Indices: 491840--492354 Score: 566
Period size: 126 Copynumber: 4.2 Consensus size: 122
491830 GGAGAGAGCA
* * * * *
491840 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTT-AAAAAGAGAAGGTGTC
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAAGGCGTC
* *
491903 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTCGGCTATAAAAGGAAAAGGCG
64 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * ** *
491962 TCATGCTCTTTGAGGACTGGAAGGTGGCACCAACTTGTGTGGGCTTT-AAGAGGAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAAGGCGTCC
* * * **
492026 TACTCTTTGAGGACTA-AAGGTGCCACGAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAAACG
65 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG----GAAAAGGCG
* * *
492088 TCCTGCTCTTTTAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAAGGCATC
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAA-AAAAAAGGCGTC
* * *
492153 CTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCG
64 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
492212 TCCTGCTCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT---AA-AAAAAAAAAGGCG
*
492277 TCCTGTTCTTTGAGGACT-GAATGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
62 TCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
492332 TCCTACTCTTTGAGGACTAAAGG
1 TCCTGCTCTTTGAGGACTAAAGG
492355 GTGAAAGTAG
Statistics
Matches: 339, Mismatches: 40, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
120 28 0.08
121 29 0.09
122 73 0.22
124 49 0.14
125 27 0.08
126 75 0.22
127 6 0.02
128 28 0.08
129 24 0.07
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (122 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAAGGCGTCCT
GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:492184 original size:189 final size:188
Alignment explanation
Indices: 491900--492323 Score: 620
Period size: 189 Copynumber: 2.2 Consensus size: 188
491890 AAGAGAAGGT
* * * *
491900 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTCGGC--TATAAAAGGAAAAGGCGT
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGGCAT
* * * *
491963 CATGCTCTTTGAGGACTGGAAGGTGGCACCAACTTGTGTGGGCTTT-AAGAGGAAAAGGTGTCCT
65 CATGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTGAA-AGGAAAAGGCGTCCT
* *
492027 ACTCTTTGAGGACTAAAGGTGCCACGAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAAAC
129 ACTCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAAAC
* *
492087 GTCCTGCTCTTTTAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAAGGCAT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAG-AAAAAGGCAT
* * *
492152 CCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCTG
65 CATGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCTA
**
492217 CTCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAGGC
130 CTCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAAAC
* *
492276 GTCCTGTTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTT
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
492324 GAAAGGCGTC
Statistics
Matches: 211, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
186 22 0.10
187 19 0.09
188 7 0.03
189 135 0.64
190 28 0.13
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (188 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGGCATC
ATGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCTAC
TCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAAAAC
Found at i:492436 original size:63 final size:62
Alignment explanation
Indices: 492368--492573 Score: 292
Period size: 60 Copynumber: 3.3 Consensus size: 62
492358 AAAGTAGAAA
*
492368 GCGTCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAG
* ** * *
492431 GCGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCATGTGGGCTTTG--AAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
* *
492491 GCATCCTGCTCTTTGGGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
*
492553 GTGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
492574 GGAAGGGCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
60 50 0.40
61 3 0.02
62 27 0.22
63 45 0.36
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (62 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
Found at i:500155 original size:13 final size:13
Alignment explanation
Indices: 500137--500162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
500127 TAAGATCATG
500137 GAACAATGTTACC
1 GAACAATGTTACC
500150 GAACAATGTTACC
1 GAACAATGTTACC
500163 ATAGCCCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
GAACAATGTTACC
Found at i:509779 original size:79 final size:79
Alignment explanation
Indices: 509684--509866 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 79
509674 ACAATGGGGC
* * *
509684 TGGAGTATCCCTGATTATGGAAAATCTGTGTTCTGGAAATAAAA-CTGAAGTTGGAGTATCCCCT
1 TGGAGTATCCCTGATTATGGAAAATCGGTATTCTGAAAATAAAATC-GAAGTTGGAGTATCCCCT
509748 C-AGAAATAACAGGGA
65 CGA-AAATAACAGGGA
* * ** *
509763 TGGAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTTGAGTATCCCCTC
1 TGGAGTATCCCTGATTATGGAAAATCGGTATTCTGAAAATAAAATCGAAGTTGGAGTATCCCCTC
*
509828 GAAAATAACAGGGT
66 GAAAATAACAGGGA
* * *
509842 TGGAGTATCCCCGATTGTGAAAAAT
1 TGGAGTATCCCTGATTATGGAAAAT
509867 TGATGATTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 87 0.98
80 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCTGATTATGGAAAATCGGTATTCTGAAAATAAAATCGAAGTTGGAGTATCCCCTC
GAAAATAACAGGGA
Found at i:509900 original size:79 final size:78
Alignment explanation
Indices: 509684--509904 Score: 184
Period size: 79 Copynumber: 2.8 Consensus size: 78
509674 ACAATGGGGC
* * * * *
509684 TGGAGTATCCCTGATTATGGAAAATCTG-TGTTCT-GGAAATAAAA-CTGAAGTTGGAGTATCCC
1 TGGAGTATCCCCGATTATAGAAAATC-GATATT-TAGAAAATAAAATCAG-AGTT-GAGTATCCC
509746 CTCAGAAATAACAGGGA
62 CTCAGAAATAACAGGGA
* * * * *
509763 TGGAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTTGAGTATCCCCTC
1 TGGAGTATCCCCGATTATAGAAAATCGATATTTAGAAAATAAAATCAGAG-TTGAGTATCCCCTC
*
509828 -GAAAATAACAGGGT
65 AG-AAATAACAGGGA
* * **
509842 TGGAGTATCCCCGATTGT-GAAAAATTGATGATTTAG-AAATAAGGTCAGAGTTGAAGTATCCCC
1 TGGAGTATCCCCGATTATAG-AAAATCGAT-ATTTAGAAAATAAAATCAGAGTTG-AGTATCCCC
509905 GATTATGAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
78 7 0.06
79 103 0.87
80 9 0.08
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATAGAAAATCGATATTTAGAAAATAAAATCAGAGTTGAGTATCCCCTCA
GAAATAACAGGGA
Found at i:509951 original size:51 final size:50
Alignment explanation
Indices: 509839--509955 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 50
509829 AAAATAACAG
* ** * *
509839 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGATTTAGAAATAAGGTCA
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTAGAAATAAAGCCA
* * *
509889 GAGTTGAAGTATCCCCGATTATGAGAAATCAAT-ATTTTGGAAATAAAGCCGA
1 G-GTTGGAGTATCCCCGATTATGAAAAATCAATGA-TTTAGAAATAAAGCC-A
509941 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
509956 TCGGAAATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.04
51 51 0.93
52 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTAGAAATAAAGCCA
Found at i:509990 original size:28 final size:28
Alignment explanation
Indices: 509941--510014 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
509931 ATAAAGCCGA
*** *
509941 GGTTGGAGTATCCCCTCGGAAATAAT-GG
1 GGTTGGAGTATCCCCGATGAAAT-ATCAG
*
509969 GGTTAGAGTATCCCCGATGAAATATCAG
1 GGTTGGAGTATCCCCGATGAAATATCAG
509997 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
510015 TGTGAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATATCAG
Found at i:509998 original size:158 final size:158
Alignment explanation
Indices: 509808--510138 Score: 418
Period size: 158 Copynumber: 2.1 Consensus size: 158
509798 AAAATAAAAT
*
509808 CGGGGTTTGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATT-GATG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAG-TG
** *
509872 ATTTAGAAATAAGGTCAGAGTTGAAGTATCCCCGATTAT-GAGAAATCAATATTTTGGAAATAAA
65 ATTTAGAAATAAAATCAGAGTTGAAGTATCCCCGATTATGGA-AAATCAATATTTTAGAAATAAA
* *
509936 GCCGAGGTTGGAGTATCCCCTCGGAAATAA
129 ACCAAGGTTGGAGTATCCCCTCGGAAATAA
* *
509966 TGGGGTTAGAGTAT-CCC-CGATGAAATATCAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
1 CGGGGTTAGAGTATCCCCTCGA--AAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
* * * * * * * *
510029 GTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAA
64 GATTTAGAAATAAAATCAGAGTTGAAGTATCCCCGATTATGGAAAATCAATATTTTAGAAATAAA
* * *
510094 ACCAAGGTTGGAGTATCCTCTTGGAAATGA
129 ACCAAGGTTGGAGTATCCCCTCGGAAATAA
*
510124 CGGGGTTGGAGTATC
1 CGGGGTTAGAGTATC
510139 TCCAATTGTG
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
156 3 0.02
157 3 0.02
158 138 0.94
159 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (158 bp):
CGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGA
TTTAGAAATAAAATCAGAGTTGAAGTATCCCCGATTATGGAAAATCAATATTTTAGAAATAAAAC
CAAGGTTGGAGTATCCCCTCGGAAATAA
Found at i:510061 original size:51 final size:51
Alignment explanation
Indices: 509994--510111 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
509984 GATGAAATAT
* * *
509994 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAAT
1 CAGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
* *
510045 CGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAAC
1 CAGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
*
510096 CAAGGTTGGAGTATCC
1 CAGGGTTGGAGTATCC
510112 TCTTGGAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
Found at i:510128 original size:79 final size:77
Alignment explanation
Indices: 510045--510271 Score: 274
Period size: 79 Copynumber: 2.9 Consensus size: 77
510035 GAAATAAAAT
* * **
510045 CGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCAAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATT-GTGTTTT-GAAATAAAACCGGGGTTGGAGTAT
* * *
510110 CCTCTTGGAAATGA
64 CCCCTCGGAAATAA
* * * * *
