Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 18 of 205
Found at i:5584966 original size:28 final size:31
Alignment explanation
Indices: 5584933--5585002 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 31
5584923 AGATAATTAT
*
5584933 TTTAAATTTTATTAAATCA-TA-TATTTTAA
1 TTTAAATTTTATTAAATAATTATTATTTTAA
* * *
5584962 -TTAAAATATATTTAATAATTATTATTTTAA
1 TTTAAATTTTATTAAATAATTATTATTTTAA
*
5584992 TTTATATTTTA
1 TTTAAATTTTA
5585003 CAGTATCATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
28 14 0.45
29 2 0.06
30 8 0.26
31 7 0.23
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTAAATTTTATTAAATAATTATTATTTTAA
Found at i:5585086 original size:18 final size:17
Alignment explanation
Indices: 5585058--5585092 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5585048 ATTATTAAGA
*
5585058 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5585075 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5585093 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5585205 original size:147 final size:148
Alignment explanation
Indices: 5585046--5585468 Score: 803
Period size: 148 Copynumber: 2.9 Consensus size: 148
5585036 ATAAGAATAT
5585046 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
5585111 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAAAATAATTT
66 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAAAATAATTT
5585175 ACCAAAACAAATTTCTGC
131 ACCAAAACAAATTTCTGC
5585193 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
5585258 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAAAATAATTT
66 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAAAATAATTT
5585323 ACCAAAACAAATTTCTGC
131 ACCAAAACAAATTTCTGC
*
5585341 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
5585406 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAA-AATAA
5585469 CAATAATCAT
Statistics
Matches: 271, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
147 92 0.34
148 174 0.64
149 5 0.02
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (148 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAAAATAATTT
ACCAAAACAAATTTCTGC
Found at i:5585233 original size:18 final size:17
Alignment explanation
Indices: 5585205--5585239 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5585195 ATTATTAAGA
*
5585205 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5585222 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5585240 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5585381 original size:18 final size:17
Alignment explanation
Indices: 5585353--5585387 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5585343 ATTATTAAGA
*
5585353 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5585370 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5585388 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5585598 original size:44 final size:45
Alignment explanation
Indices: 5585549--5585643 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
5585539 TTACACCTCT
* *
5585549 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
* ** *
5585593 ATTACATTCAACCAGACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
5585638 ATTACA
1 ATTACA
5585644 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:5585673 original size:16 final size:16
Alignment explanation
Indices: 5585624--5585675 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
5585614 GATTTGCTAT
* *
5585624 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
5585640 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
5585656 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
5585672 TACA
1 TACA
5585676 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5593561 original size:23 final size:22
Alignment explanation
Indices: 5593508--5593561 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
5593498 GATAATTACA
5593508 TTTATTTTCTTTAATTTAATAG
1 TTTATTTTCTTTAATTTAATAG
* *
5593530 TTGTTTTTTTTTTAAATTTAAT-G
1 TT-TATTTTCTTT-AATTTAATAG
5593553 TATTATTTT
1 T-TTATTTT
5593562 ATTTGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 15 0.58
24 9 0.35
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTATTTTCTTTAATTTAATAG
Found at i:5598179 original size:30 final size:29
Alignment explanation
Indices: 5598109--5598180 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
5598099 ATATTGAGTG
*
5598109 GTAAAATTTAATTAAAAATCAAAGTTGGTG
1 GTAAAATTTAA-TAAAAATCAAAGTTGGTA
* * * * *
5598139 GCAGAGTTTAATAAAATTCAAAGCTTTGTA
1 GTAAAATTTAATAAAAATCAAAG-TTGGTA
5598169 GTAAAATTTAAT
1 GTAAAATTTAAT
5598181 CACATAAGAG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (29 bp):
GTAAAATTTAATAAAAATCAAAGTTGGTA
Found at i:5600025 original size:234 final size:235
Alignment explanation
Indices: 5599639--5600066 Score: 671
Period size: 234 Copynumber: 1.8 Consensus size: 235
5599629 GCAAAGGTAT
*
5599639 CAAAACTGAAGTTGGCAGAAGAGAAGAAACCCGAAGAGGTACCCAAGGAGAAAAGTGTTGAGCAA
1 CAAAACTGAAGTTGGCAGAAAAGAAGAAACCCGAAGAGGTACCCAAGGAGAAAAGTGTTGAGCAA
* * * * *
5599704 ATGGTGCCAAAACCAAAGCCAGTTGAAAAGGAGACTGAAGCTGAGGAGGTACTGAAACTGAAGTT
66 ATGGTGCCAAAACCAAAGACAGCTCAAAAGGAGACTGAAGCTGAGAAGGTACAGAAACTGAAGTT
*
5599769 GGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTAAGCAAAAGGTG-CAAAAG
131 GGCCGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTAAGCAAAAGGTGACAAAAG
5599833 CTGGTCCAAAAGGAGGATGAAGCTGAACCTGAGAATTTAC
196 CTGGTCCAAAAGGAGGATGAAGCTGAACCTGAGAATTTAC
* * *
5599873 CAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGAAAAGTGTTGAGCAA
1 CAAAACTGAAGTTGGCAGAAAAGAAGAAACCCGAAGAGGTACCCAAGGAGAAAAGTGTTGAGCAA
* **
5599938 ATGGTGCCAGAACCAAAGATGGCTCAAAAGGAGACTGAAGCTGAGAAGGTACCAG-AACTGAAGT
66 ATGGTGCCAAAACCAAAGACAGCTCAAAAGGAGACTGAAGCTGAGAAGGTA-CAGAAACTGAAGT
* * * * *
5600002 TGGCCGAAAATAAGAAACCTGAAGATGTGCCCACGGAGGAAAGTGTTGAGCAAAAGGTGACAAAA
130 TGGCCGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTAAGCAAAAGGTGACAAAA
5600067 CCAAACATGG
Statistics
Matches: 174, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
234 167 0.96
235 7 0.04
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.14
Consensus pattern (235 bp):
CAAAACTGAAGTTGGCAGAAAAGAAGAAACCCGAAGAGGTACCCAAGGAGAAAAGTGTTGAGCAA
ATGGTGCCAAAACCAAAGACAGCTCAAAAGGAGACTGAAGCTGAGAAGGTACAGAAACTGAAGTT
GGCCGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTAAGCAAAAGGTGACAAAAG
CTGGTCCAAAAGGAGGATGAAGCTGAACCTGAGAATTTAC
Found at i:5600077 original size:117 final size:117
Alignment explanation
Indices: 5599621--5600092 Score: 514
Period size: 117 Copynumber: 4.0 Consensus size: 117
5599611 GAAGCTGAAG
* * * *
5599621 CTGAAGCTGCA-AAGGTATCAAAACTGAAGTTGGCAGAAGAGAAGAAACCCGAAGAGGTACCCAA
1 CTGAAGCTG-AGAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAA
* * *
5599685 GGAGAAAAGTGTTGAGCAAATGGTGCCAAAACCAAAGCCA--GTTGAAAAGGAGA
65 GGAGAAAAGTGTTGAGCAAAAGGTGCCAAAACCAAA--CATGGCTCAAAAGGAGA
* **
5599738 CTGAAGCTGAGGAGGTACTGAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAG
1 CTGAAGCTGAGAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAG
* * *
5599803 GAGGAAAGTGTTAAGCAAAAGGTG-C--AA--AAGC-TGG-TCCAAAAGGAGGATGAA
66 GAGAAAAGTGTTGAGCAAAAGGTGCCAAAACCAAACATGGCT-C-AAA--AGGA-G-A
* ** *
5599854 GCTGAACCTGAGAATTTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTACCCAA
1 -CTGAAGCTGAGAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAA
* * *
5599919 GGAGAAAAGTGTTGAGCAAATGGTGCCAGAACCAAAGATGGCTCAAAAGGAGA
65 GGAGAAAAGTGTTGAGCAAAAGGTGCCAAAACCAAACATGGCTCAAAAGGAGA
* * * * * *
5599972 CTGAAGCTGAGAAGGTACCAGAACTGAAGTTGGCCGAAAATAAGAAACCTGAAGATGTGCCCACG
1 CTGAAGCTGAGAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAG
* * * *
5600037 GAGGAAAGTGTTGAGCAAAAGGTGACAAAACCAAACATGGCTGAAAAGGAGG
66 GAGAAAAGTGTTGAGCAAAAGGTGCCAAAACCAAACATGGCTCAAAAGGAGA
5600089 CTGA
1 CTGA
5600093 TGGTATTATT
Statistics
Matches: 297, Mismatches: 41, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
110 2 0.01
111 1 0.00
112 5 0.02
114 6 0.02
115 1 0.00
116 3 0.01
117 260 0.88
118 2 0.01
119 1 0.00
120 6 0.02
122 5 0.02
123 4 0.01
124 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.14
Consensus pattern (117 bp):
CTGAAGCTGAGAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAG
GAGAAAAGTGTTGAGCAAAAGGTGCCAAAACCAAACATGGCTCAAAAGGAGA
Found at i:5600301 original size:35 final size:36
Alignment explanation
Indices: 5600222--5600301 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 36
5600212 AATTGGTTTA
*
5600222 ATATATATACGTATACTCATATTTCTTTTTTATATAT
1 ATATATATACATATAC-CATATTTCTTTTTTATATAT
*
5600259 ATCTATATACATATA-CATATTT-TATTTTTATA-AGT
1 ATATATATACATATACCATATTTCT-TTTTTATATA-T
5600294 ATATATAT
1 ATATATAT
5600302 TTATATGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
34 2 0.05
35 23 0.61
37 13 0.34
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACCATATTTCTTTTTTATATAT
Found at i:5600557 original size:16 final size:17
Alignment explanation
Indices: 5600528--5600562 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5600518 TACACCTATA
5600528 TATATATGTACATATTTT
1 TATATATG-ACATATTTT
5600546 TATATATG-CATATTTT
1 TATATATGACATATTTT
5600562 T
1 T
5600563 TTCTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
TATATATGACATATTTT
Found at i:5611639 original size:1 final size:1
Alignment explanation
Indices: 5611633--5611659 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
5611623 TTTACTTCCT
5611633 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
5611660 CTTTGGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5611682 original size:1 final size:1
Alignment explanation
Indices: 5611676--5611704 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