510124 CGGGGTTGGAGTATCTCCAATTGTGAAAAACTGGTGTTCTGAGAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAA-TTGTGTTTTGA-AATAAAACCGGGGTTGGAGTAT
510189 CCCCTCGGAAATAA
64 CCCCTCGGAAATAA
* *
510203 CAGGATTGGAGTATCCCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATTG-TGTTTT-GAAATAAAACCGGGGTTGGAGTAT
510268 CCCC
64 CCCC
510272 AAGATGAAAA
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
78 4 0.03
79 118 0.94
80 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATTGTGTTTTGAAATAAAACCGGGGTTGGAGTATCC
CCTCGGAAATAA
Found at i:516233 original size:32 final size:32
Alignment explanation
Indices: 516134--516391 Score: 196
Period size: 32 Copynumber: 8.3 Consensus size: 32
516124 ACTCTCAACC
* *
516134 TGTTCAAAAGGAAATAAGTTTGACTTCTTGACT
1 TGTTCAAAAAGAAACAAGTTTGACTT-TTGACT
*
516167 TGTTC-AAAAGAAACATGTTT---TTTT-ACT
1 TGTTCAAAAAGAAACAAGTTTGACTTTTGACT
** *
516194 TACTCAAAAAGAAACAAGTTTGACTTTTAACT
1 TGTTCAAAAAGAAACAAGTTTGACTTTTGACT
* * * * *
516226 TATTCAAAAAGAAGCAAGCTTGACCTTTGAGT
1 TGTTCAAAAAGAAACAAGTTTGACTTTTGACT
* *
516258 TGCTCAAAAGGAAACAAGTTTGACTTTTGACT
1 TGTTCAAAAAGAAACAAGTTTGACTTTTGACT
* **
516290 TGCTCAAAAAGAAA-TTGTTTGACTTTT-AGCT
1 TGTTCAAAAAGAAACAAGTTTGACTTTTGA-CT
*
516321 TGTTC-AGAA-AAA-AAGTTT-AGCTTTTGACT
1 TGTTCAAAAAGAAACAAGTTTGA-CTTTTGACT
* * * * *
516350 TGTTTAGAAGGAAGCAAGTTTGGCTTTTGACT
1 TGTTCAAAAAGAAACAAGTTTGACTTTTGACT
* *
516382 TATTAAAAAA
1 TGTTCAAAAA
516392 AAGTTTATTG
Statistics
Matches: 177, Mismatches: 36, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
27 6 0.03
28 17 0.10
29 20 0.11
30 6 0.03
31 23 0.13
32 100 0.56
33 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTTCAAAAAGAAACAAGTTTGACTTTTGACT
Found at i:516364 original size:124 final size:124
Alignment explanation
Indices: 516097--516367 Score: 277
Period size: 124 Copynumber: 2.2 Consensus size: 124
516087 ACATAAGGAA
* * *
516097 TGACTTGATTAGAAAGAAGCAAGCTTGACTCTCAACCTGTTCAAAAGGAAATAAGTTTGACTTCT
1 TGACTTGTTTAGAAAGAAGCAAGCTTGACTCTCAACCTGCTCAAAAGGAAACAAGTTTGACTTCT
*
516162 TGACTTGTTCAAAAGAAACATGTTTTTTTACTTACTCAAAAAGAAACAAGTTTGACTTT
66 TGACTTGCTCAAAAGAAACATGTTTTTTTACTTACTCAAAAAGAAACAAGTTTGACTTT
* * * * ** **
516221 TAACTTATTCAAAAAGAAGCAAGCTTGAC-CTTTGAGTTGCTCAAAAGGAAACAAGTTTGACTT-
1 TGACTTGTTTAGAAAGAAGCAAGCTTGACTC-TCAACCTGCTCAAAAGGAAACAAGTTTGACTTC
* ** *
516284 TTGACTTGCTCAAAAAGAAA-TTGTTTGACTTTTAGCTTGTTC-AGAA-AAA-AAGTTT-AGCTT
65 TTGACTTGCTC-AAAAGAAACATGTTT---TTTTA-CTTACTCAAAAAGAAACAAGTTTGA-CTT
516344 T
124 T
*
516345 TGACTTGTTTAGAAGGAAGCAAG
1 TGACTTGTTTAGAAAGAAGCAAG
516368 TTTGGCTTTT
Statistics
Matches: 119, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
123 17 0.14
124 86 0.72
125 3 0.03
126 8 0.07
127 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (124 bp):
TGACTTGTTTAGAAAGAAGCAAGCTTGACTCTCAACCTGCTCAAAAGGAAACAAGTTTGACTTCT
TGACTTGCTCAAAAGAAACATGTTTTTTTACTTACTCAAAAAGAAACAAGTTTGACTTT
Found at i:516498 original size:53 final size:53
Alignment explanation
Indices: 516431--516535 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
516421 TTTACCAACT
* * *
516431 ACATTAGGCTTAATCAATTCTATGCCAACATTGCTGGAGTAAATCTACTAGCA
1 ACATTAGGCTTAATCAACTATATGCCAACATTACTGGAGTAAATCTACTAGCA
* * * *
516484 ACATTAGG-TGTAATCAGCTATATGCTAACTTTATTGGAGTAAATCTACTAGC
1 ACATTAGGCT-TAATCAACTATATGCCAACATTACTGGAGTAAATCTACTAGC
516536 TATGTCAAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (53 bp):
ACATTAGGCTTAATCAACTATATGCCAACATTACTGGAGTAAATCTACTAGCA
Found at i:516537 original size:27 final size:26
Alignment explanation
Indices: 516465--516537 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 26
516455 CCAACATTGC
516465 TGGAGTAAATCTACTAGC-AACATTA
1 TGGAGTAAATCTACTAGCTAACATTA
* * *
516490 -GGTGTAATCAGCTA-TATGCTAACTTTA
1 TGGAGTAA--ATCTACTA-GCTAACATTA
516517 TTGGAGTAAATCTACTAGCTA
1 -TGGAGTAAATCTACTAGCTA
516538 TGTCAAGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
24 6 0.17
25 2 0.06
26 6 0.17
27 14 0.39
28 2 0.06
29 6 0.17
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (26 bp):
TGGAGTAAATCTACTAGCTAACATTA
Found at i:517876 original size:162 final size:158
Alignment explanation
Indices: 517688--518064 Score: 481
Period size: 160 Copynumber: 2.4 Consensus size: 158
517678 GAAAATTTTG
**
517688 ATATTTTGGAAGTAAAAACGGGGTTAGAGTATCCCCTCAAAAATGATGGGGTTGGAGTAT-CTCC
1 ATATTTTGGAAGTAAAAATAGGGTTAGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCT-C
* * * *
517752 AATGATGAAAATTTTGATATTTTTGGAAGTAAAAACAGGGTTGGAGTATCCTTTCAAAAATGATA
65 AATGATGAAAA-TTCGATA-TTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTCAAAAATGATA
517817 GGGTTAGAGTAT-CCTCAATGGTGAAAAATTCA
128 GGGTTAGAGTATCCCT-AATGGTGAAAAA-TCA
* * * *
517849 ATATTTTTGGAAGTAAAAATAGGGTTAGAGTATCCCCTCAGAAATGAAGAGGTTGGAGTATCCTT
1 ATA-TTTTGGAAGTAAAAATAGGGTTAGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCTC
* * * * * *
517914 GATGGTGAAAATTCGATATTTTGAAAATAAAAACGGGGTTTGAGTATCCTCTCGAAAATGATGGG
65 AATGATGAAAATTCGATATTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTCAAAAATGATAGG
517979 GTTAGAGTATCCCTAATGGTGAAAAATCA
130 GTTAGAGTATCCCTAATGGTGAAAAATCA
* * * * * *
518008 ATATTTTGAAAATAAAAATA-GCTTGGAGTATCCCTTCGAAAATGATGGGGTTGGAGT
1 ATATTTTGGAAGTAAAAATAGGGTTAGAGTATCCCCTCAAAAATGATGGGGTTGGAGT
518065 TTCCCTTATG
Statistics
Matches: 188, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
157 30 0.16
158 15 0.08
159 6 0.03
160 62 0.33
161 12 0.06
162 61 0.32
163 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.30
Consensus pattern (158 bp):
ATATTTTGGAAGTAAAAATAGGGTTAGAGTATCCCCTCAAAAATGATGGGGTTGGAGTATCCTCA
ATGATGAAAATTCGATATTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTCAAAAATGATAGGG
TTAGAGTATCCCTAATGGTGAAAAATCA
Found at i:517973 original size:79 final size:79
Alignment explanation
Indices: 517655--518081 Score: 410
Period size: 81 Copynumber: 5.4 Consensus size: 79
517645 CATCAAATAC
* * * * * *
517655 GGGGTTGGAGTACCCCTGATGATGAAAATTTTGATATTTTGGAAGTAAAAACGGGGTTAGAGTAT
1 GGGGTTGGAGTATCCTTAATGGTGAAAA-TTCGATATTTTGGAAGTAAAAACAGGGTTAGAGTAT
517720 CCCCTCAAAAATGAT
65 CCCCTCAAAAATGAT
* * * *
517735 GGGGTTGGAGTAT-CTCCAATGATGAAAATTTTGATATTTTTGGAAGTAAAAACAGGGTTGGAGT
1 GGGGTTGGAGTATCCT-TAATGGTGAAAA-TTCGATA-TTTTGGAAGTAAAAACAGGGTTAGAGT
**
517799 ATCCTTTCAAAAATGAT
63 ATCCCCTCAAAAATGAT
* * * * *
517816 AGGGTTAGAGTATCCTCAATGGTGAAAAATTCAATATTTTTGGAAGTAAAAATAGGGTTAGAGTA
1 GGGGTTGGAGTATCCTTAATGGTG-AAAATTCGATA-TTTTGGAAGTAAAAACAGGGTTAGAGTA
* *
517881 TCCCCTCAGAAATGAA
64 TCCCCTCAAAAATGAT
* * * * * *
517897 GAGGTTGGAGTATCCTTGATGGTGAAAATTCGATATTTTGAAAATAAAAACGGGGTTTGAGTATC
1 GGGGTTGGAGTATCCTTAATGGTGAAAATTCGATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
* *
517962 CTCTCGAAAATGAT
66 CCCTCAAAAATGAT
* * * * * * * * *
517976 GGGGTTAGAGTATCCCTAATGGTGAAAAATCAATATTTTGAAAATAAAAATA-GCTTGGAGTATC
1 GGGGTTGGAGTATCCTTAATGGTGAAAATTCGATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
* *
518040 CCTTCGAAAATGAT
66 CCCTCAAAAATGAT
* *
518054 GGGGTTGGAGTTTCCCTT-ATGGTAAAAA
1 GGGGTTGGAGTAT-CCTTAATGGTGAAAA
518082 ATCTTAAATT
Statistics
Matches: 292, Mismatches: 50, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
78 42 0.14
79 83 0.28
80 40 0.14
81 121 0.41
82 6 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
GGGGTTGGAGTATCCTTAATGGTGAAAATTCGATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
CCCTCAAAAATGAT
Found at i:521502 original size:103 final size:104
Alignment explanation
Indices: 521269--521565 Score: 283
Period size: 103 Copynumber: 2.8 Consensus size: 104
521259 ATAAGAATGC
* * * * * * * *
521269 CAATGTGTTGATTTACGGCCAGCGACATT-GAACTTGAAGATGAGAAAAATGCCAATGTGCTAAT
1 CAATGTGCTGATTCAAGGCCAGCGACATTAG-ACTTAAAGATGAGAAGAATACCAATATGCTGAT
* * * * * * ****
521333 TCAAGGCTAGTGACAATAGACTTAAAAATATGATAAAGTTGT
65 TCAAGGCCAATGACATTGGACTT--AAAGATGACAAAGGCAA
* * * *
521375 CAATGTGCTGATTCAAGGCCAGCGACATTAGATTTAAAGATGATAAG-GTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAATACCAATATGCTGATT
*
521439 CAAGGCCAATGATATTGGACTTAAAGATGACAAAGGCAA
66 CAAGGCCAATGACATTGGACTTAAAGATGACAAAGGCAA
* * * * *
521478 CAATGTGCTGATTCAAGGCTAGCGACTTTGGACTTAAAGATGAGAAGAATACTAATGTGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAATACCAATATGCTGATT
* *
521543 CAAGGTCAGTGACATTGGACTTA
66 CAAGGCCAATGACATTGGACTTA
521566 GAAAGAGATT
Statistics
Matches: 156, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
103 53 0.34
104 33 0.21
105 31 0.20
106 38 0.24
107 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (104 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAATACCAATATGCTGATT
CAAGGCCAATGACATTGGACTTAAAGATGACAAAGGCAA
Found at i:521509 original size:52 final size:51
Alignment explanation
Indices: 521269--521565 Score: 204
Period size: 52 Copynumber: 5.7 Consensus size: 51
521259 ATAAGAATGC
* * * * * *
521269 CAATGTGTTGATTTACGGCCAGCGACATTGAACTTGAAGATGAGAAAAATGC--
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--G-AAAAGGCAA
* * * * * * ****
521321 CAATGTGCTAATTCAAGGCTAGTGACAATAGACTTAAAAATATGATAAAGTTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--AAAGATGA-AAAGGCAA
* * * ***
521375 CAATGTGCTGATTCAAGGCCAGCGACATTAGATTTAAAGATGATAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGGCAA
* ** *
521426 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGACAAAGGCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AAAGGCAA
* * * *
521478 CAATGTGCTGATTCAAGGCTAGCGACTTTGGACTTAAAGATGAGAA-GAATA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGGCA-A
* *
521529 CTAATGTGCTGATTCAAGGTCAGTGACATTGGACTTA
1 C-AATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
521566 GAAAGAGATT
Statistics
Matches: 192, Mismatches: 45, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
50 2 0.01
51 47 0.24
52 109 0.57
54 34 0.18
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (51 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGGCAA
Found at i:521781 original size:88 final size:88
Alignment explanation
Indices: 521671--521875 Score: 238
Period size: 88 Copynumber: 2.3 Consensus size: 88
521661 GATGTGTTTT
* * * *
521671 AAAA-AGATGCCACTA-ACTTGTGGGCTTTAAAA-GATGCTATAGAGTTGTGGACTTTGAAGAAA
1 AAAAGAGATGCCAC-AGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTT-AA-AAA
* *
521733 AAAGTGTCATGAAGTTATGGACTTT-
63 AAAGTGCCACGAAGTTATGGACTTTA
* **
521758 AAAAGAGATGCCGCAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAAATG
1 AAAAGAGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAAAAA
* *
521823 GTGCCACGGAGTTGTGGACTTTA
66 GTGCCACGAAGTTATGGACTTTA
* *
521846 AAAAGGGATGCCACGGAGTTGTGGACTTTA
1 AAAAGAGATGCCACAGAGTTGTGGACTTTA
521876 GAAAAAAATG
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
87 27 0.27
88 52 0.52
89 21 0.21
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (88 bp):
AAAAGAGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAAAAA
GTGCCACGAAGTTATGGACTTTA
Found at i:521835 original size:30 final size:30
Alignment explanation
Indices: 521712--522248 Score: 252
Period size: 30 Copynumber: 17.7 Consensus size: 30
521702 AGATGCTATA
** * *
521712 GAGTTGTGGACTTTGAAGAAAAAAGTGTCATG
1 GAGTTGTGGACTTT-AA-AAAAGGGTGCCACG
* * * * * *
521744 AAGTTATGGACTTTAAAAGA-GATGCCGCA
1 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
* *
521773 GAGTTGTGGACTTT--AAAAGGATGCCACA
1 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
*
521801 GAGTTGTGGACTTTAAAAAATGGTGCCACG
1 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
521831 GAGTTGTGGACTTT-AAAAAGGGATGCCACG
1 GAGTTGTGGACTTTAAAAAAGGG-TGCCACG
*
521861 GAGTTGTGGACTTTAGAAAAAAATGGTGCCACG
1 GAGTTGTGGACTTT---AAAAAAGGGTGCCACG
*
521894 GAGTTGTAGACTTT-AAAAAGGGAT-CCACG
1 GAGTTGTGGACTTTAAAAAAGGG-TGCCACG
* * * * *
521923 AAATTGTAGACTTTAAAGAAAAAGGTGCTACG
1 GAGTTGTGGACTTT-AA-AAAAGGGTGCCACG
*
521955 GAGTTGTGGACTTATAAAAAAAAGGGTGCCATG
1 GAGTTGTGGACTT-T--AAAAAAGGGTGCCACG
* * * * * *
521988 AAGCTGTGGATTTTTAAAAACAATGATGCCACT
1 GAGTTGTGGA-CTTT-AAAA-AAGGGTGCCACG
* * *
522021 AAGTTGTGGACTTT-AAGAAGGGATGCCACT
1 GAGTTGTGGACTTTAAAAAAGGG-TGCCACG
* ** * * *
522051 GAGTCGTGGACTTTGGAGAAGGTTGCCACT
1 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
** ** *
522081 GAGTCATGGACTTTGGAAAA-GATGCCACTG
1 GAGTTGTGGACTTTAAAAAAGGGTGCCAC-G
** * * *
522111 G-GTCATGGACTTT-AAGAAGGGATGTCACT
1 GAGTTGTGGACTTTAAAAAAGGG-TGCCACG
* * * **
522140 AAGTCGTGGACTTT-GAAAAGGGTGCCATT
1 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
* ** * * *
522169 AAGTCATGGACTTT-AAGAAGAGATGCCACT
1 GAGTTGTGGACTTTAAAAAAG-GGTGCCACG
* * * *
522199 GAGTCGTGGACTTTGAAAAAGGTTGCCACT
1 GAGTTGTGGACTTTAAAAAAGGGTGCCACG
* *
522229 AAGTCGTGGACTTTAAAAAA
1 GAGTTGTGGACTTTAAAAAA
522249 AATGTGACAT
Statistics
Matches: 408, Mismatches: 72, Indels: 52
0.77 0.14 0.10
Matches are distributed among these distances:
27 3 0.01
28 25 0.06
29 91 0.22
30 164 0.40
31 15 0.04
32 40 0.10
33 58 0.14
34 12 0.03
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (30 bp):
GAGTTGTGGACTTTAAAAAAGGGTGCCACG
Found at i:521891 original size:33 final size:32
Alignment explanation
Indices: 521773--522036 Score: 214
Period size: 33 Copynumber: 8.5 Consensus size: 32
521763 AGATGCCGCA
* *
521773 GAGTTGTGGACTTT----AAAAGGATGCCACA
1 GAGTTGTGGACTTTAAAAAAAAGGGTGCCACG
*
521801 GAGTTGTGGACTTT--AAAAAATGGTGCCACG
1 GAGTTGTGGACTTTAAAAAAAAGGGTGCCACG
521831 GAGTTGTGGACTTT---AAAAAGGGATGCCACG
1 GAGTTGTGGACTTTAAAAAAAAGGG-TGCCACG
*
521861 GAGTTGTGGACTTTAGAAAAAAATGGTGCCACG
1 GAGTTGTGGACTTTA-AAAAAAAGGGTGCCACG
*
521894 GAGTTGTAGACTTT---AAAAAGGGAT-CCACG
1 GAGTTGTGGACTTTAAAAAAAAGGG-TGCCACG
* * * *
521923 AAATTGTAGACTTTAAAGAAAAA-GGTGCTACG
1 GAGTTGTGGACTTTAAA-AAAAAGGGTGCCACG
*
521955 GAGTTGTGGACTTATAAAAAAAAGGGTGCCATG
1 GAGTTGTGGACTT-TAAAAAAAAGGGTGCCACG
* * * * * * *
521988 AAGCTGTGGATTTTTAAAAACAATGATGCCACT
1 GAGTTGTGGA-CTTTAAAAAAAAGGGTGCCACG
*
522021 AAGTTGTGGACTTTAA
1 GAGTTGTGGACTTTAA
522037 GAAGGGATGC
Statistics
Matches: 195, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
28 14 0.07
29 31 0.16
30 47 0.24
31 1 0.01
32 26 0.13
33 67 0.34
34 9 0.05
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.26
Consensus pattern (32 bp):
GAGTTGTGGACTTTAAAAAAAAGGGTGCCACG
Found at i:521906 original size:63 final size:62
Alignment explanation
Indices: 521773--522064 Score: 319
Period size: 63 Copynumber: 4.7 Consensus size: 62
521763 AGATGCCGCA
*
521773 GAGTTGTGGACTTT-AAAA-GGATGCCACAGAGTTGTGGACTTT--AAAAAATGGTGCCACG
1 GAGTTGTGGACTTTAAAAAGGGATGCCACGGAGTTGTGGACTTTAAAAAAAATGGTGCCACG
521831 GAGTTGTGGACTTTAAAAAGGGATGCCACGGAGTTGTGGACTTTAGAAAAAAATGGTGCCACG
1 GAGTTGTGGACTTTAAAAAGGGATGCCACGGAGTTGTGGACTTTA-AAAAAAATGGTGCCACG
* * * * *
521894 GAGTTGTAGACTTTAAAAAGGGAT-CCACGAAATTGTAGACTTTAAAGAAAAA-GGTGCTACG
1 GAGTTGTGGACTTTAAAAAGGGATGCCACGGAGTTGTGGACTTTAAA-AAAAATGGTGCCACG
* * * * * *
521955 GAGTTGTGGACTTATAAAAAAAAGGG-TGCCATGAAGCTGTGGATTTTTAAAAACAATGATGCCA
1 GAGTTGTGGACTT-T---AAAAAGGGATGCCACGGAGTTGTGGA-CTTTAAAAAAAATGGTGCCA
*
522019 CT
61 CG
* * * *
522021 AAGTTGTGGACTTTAAGAAGGGATGCCACTGAGTCGTGGACTTT
1 GAGTTGTGGACTTTAAAAAGGGATGCCACGGAGTTGTGGACTTT
522065 GGAGAAGGTT
Statistics
Matches: 196, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
58 14 0.07
59 4 0.02
60 23 0.12
61 22 0.11
62 33 0.17
63 51 0.26
64 1 0.01
65 24 0.12
66 24 0.12
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (62 bp):
GAGTTGTGGACTTTAAAAAGGGATGCCACGGAGTTGTGGACTTTAAAAAAAATGGTGCCACG
Found at i:522120 original size:59 final size:59
Alignment explanation
Indices: 522012--522244 Score: 249
Period size: 59 Copynumber: 3.9 Consensus size: 59
522002 TAAAAACAAT
* * * * *
522012 GATGCCACTAAGTTGTGGACTTT--AAGAAGGGATGCCACTGAGTCGTGGACTTTGGAGAAG
1 GATGCCACTGAGTCGTGGACTTTGGAA-AA-GGATGCCACTAAGTCATGGACTTT-AAGAAG
* * **
522072 GTTGCCACTGAGTCATGGACTTTGGAAAA-GATGCCACTGGGTCATGGACTTTAAGAAGG
1 GATGCCACTGAGTCGTGGACTTTGGAAAAGGATGCCACTAAGTCATGGACTTTAAGAA-G
* * * *
522131 GATGTCACTAAGTCGTGGACTTT-GAAAAGGGTGCCATTAAGTCATGGACTTTAAGAAG
1 GATGCCACTGAGTCGTGGACTTTGGAAAAGGATGCCACTAAGTCATGGACTTTAAGAAG
* * *
522189 AGATGCCACTGAGTCGTGGACTTTGAAAAAGGTTGCCACTAAGTCGTGGACTTTAA
1 -GATGCCACTGAGTCGTGGACTTTGGAAAAGGATGCCACTAAGTCATGGACTTTAA
522245 AAAAAATGTG
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
58 10 0.07
59 86 0.59
60 46 0.32
61 2 0.01
62 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (59 bp):
GATGCCACTGAGTCGTGGACTTTGGAAAAGGATGCCACTAAGTCATGGACTTTAAGAAG
Found at i:522193 original size:89 final size:88
Alignment explanation
Indices: 522012--522247 Score: 294
Period size: 89 Copynumber: 2.7 Consensus size: 88
522002 TAAAAACAAT
* ** * * *
522012 GATGCCACTAAGTTGTGGACTTTAAGAAGGGATGCCACTGAGTCGTGGACTTTGGAGAAGGTTGC
1 GATGCCACTGAGTCATGGACTTTAAGAAGGGATGCCACTAAGTCGTGGACTTT-GAAAAGGGTGC
* *
522077 CACTGAGTCATGGACTTTGGAAAA
65 CACTAAGTCATGGACTTTAGAAAA
* *
522101 GATGCCACTGGGTCATGGACTTTAAGAAGGGATGTCACTAAGTCGTGGACTTTGAAAAGGGTGCC
1 GATGCCACTGAGTCATGGACTTTAAGAAGGGATGCCACTAAGTCGTGGACTTTGAAAAGGGTGCC
* *
522166 ATTAAGTCATGGACTTTAAGAAGA
66 ACTAAGTCATGGACTTT-AGAAAA
* * * *
522190 GATGCCACTGAGTCGTGGACTTTGAA-AAAGGTTGCCACTAAGTCGTGGACTTTAAAAA
1 GATGCCACTGAGTCATGGACTTT-AAGAAGGGATGCCACTAAGTCGTGGACTTTGAAAA
522248 AAATGTGACA
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 25 0.20
89 100 0.79
90 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (88 bp):
GATGCCACTGAGTCATGGACTTTAAGAAGGGATGCCACTAAGTCGTGGACTTTGAAAAGGGTGCC
ACTAAGTCATGGACTTTAGAAAA
Found at i:531053 original size:13 final size:13
Alignment explanation
Indices: 531035--531059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
531025 ATTATGCCTA
531035 GTATCGATACATT
1 GTATCGATACATT
531048 GTATCGATACAT
1 GTATCGATACAT
531060 GCTTATCGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:531093 original size:20 final size:19
Alignment explanation
Indices: 531049--531099 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
531039 CGATACATTG
* *
531049 TATCGATACATGCTTATCG
1 TATCGATACATGCTAATCA
*
531068 TATCGATACATGCTCAATTA
1 TATCGATACATGCT-AATCA
531088 TATCGATACATG
1 TATCGATACATG
531100 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (19 bp):
TATCGATACATGCTAATCA
Found at i:531158 original size:20 final size:20
Alignment explanation
Indices: 531129--531180 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
531119 TAAGTGAAAC
*
531129 GTATCGATACATG-GGACATT
1 GTATCGATACATGAAGA-ATT
*
531149 GTATCAATACATGAAGAATT
1 GTATCGATACATGAAGAATT
531169 GTATCGATACAT
1 GTATCGATACAT
531181 TATGCCCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGAAGAATT
Found at i:535015 original size:11 final size:11
Alignment explanation
Indices: 534999--535032 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
534989 TTTTTCTTTC
534999 TTTCTTGTTGA
1 TTTCTTGTTGA
*
535010 TTTCTTGTTTA
1 TTTCTTGTTGA
*
535021 TTTCTTGATGA
1 TTTCTTGTTGA
535032 T
1 T
535033 GTTATGAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.65
Consensus pattern (11 bp):
TTTCTTGTTGA
Found at i:538723 original size:18 final size:19
Alignment explanation
Indices: 538696--538733 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
538686 ATTACAATTG
* *
538696 GATAATTAGGTGT-TTGAT
1 GATAACTAGGAGTCTTGAT
538714 GATAACTAGGAGTCTTGAT
1 GATAACTAGGAGTCTTGAT
538733 G
1 G
538734 GACGAAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (19 bp):
GATAACTAGGAGTCTTGAT
Found at i:541780 original size:101 final size:96
Alignment explanation
Indices: 541563--541782 Score: 235
Period size: 96 Copynumber: 2.2 Consensus size: 96
541553 AAAATTTCCT
* * * * * * *
541563 TCATCAGGGATACTCCAACCCCATTCTTCTAAGGGGATACTCCAACCCTGTTTTTAAAATTGTCA
1 TCATTAGGGATACTCCAACCCCACTCTTCCAAGAGAATACTCCAACCCCGTTTTTAAAATTATCA
* * *
541628 ATATTTAAATCTTATTTTGCTCAAATCATCA
66 AGATTCAAACCTTATTTTGCTCAAATCATCA