5611666 AGAGGCTAAG
5611676 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5611705 CTTTGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5611697 original size:45 final size:45
Alignment explanation
Indices: 5611633--5611720 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
5611623 TTTACTTCCT
5611633 AAAAAAAAAAAAAAAAAAAAAAAAAAACTTTGGAGAGGCTAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAACTTTGGAGAGGCTAAGAA
5611678 AAAAAAAAAAAAAAAAAAAAAAAAAAACTTTGGAGAGGCTAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAACTTTGGAGAGGCTAAG
5611721 GTGAAAACCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.09
Consensus pattern (45 bp):
AAAAAAAAAAAAAAAAAAAAAAAAAAACTTTGGAGAGGCTAAGAA
Found at i:5612057 original size:17 final size:18
Alignment explanation
Indices: 5612025--5612059 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5612015 TTGAAAATAC
5612025 ATTTCTTTCATTTCCTTT
1 ATTTCTTTCATTTCCTTT
*
5612043 ATTTC-TTCCTTTCCTTT
1 ATTTCTTTCATTTCCTTT
5612060 TGTGAAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTCTTTCATTTCCTTT
Found at i:5612989 original size:46 final size:44
Alignment explanation
Indices: 5612922--5613206 Score: 186
Period size: 46 Copynumber: 6.6 Consensus size: 44
5612912 ATAATACAGG
*
5612922 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
5612968 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
5613012 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
5613051 TCGTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
* *
5613092 TCTTATCCCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * **
5613138 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGATAT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAT-TCAGA
*
5613181 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
5613207 GTGGATTAAA
Statistics
Matches: 188, Mismatches: 34, Indels: 37
0.73 0.13 0.14
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 23 0.12
40 1 0.01
41 26 0.14
42 3 0.02
43 26 0.14
44 35 0.19
45 3 0.02
46 69 0.37
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:5613245 original size:44 final size:44
Alignment explanation
Indices: 5613135--5613246 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 44
5613125 AAAGAATTTC
* *
5613135 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGATAT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAAATAA
* * **
5613179 A-ATCCTATCTCCCTGAAGTTACAGTGGAGTGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAAATAA
*
5613221 AGGATCTTATCTCTCTGAGGTTACAG
1 A-GATCTTATCTCCCTGAGGTTACAG
5613247 CAGAGTAGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 6 0.11
43 30 0.53
44 21 0.37
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAAATAA
Found at i:5616349 original size:240 final size:236
Alignment explanation
Indices: 5615921--5617354 Score: 1616
Period size: 240 Copynumber: 6.0 Consensus size: 236
5615911 AAACTGCAGC
* * * * *
5615921 TGAAGCTGAAGCTGCA-AAGGCATCAAAACTGAAGTTGGCTGAAGAGAAGAAACCCGAAGAGGTA
1 TGAAGCTGAAGCTG-AGAAGGTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTA
* ** ***
5615985 CCCAAGGAGAAAAGTGTTGAGCAAGTGGTGCCAAAACCAATGCCAGTTGAAAAGGAGACTGAAGC
65 CCCAAGGAGAAAAGCGTTGAGCAAAAGGTGCCAAAACCAA----AGTTGGTCAGGAGACTGAAGC
** * *
5616050 TGAGAAGGTACTGAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAA
126 TGAGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAA
* * * *
5616115 GTGTTAAGCAAAAGGTGCAAAAACCAAAGCTGGTCCAAAAGGAGGA
191 GCGTTGAGCAAAAGGTGCAAAAACCAAAGTTGGTCGAAAAGGAGGA
* **
5616161 TGAAGCTGAACCTGAGAATTTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTAC
1 TGAAGCTGAAGCTGAGAAGGTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTAC
* * * * *
5616226 CCAAGGAGAAAAGTGTTGAGCAAATGGTGCCAGAACCAAGGATGGTTCAAAAGGAGACTGAAGCT
66 CCAAGGAGAAAAGCGTTGAGCAAAAGGTGCCAAAACCAAAGTTGG-TC---AGGAGACTGAAGCT
* *
5616291 GAGAAGGTAACAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGATGTAACCAAGGAGGAAAG
127 GAGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAG
* * * * *
5616356 CATTGAGCAAAAGGTGCCAAAACCAAAGTTAGTCGTAAAGGAGGC
192 CGTTGAGCAAAAGGTGCAAAAACCAAAGTTGGTCGAAAAGGAGGA
* * * *
5616401 TGAAGCTGAAGCTGAGAAGGTACCAAAACTG-ATTTTGGCCGAAAAGAAGAAACTTGAAGAGGTG
1 TGAAGCTGAAGCTGAGAAGGTACCAAAACTGAAGTTT-GCTGAAAAGAAGAAACCTGAAGAGGTA
* * * * * *
5616465 CCCAAGGAGGAAAGTGTTGAGCAAAATGTGCCAAAACAAAAGTTGGTC-GAAGA-TGAAGCTAAG
65 CCCAAGGAGAAAAGCGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCAGGAGACTGAAGCTGAG
*
5616528 AAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCGT
130 AAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCGT
*
5616593 TGAGCAAAAGGT--AATAAAACAGAAGTTGGTCGAAAAGGAGGCTGAA
195 TGAGCAAAAGGTGCAA-AAACCA-AAGTTGGTCGAAAAGGA-G--G-A
* * * * * *
5616639 GTCACAGCTGAAGATGAGAAGGTACCAAAACTGAAATTGGCTGAAAGGAAGAAACATGAAGAGGT
1 -TGA-AGCTGAAGCTGAGAAGGTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGT
** * * *
5616704 ACAGATGGAGGAAAA-CATTGAGCAAAAGGTGCCAAAACCAAAGTTGGT-AGAAGA-TGAAGCTG
64 ACCCAAGGA-GAAAAGCGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCAGGAGACTGAAGCTG
* * * *
5616766 AGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGT
128 AGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGC
* * *
5616831 GTTAAGCAAAAGGTGCAAAAACCAAAGCTGGTCCAAAAGGAGGA
193 GTTGAGCAAAAGGTGCAAAAACCAAAGTTGGTCGAAAAGGAGGA
* **
5616875 TGAAGCTGAACCTGAGAATTTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTAC
1 TGAAGCTGAAGCTGAGAAGGTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTAC
**** *
5616940 AGGTGGAGGAAAA-CGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGT-A-GAAACTGAAGCTGAG
66 CCAAGGA-GAAAAGCGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCAGGAGACTGAAGCTGAG
* *
5617002 AAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGT
130 AAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCGT
* * * *
5617067 TGAGCAAAAGGCGCCAAAACAAAAGTTGGTTGAAAAGGAGGCTGAA
195 TGAGCAAAAGGTGCAAAAACCAAAGTTGGTCGAAAAGGA-G--G-A
* * *
5617113 GTTGAAGCAGAAGATGAGAAGGTACCAAAACT--A----GCCGAAAAGAAGAAACCTGAAGAGGT
1 --TGAAGCTGAAGCTGAGAAGGTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGT
* * * * *
5617172 A--C-AGGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAAGCTGGTCGATGCTGA-AGCTGAA
64 ACCCAAGGAGAAAAGCGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTC-A-G--GAGA-CTGAA
5617233 GCTGAGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGA
124 GCTGAGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGA
* ** * *
5617298 AAGCATTGAGCAAAAGGTGCCCAAACCAAATTTGGTCGAAAAGGAGGC
189 AAGCGTTGAGCAAAAGGTGCAAAAACCAAAGTTGGTCGAAAAGGAGGA
5617346 TGAAGCTGA
1 TGAAGCTGA
5617355 GAAGGTACCA
Statistics
Matches: 1036, Mismatches: 124, Indels: 77
0.84 0.10 0.06
Matches are distributed among these distances:
230 4 0.00
231 41 0.04
232 1 0.00
233 8 0.01
234 328 0.32
235 8 0.01
236 6 0.01
237 112 0.11
238 2 0.00
239 10 0.01
240 502 0.48
241 12 0.01
242 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.15
Consensus pattern (236 bp):
TGAAGCTGAAGCTGAGAAGGTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTAC
CCAAGGAGAAAAGCGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCAGGAGACTGAAGCTGAGA
AGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCGTT
GAGCAAAAGGTGCAAAAACCAAAGTTGGTCGAAAAGGAGGA
Found at i:5616540 original size:111 final size:111
Alignment explanation
Indices: 5616181--5617337 Score: 681
Period size: 111 Copynumber: 9.9 Consensus size: 111
5616171 CCTGAGAATT
* * * *
5616181 TACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGAAAAGTGTTGAG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
* * * * * *
5616246 CAAATGGTGCCAGAACCAAGGATGGTTCAAAAGGAGACTGAAGCTGAGAAGG
66 CAAAAGGTGCCAAAACCAAAGTTGG-TC----GAAGA-TGAAGCTAAGAAGG
* * **
5616298 TAACAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGATGTAACCAAGGAGGAAAGCATTGAG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
*
5616363 CAAAAGGTGCCAAAACCAAAGTTAGTCGTAAAGGAGGCTGAAGCTGAAGCTGAGAAGG
66 CAAAAGGTGCCAAAACCAAAGTTGGTCG--AA-GA---TGAAGCT--A----AGAAGG
** * * **
5616421 TACCAAAACTGATTTTGGCCGAAAAGAAGAAACTTGAAGAGGTGCCCAAGGAGGAAAGTGTTGAG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
* *
5616486 CAAAATGTGCCAAAACAAAAGTTGGTCGAAGATGAAGCTAAGAAGG
66 CAAAAGGTGCCAAAACCAAAGTTGGTCGAAGATGAAGCTAAGAAGG
* *
5616532 TACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCGTTGAG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
*** * * *
5616597 CAAAAGGTAATAAAA-CAGAAGTTGGTCGAAAAGGAGGCT--GAA-G
66 CAAAAGGTGCCAAAACCA-AAGTTGGTCGAAGATGAAGCTAAGAAGG
* * * * ** * * * * *
5616640 T--CACAGCTGAAGATGAGAAGGTACCAAA-ACTGAAATTGGCTGAA-AGGAAGAAACATGAAGA
1 TACCAAAACTGACGTTG-G-CTG-A--AAAGA-AGAAA---CCTGAAGAGG--TAACCA--AGGA
* * * * *
5616701 GGTACAG-ATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAGATGAAGCT
53 GG-AAAGTGTTGA-GCAAA-----------AGGTGCCAAAACCAAAGTTGGTCGAAGATGAAGCT
* *
5616765 GAGAAAG
105 AAGAAGG
* * *
5616772 TACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTAAG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
* * * **
5616837 CAAAAGGTGCAAAAACCAAAGCTGGTCCAAAAGGAGGATGAAGCTGAACCTGAGAATT
66 CAAAAGGTGCCAAAACCAAAGTTGGT-C-----GAAGATGAAGCT--A----AGAAGG
* * * **
5616895 TACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGT-A-CAGGTGGAGGAAAACGTTG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCA--AGGAGGAAAGTGTTG
* * *
5616958 AGCAAAAGGTGCCAAAACCAAAGTTGGTAGAA-ACTGAAGCTGAGAAAG
64 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGA-TGAAGCTAAGAAGG
5617006 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
* * * * *
5617071 CAAAAGGCGCCAAAACAAAAGTTGGTTGAAAAGGAGGCTGAAGTTGAAGCAGAAGA