** * *
541659 TCATT-GGTGATACTTGAACCCCACTCTTCCGAGAGAATATTCCAACCCCGTTTTTAAAAAAAAT
1 TCATTAGG-GATACTCCAACCCCACTCTTCCAAGAGAATACTCCAACCCCGTTTTT----AAAAT
* *
541723 TATCAAGATTCAAACCTTAATTTTGCTTAAATTATCA
61 TATCAAGATTCAAACCTT-ATTTTGCTCAAATCATCA
541760 TCATTAGGGATACTCCAACCCCA
1 TCATTAGGGATACTCCAACCCCA
541783 TTCCTCTGAA
Statistics
Matches: 99, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
95 2 0.02
96 42 0.42
100 19 0.19
101 34 0.34
102 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.33
Consensus pattern (96 bp):
TCATTAGGGATACTCCAACCCCACTCTTCCAAGAGAATACTCCAACCCCGTTTTTAAAATTATCA
AGATTCAAACCTTATTTTGCTCAAATCATCA
Found at i:547464 original size:51 final size:51
Alignment explanation
Indices: 547404--547519 Score: 214
Period size: 51 Copynumber: 2.3 Consensus size: 51
547394 TTTTAACTAG
*
547404 ATGTATCGATACATTGAATAATATATCGATATATCTGGGTAAAAAGATAGA
1 ATGTATCGATACATTGAAGAATATATCGATATATCTGGGTAAAAAGATAGA
*
547455 ATGTATCGATACATTGAAGAGTATATCGATATATCTGGGTAAAAAGATAGA
1 ATGTATCGATACATTGAAGAATATATCGATATATCTGGGTAAAAAGATAGA
547506 ATGTATCGATACAT
1 ATGTATCGATACAT
547520 CTGGGTAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACATTGAAGAATATATCGATATATCTGGGTAAAAAGATAGA
Found at i:548415 original size:34 final size:34
Alignment explanation
Indices: 548376--548464 Score: 101
Period size: 32 Copynumber: 2.7 Consensus size: 34
548366 TGAAAAGGGT
*
548376 TGCCACCGACTTGCGTGGGCTTTTTAAAAAAAGG
1 TGCCACCGACTTGTGTGGGCTTTTTAAAAAAAGG
** * * *
548410 TGCCACTAACTTGTGTGGGC--TTTGAAAAGAGT
1 TGCCACCGACTTGTGTGGGCTTTTTAAAAAAAGG
*
548442 TGTCACCGACTTGTGTGGGCTTT
1 TGCCACCGACTTGTGTGGGCTTT
548465 AAAAGTGTGC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
32 26 0.59
34 18 0.41
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (34 bp):
TGCCACCGACTTGTGTGGGCTTTTTAAAAAAAGG
Found at i:548550 original size:59 final size:57
Alignment explanation
Indices: 548408--548765 Score: 301
Period size: 59 Copynumber: 6.1 Consensus size: 57
548398 TTTAAAAAAA
* * * * * *
548408 GGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGTCACCGACTTGTGTGGGCTTTAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAGGGATGCCACTGAC-T-TGTGGGCTTTGAAAG
* * * *
548470 TGTGCCACTAACTTGTAGGCTTTGAAAGGGTATGCCACTAACTTGTGGGCTTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGG-ATGCCACTGACTTGTGGGC-TTTGAAAG
* * * *
548529 GGTGCCACTGACTTGTGGGCTTTAAAAGGG-TGCTACCGATTTGTGTGTGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTGACTTGTG-G-GCTTTG-AAAG
* * * * * * *
548588 AGTTGCCACCGACTTGTTTGAGTTTTGAAA-AGATGCCACTGACTTGTAGGCTTTTAAAG
1 -GGTGCCACTGACTTG--TGGGCTTTGAAAGGGATGCCACTGACTTGTGGGCTTTGAAAG
* * *
548647 GGTATCCTACTGACTTGTGGGCTTTGAAA-AGAGTGCCACTGACTTGTGGGCTTTTAAAG
1 GGT-GCC-ACTGACTTGTGGGCTTTGAAAGGGA-TGCCACTGACTTGTGGGCTTTGAAAG
* * *
548706 GTTGCCACTGACTTGTGGGCTTTGAAAGGG-TGCCATTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTGACTTGTGGGCTTTGAAAG
548762 GGTG
1 GGTG
548766 AATGTTCTAG
Statistics
Matches: 243, Mismatches: 40, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
56 26 0.11
57 32 0.13
58 30 0.12
59 78 0.32
60 43 0.18
61 3 0.01
62 31 0.13
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (57 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAGGGATGCCACTGACTTGTGGGCTTTGAAAG
Found at i:548634 original size:90 final size:86
Alignment explanation
Indices: 548455--548762 Score: 307
Period size: 87 Copynumber: 3.5 Consensus size: 86
548445 CACCGACTTG
* * ** * * ** *
548455 TGTGGGCTTTAAAAGTGTGCCACTAACTTGTAGGCTTTG-AAAGGGTATGCCACTAACTTGTGGG
1 TGTGGGCTTTAAAAGGGTGCTACCGACTTGTGGGCTTTGAAAAGAG--TGCCACCGACTTGTGAG
*
548519 CTTTTGAAAGGGTGCCACTGACT
64 CTTTTGAAAGGATGCCACTGACT
*
548542 TGTGGGCTTTAAAAGGGTGCTACCGATTTGTGTGTGCTTTGAAAAGAGTTGCCACCGACTTGTTT
1 TGTGGGCTTTAAAAGGGTGCTACCGACTTGTG-G-GCTTTGAAAAGAG-TGCCACCGACTTG--T
*
548607 GAG-TTTTGAAAAGATGCCACTGACT
61 GAGCTTTTGAAAGGATGCCACTGACT
* * * * * *
548632 TGTAGGCTTTTAAAGGGTATCCTACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
1 TGTGGGCTTTAAAAGGG--TGCTACCGACTTGTGGGCTTTGAAAAGAGTGCCACCGACTTGTGAG
*
548697 CTTTT-AAAGGTTGCCACTGACT
64 CTTTTGAAAGGATGCCACTGACT
* * **
548719 TGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAAG
1 TGTGGGCTTTAAAAGGGTGCTACCGACTTGTGGGCTTTGAAAAG
548763 GTGAATGTTC
Statistics
Matches: 186, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
85 24 0.13
87 59 0.32
88 5 0.03
89 29 0.16
90 53 0.28
91 4 0.02
92 12 0.06
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (86 bp):
TGTGGGCTTTAAAAGGGTGCTACCGACTTGTGGGCTTTGAAAAGAGTGCCACCGACTTGTGAGCT
TTTGAAAGGATGCCACTGACT
Found at i:548683 original size:149 final size:148
Alignment explanation
Indices: 548403--548732 Score: 434
Period size: 149 Copynumber: 2.2 Consensus size: 148
548393 GGCTTTTTAA
* ** * *
548403 AAAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGTCACCGACTTGTGTGGGCTTTAAA
1 AAAAGGGTGCCACCGACTTGTGT-GGCTTTGAAAAGAGTTGCCACCGACTTGTGTGAGCTTTAAA
* *
548468 AGTGTGCCACTAACTTGTAGGCTTTGAAAGGGTATGCCACTAACTTGTGGGCTTTTGAAAGGGTG
65 AGTATGCCACTAACTTGTAGGCTTTGAAAGGGTATGCCACTAACTTGTGGGCTTTTGAAAGAGTG
548533 CCACTGACTTGTGGGCTTT
130 CCACTGACTTGTGGGCTTT
* * * *
548552 AAAAGGGTGCTACCGATTTGTGTGTGCTTTGAAAAGAGTTGCCACCGACTTGTTTGAGTTTTGAA
1 AAAAGGGTGCCACCGACTTGTGTG-GCTTTGAAAAGAGTTGCCACCGACTTGTGTGAGCTTT-AA
* * *
548617 AAG-ATGCCACTGACTTGTAGGCTTTTAAAGGGTAT-CCTACTGACTTGTGGGC-TTTGAAAAGA
64 AAGTATGCCACTAACTTGTAGGCTTTGAAAGGGTATGCC-ACTAACTTGTGGGCTTTTG-AAAGA
548679 GTGCCACTGACTTGTGGGCTTT
127 GTGCCACTGACTTGTGGGCTTT
* * *
548701 TAAAGGTTGCCACTGACTTGTG-GGCTTTGAAA
1 AAAAGGGTGCCACCGACTTGTGTGGCTTTGAAA
548733 GGGTGCCATT
Statistics
Matches: 158, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
147 9 0.06
148 8 0.05
149 136 0.86
150 5 0.03
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (148 bp):
AAAAGGGTGCCACCGACTTGTGTGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGAGCTTTAAAA
GTATGCCACTAACTTGTAGGCTTTGAAAGGGTATGCCACTAACTTGTGGGCTTTTGAAAGAGTGC
CACTGACTTGTGGGCTTT
Found at i:548765 original size:28 final size:28
Alignment explanation
Indices: 548404--548765 Score: 316
Period size: 28 Copynumber: 12.3 Consensus size: 28
548394 GCTTTTTAAA
*
548404 AAAAGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGGTGCCACTGAC-T-TGTGGGCTTTG
* *
548434 AAAAGAGTTGTCACCGACTTGTGTGGGCTTT-
1 AAAAG-G-TGCCACTGAC-T-TGTGGGCTTTG
* *
548465 AAAAGTGTGCCACTAACTTGTAGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
548494 AAAGGGTATGCCACTAACTTGTGGGCTTTTG
1 AAAAGG--TGCCACTGACTTGTGGGC-TTTG
*
548525 AAAGGGTGCCACTGACTTGTGGGCTTT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
548552 AAAAGGGTGCTACCGATTTGTGTGTGCTTTG
1 AAAA-GGTGCCACTGACTTGTG-G-GCTTTG
* * *
548583 AAAAGAGTTGCCACCGACTTGTTTGAGTTTTG
1 AAAAG-G-TGCCACTGACTTG--TGGGCTTTG
* * *
548615 AAAAGATGCCACTGACTTGTAGGCTTTT
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
548643 AAAGGGTATCCTACTGACTTGTGGGCTTTG
1 AAAAGGT-GCC-ACTGACTTGTGGGCTTTG
548673 AAAAGAGTGCCACTGACTTGTGGGCTTT-
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
548701 TAAAGGTTGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
548730 AAAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
548758 AAAAGGTG
1 AAAAGGTG
548766 AATGTTCTAG
Statistics
Matches: 276, Mismatches: 37, Indels: 40
0.78 0.10 0.11
Matches are distributed among these distances:
27 4 0.01
28 90 0.33
29 46 0.17
30 69 0.25
31 24 0.09
32 41 0.15
34 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:550017 original size:7 final size:7
Alignment explanation
Indices: 549994--550048 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
549984 ATGGACTCCT
*
549994 TTTTTTA
1 TTTTTTG
550001 TTTGTTTG
1 TTT-TTTG
550009 TTTTTTG
1 TTTTTTG
550016 TTTTTTG
1 TTTTTTG
550023 TTTTTTG
1 TTTTTTG
550030 TTTTTT-
1 TTTTTTG
550036 TTTTGTT-
1 TTTT-TTG
550043 TTTTTT
1 TTTTTT
550049 CTACGAATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.13
7 33 0.73
8 6 0.13
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (7 bp):
TTTTTTG
Found at i:550021 original size:25 final size:24
Alignment explanation
Indices: 549993--550048 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
549983 TATGGACTCC
*
549993 TTTTTTTATTTGTTTGTTTTTTGT
1 TTTTTTTTTTTGTTTGTTTTTTGT
*
550017 TTTTTGTTTTTTGTTTTTTTTTTGT
1 TTTTT-TTTTTTGTTTGTTTTTTGT
550042 TTTTTTT
1 TTTTTTT
550049 CTACGAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.88
Consensus pattern (24 bp):
TTTTTTTTTTTGTTTGTTTTTTGT
Found at i:564094 original size:20 final size:20
Alignment explanation
Indices: 564020--564087 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
564010 AAAAAGACAG
564020 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
** * *
564040 AATGTATTTATACATTCATA
1 AATGTATCGATACATTGAAA
*
564060 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
564080 AATGTATC
1 AATGTATC
564088 ATTACATCTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:570011 original size:29 final size:27
Alignment explanation
Indices: 569968--570021 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 27
569958 TTAATATTCA
569968 ATTAAAATATATTTTATTATTTAAAATAT
1 ATTAAAATATATTTTA-TA-TTAAAATAT
569997 ATTAAAAT-TATTTTTATATTAAAAT
1 ATTAAAATATA-TTTTATATTAAAAT
570022 TTTATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.29
28 4 0.17
29 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTAAAATATATTTTATATTAAAATAT
Found at i:570014 original size:17 final size:18
Alignment explanation
Indices: 569994--570044 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 18
569984 TTATTTAAAA
569994 TATATTAAAATTAT-TTT
1 TATATTAAAATTATATTT
570011 TATATTAAAATTTTATATTT
1 TATATTAAAA--TTATATTT
570031 TATAATTAAAATTA
1 TAT-ATTAAAATTA
570045 AATAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.33
19 7 0.23
20 6 0.20
21 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTAAAATTATATTT
Found at i:572863 original size:2 final size:2
Alignment explanation
Indices: 572858--572890 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
572848 AAAAAAGAAT
572858 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
572891 TGTATGTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:578972 original size:22 final size:23
Alignment explanation
Indices: 578926--578979 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
578916 TGGACATGTT
578926 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
578949 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
578972 AAAAATGC
1 AAAAATGC
578980 CTGGTCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.17
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:579926 original size:20 final size:20
Alignment explanation
Indices: 579879--579953 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
579869 AAAAAGACAT
*
579879 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
579898 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
579919 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
579939 AATGTATCGATACAT
1 AATGTATCGATACAT
579954 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:579947 original size:40 final size:39
Alignment explanation
Indices: 579876--579953 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
579866 GGTAAAAAGA
* *
579876 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
579915 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
579954 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:593301 original size:28 final size:28
Alignment explanation
Indices: 593245--593315 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
593235 GAAATAAAGC
** **
593245 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
593273 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
593301 CGAGGTTGGAGTATC
1 CGGGGTTGGAGTATC
593316 TTCGATTGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:593454 original size:51 final size:50
Alignment explanation
Indices: 593304--593632 Score: 228
Period size: 52 Copynumber: 6.3 Consensus size: 50
593294 GAAATAACGA
** * *
593304 GGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTT-GAAATAAAACCGG
* ***
593356 AGTTGGAGTATCCCCGACTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGA-TTGTGGAAAATTGGTGTTTTG-AAATAAAACCGG
*
593408 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTT-GAAATAAAACCGG
*** * ** * ***** ** *
593459 GGTTGGAGTATCCCC-CCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAATGA
1 GGTTGGAGTATCCCCGATTGTGG-AA---AATTGGTGT-TTTGAAAT-AAA-ACCGG
* * *
593515 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTG-AAATAAAACCGG
* ** *
593567 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAATTGGTGTTTT-GAAATAAAACCGG
593619 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
593633 TAATTATGAA
Statistics
Matches: 208, Mismatches: 54, Indels: 30
0.71 0.18 0.10
Matches are distributed among these distances:
50 3 0.01
51 46 0.22
52 93 0.45
53 32 0.15
54 10 0.05
55 4 0.02
56 18 0.09
57 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGAAATAAAACCGG
Found at i:593542 original size:107 final size:107
Alignment explanation
Indices: 593171--593581 Score: 406
Period size: 107 Copynumber: 3.9 Consensus size: 107
593161 AAAATCGAGA
* * * * * *
593171 TTGGAGTATCCTCTCG--GAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTT
1 TTGGAGTATCC-C-CGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
* * *
593234 GGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGG
64 GGAAATAAAACCGGAGTTGGAGTATCCCCCCGGAGGTAACGGGG
** *
593278 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTTG
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTG
* * * **
593343 GAAATAAAATCGGAGTTGGAGTAT--CCCC-GA-CTAAAGGAAAA
65 GAAATAAAACCGGAGTTGGAGTATCCCCCCGGAGGTAACGG--GG
* * ***** * * * *
593384 TTGGTGTTTTGAAAAT-AAA-ACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGG
*
593447 AAATAAAACCGGGGTTGGAGTATCCCCCCGGAGGTAACGGGG
66 AAATAAAACCGGAGTTGGAGTATCCCCCCGGAGGTAACGGGG
* * *
593489 TTGGAGTATCCCCGATGAAATAATGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTG
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTG
* *
593554 AAAATAAAATCGGAGTTGGAGTATCCCC
65 GAAATAAAACCGGAGTTGGAGTATCCCC
593582 GATTAAAGGA
Statistics
Matches: 238, Mismatches: 54, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
103 26 0.11
104 37 0.16
105 20 0.08
106 18 0.08
107 82 0.34
108 55 0.23
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (107 bp):
TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGG
AAATAAAACCGGAGTTGGAGTATCCCCCCGGAGGTAACGGGG
Found at i:593561 original size:211 final size:211
Alignment explanation
Indices: 593197--593641 Score: 748
Period size: 211 Copynumber: 2.1 Consensus size: 211
593187 GAAATAACGA
* *
593197 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* *
593262 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCTTCGATTGTGA
66 CCCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
*
593327 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGACTAAAGGAAAATTGGTGTT
131 AAAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGACTAAAGGAAAATTGGTGTT
*
593392 TTGAAAATAAAACCGG
196 TTAAAAATAAAACCGG
* * * * *
593408 GGTTGGAGTATCCCCGATTGTG-GAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCAATTATGAG-AAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
593472 CCCCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAATGAGGTTGGAGTATCCTCGATTGTG
65 CCCCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
*
593537 AAAAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
130 AAAAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGACTAAAGGAAAATTGGTGT
593602 TTTAAAAATAAAACCGG
195 TTTAAAAATAAAACCGG
*
593619 GGTTGGAGTATCCCTAATTATGA
1 GGTTGGAGTATCCCCAATTATGA
593642 ACAATTGAGA
Statistics
Matches: 216, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
210 1 0.00
211 215 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (211 bp):
GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CCCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
AAAATTGGTGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGACTAAAGGAAAATTGGTGTT
TTAAAAATAAAACCGG
Found at i:596875 original size:42 final size:42
Alignment explanation
Indices: 596829--596923 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
596819 TCCCGTTTTT
* * *
596829 TGAGGACAAAGGAAAAAGGGAAACGAAA-TACGTCCTGCTCTC
1 TGAGGACAAAAGAAAAA-GGAAAAGAAAGTACATCCTGCTCTC
* * * *
596871 TGAGGATAAAAGAAAAAGGAAAATAAAGTGCATCCTGCTCTT
1 TGAGGACAAAAGAAAAAGGAAAAGAAAGTACATCCTGCTCTC
596913 TGAGGACAAAA
1 TGAGGACAAAA
596924 AAGAAAAGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 8 0.18
42 36 0.82
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (42 bp):
TGAGGACAAAAGAAAAAGGAAAAGAAAGTACATCCTGCTCTC
Found at i:597050 original size:61 final size:57
Alignment explanation
Indices: 596955--597236 Score: 284
Period size: 61 Copynumber: 4.8 Consensus size: 57
596945 GTGTCCCGCT
* * * *
596955 CTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCGTCCTGCC
1 CTTTGAGGACTGAAGA-TGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAGCATCCTGCC
*
597016 CTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCT
1 CTTTGAGGACT-GAAGATGCCACCAACTTGTGTGGGCTTT---AAAAGAAAGCATCCTGCC
* * *
597077 CTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCT-CC
1 CTTTGAGGACTGAAGA-TGCCACCAACTTGTGTGGGCTTTAAAAG--AAA-GCATCCTGCC
* * * *
597137 TCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAG---GCATCCTGCT
1 -CTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGCATCCTGCC
* *
597192 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 CTTTGAGGACTG-AAGATGCCACCAACTTGTGTGGGCTTTAAAAG
597237 GCGTCTTGCT
Statistics
Matches: 192, Mismatches: 19, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
54 18 0.09
55 30 0.16
58 5 0.03
60 34 0.18
61 96 0.50
62 3 0.02
63 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (57 bp):
CTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGCATCCTGCC
Found at i:597224 original size:115 final size:117
Alignment explanation
Indices: 596952--597236 Score: 407
Period size: 122 Copynumber: 2.4 Consensus size: 117
596942 AGTGTGTCCC
* *
596952 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCGTCCTGCCC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCGTCCTGCCC
*
597017 TTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCT
65 TTTGAGGACTGGAAGATGCCACCAACTTATGTGGGCTTT--AAAAAG--AGCATCCT
*
597074 GCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCT-CCT
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA-GCGTCCTGCC-
* *
597138 CTTTGAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTT-AAAAG-GCATCCT
64 CTTTGAGGACTGGAAGATGCCACCAACTTATGTGGGCTTTAAAAAGAGCATCCT
* *
597189 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
597237 GCGTCTTGCT
Statistics
Matches: 152, Mismatches: 9, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
115 52 0.34
118 5 0.03
121 37 0.24
122 58 0.38
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (117 bp):
GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCGTCCTGCCCT
TTGAGGACTGGAAGATGCCACCAACTTATGTGGGCTTTAAAAAGAGCATCCT
Found at i:597237 original size:55 final size:55
Alignment explanation
Indices: 597063--597262 Score: 244
Period size: 55 Copynumber: 3.6 Consensus size: 55
597053 TTTGCAAAAA
* *
597063 GAAA-GCATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
597117 AAAAGAAAAAGGCGTCCTCCTCTTTGAGGACTG-AAGGTGCCACCAGCTTATGTGGGCTTT
1 ----G--AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
597177 AAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
597232 GAAAGGCGTCTTGCTCTTTGAGGACT-AAAGG
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAGG
597263 GTGAAAGGAG