66 CAAAAGGTGCCAAAACCAAAGTTGGTCG--AA-GA---TGAAGCT--A--AGAAGG
* * ** *** * * ***
5617127 TGA-GAAGGTACCAAAACTAGCCGAAAAGAAGAAACCTGAAGAGGT-A-C-AGGAGGAAACCATT
1 T-ACCAA--AACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTT
* * * *
5617188 GAGCAAAAGGGGCCAAAACCAAAGCTGGTCGATGCTGAAGCTGAAGCTGAGAAGG
63 GAGCAAAAGGTGCCAAAACCAAAG-T--T-GGT-C-GAAGATGAAGCTAAGAAGG
**
5617243 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAG
1 TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
* *
5617308 CAAAAGGTGCCCAAACCAAATTTGGTCGAA
66 CAAAAGGTGCCAAAACCAAAGTTGGTCGAA
5617338 AAGGAGGCTG
Statistics
Matches: 805, Mismatches: 148, Indels: 180
0.71 0.13 0.16
Matches are distributed among these distances:
106 11 0.01
107 1 0.00
108 3 0.00
109 4 0.00
110 2 0.00
111 207 0.26
112 3 0.00
113 9 0.01
114 36 0.04
115 10 0.01
116 13 0.02
117 161 0.20
118 7 0.01
120 41 0.05
121 13 0.02
122 9 0.01
123 206 0.26
124 4 0.00
125 3 0.00
126 6 0.01
127 3 0.00
129 32 0.04
130 3 0.00
131 4 0.00
132 3 0.00
133 1 0.00
134 10 0.01
ACGTcount: A:0.43, C:0.14, G:0.28, T:0.15
Consensus pattern (111 bp):
TACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAG
CAAAAGGTGCCAAAACCAAAGTTGGTCGAAGATGAAGCTAAGAAGG
Found at i:5616766 original size:129 final size:129
Alignment explanation
Indices: 5616526--5616766 Score: 326
Period size: 129 Copynumber: 1.9 Consensus size: 129
5616516 GATGAAGCTA
* * *
5616526 AGAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGC
1 AGAAGGTACCAAAACTGAAATTGGCTGAAAAGAAGAAACATGAAGAGGTAACCAAGGAGGAAAAC
* * * *
5616591 GTTGAGCAAAAGGTAATAAAACAGAAGTTGGTCGAAAAGGAGGCTGAAGTCACAGCTGAAGATG
66 ATTGAGCAAAAGGTAACAAAACAGAAGTTGGTAGAAAAGGAAGCTGAAGTCACAGCTGAAGATG
*
5616655 AGAAGGTACCAAAACTGAAATTGGCTGAAAGGAAGAAACATGAAGAGGT-A-CAGATGGAGGAAA
1 AGAAGGTACCAAAACTGAAATTGGCTGAAAAGAAGAAACATGAAGAGGTAACCA-A-GGAGGAAA
** * *
5616718 ACATTGAGCAAAAGGTGCCAAAACCA-AAGTTGGTAGAAGATGAAGCTGA
64 ACATTGAGCAAAAGGTAACAAAA-CAGAAGTTGGTAGAAAAGGAAGCTGA
5616767 GAAAGTACCA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
127 2 0.02
128 2 0.02
129 91 0.94
130 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.14
Consensus pattern (129 bp):
AGAAGGTACCAAAACTGAAATTGGCTGAAAAGAAGAAACATGAAGAGGTAACCAAGGAGGAAAAC
ATTGAGCAAAAGGTAACAAAACAGAAGTTGGTAGAAAAGGAAGCTGAAGTCACAGCTGAAGATG
Found at i:5616823 original size:474 final size:469
Alignment explanation
Indices: 5615919--5617354 Score: 1718
Period size: 474 Copynumber: 3.0 Consensus size: 469
5615909 CGAAACTGCA
* * * * *
5615919 GCTGAAGCTGAAGCTGCA-AAGGCATCAAAACTGAAGTTGGCTGAAGAGAAGAAACCCGAAGAGG
1 GCTGAAGCTGAAGCTG-AGAAGGTACCAAAACTGAATTTGGCTGAAAAGAAGAAACCTGAAGAGG
* * * ** *
5615983 TACCCAAGGAGAAAAGTGTTGAGC-AAGTGGTGCCAAAACCAATGCCAGTTGAAAAGGAGACTGA
65 TACCCAAGGAGGAAAGTGTTGAGCAAAAT-GTGCCAAAA-CAA---AAGTTG-GTAGAAGACTGA
** *
5616047 AGCTGAGAAGGTACTGAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGG
124 AGCTGAGAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGG
* * * * *
5616112 AAAGTGTTAAGCAAAAGGTGCAAAAACCAAAGCTGGTCCAAAAGGA-G--G-A-TGAAGCTGAAC
189 AAAGTGTTGAGCAAAAGGT--AAAAAACAAAGTTGGTCGAAAAGGAGGCTGAAGTGAAGCTGAAG
* ** *
5616172 CTGAGAATTTACCAAAACTGAAGTTTGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGA-GAA
252 ATGAGAAGGTACCAAAACTGAA-ATTGCTGAAAAGAAGAAACCTGAAGAGGTA--C-AGGAGGAA
** * * * * *
5616236 AAGTGTTGAGCAAATGGTGCCAGAACCAAGGATGGTTCAAAAGGAGACTGAAGCTGAGAAGGTAA
313 AA-CATTGAGCAAAAGGTGCCAAAACCAAAGATGG-T---AAGAAGA-TGAAGCTGAGAAGGTAC
*
5616301 CAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGATGTAACCAAGGAGGAAAGCATTGAGCAA
372 CAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAGCAA
* *
5616366 AAGGTGCCAAAACCAAAGTTAGTCGTAAAGGAG
437 AAGGTGCCAAAACCAAAGTTGGTCGAAAAGGAG
* * *
5616399 GCTGAAGCTGAAGCTGAGAAGGTACCAAAACTGATTTTGGCCGAAAAGAAGAAACTTGAAGAGGT
1 GCTGAAGCTGAAGCTGAGAAGGTACCAAAACTGAATTTGGCTGAAAAGAAGAAACCTGAAGAGGT
* * *
5616464 GCCCAAGGAGGAAAGTGTTGAGCAAAATGTGCCAAAACAAAAGTTGGTCGAAGA-TGAAGCTAAG
66 ACCCAAGGAGGAAAGTGTTGAGCAAAATGTGCCAAAACAAAAGTTGGTAGAAGACTGAAGCTGAG
*
5616528 AAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCGT
131 AAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGT
*
5616593 TGAGCAAAAGGTAATAAAACAGAAGTTGGTCGAAAAGGAGGCTGAAGTCACAGCTGAAGATGAGA
196 TGAGCAAAAGGTAA-AAAACA-AAGTTGGTCGAAAAGGAGGCTGAAGTGA-AGCTGAAGATGAGA
* *
5616658 AGGTACCAAAACTGAAATTGGCTGAAAGGAAGAAACATGAAGAGGTACAGATGGAGGAAAACATT
258 AGGTACCAAAACTGAAATT-GCTGAAAAGAAGAAACCTGAAGAGGTAC--A-GGAGGAAAACATT
* * *
5616723 GAGCAAAAGGTGCCAAAACCAAAGTTGGT-AGAAGATGAAGCTGAGAAAGTACCAAAACTGATGT
319 GAGCAAAAGGTGCCAAAACCAAAGATGGTAAGAAGATGAAGCTGAGAAGGTACCAAAACTGACGT
* ** * *
5616787 TGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTAAGCAAAAGGTGCAAAAA
384 TGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAGCAAAAGGTGCCAAAA
* *
5616852 CCAAAGCTGGTCCAAAAGGAG
449 CCAAAGTTGGTCGAAAAGGAG
* * **
5616873 GATGAAGCTGAACCTGAGAATTTACCAAAACTGAAGTTT-GCTGAAAAGAAGAAACCTGAAGAGG
1 GCTGAAGCTGAAGCTGAGAAGGTACCAAAACTGAA-TTTGGCTGAAAAGAAGAAACCTGAAGAGG
**** ** * *
5616937 TACAGGTGGAGGAAAACGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAA-ACTGAAGCTGA
65 TACCCAAGGAGGAAAGTGTTGAGCAAAATGTGCCAAAACAAAAGTTGGTAGAAGACTGAAGCTGA
* *
5617001 GAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTG
130 GAAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTG
*** * *
5617066 TTGAGCAAAAGGCGCCAAAACAAAAGTTGGTTGAAAAGGAGGCTGAAGTTGAAGCAGAAGATGAG
195 TTGAGCAAAAGG-TAAAAAAC-AAAGTTGGTCGAAAAGGAGGCTGAAG-TGAAGCTGAAGATGAG
* *
5617131 AAGGTACCAAAACT---A--GCCGAAAAGAAGAAACCTGAAGAGGTACAGGAGGAAACCATTGAG
257 AAGGTACCAAAACTGAAATTGCTGAAAAGAAGAAACCTGAAGAGGTACAGGAGGAAAACATTGAG
* * * *
5617191 CAAAAGGGGCCAAAACCAAAGCTGGTCGATGCTGAAGCTGAAGCTGAGAAGGTACCAAAACTGAC
322 CAAAAGGTGCCAAAACCAAAGATGGT--A---AGAAGATGAAGCTGAGAAGGTACCAAAACTGAC
*
5617256 GTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAGCAAAAGGTGCCCA
382 GTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAGCAAAAGGTGCCAA
*
5617321 AACCAAATTTGGTCGAAAAGGAG
447 AACCAAAGTTGGTCGAAAAGGAG
5617344 GCTGAAGCTGA
1 GCTGAAGCTGA
5617355 GAAGGTACCA
Statistics
Matches: 830, Mismatches: 101, Indels: 59
0.84 0.10 0.06
Matches are distributed among these distances:
465 39 0.05
466 1 0.00
468 25 0.03
471 119 0.14
472 2 0.00
473 6 0.01
474 431 0.52
475 16 0.02
476 5 0.01
477 1 0.00
478 2 0.00
479 10 0.01
480 165 0.20
481 8 0.01
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.15
Consensus pattern (469 bp):
GCTGAAGCTGAAGCTGAGAAGGTACCAAAACTGAATTTGGCTGAAAAGAAGAAACCTGAAGAGGT
ACCCAAGGAGGAAAGTGTTGAGCAAAATGTGCCAAAACAAAAGTTGGTAGAAGACTGAAGCTGAG
AAGGTACCAAAACTGAAGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGT
TGAGCAAAAGGTAAAAAACAAAGTTGGTCGAAAAGGAGGCTGAAGTGAAGCTGAAGATGAGAAGG
TACCAAAACTGAAATTGCTGAAAAGAAGAAACCTGAAGAGGTACAGGAGGAAAACATTGAGCAAA
AGGTGCCAAAACCAAAGATGGTAAGAAGATGAAGCTGAGAAGGTACCAAAACTGACGTTGGCTGA
AAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAGCAAAAGGTGCCAAAACCAAAGT
TGGTCGAAAAGGAG
Found at i:5617205 original size:120 final size:119
Alignment explanation
Indices: 5616991--5617354 Score: 381
Period size: 123 Copynumber: 3.0 Consensus size: 119
5616981 TTGGTAGAAA
* *
5616991 CTGAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
1 CTGAAGCTGAGAAGGTACCAAAACTGA----GGCCGAAAAGAAGAAACCTGAAGAGGTAACCAAG
** *
5617056 GAGGAAAGTGTTGAGCAAAAGGCGCCAAAACAAAAGTTGGTTGAAAAGGAGGCTGAAG
62 GAGGAAAGCATTGAGCAAAAGGCGCCAAAACCAAAGTTGGTTGAAAAGGAGGCTGAAG
*
5617114 TTGAAGCAGAAGATGAGAAGGTACCAAAACT-A-GCCGAAAAGAAGAAACCTGAAGAGGT-A-C-
1 CTGAAGC------TGAGAAGGTACCAAAACTGAGGCCGAAAAGAAGAAACCTGAAGAGGTAACCA
* * * * *
5617174 AGGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAAGCTGG-T-----CGATGCTGAAG
60 AGGAGGAAAGCATTGAGCAAAAGGCGCCAAAACCAAAGTTGGTTGAAAAGGAGGCTGAAG
*
5617228 CTGAAGCTGAGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
1 CTGAAGCTGAGAAGGTACCAAAACTGA----GGCCGAAAAGAAGAAACCTGAAGAGGTAACCAAG
* * * *
5617293 GAGGAAAGCATTGAGCAAAAGGTGCCCAAACCAAATTTGGTCGAAAAGGAGGCTGAAG
62 GAGGAAAGCATTGAGCAAAAGGCGCCAAAACCAAAGTTGGTTGAAAAGGAGGCTGAAG
5617351 CTGA
1 CTGA
5617355 GAAGGTACCA
Statistics
Matches: 199, Mismatches: 21, Indels: 42
0.76 0.08 0.16
Matches are distributed among these distances:
108 18 0.09
109 1 0.01
114 40 0.20
115 1 0.01
116 1 0.01
117 37 0.19
119 1 0.01
120 36 0.18
121 1 0.01
122 1 0.01
123 44 0.22
128 1 0.01
129 17 0.09
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.13
Consensus pattern (119 bp):
CTGAAGCTGAGAAGGTACCAAAACTGAGGCCGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGG
AAAGCATTGAGCAAAAGGCGCCAAAACCAAAGTTGGTTGAAAAGGAGGCTGAAG
Found at i:5617334 original size:117 final size:114
Alignment explanation
Indices: 5617149--5617368 Score: 323
Period size: 117 Copynumber: 1.9 Consensus size: 114
5617139 AAAACTAGCC
5617149 GAAAAGAAGAAACCTGAAGAGGTACAGGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAAGCT
1 GAAAAGAAGAAACCTGAAGAGGTACAGGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAAGCT
****
5617214 GGTCGATGCTGAAGCTGAAGCTGAGAAGGTACCAAAACTGACGTTGGCT
66 GGTCGAAAAGGAAGCTGAAGCTGAGAAGGTACCAAAACTGACGTTGGCT
* * *
5617263 GAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAGCAAAAGGTGCCCAAACCAAA
1 GAAAAGAAGAAACCTGAAGAGGT-A-C-AGGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAA
** *
5617328 TTTGGTCGAAAAGGAGGCTGAAGCTGAGAAGGTACCAAAAC
63 GCTGGTCGAAAAGGAAGCTGAAGCTGAGAAGGTACCAAAAC
5617369 AGATTGTTGC
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
114 23 0.25
115 1 0.01
116 1 0.01
117 68 0.73
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (114 bp):
GAAAAGAAGAAACCTGAAGAGGTACAGGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAAGCT
GGTCGAAAAGGAAGCTGAAGCTGAGAAGGTACCAAAACTGACGTTGGCT
Found at i:5618475 original size:3 final size:3
Alignment explanation
Indices: 5618467--5618492 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5618457 CTTAATAAAT
5618467 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
5618493 TCTTCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5620112 original size:297 final size:297
Alignment explanation
Indices: 5619578--5620169 Score: 1175
Period size: 297 Copynumber: 2.0 Consensus size: 297
5619568 TTTCTCGATT
5619578 AACGTGAAATATACTTCTTTTTCCAAAACTTTAATGCTAGGATCGTATTTTTTTTAATTCTTTCA
1 AACGTGAAATATACTTCTTTTTCCAAAACTTTAATGCTAGGATCGTATTTTTTTTAATTCTTTCA
5619643 GGTTCTCAATTTTCAACATCAAGACATTAGATAATCAACTAGGTACCAATTTCTGGGCGTTACGA
66 GGTTCTCAATTTTCAACATCAAGACATTAGATAATCAACTAGGTACCAATTTCTGGGCGTTACGA
5619708 GGGTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACCCGTTTCCTAAATTTCGTAGACCAAA
131 GGGTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACCCGTTTCCTAAATTTCGTAGACCAAA
5619773 ACCGTTGTTTTAATAAGATCAAATTATTTATTAAAAACAACCTCTTTCCAAGGTGACCCAATCAC
196 ACCGTTGTTTTAATAAGATCAAATTATTTATTAAAAACAACCTCTTTCCAAGGTGACCCAATCAC
5619838 ACCCCAAAAAGGATTGGTGGCGACTCCCGTTTTTTTC
261 ACCCCAAAAAGGATTGGTGGCGACTCCCGTTTTTTTC
5619875 AACGTGAAATATACTTCTTTTTCCAAAACTTTAATGCTAGGATCGTATTTTTTTTAATTCTTTCA
1 AACGTGAAATATACTTCTTTTTCCAAAACTTTAATGCTAGGATCGTATTTTTTTTAATTCTTTCA
5619940 GGTTCTCAATTTTCAACATCAAGACATTAGATAATCAACTAGGTACCAATTTCTGGGCGTTACGA
66 GGTTCTCAATTTTCAACATCAAGACATTAGATAATCAACTAGGTACCAATTTCTGGGCGTTACGA
*
5620005 GGGTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACCCGTTTCCTAAATTTTGTAGACCAAA
131 GGGTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACCCGTTTCCTAAATTTCGTAGACCAAA
5620070 ACCGTTGTTTTAATAAGATCAAATTATTTATTAAAAACAACCTCTTTCCAAGGTGACCCAATCAC
196 ACCGTTGTTTTAATAAGATCAAATTATTTATTAAAAACAACCTCTTTCCAAGGTGACCCAATCAC
5620135 ACCCCAAAAAGGATTGGTGGCGACTCCCGTTTTTT
261 ACCCCAAAAAGGATTGGTGGCGACTCCCGTTTTTT
5620170 CGTTTTCTTC
Statistics
Matches: 294, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 294 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (297 bp):
AACGTGAAATATACTTCTTTTTCCAAAACTTTAATGCTAGGATCGTATTTTTTTTAATTCTTTCA
GGTTCTCAATTTTCAACATCAAGACATTAGATAATCAACTAGGTACCAATTTCTGGGCGTTACGA
GGGTGCTAACCCTTCCTCGTACGTAACCGACTCCCGAACCCGTTTCCTAAATTTCGTAGACCAAA
ACCGTTGTTTTAATAAGATCAAATTATTTATTAAAAACAACCTCTTTCCAAGGTGACCCAATCAC
ACCCCAAAAAGGATTGGTGGCGACTCCCGTTTTTTTC
Found at i:5620438 original size:111 final size:111
Alignment explanation
Indices: 5620233--5620755 Score: 613
Period size: 111 Copynumber: 4.7 Consensus size: 111
5620223 ACACAGATGA
** * * *
5620233 TGGCTGAACTGAAGAAACTTGAAGAGATAACCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
1 TGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
* * * ** * *
5620298 CCACAGTTGCTCGAAGCTGAAGAAGAGAAGGTACCACAATTGATAT
66 CCAAAGTTGGTCAAAGCTGAAGCTGAGAAGGTACCAAAACTGATAT
* * * *
5620344 TGGTTGAAAATAAGAAACCTGAAGAGTTACCCAAGGAGGAAAGTGTTGAGCAAAAGTTGCCAAAA
1 TGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
* *
5620409 CCAAAGTTGGTCAAAGCTGAAGCTGAGAAGGTGCCAAAACTGATGT
66 CCAAAGTTGGTCAAAGCTGAAGCTGAGAAGGTACCAAAACTGATAT
* *
5620455 TGGCAGAAAAGAAGAAACCTAAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
1 TGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
* * * *
5620520 CCAAAGTTGGTCGATGCTGAAGCTGAGAAAGTACCAAAACTGATGT
66 CCAAAGTTGGTCAAAGCTGAAGCTGAGAAGGTACCAAAACTGATAT
* * * * ** * * *
5620566 TGTCTGAACAGAAGAAACCTAAAGAGGTAACC---GAGGAAAGCATTCAGCAAAAGATGCCCAAA
1 TGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
* * *
5620628 CCAAAGTTGGTCGAAAAGGAGGCTGAACCTGAGAAGGTGCCAAAACAGATGA-
66 CCAAAGTTGGTC---AA--A-GCTGAAGCTGAGAAGGTACCAAAACTGAT-AT
* *
5620680 TGGCTGCAAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
1 TGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
5620745 CCAAAGTTGGT
66 CCAAAGTTGGT
5620756 TGAGAAGAAG
Statistics
Matches: 348, Mismatches: 54, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
108 37 0.11
111 224 0.64
114 51 0.15
117 36 0.10
ACGTcount: A:0.41, C:0.16, G:0.28, T:0.16
Consensus pattern (111 bp):
TGGCTGAAAAGAAGAAACCTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAA
CCAAAGTTGGTCAAAGCTGAAGCTGAGAAGGTACCAAAACTGATAT
Found at i:5620725 original size:225 final size:219
Alignment explanation
Indices: 5620216--5622342 Score: 1150
Period size: 222 Copynumber: 9.4 Consensus size: 219
5620206 TCCAAAAAAT
* * * * *
5620216 GGTGTCAACACAGATGATGGCTGAACTGAAGAAACTTGAAGAGATAACCAAGGAGGAAAGTGTTG
1 GGTGCCAAAACAGATGATGGCTGAA-AGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
* * * * *
5620281 AGCAAAAGGTGCCAAAACCACAGTTGCTCGAAGCTGAAGAAGAGAAGGTACCACAATTGATATTG
65 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAAGAAGAGAAAGTACCAAAACTGATATTG
* * * * ** * *
5620346 GTTGAAAATAAGAAACCTGAAGAGTTACCCAAGGAGGAAAGTGTTGAGCAAAAGTTGCCAAAACC
130 GTTGAAAAGAAGAAACCTAAAGAGGTAACC-A-GAGGAAAGCATTCAGCAAAAGATGCCAAAACC
*
5620411 AAAGTTGGTCAAAGCTGAAGCTGAGAA
193 AAAGTTGGTCAAAGCTGAACCTGAGAA
* * * * *
5620438 GGTGCCAAAACTGATGTTGGCAGAAAAGAAGAAACCTAAAGAGGTACCCAAGGAGGAAAGTGTTG
1 GGTGCCAAAACAGATGATGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
* ** *
5620503 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGATGCTGAAGCTGAGAAAGTACCAAAACTGATGTT-
65 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAAGAAGAGAAAGTACCAAAACTGATATTG
* *
5620567 GTCTGAACAGAAGAAACCTAAAGAGGTAACC-GAGGAAAGCATTCAGCAAAAGATGCCCAAACCA
130 GT-TGAAAAGAAGAAACCTAAAGAGGTAACCAGAGGAAAGCATTCAGCAAAAGATGCCAAAACCA
5620631 AAGTTGGTCGAAAAGGAGGCTGAACCTGAGAA
194 AAGTTGGTC---AA--A-GCTGAACCTGAGAA
5620663 GGTGCCAAAACAGATGATGGCTGCAAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
1 GGTGCCAAAACAGATGATGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
* ** * * **
5620728 AGCAAAAGGTGCCAAAACCAAAGTTGGTTG-AGAAGAAGGAACCTA-AAGAGGTACCCAAGGTGG
65 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAA-GAA--GAGAA-A-GTACCAAAACT-G
* * * ** *
5620791 AGAGT-GTTGAGGAAAAGGTACCA-AAACC-AAAGTTGGTAGAGAAGAAGAAA-C-TT--G---A
124 ATATTGGTT---GAAAA-G-A--AGAAACCTAAAG-AGGTA-ACCAGAGGAAAGCATTCAGCAAA
* * ** * *
5620846 AGA-GGC---ACCCAAG--GGGGAGAG-TG---TTGAGGAA
180 AGATGCCAAAACCAAAGTTGGTCAAAGCTGAACCTGA-GAA
** * * * * * * * *
5620877 GAAG---TAGCAAAT-TTGGTTGAAAAGAAAAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTG
1 GGTGCCAAAACAGATGATGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
** * *** * * * **
5620938 AG-AAGAAGGCACCAAAACCAAAGTTGATCG-AGAAAAAGGAACCTGAAGACA-CACCCAAGGTG
65 AGCAA-AAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAA-GAA---G-AGAAAGTACCAAAACT-
* * ** * * **** * * * * *
5621000 GAGATT-GTTGAGGAA-AAGGTACCAAAACCAGAGTTGGTTGAGAAGAAGGCA-CCTG-AAAAGG
123 GATATTGGTTGA-AAAGAAGAAACC-TAA--AGAGGT-AACCAGAGGAAAGCATTCAGCAAAAGA
* * ** * *
5621061 TACCCAAGGAGGCTGAAGCT-G---AAGCTGAAGCTGAGAA
183 T-GCCAA--A-ACCAAAGTTGGTCAAAGCTGAACCTGAGAA
* * * * ** * ***
5621098 GGTACCAAAACTGA-AATTGGCTGAAAAGAAGAAACATGAAGAGGTACAGATGGAGGAAAACATT
1 GGTGCCAAAACAGATGA-TGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTT
* * ** *
5621162 GAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAGATGAAGCTGAGAAAGTACCAAAACTGATGTT
64 GAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAAGAAGAGAAAGTACCAAAACTGATATT
* * * ** * *
5621227 GGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGACGAAAGTGTTGAGCAAAAGGTGCCAAAA-
129 GGTTGAAAAGAAGAAACCTAAAGAGGTAACC-A-GAGGAAAGCATTCAGCAAAAGATGCCAAAAC
5621291 CAGAAGTTGGTCGAAAAGGAGGCTGAAGTCGCAGCTGAAGATGACAA
192 CA-AAGTTGGTC---AA--A-GCTGAA----C--CT---GA-G--AA
* * * * * **** **
5621338 GGTACCAAAACTGA-AATTGGCTGAAAAGAAGAAACATGAAGACGTACAGGTGGAGGAAAACGTT
1 GGTGCCAAAACAGATGA-TGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTT
* ** **
5621402 GAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAGCTGAAGCTGAGAAAGTACCAAAACTGACGTT
64 GAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAAGAAGAGAAAGTACCAAAACTGATATT
* * ** * **
5621467 GGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGTGTTGAGCAAAAGGCGCCAAAAC
129 GGTTGAAAAGAAGAAACCTAAAGAGGTAACC-A-GAGGAAAGCATTCAGCAAAAGATGCCAAAAC
* * **
5621532 AAAAGTTGGTTGAAAAGGAGGCTGAAGTTGAAGCAGAA
192 CAAAGTTGG-T--CAA--A-GCTGAACCT---G-AGAA
* ** * * * * * **
5621570 GATGAGAAGGTACCA-A-AACTAGCCGAAAAGAAGAAACCTGAAGAGGTA--C-AGGAGGAAACC
1 GGTGCCAA---AACAGATGA-TGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGT
* * * *
5621630 ATTGAGCAAAAGGGGCCAAAACCAAAGCTGGTC-AATGCTGAAGCTGAAGCTGAGAAGGTACCAA
61 GTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAA-GCTGAA---GAA---GAGAAAGTACCAA
** * * *
5621694 AACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGGAAAGCATTGAGCAAAAG
119 AACTGATATTGGTTGAAAAGAAGAAACCTAAAGAGGTAACC-A-GAGGAAAGCATTCAGCAAAAG
* * * *
5621759 GTGCCCAAACCAAATTTGGTCGAAAAGGAGGCTGAAGCTGAGAA
182 ATGCCAAAACCAAAGTTGGTC---AA--A-GCTGAACCTGAGAA
* * * *
5621803 GGTACCAAAACAGATGATGGCTGAACTGAAGAAACTTGAAGAGATAACCAAGGAGGAAAGTGTTG
1 GGTGCCAAAACAGATGATGGCTGAA-AGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
* * * * *
5621868 AGCAAAAGGTGCCAAAACCACAGTTGCTCGAAGCTGAAGAAGAGAAGGTACCACAATTGATATTG
65 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAAGAAGAGAAAGTACCAAAACTGATATTG
* * * * ** * *
5621933 GTTGAAAATAAGAAACCTGAAGAGTTACCCAAGGAGGAAAGTGTTGAGCAAAAGTTGCCAAAACC
130 GTTGAAAAGAAGAAACCTAAAGAGGTAACC-A-GAGGAAAGCATTCAGCAAAAGATGCCAAAACC
*
5621998 AAAGTTGGTCAAAGCTGAAGCTGAGAA
193 AAAGTTGGTCAAAGCTGAACCTGAGAA
* * * * *
5622025 GGTGCCAAAACTGATGTTGGCAGAAAAGAAGAAACCTAAAGAGGTACCCAAGGAGGAAAGTGTTG
1 GGTGCCAAAACAGATGATGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