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
54 29 0.23
55 48 0.39
58 1 0.01
60 27 0.22
61 19 0.15
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
GAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:597359 original size:55 final size:55
Alignment explanation
Indices: 597275--597485 Score: 280
Period size: 55 Copynumber: 3.7 Consensus size: 55
597265 GAAAGGAGAA
*
597275 AGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCTTGCTTTTTG
1 AGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCTTGCTCTTTG
*
597330 AGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCTTGCTCTTTG
1 AGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCTTGCTCTTTG
* * **
597385 AGGA-TTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTTG
1 AGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTT---A--AAAA-GCGTCTTGCTCTTTG
*
597446 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAA
597486 GGAAAAGGCA
Statistics
Matches: 137, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
54 3 0.02
55 82 0.60
57 3 0.02
58 1 0.01
59 1 0.01
60 4 0.03
61 16 0.12
62 27 0.20
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (55 bp):
AGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCTTGCTCTTTG
Found at i:597475 original size:62 final size:56
Alignment explanation
Indices: 597275--597521 Score: 268
Period size: 55 Copynumber: 4.3 Consensus size: 56
597265 GAAAGGAGAA
* * *
597275 AGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCTTGCTTTTTG
1 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCTTTG
* * *
597330 AGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCTTGCTCTTTG
1 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCTTTG
* * *
597385 AGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCCGCTCTTTG
1 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT---A--AAAA-GCGTCCTGCTCTTTG
*
597446 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTG
1 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT---A--AAAA-GCGTCCTGCTCTTTG
597508 AGGACT-GAAAAGTG
1 AGGACTAGAAAAGTG
597522 GAAGGAGAAG
Statistics
Matches: 171, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
55 82 0.48
56 2 0.01
58 1 0.01
60 4 0.02
61 30 0.18
62 52 0.30
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (56 bp):
AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCTTTG
Found at i:598516 original size:22 final size:23
Alignment explanation
Indices: 598491--598542 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
598481 ATTCTTCTTA
*
598491 TTTTTTCTCTTTTTTCTT-TG-T
1 TTTTTTTTCTTTTTTCTTGTGAT
* *
598512 TTTTTTTTGTTTTTTTTTGTGAT
1 TTTTTTTTCTTTTTTCTTGTGAT
598535 TTTTTTTT
1 TTTTTTTT
598543 GAAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.58
22 2 0.08
23 9 0.35
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.85
Consensus pattern (23 bp):
TTTTTTTTCTTTTTTCTTGTGAT
Found at i:598526 original size:23 final size:23
Alignment explanation
Indices: 598491--598543 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
598481 ATTCTTCTTA
* *
598491 TTTTTTCTCTTTTTTCTTTG-TTT
1 TTTTTTGTCTTTTTT-TGTGATTT
*
598514 TTTTTTGTTTTTTTTTGTGATTT
1 TTTTTTGTCTTTTTTTGTGATTT
598537 TTTTTTG
1 TTTTTTG
598544 AAAAAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.02, C:0.06, G:0.09, T:0.83
Consensus pattern (23 bp):
TTTTTTGTCTTTTTTTGTGATTT
Found at i:598541 original size:12 final size:11
Alignment explanation
Indices: 598500--598544 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
598490 ATTTTTTCTC
598500 TTTTTTCTTTG-
1 TTTTTT-TTTGA
*
598511 TTTTTTTTTGT
1 TTTTTTTTTGA
598522 TTTTTTTTGTGA
1 TTTTTTTT-TGA
598534 TTTTTTTTTGA
1 TTTTTTTTTGA
598545 AAAAAAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 4 0.13
11 17 0.55
12 10 0.32
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:598543 original size:13 final size:12
Alignment explanation
Indices: 598511--598543 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
598501 TTTTTCTTTG
598511 TTTTTTTT-TGT
1 TTTTTTTTGTGT
598522 TTTTTTTTGTGAT
1 TTTTTTTTGTG-T
598535 TTTTTTTTG
1 TTTTTTTTG
598544 AAAAAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 2 0.10
13 10 0.50
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (12 bp):
TTTTTTTTGTGT
Found at i:604909 original size:51 final size:53
Alignment explanation
Indices: 604845--605182 Score: 186
Period size: 52 Copynumber: 6.4 Consensus size: 53
604835 AGTTTCTCAA
* * * *
604845 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * *
604896 TT-TTCTATAATCGGGGATACTCTAACTTCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
604950 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * * * *
605008 TAT-TTC-CGA--GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * *
605057 TT-TTCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* * *
605110 TTCCTT--TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
605162 TT-TTCACAATCGAGGATACTC
1 TTCTTCACAATCGGGGATACTC
605183 TAACCTCGTT
Statistics
Matches: 219, Mismatches: 40, Indels: 55
0.70 0.13 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 34 0.16
52 77 0.35
53 33 0.15
54 28 0.13
55 24 0.11
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:604989 original size:27 final size:28
Alignment explanation
Indices: 604959--605034 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
604949 TTTCTTCACA
604959 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
604986 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
605014 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
605035 GTTTTATTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:605069 original size:107 final size:104
Alignment explanation
Indices: 604908--605300 Score: 301
Period size: 107 Copynumber: 3.7 Consensus size: 104
604898 TTCTATAATC
* ** *
604908 GGGGATACTCTAACTTCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGGTTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
*
604973 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
63 AACCCCGTTAATCATCGGGAATACTCCAACCCCGTTA-TTCC-A
* * *
605017 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTCCAAAAACACCAATTTTT-CACAATCGGGGATACTCCAA
* * ** * * ** * *
605082 CCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C-
65 CCC-CG-TTAATCATCGGGAATACTCCAA--CCCCGTTATTCCA
* * * * * *
605121 GGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCTAA
1 GGGGATACTCCAACCCCGGTTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
605186 CCTCGTTATTTCATCGGGAATACTCCAACCCCGTTACTTCCAA
65 CCCCGTTA-ATCATCGGGAATACTCCAACCCCGTTA-TTCC-A
* * * *** * * *
605229 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
*
605294 CTCGTTA
66 CCCGTTA
605301 TTTTCGAGGG
Statistics
Matches: 218, Mismatches: 52, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
102 2 0.01
103 4 0.02
104 46 0.21
105 17 0.08
106 19 0.09
107 75 0.34
108 29 0.13
109 26 0.12
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (104 bp):
GGGGATACTCCAACCCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGAATACTCCAACCCCGTTATTCCA
Found at i:605215 original size:212 final size:211
Alignment explanation
Indices: 604845--605294 Score: 620
Period size: 212 Copynumber: 2.1 Consensus size: 211
604835 AGTTTCTCAA
* *
604845 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGG
1 TTCTCCACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCGG
* *
604910 GGATACTCTAACTTCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAA
65 GGATACTCCAACTTCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* * * *
604975 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
130 CCCCGTTAATCATCGGGAATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGCTTT
* *
605040 ATTGCTAAAACACTAAT
195 ATTCCCAAAACACTAAT
* * * *
605057 TTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCG
1 TTCTCCACAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCG
* *
605122 GGGATACTCCAAC-TCTGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCT
64 GGGATACTCCAACTTC-GATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCC
* *
605184 AACCTCGTTATTTCATCGGGAATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGC
128 AACCCCGTTA-ATCATCGGGAATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGC
* * *
605249 TTTATTCCCAAAATATTGAT
192 TTTATTCCCAAAACACTAAT
* *
605269 TTCT-CATAATTGGGGATACTCCAACC
1 TTCTCCACAATCGGGGATACTCCAACC
605295 TCGTTATTTT
Statistics
Matches: 210, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
211 49 0.23
212 129 0.61
213 32 0.15
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (211 bp):
TTCTCCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGG
GATACTCCAACTTCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
CCCGTTAATCATCGGGAATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGCTTTA
TTCCCAAAACACTAAT
Found at i:617792 original size:11 final size:11
Alignment explanation
Indices: 617776--617815 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
617766 ACATTCTCTT
*
617776 CAAAAAAAAAG
1 CAAAAAAAAAA
617787 CAAAAAAAAAA
1 CAAAAAAAAAA
617798 CAAAACAAAAAAA
1 C-AAA-AAAAAAA
617811 CAAAA
1 CAAAA
617816 CAAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 12 0.46
12 6 0.23
13 8 0.31
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:617793 original size:8 final size:8
Alignment explanation
Indices: 617779--617825 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
617769 TTCTCTTCAA
617779 AAAAAAAGC
1 AAAAAAA-C
617788 AAAAAAA-
1 AAAAAAAC
617795 AAACAAAAC
1 AAA-AAAAC
617804 AAAAAAAC
1 AAAAAAAC
*
617812 AAAACAAAG
1 AAAA-AAAC
617821 AAAAA
1 AAAAA
617826 GAGAGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 3 0.09
8 14 0.41
9 17 0.50
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:617806 original size:16 final size:15
Alignment explanation
Indices: 617777--617825 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