* ** *
5622090 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGATGCTGAAGCTGAGAAAGTACCAAAACTGATGTT-
65 AGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAAGAAGAGAAAGTACCAAAACTGATATTG
* *
5622154 GTCTGAACAGAAGAAACCTAAAGAGGTAACC-GAGGAAAGCATTCAGCAAAAGATGCCCAAACCA
130 GT-TGAAAAGAAGAAACCTAAAGAGGTAACCAGAGGAAAGCATTCAGCAAAAGATGCCAAAACCA
5622218 AAGTTGGTCGAAAAGGAGGCTGAACCTGAGAA
194 AAGTTGGTC---AA--A-GCTGAACCTGAGAA
5622250 GGTGCCAAAACAGATGATGGCTGCAAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
1 GGTGCCAAAACAGATGATGGCTG-AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTG
5622315 AGCAAAAGGTGCCAAAACCAAAGTTGGT
65 AGCAAAAGGTGCCAAAACCAAAGTTGGT
5622343 TGAGAAGAAG
Statistics
Matches: 1515, Mismatches: 264, Indels: 249
0.75 0.13 0.12
Matches are distributed among these distances:
203 1 0.00
204 3 0.00
205 1 0.00
206 2 0.00
207 11 0.01
208 5 0.00
209 2 0.00
210 95 0.06
211 6 0.00
212 5 0.00
213 4 0.00
214 6 0.00
216 2 0.00
217 1 0.00
218 7 0.00
219 84 0.06
220 11 0.01
221 25 0.02
222 306 0.20
223 7 0.00
224 9 0.01
225 272 0.18
226 9 0.01
227 3 0.00
228 103 0.07
229 9 0.01
230 7 0.00
231 73 0.05
232 9 0.01
233 14 0.01
234 92 0.06
235 8 0.01
236 7 0.00
237 106 0.07
238 1 0.00
240 207 0.14
241 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.15
Consensus pattern (219 bp):
GGTGCCAAAACAGATGATGGCTGAAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGA
GCAAAAGGTGCCAAAACCAAAGTTGGTCGAAGCTGAAGAAGAGAAAGTACCAAAACTGATATTGG
TTGAAAAGAAGAAACCTAAAGAGGTAACCAGAGGAAAGCATTCAGCAAAAGATGCCAAAACCAAA
GTTGGTCAAAGCTGAACCTGAGAA
Found at i:5620740 original size:72 final size:71
Alignment explanation
Indices: 5620688--5621196 Score: 363
Period size: 72 Copynumber: 7.1 Consensus size: 71
5620678 GATGGCTGCA
*
5620688 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
5620753 GGTTGAG
66 GG-TGAG
* * * * * *
5620760 AAGAAGGAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
5620825 GGTAGAG
66 GGT-GAG
* * * * *
5620832 AAGAAGAAACTTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAGAA-GT------AGCAAATT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGCAA-AAGGTGCCAAAACCAAAGT
*
5620890 TGGTTGAA
65 TGG-TGAG
* * **
5620898 AAGAAAAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAG-AAGAAGGCACCAAAACCAAAGT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGCAA-AAGGTGCCAAAACCAAAGT
*
5620962 TGATCGAG
65 TGGT-GAG
* * * *** * * * * *
5620970 AAAAAGGAACCTGAAGACACACCCAAGGTGGAGATTGTTGAGGAAAAGGTACCAAAACCAGAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
5621035 GGTTGAG
66 GG-TGAG
** * * * * * *
5621042 AAGAAGGCACCTGAAAAGGTACCCAAGGAGGCTGAAGCTGAAGCTGAAGCTGAGAAGGTACCAAA
1 AAGAAGAAACTTGAAGAGGTACCCAAGGAGG-AG-AG-T---GTTG-AGC--AAAAGGTGCCAAA
* *
5621107 ACTGAAA-TTGGCTGAA
57 AC-CAAAGTTGG-TGAG
* ** * * ***
5621123 AAGAAGAAACATGAAGAGGTACAGATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
5621188 GGT-AG
66 GGTGAG
5621193 AAGA
1 AAGA
5621197 TGAAGCTGAG
Statistics
Matches: 346, Mismatches: 67, Indels: 50
0.75 0.14 0.11
Matches are distributed among these distances:
65 5 0.01
66 51 0.15
67 1 0.00
70 5 0.01
71 6 0.02
72 212 0.61
73 6 0.02
74 4 0.01
75 3 0.01
78 3 0.01
79 3 0.01
81 45 0.13
82 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.30, T:0.14
Consensus pattern (71 bp):
AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
GGTGAG
Found at i:5620953 original size:138 final size:139
Alignment explanation
Indices: 5620688--5621025 Score: 396
Period size: 138 Copynumber: 2.4 Consensus size: 139
5620678 GATGGCTGCA
* * *
5620688 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGCACCCAAGGAGGAGAGTGTTGAGGAAAAGGT-----AACCAAAGTT
* ** *
5620753 GGTTGAGAAGAAGGAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAAC
61 GGTTGAAAAGAAAAAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGCACCAAAAC
*
5620818 CAAAGTTGGTAGAG
126 CAAAGTTGATAGAG
* * *
5620832 AAGAAGAAACTTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAGAA-GT-AGCAAATTTGGTT
1 AAGAAGAAACTTGAAGAGGCACCCAAGGAGGAGAGTGTTGAGGAA-AAGGTAACCAAAGTTGGTT
* *
5620895 GAAAAGAAAAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGA-GAAGAAGGCACCAAAACCAA
65 GAAAAGAAAAAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAA-AAGGCACCAAAACCAA
*
5620959 AGTTGATCGAG
129 AGTTGATAGAG
* * * ** * *
5620970 AAAAAGGAACCTGAAGACACACCCAAGGTGGAGATTGTTGAGGAAAAGGT-ACCAAA
1 AAGAAGAAACTTGAAGAGGCACCCAAGGAGGAGAGTGTTGAGGAAAAGGTAACCAAA
5621026 ACCAGAGTTG
Statistics
Matches: 169, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
137 5 0.03
138 119 0.70
144 43 0.25
145 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.31, T:0.14
Consensus pattern (139 bp):
AAGAAGAAACTTGAAGAGGCACCCAAGGAGGAGAGTGTTGAGGAAAAGGTAACCAAAGTTGGTTG
AAAAGAAAAAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGCACCAAAACCAAAG
TTGATAGAG
Found at i:5621068 original size:210 final size:210
Alignment explanation
Indices: 5620687--5621069 Score: 570
Period size: 210 Copynumber: 1.8 Consensus size: 210
5620677 TGATGGCTGC
* **
5620687 AAAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGT
1 AAAGAAAAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGCACCAAAACCAAAGT
* * * ***
5620752 TGGTTGAGAAGAAGGAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAA
66 TGATCGAGAAAAAGGAACCTAAAGACACACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAA
* *
5620817 CCAAAGTTGGTAGAGAAGAAGAAACTTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAGAAGT
131 CCAAAGTTGGTAGAGAAGAAGAAACCTGAAAAGGCACCCAAGGGGGAGAGTGTTGAGGAAGAAGT
5620882 AGCAAATTTGGTTGA
196 AGCAAATTTGGTTGA
* *
5620897 AAAGAAAAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAG-AAGAAGGCACCAAAACCAAAG
1 AAAGAAAAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAA-AAGGCACCAAAACCAAAG
* *
5620961 TTGATCGAGAAAAAGGAACCTGAAGACACACCCAAGGTGGAGATTGTTGAGGAAAAGGTACCAAA
65 TTGATCGAGAAAAAGGAACCTAAAGACACACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAA
* * ** *
5621026 ACCAGAGTTGGTTGAGAAGAAGGCACCTGAAAAGGTACCCAAGG
130 ACCAAAGTTGGTAGAGAAGAAGAAACCTGAAAAGGCACCCAAGG
5621070 AGGCTGAAGC
Statistics
Matches: 152, Mismatches: 20, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
209 2 0.01
210 150 0.99
ACGTcount: A:0.42, C:0.13, G:0.31, T:0.14
Consensus pattern (210 bp):
AAAGAAAAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGCACCAAAACCAAAGT
TGATCGAGAAAAAGGAACCTAAAGACACACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAA
CCAAAGTTGGTAGAGAAGAAGAAACCTGAAAAGGCACCCAAGGGGGAGAGTGTTGAGGAAGAAGT
AGCAAATTTGGTTGA
Found at i:5621316 original size:111 final size:111
Alignment explanation
Indices: 5621087--5622342 Score: 871
Period size: 111 Copynumber: 10.9 Consensus size: 111
5621077 AGCTGAAGCT
* ** *
5621087 GAAGCTGAGAAGGTACCAAAACTGAAATTGGCTGAAAAGAAGAAACATGAAGAGGT-A-CAGATG
1 GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCA-A-G
*** * * *
5621150 GAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAGAT
64 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAAAG
5621198 GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGA
1 GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGA
*
5621263 CGAAAGTGTTGAGCAAAAGGTGCCAAAA-CAGAAGTTGGTCGAAAAG
66 GGAAAGTGTTGAGCAAAAGGTGCCAAAACCA-AAGTTGGTCGAAAAG
* * * * * * * *
5621309 GAGGCT--G-AAGT-CGC--AGCTGAAGATGACAAGGTACCAAA-ACTGAAATTGGCTGAAAAGA
1 GAAGCTGAGAAAGTAC-CAAAACTGATGTTGGC--TG-A--AAAGA-AGAAA---CCTG--AAGA
* * * * * * *
5621367 AG-AAACATGAAGACGTACAG-GTGGAGGAAAACGTTGAGCAAAAGGTGCCAAAACCAAAGTTGG
54 GGTAACCA--AGGA-GGAAAGTGTTGA-G-CAA----------AAGGTGCCAAAACCAAAGTTGG
* ***
5621430 TAGAAGCT
104 TCGAAAAG
*
5621438 GAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGA
1 GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGA
* * *
5621503 GGAAAGTGTTGAGCAAAAGGCGCCAAAACAAAAGTTGGTTGAAAAG
66 GGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAAAG
* * ** ** *** * *
5621549 GAGGCTGAAGTTGAAGCAGAAGATGAGAAGGTACCAAAACTAGCCGAAAAGAAGAAACCTGAAGA
1 GAAGCTG-A---GAA--AG--TACCA-AA---ACTGATGTTGGCTGAAAAGAAGAAACCTGAAGA
*** * *
5621614 GGT-A-C-AGGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAAGCTGGTC-AATGCTGAAG
54 GGTAACCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAA-----AAG
* *
5621673 CTGAAGCTGAGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
1 --GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
** * *
5621738 GAGGAAAGCATTGAGCAAAAGGTGCCCAAACCAAATTTGGTCGAAAAGGAGG
64 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCG-AAA--A-G
* * * ** * *
5621790 CTGAAGCTGAGAAGGTACCAAAACAGATGATGGCTGAACTGAAGAAACTTGAAGAGATAACCAAG
1 --GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
* * ***
5621855 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCACAGTTGCTCGAAGCT
64 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAAAG
** * * * * * * * *
5621903 GAAGAAGAGAAGGTACCACAATTGATATTGGTTGAAAATAAGAAACCTGAAGAGTTACCCAAGGA
1 GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGA
*
5621968 GGAAAGTGTTGAGCAAAAGTTGCCAAAACCAAAGTTGGTC--AAAG
66 GGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAAAG
* * * * *
5622012 CTGAAGCTGAGAAGGTGCCAAAACTGATGTTGGCAGAAAAGAAGAAACCTAAAGAGGTACCCAAG
1 --GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
****
5622077 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGATGCT
64 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAAAG
* * *
5622125 GAAGCTGAGAAAGTACCAAAACTGATGTTGTCTGAACAGAAGAAACCTAAAGAGGTAACC---GA
1 GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGA
** * * *
5622187 GGAAAGCATTCAGCAAAAGATGCCCAAACCAAAGTTGGTCGAAAAG
66 GGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAAAG
* * * * * * *
5622233 GAGGCTGAACCTGAGAAGGTGCCAAAACAGATGATGGCTGCAAAGAAGAAACTTGAAGAGGTACC
1 GAAGCTG-A---GA-AA-GTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAAC
5622298 CAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGT
60 CAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGT
5622343 TGAGAAGAAG
Statistics
Matches: 896, Mismatches: 169, Indels: 154
0.74 0.14 0.13
Matches are distributed among these distances:
106 9 0.01
107 1 0.00
108 51 0.06
109 4 0.00
110 3 0.00
111 368 0.41
112 5 0.01
113 4 0.00
114 72 0.08
115 8 0.01
116 9 0.01
117 182 0.20
118 6 0.01
119 8 0.01
120 40 0.04
121 3 0.00
122 9 0.01
123 36 0.04
124 8 0.01
125 5 0.01
126 9 0.01
129 35 0.04
130 3 0.00
131 2 0.00
132 6 0.01
133 1 0.00
134 9 0.01
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (111 bp):
GAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGA
GGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGAAAAG
Found at i:5621489 original size:240 final size:235
Alignment explanation
Indices: 5621066--5622342 Score: 1264
Period size: 240 Copynumber: 5.5 Consensus size: 235
5621056 AAAGGTACCC
*
5621066 AAGGAGGCTGAAGCTGAAGCTGAAGCTGAGAAGGTACCAAAACTGAAATTGGCTGAAAAGAAGAA
1 AAGGAGGCTGAAGC-GAAGCTGAAGATGAGAAGGTACCAAAACTGAAA-TGGCTGAAAAGAAGAA
5621131 ACATGAAGAGGTACAGATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAG
64 ACATGAAGAGGTAC--ATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAG
* *
5621196 ATGAAGCTGAGAAAGTACCAAAACTGATGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
127 CTGAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
*
5621261 GACGAAAGTGTTGAGCAAAAGGTGCCAAAACAGAAGTTGGTCGAA
192 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAACA-AAGTTGGTCGAA
* *
5621306 AAGGAGGCTGAAGTCGCAGCTGAAGATGACAAGGTACCAAAACTGAAATTGGCTGAAAAGAAGAA
1 AAGGAGGCTGAAG-CGAAGCTGAAGATGAGAAGGTACCAAAACTGAAA-TGGCTGAAAAGAAGAA
* *
5621371 ACATGAAGACGTACAGGTGGAGGAAAACGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAG
64 ACATGAAGAGGTACA--TGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAG
5621436 CTGAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
127 CTGAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAG
* *
5621501 GAGGAAAGTGTTGAGCAAAAGGCGCCAAAACAAAAGTTGGTTGAA
192 GAGGAAAGTGTTGAGCAAAAGGTGCCAAAAC-AAAGTTGGTCGAA
* * *
5621546 AAGGAGGCTGAAGTTGAAGCAGAAGATGAGAAGGTACCAAAACT---A--GCCGAAAAGAAGAAA
1 AAGGAGGCTGAAG-CGAAGCTGAAGATGAGAAGGTACCAAAACTGAAATGGCTGAAAAGAAGAAA
* * * *
5621606 CCTGAAGAGGTACA-GGAGGAAACCATTGAGCAAAAGGGGCCAAAACCAAAGCTGGTCAATGCTG
65 CATGAAGAGGTACATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGT--A----G
*
5621670 AAGCTGAAGCTGAGAAGGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACC
124 AAGCTGAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACC
** * *
5621735 AAGGAGGAAAGCATTGAGCAAAAGGTGCCCAAACCAAATTTGGTCGAA
189 AAGGAGGAAAGTGTTGAGCAAAAGGTG-CCAAAACAAAGTTGGTCGAA
* * **
5621783 AAGGAGGCT-----GAAGC------TGAGAAGGTACCAAAACAGATGATGGCTGAACTGAAGAAA
1 AAGGAGGCTGAAGCGAAGCTGAAGATGAGAAGGTACCAAAACTGA-AATGGCTGAAAAGAAGAAA
* * * *** * * *
5621837 CTTGAAGAGATAACCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCACAGTTGCTCGAAGC
65 CATGAAGAGGT-A-CATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAGC
** * * * ** * * * *
5621902 TGAAGAAGAGAAGGTACCACAATTGATATTGGTTGAAAATAAGAAACCTGAAGAGTTACCCAAGG
128 TGAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGG
*
5621967 AGGAAAGTGTTGAGCAAAAGTTGCCAAAACCAAAGTTGGTC---
193 AGGAAAGTGTTGAGCAAAAGGTGCCAAAA-CAAAGTTGGTCGAA
* ** *
5622008 AA--A-GCT-----GAAGC------TGAGAAGGTGCCAAAACTGATGTTGGCAGAAAAGAAGAAA
1 AAGGAGGCTGAAGCGAAGCTGAAGATGAGAAGGTACCAAAACTGA-AATGGCTGAAAAGAAGAAA
* * * *** * *
5622059 CCTAAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGTCGATGC
65 CATGAAGAGGTA--CATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAGC
* * * *
5622124 TGAAGCTGAGAAAGTACCAAAACTGATGTTGTCTGAACAGAAGAAACCTAAAGAGGTAACC---G
128 TGAAGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGG
** * * *
5622186 AGGAAAGCATTCAGCAAAAGATGCCCAAACCAAAGTTGGTCGAA
193 AGGAAAGTGTTGAGCAAAAGGTG-CCAAAACAAAGTTGGTCGAA
* * * *
5622230 AAGGAGGCTGAA-C----C------TGAGAAGGTGCCAAAACAGATGATGGCTGCAAAGAAGAAA
1 AAGGAGGCTGAAGCGAAGCTGAAGATGAGAAGGTACCAAAACTGA-AATGGCTGAAAAGAAGAAA
* * ***
5622284 CTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTTGGT
65 CATGAAGAGGTA--CATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGT
5622343 TGAGAAGAAG
Statistics
Matches: 911, Mismatches: 93, Indels: 81
0.84 0.09 0.07
Matches are distributed among these distances:
219 31 0.03
220 5 0.01
221 1 0.00
222 149 0.16
223 1 0.00
224 1 0.00
225 116 0.13
227 5 0.01
228 90 0.10
229 1 0.00
231 64 0.07
232 1 0.00
233 3 0.00
234 61 0.07
237 110 0.12
238 7 0.01
240 263 0.29
241 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.15
Consensus pattern (235 bp):
AAGGAGGCTGAAGCGAAGCTGAAGATGAGAAGGTACCAAAACTGAAATGGCTGAAAAGAAGAAAC
ATGAAGAGGTACATGGAGGAAAACATTGAGCAAAAGGTGCCAAAACCAAAGTTGGTAGAAGCTGA
AGCTGAGAAAGTACCAAAACTGACGTTGGCTGAAAAGAAGAAACCTGAAGAGGTAACCAAGGAGG
AAAGTGTTGAGCAAAAGGTGCCAAAACAAAGTTGGTCGAA
Found at i:5622327 original size:72 final size:72
Alignment explanation
Indices: 5622275--5623733 Score: 1133
Period size: 72 Copynumber: 20.4 Consensus size: 72
5622265 GATGGCTGCA
* * *
5622275 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
5622340 GGTTGAG
66 GGTTGAG
* * * *
5622347 AAGAAGGAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
*
5622412 GGTAGAG
66 GGTTGAG
* * * *
5622419 AAGAAGAAACTTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAA--AG-C---AGCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
*
5622478 GGTTGAA
66 GGTTGAG
* **
5622485 AAGAAAAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGA-GAAGAAGGCACCAAAACCAAAGT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAA-AAGGTGCCAAAACCAAAGT
* *
5622549 TGATCGAG
65 TGGTTGAG
* * * *** * * *
5622557 AAAAAGGAACCTGAAGATACACCCAAGGTGGAGATTGTTGAGGAAAAGGTACCAAAGCCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
5622622 GGTTGAG
66 GGTTGAG
* * * * * * * * *
5622629 AAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGGTGAGGCGAAA-GTACCAACACTAAAGT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGG-AAAAGGTGCCAAAACCAAAGT
5622693 TGGTTGAG
65 TGGTTGAG
* * * * **
5622701 AAGAAGAAACCTGAAGAGGCATCCCAAGG-GGAGAATGTTGAGGAAAAAGTAG-CAAAACTGAAG
1 AAGAAGAAACTTGAAGAGGTA-CCCAAGGTGGAGAGTGTTGAGGAAAAGGT-GCCAAAACCAAAG
5622764 TTGGTTGAG
64 TTGGTTGAG
* * * *
5622773 AAGAAAAAACCTGAAGAGGTACACAAGGTGGAGAGTGTTGA-GAAGAAGGTGCCAAAACAAAAGT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAA-AAGGTGCCAAAACCAAAGT
* * *
5622837 CGATCGAG
65 TGGTTGAG
* * * * * * * * * *
5622845 AAGAAGGAACCTAAAGACGCATCAAAGGGGGAGAATGTTGAGGAAAAGGTACCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
*
5622910 GGTCGAG
66 GGTTGAG
* * * * * ** *
5622917 AAGAAGGAACTTGGAGTGATACCCAAGGTGGAGAGTGGTGA-GAAGAAGGTTTCAAAACCGAAGT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAA-AAGGTGCCAAAACCAAAGT
* *
5622981 TGATCGAG
65 TGGTTGAG
* * * * * * **
5622989 AAGAAGGAAAC-TGAGGATGCATCCAAGGGGGTGAGTGTTGAGGAAAAGGTATCAAAACCAAAGT
1 AAGAA-GAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGT
5623053 TGGTTGAG
65 TGGTTGAG
* * * * * * * *
5623061 AAGAAGGAACCTAAAGAGGTACCCAAGATGGAGATTATAGAGGAAAAGGTACCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
5623126 GGTT--G
66 GGTTGAG
* * * * * * * *
5623131 -AGAAGAAACCTAAAGAGGTACCCAAGGGGGAGACTGTTGAGAAAAAAGTACCAAAATCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
5623195 GGTTGAG
66 GGTTGAG
* * * * * * * ** * *
5623202 AAAAAGGAACCTGAAGAGATACCCAAGCTGGAGGGTGTTGA-AAAGAAATTACCGAAACCAAAGT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAA-AAGGTGCCAAAACCAAAGT
*
5623266 TGATTGAG
65 TGGTTGAG
* * * * * ** * *
5623274 AATAAGGAACCTAAAGAGTTACCCAAGGTGGAGACCGATGAGGAAAAGGTACCAAAACCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
5623339 GGTTGAG
66 GGTTGAG
* * * * * * * ** *
5623346 AAGCAGAAACCTGATGAGGCACCCAAGGAGGAGAGGGTTGAGGAAAAAGCACCAAAATCAAAGTT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
5623411 GGTTGAG
66 GGTTGAG
* * * * * * ****
5623418 AAGAAGGAACTTGGAGAGATACCTAAGGTGGAGAGTATT-AAGAAGAAGGTATGGAAACCAAAGT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAA-AAGGTGCCAAAACCAAAGT
* *
5623482 TGATCGAG
65 TGGTTGAG
* * *** ** * * * * * *
5623490 AAGAAGGAACCTGAAGACACACCCAAGAAGGGGAGTGTTGAGGAAAATGTACCAAAATCAAGGCT
1 AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
5623555 GGTTGA-
66 GGTTGAG
* * * * * * *
5623561 AACTAAGGAACCTGAAGAGGAACCCAAAGG-GGAGAGTATTGAGGAAAAGGTACCAAAACTAAAG
1 AA-GAAGAAACTTGAAGAGGTACCC-AAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAG
5623625 TTGGTTGAG
64 TTGGTTGAG
* * * * * * * * *
5623634 AAGAAGGAACCTGGAA-AGGCAACCAAAGAGGAAAGTCTTGAGGAAAAGGTACCAAAACCAAAGT
1 AAGAA-GAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGT
*
5623698 TGGTTGAA
65 TGGTTGAG
* * *
5623706 AATAAGGAACTTGAAGAGGTACCTAAGG
1 AAGAAGAAACTTGAAGAGGTACCCAAGG
5623734 AGAAGACTGT
Statistics
Matches: 1108, Mismatches: 246, Indels: 66
0.78 0.17 0.05
Matches are distributed among these distances:
65 3 0.00
66 53 0.05
69 61 0.06
70 1 0.00
71 40 0.04
72 910 0.82
73 40 0.04
ACGTcount: A:0.42, C:0.13, G:0.31, T:0.15
Consensus pattern (72 bp):
AAGAAGAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTGCCAAAACCAAAGTT
GGTTGAG
Found at i:5622693 original size:144 final size:144
Alignment explanation
Indices: 5622275--5623733 Score: 1386
Period size: 144 Copynumber: 10.2 Consensus size: 144
5622265 GATGGCTGCA
* * * * * * *
5622275 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