617767 CATTCTCTTC
*
617777 AAAAAAAAAGCAAAA
1 AAAAAAAAAACAAAA
617792 AAAAAACAAAACAAAA
1 AAAAAA-AAAACAAAA
*
617808 AAACAAAACAAAGAAAA
1 AAA-AAAA-AAACAAAA
617825 A
1 A
617826 GAGAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
17 11 0.38
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:617816 original size:13 final size:13
Alignment explanation
Indices: 617779--617824 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
617769 TTCTCTTCAA
617779 AAAAAAAGC-AAA-
1 AAAAAAA-CAAAAC
617791 AAAAAAACAAAAC
1 AAAAAAACAAAAC
617804 AAAAAAACAAAAC
1 AAAAAAACAAAAC
617817 AAAGAAAA
1 AAA-AAAA
617825 AGAGAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.03
12 10 0.32
13 16 0.52
14 4 0.13
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:618554 original size:13 final size:13
Alignment explanation
Indices: 618536--618560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
618526 CATAAAATGT
618536 TGTATCGATACAA
1 TGTATCGATACAA
618549 TGTATCGATACA
1 TGTATCGATACA
618561 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:618558 original size:33 final size:33
Alignment explanation
Indices: 618516--618582 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
618506 TTCAACGATT
618516 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
618549 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
618582 T
1 T
618583 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:618686 original size:52 final size:50
Alignment explanation
Indices: 618623--618764 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 50
618613 CATTACTCAA
*
618623 ATGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAG
*
618675 ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAG
*
618727 ATGTATCGATACACTATTAAATGTATCGATACATGCAG
1 ATGTATCGATACATTATT--ATGTATCGATACATGCAG
618765 ATAAATTTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:618772 original size:52 final size:52
Alignment explanation
Indices: 618644--618764 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
618634 CATTGATCTT
*
618644 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
618696 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
618748 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
618765 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:625699 original size:19 final size:16
Alignment explanation
Indices: 625686--625762 Score: 84
Period size: 16 Copynumber: 4.6 Consensus size: 16
625676 CAAAAGTAAC
625686 ACAAAAAACAAAAAAAA
1 ACAAAAAA-AAAAAAAA
625703 ACAAAAAAAAAAACAAA
1 ACAAAAAAAAAAA-AAA
* *
625720 A-AAAAACAAAACAAA
1 ACAAAAAAAAAAAAAA
625735 ACAAAAAAAAAGAAGAAA
1 ACAAAAAAAAA-AA-AAA
625753 GACAAAAAAA
1 -ACAAAAAAA
625763 GGTGCAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.08
16 22 0.43
17 13 0.25
18 3 0.06
19 9 0.18
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (16 bp):
ACAAAAAAAAAAAAAA
Found at i:625703 original size:10 final size:10
Alignment explanation
Indices: 625688--625745 Score: 89
Period size: 10 Copynumber: 5.6 Consensus size: 10
625678 AAAGTAACAC
625688 AAAAAACAAA
1 AAAAAACAAA
625698 AAAAAACAAAAA
1 AAAAAAC--AAA
625710 AAAAAACAAA
1 AAAAAACAAA
625720 AAAAAACAAA
1 AAAAAACAAA
*
625730 ACAAAACAAA
1 AAAAAACAAA
625740 AAAAAA
1 AAAAAA
625746 GAAGAAAGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 34 0.77
12 10 0.23
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:625762 original size:1 final size:1
Alignment explanation
Indices: 625688--625745 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
625678 AAAGTAACAC
* * * * * *
625688 AAAAAACAAAAAAAAACAAAAAAAAAAACAAAAAAAAACAAAACAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
625746 GAAGAAAGAC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:625762 original size:22 final size:22
Alignment explanation
Indices: 625686--625761 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
625676 CAAAAGTAAC
625686 ACAAAAAACAAAAAAAAACAAA
1 ACAAAAAACAAAAAAAAACAAA
*
625708 AAAAAAAACAAAAAAAAACAAA
1 ACAAAAAACAAAAAAAAACAAA
*
625730 ACAAAACAA-AAAAAAAGAAGAAA
1 ACAAAA-AACAAAAAAA-AACAAA
625753 GACAAAAAA
1 -ACAAAAAA
625762 AGGTGCAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 33 0.69
23 9 0.19
24 6 0.12
ACGTcount: A:0.86, C:0.11, G:0.04, T:0.00
Consensus pattern (22 bp):
ACAAAAAACAAAAAAAAACAAA
Found at i:625763 original size:10 final size:9
Alignment explanation
Indices: 625686--625762 Score: 66
Period size: 10 Copynumber: 8.0 Consensus size: 9
625676 CAAAAGTAAC
625686 ACAAAAAACA
1 ACAAAAAA-A
*
625696 AAAAAAAACA
1 ACAAAAAA-A
*
625706 AAAAAAAAA
1 ACAAAAAAA
625715 ACAAAAAAAA
1 AC-AAAAAAA
625725 ACAAAACAAA
1 ACAAAA-AAA
625735 ACAAAAAAA
1 ACAAAAAAA
*
625744 A-AGAAGAAAG
1 ACA-AA-AAAA
625754 ACAAAAAAA
1 ACAAAAAAA
625763 GGTGCAAAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
8 1 0.02
9 15 0.26
10 41 0.71
11 1 0.02
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:626022 original size:16 final size:16
Alignment explanation
Indices: 626001--626050 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 16
625991 TGTTCTTTTC
626001 CAAAAAAGAAACAAAA
1 CAAAAAAGAAACAAAA
626017 CAAAAAAG-AA-AAAA
1 CAAAAAAGAAACAAAA
*
626031 GAAAAAA-AAACAAAA
1 CAAAAAAGAAACAAAA
626046 -AAAAA
1 CAAAAA
626051 GGGAAAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 17 0.55
15 6 0.19
16 8 0.26
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAACAAAA
Found at i:626032 original size:23 final size:24
Alignment explanation
Indices: 626002--626047 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
625992 GTTCTTTTCC
*
626002 AAAAAAG-AAACAAAACAAAAAAG
1 AAAAAAGAAAAAAAAACAAAAAAG
626025 AAAAAAGAAAAAAAAACAAAAAA
1 AAAAAAGAAAAAAAAACAAAAAA
626048 AAAGGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAAAAAAAACAAAAAAG
Found at i:627011 original size:31 final size:31
Alignment explanation
Indices: 626970--627291 Score: 156
Period size: 27 Copynumber: 10.5 Consensus size: 31
626960 CTTCAAATAC
* *
626970 CTTCTTAAAGTCCATGACTCCGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
*
627001 CTTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCA-CCTT
** * *
627033 -TTCTTTTAAGTCCACAACTTCGTGGCACTCGTT
1 CTTC-TCAAAGTCCACGACTCCGTGGCAC-C-TT
* *
627066 -TTCCTTCTAAGTCCATGACTCCGTGGCACCTT
1 CTT-C-TCAAAGTCCACGACTCCGTGGCACCTT
* * *
627098 CTTTTCAAAGCCCACAACTCCGTGGCACC--
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* *
627127 CTT-T-TAAGTCCACAACTCCGTGGCACC--
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* *
627154 CGTT-T--AAGCCCACAACTCCGTGGCACC--
1 C-TTCTCAAAGTCCACGACTCCGTGGCACCTT
*
627181 CTT-T-TAAGTCCACGACTCCGTGGCACCCTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCA-CC-TT
* * * * *
627212 TTTCCTTTAAAGCCCACAACTACGTGGCACTCTT
1 CTT-C-TCAAAGTCCACGACTCCGTGGCAC-CTT
** * *
627246 -TTCCTTTTAAGTCCACAAGTCCGTGGCACCTT
1 CTT-C-TCAAAGTCCACGACTCCGTGGCACCTT
*
627278 CTTCT-AAAGCCCAC
1 CTTCTCAAAGTCCAC
627292 ACAAGTCGGT
Statistics
Matches: 240, Mismatches: 33, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
26 3 0.01
27 62 0.26
28 6 0.03
29 3 0.01
30 7 0.03
31 52 0.22
32 29 0.12
33 34 0.14
34 26 0.11
35 18 0.08
ACGTcount: A:0.20, C:0.35, G:0.15, T:0.30
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTCCGTGGCACCTT
Found at i:627079 original size:34 final size:33
Alignment explanation
Indices: 626977--627131 Score: 103
Period size: 31 Copynumber: 4.8 Consensus size: 33
626967 TACCTTCTTA
* * *
626977 AAGTCCATGACTCCGTGGCA--CCTTCTTC-TCA
1 AAGTCCACGACTTCGTGGCACTCCTT-TTCTTCT
*
627008 AAGTCCACGAC-TCAGTGGCA-TCCTTTTCTTTT
1 AAGTCCACGACTTC-GTGGCACTCCTTTTCTTCT
* *
627040 AAGTCCACAACTTCGTGGCACTCGTTTTCCTTCT
1 AAGTCCACGACTTCGTGGCACTCCTTTT-CTTCT
* * *
627074 AAGTCCATGACTCCGTGGCA--CCTTCTT-TTCA
1 AAGTCCACGACTTCGTGGCACTCCTT-TTCTTCT
* * *
627105 AAGCCCACAACTCCGTGGCAC-CCTTTT
1 AAGTCCACGACTTCGTGGCACTCCTTTT
627132 AAGTCCACAA
Statistics
Matches: 101, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
30 1 0.01
31 41 0.41
32 28 0.28
33 10 0.10
34 21 0.21
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (33 bp):
AAGTCCACGACTTCGTGGCACTCCTTTTCTTCT
Found at i:627140 original size:27 final size:27
Alignment explanation
Indices: 627068--627212 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
627058 CACTCGTTTT
* **
627068 CCTTCTAAGTCCATGACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
627095 CTTCTTTTCAAAGCCCACAACTCCGTGGCAC
1 C--CTTTT--AAGTCCACAACTCCGTGGCAC
627126 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
627153 CCGTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
627180 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
627207 CCTTTT
1 CCTTTT
627213 TTCCTTTAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
27 76 0.73
29 9 0.09
31 19 0.18
ACGTcount: A:0.20, C:0.38, G:0.16, T:0.26
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:627179 original size:54 final size:55
Alignment explanation
Indices: 627068--627208 Score: 212
Period size: 54 Copynumber: 2.5 Consensus size: 55
627058 CACTCGTTTT
* * *
627068 CCTTCTAAGTCCATGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACGACTCCGTGGCACC--CGTTT-AAAGCCCACAACTCCGTGGCAC
*
627126 CCTTTTAAGTCCACAACTCCGTGGCACCCGTTT-AAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACGACTCCGTGGCACCCGTTTAAAGCCCACAACTCCGTGGCAC
627180 CCTTTTAAGTCCACGACTCCGTGGCACCC
1 CCTTTTAAGTCCACGACTCCGTGGCACCC
627209 TTTTTTCCTT
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
54 49 0.63
56 4 0.05
58 25 0.32
ACGTcount: A:0.21, C:0.39, G:0.16, T:0.24
Consensus pattern (55 bp):
CCTTTTAAGTCCACGACTCCGTGGCACCCGTTTAAAGCCCACAACTCCGTGGCAC
Found at i:627238 original size:35 final size:35
Alignment explanation
Indices: 627180--627280 Score: 125
Period size: 33 Copynumber: 2.9 Consensus size: 35
627170 TCCGTGGCAC
* *
627180 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTCTTTT
* * *
627215 CCTTTAAAGCCCACAACTACGTGGCA--CTCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTCTTTT
* *
627248 CCTTTTAAGTCCACAAGTCCGTGGCACCTTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTCTT
627281 CTAAAGCCCA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 28 0.52
35 26 0.48
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.34
Consensus pattern (35 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTCTTTT
Found at i:627349 original size:65 final size:62
Alignment explanation
Indices: 627259--627385 Score: 202
Period size: 65 Copynumber: 2.0 Consensus size: 62
627249 CTTTTAAGTC
627259 CACAAGTCCGTGGCACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCA
1 CACAAGTCCGTGGCACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT--AAGCCCA
*
627323 CACAAGTCGGTGGCAACCATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
1 CACAAGTCCGTGGC-ACC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
627386 ATATAGCTGG
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
63 7 0.12
64 13 0.22
65 37 0.62
66 3 0.05
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.18
Consensus pattern (62 bp):
CACAAGTCCGTGGCACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
Found at i:627357 original size:33 final size:33
Alignment explanation
Indices: 627259--627378 Score: 192
Period size: 32 Copynumber: 3.7 Consensus size: 33
627249 CTTTTAAGTC
*
627259 CACAAGTCCGTGGC-A-CCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTC-TCTAAAGCCCA
627291 CACAAGTCGGTGGCAACCCTTCTC-AAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
*
627323 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
627356 CACAAGTCGGTGGCAACCCTTCT
1 CACAAGTCGGTGGCAACCCTTCT
627379 AAGCCCAATA
Statistics
Matches: 82, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
32 44 0.54
33 33 0.40
34 5 0.06
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.19
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
Found at i:627436 original size:49 final size:49
Alignment explanation
Indices: 627378--627887 Score: 662
Period size: 49 Copynumber: 10.7 Consensus size: 49
627368 GCAACCCTTC
* *
627378 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
627427 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
627470 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
627519 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
627562 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
627611 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
627660 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
627709 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
627757 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
627800 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
627852 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
627888 ACATCCTTTT
Statistics
Matches: 408, Mismatches: 32, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
43 117 0.29
45 3 0.01
47 2 0.00
48 45 0.11
49 204 0.50
50 1 0.00
52 36 0.09
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:627540 original size:92 final size:92
Alignment explanation
Indices: 627373--627843 Score: 648
Period size: 92 Copynumber: 5.1 Consensus size: 92
627363 CGGTGGCAAC
*
627373 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
627438 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
627466 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
627531 AGCTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
627558 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
627623 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
627650 CCTTTATCTTTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTC
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
627715 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGG-----CA
* * *
627753 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
627812 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
627839 CCTTT
1 CCTTT
627844 TCCATCTTTA
Statistics
Matches: 346, Mismatches: 21, Indels: 29
0.87 0.05 0.07
Matches are distributed among these distances:
86 7 0.02
91 38 0.11
92 172 0.50
93 6 0.02
97 40 0.12
98 80 0.23
102 1 0.00
103 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:627875 original size:52 final size:53
Alignment explanation
Indices: 627797--627950 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
627787 ACATTGGCAC
627797 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
627849 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
627904 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
627951 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:628008 original size:67 final size:68
Alignment explanation
Indices: 627900--628026 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
627890 ATCCTTTTTC
* * *
627900 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
627964 TCT
66 TCT
* * * *
627967 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
628027 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:628786 original size:13 final size:13
Alignment explanation
Indices: 628768--628792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
628758 CATAAAATGT
628768 TGTATCGATACAA
1 TGTATCGATACAA
628781 TGTATCGATACA
1 TGTATCGATACA
628793 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:628790 original size:33 final size:33
Alignment explanation
Indices: 628748--628814 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
628738 TTCAACGATT
628748 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
628781 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
628814 T
1 T
628815 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:628874 original size:13 final size:13
Alignment explanation
Indices: 628856--628887 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
628846 ATTACTCAAA
628856 TGTATCGATACAT
1 TGTATCGATACAT
628869 TGTATCGATACAT
1 TGTATCGATACAT
628882 TG-ATCG
1 TGTATCG
628888 TTGTATCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:629009 original size:52 final size:52
Alignment explanation
Indices: 628889--629009 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
628879 CATTGATCGT
* *
628889 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
628941 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
628993 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
629010 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:632754 original size:55 final size:55
Alignment explanation
Indices: 632665--633163 Score: 630
Period size: 55 Copynumber: 9.0 Consensus size: 55
632655 GACGCCTTTT
632665 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
*
632720 CCTTTTAAAGCCCACACAAGTTGGTGGCAGTTCCTAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
*
632775 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
* * * *
632830 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTCCCTATTCCTCAAAGAGTAGGATG
1 ------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
* * * * * *
632891 CCTTTCAAAGCCCACACAAGTCGGTGGCATTTTCCCAGTCCTCAAAGAGTAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG
* * *
632947 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG
* * *
633002 CCTTTCAAAGCCCAC-CAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG
* * *
633056 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGACCA-GACCG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA-CG
* * ** *
633111 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAATGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
633164 TACACTTTAT
Statistics
Matches: 402, Mismatches: 31, Indels: 21
0.89 0.07 0.05
Matches are distributed among these distances:
54 58 0.14
55 238 0.59
56 56 0.14
61 50 0.12
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (55 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
Found at i:633934 original size:21 final size:21
Alignment explanation
Indices: 633907--633984 Score: 97
Period size: 21 Copynumber: 3.7 Consensus size: 21
633897 AAAAAATTCC
*
633907 AAATGTATCAATACATTTGT-
1 AAATGTATCGATACATTTGTG
633927 AGAATGTATCGATACATTTGTG
1 A-AATGTATCGATACATTTGTG
**
633949 AAATGTATCGATACATTCT-AC
1 AAATGTATCGATACATT-TGTG
633970 AAATGTATCGATACA
1 AAATGTATCGATACA
633985 GGGTCCCAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
20 1 0.02
21 49 0.94
22 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTTGTG
Found at i:634044 original size:19 final size:19
Alignment explanation
Indices: 634020--634087 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
634010 AATTCAACAA
634020 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
634039 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
634054 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
634071 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
634088 TTAGCTATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.21
15 4 0.09
17 4 0.09
19 26 0.60
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:634058 original size:32 final size:32
Alignment explanation
Indices: 634022--634082 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
634012 TTCAACAATT
*
634022 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTATTGTATCGATATAA
634054 TGTATCGATACATAAGTATTGTATCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
634083 CATAATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATATAA
Found at i:634145 original size:13 final size:13
Alignment explanation
Indices: 634127--634152 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
634117 CATTTTTCTG
634127 TGTATCGATACAT
1 TGTATCGATACAT
634140 TGTATCGATACAT
1 TGTATCGATACAT
634153 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.