*
5622340 GGTTGAGAAGAAGGAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGA-AAAGGTACCAAAA
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAA-GTACCAAAA
*
5622404 CCAAAGTTGGTAGAG
130 CCAAAGTTGGTTGAG
* * * *
5622419 AAGAAGAAACTTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAA---AGC---AGCAAAGTT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
* ** * * * *
5622478 GGTTGAAAAGAAAAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGAAGAAGGCACCAAAAC
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAAGTACCAAAAC
* *
5622543 CAAAGTTGATCGAG
131 CAAAGTTGGTTGAG
* ** * * *
5622557 AAAAAGGAACCTGAAGATACACCCAAGGTGGAGATTGTTGAGGAAAAGGTACCAAAGCCAAAGTT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
* * * * *
5622622 GGTTGAGAAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGGTGAGGCGAAAGTACCAACAC
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAAGTACCAAAAC
*
5622687 TAAAGTTGGTTGAG
131 CAAAGTTGGTTGAG
* * * * **
5622701 AAGAAGAAACCTGAAGAGGCATCCCAA-GGGGAGAATGTTGAGGAAAAAGTAGCAAAACTGAAGT
1 AAGAAGGAACCTGAAGAGGCA-CCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGT
** * * * *
5622765 TGGTTGAGAAGAAAAAACCTGAAGAGGTACACAAGGTGGAGAGTGTTGAGAAGAAGGTGCCAAAA
65 TGGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAAGTACCAAAA
* * * *
5622830 CAAAAGTCGATCGAG
130 CCAAAGTTGGTTGAG
* * * * *
5622845 AAGAAGGAACCTAAAGACGCATCAAAGGGGGAGAATGTTGAGGAAAAGGTACCAAAACCAAAGTT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
* * * * * * * * **
5622910 GGTCGAGAAGAAGGAACTTGGAGTGATACCCAAGGTGGAGAGTGGTGAGAAGAAGGTTTCAAAAC
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAAGTACCAAAAC
* * *
5622975 CGAAGTTGATCGAG
131 CAAAGTTGGTTGAG
* * * * * *
5622989 AAGAAGGAAACTGAGGATGCATCCAAGGGGGTGAGTGTTGAGGAAAAGGTATCAAAACCAAAGTT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
* * * * *
5623054 GGTTGAGAAGAAGGAACCTAAAGAGGTACCCAAGATGGAGATTATAGAGGA-AAAGGTACCAAAA
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAA-GTACCAAAA
5623118 CCAAAGTTGGTTGAG
130 CCAAAGTTGGTTGAG
* * * * * *
5623133 AAG-A--AACCTAAAGAGGTACCCAAGGGGGAGACTGTTGAGAAAAAAGTACCAAAATCAAAGTT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
* * * * ** * *
5623195 GGTTGAGAAAAAGGAACCTGAAGAGATACCCAAGCTGGAGGGTGTTGAAAAGAAATTACCGAAAC
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAAGTACCAAAAC
*
5623260 CAAAGTTGATTGAG
131 CAAAGTTGGTTGAG
* * ** * ** *
5623274 AATAAGGAACCTAAAGAGTTACCCAAGGTGGAGACCGATGAGGAAAAGGTACCAAAACCAAAGTT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
* * * * * * * * *
5623339 GGTTGAGAAGCAGAAACCTGATGAGGCACCCAAGGAGGAGAGGGTTGAGGAAAAAGCACCAAAAT
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAAGTACCAAAAC
5623404 CAAAGTTGGTTGAG
131 CAAAGTTGGTTGAG
* * ** * * * * ***
5623418 AAGAAGGAACTTGGAGAGATACCTAAGGTGGAGAGTATT-AAGAAGAAGGTATGGAAACCAAAGT
1 AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAA-AAGGTACCAAAACCAAAGT
* * *** ** *
5623482 TGATCGAGAAGAAGGAACCTGAAGACACACCCAAGAAGGGGAGTGTTGAGGA-AAATGTACCAAA
65 TGGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAA-GTACCAAA
* * *
5623546 ATCAAGGCTGGTTGA-
129 ACCAAAGTTGGTTGAG
* * * * *
5623561 AACTAAGGAACCTGAAGAGGAACCCAAAGGGGAGAGTATTGAGGAAAAGGTACCAAAACTAAAGT
1 AA-GAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGT
* * * * * *
5623626 TGGTTGAGAAGAAGGAACCTGGAA-AGGCAACCAAAGAGGAAAGTCTTGAGGA-AAAGGTACCAA
65 TGGTTGAGAAGAAGGAACCT-GAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAA-GTACCAA
*
5623689 AACCAAAGTTGGTTGAA
128 AACCAAAGTTGGTTGAG
* * * *
5623706 AATAAGGAACTTGAAGAGGTACCTAAGG
1 AAGAAGGAACCTGAAGAGGCACCCAAGG
5623734 AGAAGACTGT
Statistics
Matches: 1069, Mismatches: 226, Indels: 40
0.80 0.17 0.03
Matches are distributed among these distances:
138 114 0.11
139 2 0.00
141 113 0.11
142 4 0.00
143 15 0.01
144 807 0.75
145 14 0.01
ACGTcount: A:0.42, C:0.13, G:0.31, T:0.15
Consensus pattern (144 bp):
AAGAAGGAACCTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAAGGTACCAAAACCAAAGTT
GGTTGAGAAGAAGGAACCTGAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAGAAAGTACCAAAAC
CAAAGTTGGTTGAG
Found at i:5622814 original size:216 final size:216
Alignment explanation
Indices: 5622275--5623752 Score: 1322
Period size: 216 Copynumber: 6.9 Consensus size: 216
5622265 GATGGCTGCA
* * * * *
5622275 AAGAAGAAACTTGAAGAGGTACCCAAGGAGGAAAGTGTTGAGCAAAAGGTGCCAAAACCAAAGTT
1 AAGAAGAAACCTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGGAAAAGGTACCAAAACTAAAGTT
* *
5622340 GGTTGAGAAGAAGGAACCTAAAGAGGTACCCAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAAC
66 GGTTGAGAAGAAGGAACCTGAAGAGGTACACAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAAC
* * * * * * *
5622405 CAAAGTTGGTAGAGAAGAAGAAACTTGAAGAGGCACCCAAGGGGGAGAGTGTTGAGGAAAA---A
131 CAAAGTTGGTTGAGAAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGTTGAGGAAAAGGTA
* * *
5622467 GC---AGCAAAGTTGGTTGAA
196 CCAAAACCAAAGTTGGTTGAG
* * * * *
5622485 AAGAAAAAACTTGAAGAGGTACCCAAGGTGGAGAGTGTTGA-GAAGAAGGCACCAAAACCAAAGT
1 AAGAAGAAACCTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGGAA-AAGGTACCAAAACTAAAGT
* * * *
5622549 TGATCGAGAAAAAGGAACCTGAAGA--TACACCCAAGGTGGAGATTGTTGAGGAAAAGGTACCAA
65 TGGTTGAGAAGAAGGAACCTGAAGAGGTACA--CAAGGTGGAGAGTGTTGAGGAAAAGGTACCAA
* * *
5622612 AGCCAAAGTTGGTTGAGAAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGGTGAGGCGAAA
128 AACCAAAGTTGGTTGAGAAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGTTGAGG-AAAA
* *
5622677 -GTACCAACACTAAAGTTGGTTGAG
192 GGTACCAAAACCAAAGTTGGTTGAG
* * * * *
5622701 AAGAAGAAACCTGAAGAGGCATCCCAAGG-GGAGAATGTTGAGGAAAAAGTAGCAAAACTGAAGT
1 AAGAAGAAACCTGAAGAGGTA-CCCAAGGAGGAGAGTGTTGAGGAAAAGGTACCAAAACTAAAGT
** *
5622765 TGGTTGAGAAGAAAAAACCTGAAGAGGTACACAAGGTGGAGAGTGTTGA-GAAGAAGGTGCCAAA
65 TGGTTGAGAAGAAGGAACCTGAAGAGGTACACAAGGTGGAGAGTGTTGAGGAA-AAGGTACCAAA
* * * * * * * * * *
5622829 ACAAAAGTCGATCGAGAAGAAGGAACCT-AAAGACGCATCAAAGGGGGAGAATGTTGAGGAAAAG
129 ACCAAAGTTGGTTGAGAAGAAGGAACCTGAAA-AGGTACCCAAGGTGGAGACTGTTGAGGAAAAG
*
5622893 GTACCAAAACCAAAGTTGGTCGAG
193 GTACCAAAACCAAAGTTGGTTGAG
* * * * * * * ** **
5622917 AAGAAGGAACTTGGAGTGATACCCAAGGTGGAGAGTGGTGA-GAAGAAGGTTTCAAAACCGAAGT
1 AAGAAGAAACCTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGGAA-AAGGTACCAAAACTAAAGT
* * * * * * * * *
5622981 TGATCGAGAAGAAGGAAACTGAGGATGCATC-CAAGGGGGTGAGTGTTGAGGAAAAGGTATCAAA
65 TGGTTGAGAAGAAGGAACCTGAAGAGGTA-CACAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAA
* * * *
5623045 ACCAAAGTTGGTTGAGAAGAAGGAACCT-AAAGAGGTACCCAAGATGGAGATTATAGAGGAAAAG
129 ACCAAAGTTGGTTGAGAAGAAGGAACCTGAAA-AGGTACCCAAGGTGGAGACTGTTGAGGAAAAG
5623109 GTACCAAAACCAAAGTTGGTT--G
193 GTACCAAAACCAAAGTTGGTTGAG
* * * * *
5623131 -AGAAGAAACCTAAAGAGGTACCCAAGGGGGAGACTGTTGAGAAAAAAGTACCAAAA-TCAAAGT
1 AAGAAGAAACCTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGGAAAAGGTACCAAAACT-AAAGT
* * * * * * ** *
5623194 TGGTTGAGAAAAAGGAACCTGAAGAGATACCCAAGCTGGAGGGTGTTGA-AAAGAAATTACCGAA
65 TGGTTGAGAAGAAGGAACCTGAAGAGGTACACAAGGTGGAGAGTGTTGAGGAA-AAGGTACCAAA
* * * * *
5623258 ACCAAAGTTGATTGAGAATAAGGAACCT-AAAGAGTTACCCAAGGTGGAGACCGATGAGGAAAAG
129 ACCAAAGTTGGTTGAGAAGAAGGAACCTGAAA-AGGTACCCAAGGTGGAGACTGTTGAGGAAAAG
5623322 GTACCAAAACCAAAGTTGGTTGAG
193 GTACCAAAACCAAAGTTGGTTGAG
* * * * * *
5623346 AAGCAGAAACCTGATGAGGCACCCAAGGAGGAGAGGGTTGAGGAAAAAGCACCAAAA-TCAAAGT
1 AAGAAGAAACCTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGGAAAAGGTACCAAAACT-AAAGT
* * * * * ***
5623410 TGGTTGAGAAGAAGGAACTTGGAGAGATAC-CTAAGGTGGAGAGTATT-AAGAAGAAGGTATGGA
65 TGGTTGAGAAGAAGGAACCTGAAGAGGTACAC-AAGGTGGAGAGTGTTGAGGAA-AAGGTACCAA
* * * *** ** * * *
5623473 AACCAAAGTTGATCGAGAAGAAGGAACCTGAAGACACACCCAAGAAGGGGAGTGTTGAGGAAAAT
128 AACCAAAGTTGGTTGAGAAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGTTGAGGAAAAG
* * *
5623538 GTACCAAAATCAAGGCTGGTTGA-
193 GTACCAAAACCAAAGTTGGTTGAG
* * * *
5623561 AACTAAGGAACCTGAAGAGGAACCCAAAGG-GGAGAGTATTGAGGAAAAGGTACCAAAACTAAAG
1 AA-GAAGAAACCTGAAGAGGTACCC-AAGGAGGAGAGTGTTGAGGAAAAGGTACCAAAACTAAAG
* * * * *
5623625 TTGGTTGAGAAGAAGGAACCTGGAA-AGGCA-ACCAAAGAGGAAAGTCTTGAGGAAAAGGTACCA
64 TTGGTTGAGAAGAAGGAACCT-GAAGAGGTACA-CAAGGTGGAGAGTGTTGAGGAAAAGGTACCA
* * * * * * * *
5623688 AAACCAAAGTTGGTTGAAAATAAGGAACTTGAAGAGGTACCTAAGGAGAAGACTGTCGAGAGAAA
127 AAACCAAAGTTGGTTGAGAAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGTTGAG-GAAA
5623753 GATTCAAAGT
Statistics
Matches: 1022, Mismatches: 208, Indels: 69
0.79 0.16 0.05
Matches are distributed among these distances:
208 3 0.00
209 2 0.00
210 158 0.15
211 3 0.00
212 3 0.00
213 164 0.16
214 3 0.00
215 24 0.02
216 626 0.61
217 32 0.03
218 4 0.00
ACGTcount: A:0.42, C:0.13, G:0.31, T:0.15
Consensus pattern (216 bp):
AAGAAGAAACCTGAAGAGGTACCCAAGGAGGAGAGTGTTGAGGAAAAGGTACCAAAACTAAAGTT
GGTTGAGAAGAAGGAACCTGAAGAGGTACACAAGGTGGAGAGTGTTGAGGAAAAGGTACCAAAAC
CAAAGTTGGTTGAGAAGAAGGAACCTGAAAAGGTACCCAAGGTGGAGACTGTTGAGGAAAAGGTA
CCAAAACCAAAGTTGGTTGAG
Found at i:5632013 original size:2 final size:2
Alignment explanation
Indices: 5632008--5632060 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
5631998 TGTGTGGTGA
5632008 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5632050 AG AG AG AG AG A
1 AG AG AG AG AG A
5632061 ATGAAAGGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5639928 original size:7 final size:7
Alignment explanation
Indices: 5639897--5639943 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
5639887 AAATATAAAA
5639897 ATATACTT
1 ATATA-TT
*
5639905 ATATAAT
1 ATATATT
5639912 AT-TAATT
1 ATAT-ATT
5639919 ATATATT
1 ATATATT
5639926 ATATATT
1 ATATATT
5639933 ATATTATT
1 ATA-TATT
5639941 ATA
1 ATA
5639944 GTGAATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 1 0.03
7 20 0.59
8 13 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:5640127 original size:27 final size:27
Alignment explanation
Indices: 5640072--5640127 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
5640062 ATATATTTAT
* *
5640072 AATTTTTATTATTTATTATTTTGAATA
1 AATTTTTATTATTAATTATTATGAATA
*
5640099 AATTTTTTTTATTAATTA-TATGAAGTA
1 AATTTTTATTATTAATTATTATGAA-TA
5640126 AA
1 AA
5640128 CTTATATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
AATTTTTATTATTAATTATTATGAATA
Found at i:5643964 original size:20 final size:21
Alignment explanation
Indices: 5643898--5643966 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
5643888 TCACTTCGTT
5643898 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
5643919 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
5643940 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
5643961 -CTTTTT
1 TCTTTTT
5643967 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:5646359 original size:18 final size:18
Alignment explanation
Indices: 5646326--5646419 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
5646316 AAGGTTTTCT
5646326 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
5646341 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
5646359 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
5646377 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
5646395 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
5646413 TATTGAT
1 TATTGAT
5646420 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:5648469 original size:17 final size:17
Alignment explanation
Indices: 5648422--5648472 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
5648412 CAAAAATGTT
5648422 AAAA-ATATTTTTTTAA
1 AAAATATATTTTTTTAA
* * * **
5648438 ATAATTTGTAATTTTAA
1 AAAATATATTTTTTTAA
5648455 AAAATATATTTTTTTAA
1 AAAATATATTTTTTTAA
5648472 A
1 A
5648473 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 10, Indels: 1
0.69 0.29 0.03
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AAAATATATTTTTTTAA
Found at i:5653796 original size:31 final size:32
Alignment explanation
Indices: 5653756--5653825 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
5653746 ATGGGCATTA
5653756 AATTATTTAAAA-ATTTTCATTTAAGTCACTG
1 AATTATTTAAAATATTTTCATTTAAGTCACTG
* * *
5653787 AATTGTTTAAAATTTTTTTATTTAAGTCACTG
1 AATTATTTAAAATATTTTCATTTAAGTCACTG
*
5653819 GATTATT
1 AATTATT
5653826 AAGTTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 11 0.33
32 22 0.67
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (32 bp):
AATTATTTAAAATATTTTCATTTAAGTCACTG
Found at i:5654523 original size:18 final size:18
Alignment explanation
Indices: 5654500--5654540 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5654490 TAAAATTTTA
* *
5654500 TTTTTATAATTTATATGT
1 TTTTTAGAATTTATATAT
*
5654518 TTTTTAGATTTTATATAT
1 TTTTTAGAATTTATATAT
5654536 TTTTT
1 TTTTT
5654541 CTGAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTTAGAATTTATATAT
Found at i:5657200 original size:45 final size:45
Alignment explanation
Indices: 5657057--5657217 Score: 272
Period size: 46 Copynumber: 3.6 Consensus size: 45
5657047 TTTGAATACT
5657057 TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
5657102 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
5657148 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATC-AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
5657193 TCTGATCAGGGAC-AAGTGATAAGTG
1 TCTGATCAGTGACAAAGTGATAAGTG
5657218 ATCATACGTA
Statistics
Matches: 113, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
43 12 0.11
44 5 0.04
45 26 0.23
46 70 0.62
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:5658807 original size:104 final size:104
Alignment explanation
Indices: 5658627--5658997 Score: 654
Period size: 104 Copynumber: 3.6 Consensus size: 104
5658617 TAACCGTTAT
* * * *
5658627 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
5658692 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
5658731 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
5658796 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
5658835 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
5658900 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
5658939 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
5658998 TTTATATACA
Statistics
Matches: 258, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
104 257 1.00
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:5668779 original size:46 final size:46
Alignment explanation
Indices: 5668712--5668845 Score: 229
Period size: 46 Copynumber: 3.0 Consensus size: 46
5668702 NNNNNNNNNN
5668712 TAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
1 TAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
5668758 TAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
1 TAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
* *
5668804 TAGC-CTAGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 TAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
5668846 ATCATACGTA
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
43 12 0.14
44 5 0.06
45 19 0.22
46 50 0.58
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (46 bp):
TAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
Found at i:5670040 original size:24 final size:25
Alignment explanation
Indices: 5669991--5670043 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
5669981 TATAAACTGA
* *
5669991 AATATATAGTTATTTTTGAAATATT
1 AATATATAGTTATTTTTCAAAAATT
5670016 AATATA-AG-TATTTTTCAACAAATT
1 AATATATAGTTATTTTTCAA-AAATT
5670040 AATA
1 AATA
5670044 GTTAAACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 10 0.40
25 6 0.24
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (25 bp):
AATATATAGTTATTTTTCAAAAATT
Found at i:5670799 original size:24 final size:25
Alignment explanation
Indices: 5670772--5670821 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
5670762 AAGATGAAAG
5670772 TTTAAAGAACATAAAA-GAAAAAAA
1 TTTAAAGAACATAAAACGAAAAAAA
** *
5670796 TTTAAATTACTTAAAACGAAAAAAA
1 TTTAAAGAACATAAAACGAAAAAAA
5670821 T
1 T
5670822 ATGGGAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (25 bp):
TTTAAAGAACATAAAACGAAAAAAA
Found at i:5674419 original size:31 final size:31
Alignment explanation
Indices: 5674377--5674450 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
5674367 AAAAAAGATG
* **
5674377 AAGTACCAAATTAAGAAAATGTGTCAAGTTC
1 AAGTACTAAATTAAGAAAAAATGTCAAGTTC
* *
5674408 ATGTACTAAATTAAGAAAAAATGTCGAGTTC
1 AAGTACTAAATTAAGAAAAAATGTCAAGTTC
5674439 AAGTACTAAATT
1 AAGTACTAAATT
5674451 GGACATAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (31 bp):
AAGTACTAAATTAAGAAAAAATGTCAAGTTC
Found at i:5677127 original size:22 final size:23
Alignment explanation
Indices: 5677102--5677148 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
5677092 ATATTTTTAA
*
5677102 AAATAAATTTATTTAATT-TTTG
1 AAATAAATTTAATTAATTCTTTG
*
5677124 AAATAAATTTAATTATTTCTTTG
1 AAATAAATTTAATTAATTCTTTG
5677147 AA
1 AA
5677149 GCTTAGTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
AAATAAATTTAATTAATTCTTTG
Found at i:5694582 original size:16 final size:16
Alignment explanation
Indices: 5694545--5694587 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
5694535 TAATTTATTA
5694545 AATAAAA-ATTATCTT
1 AATAAAATATTATCTT
5694560 AATTAAAATATTA-CTT
1 AA-TAAAATATTATCTT
5694576 CAATAAAATATT
1 -AATAAAATATT
5694588 TAAATATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.08
16 17 0.68
17 6 0.24
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAAAATATTATCTT
Found at i:5694926 original size:25 final size:25
Alignment explanation
Indices: 5694879--5694926 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5694869 TGTTGATTTG
* *
5694879 ATTCTCACTTTCTTTTTTGAACATA
1 ATTCTCACTTTCTTTATTCAACATA
*
5694904 ATTCTCATTTTCTTTATTCAACA
1 ATTCTCACTTTCTTTATTCAACA
5694927 AAAATTCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.21, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTCTCACTTTCTTTATTCAACATA
Found at i:5697317 original size:14 final size:15
Alignment explanation
Indices: 5697300--5697328 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5697290 TGTATATATG
5697300 TATATATAT-TTTTA
1 TATATATATATTTTA
5697314 TATATATATATTTTA
1 TATATATATATTTTA
5697329 CAACTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATATATATTTTA
Found at i:5698072 original size:14 final size:15
Alignment explanation
Indices: 5698053--5698081 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5698043 TTTTCAACGG
5698053 TATATATAT-TTTTA
1 TATATATATATTTTA
5698067 TATATATATATTTTA
1 TATATATATATTTTA
5698082 CAACTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATATATATTTTA
Found at i:5698080 original size:34 final size:34
Alignment explanation
Indices: 5698042--5698109 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
5698032 TTTCCTGAAA
* * *
5698042 ATTTT-CAACGGTATATATATTTTTATATATATAT
1 ATTTTACAAC-GTATATACATATCTATATATATAT
*
5698076 ATTTTACAACTTATATACATATCTATATATATAT
1 ATTTTACAACGTATATACATATCTATATATATAT
5698110 TTTCATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (34 bp):
ATTTTACAACGTATATACATATCTATATATATAT
Found at i:5701908 original size:13 final size:12
Alignment explanation
Indices: 5701890--5701930 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
5701880 GTTTAGACTT
*
5701890 AAAAAAATTCAA
1 AAAAAAAATCAA
5701902 AAAAAAAATCAA
1 AAAAAAAATCAA
5701914 TAAAAAAAATCAA
1 -AAAAAAAATCAA
5701927 AAAA
1 AAAA
5701931 TCAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAATCAA
Found at i:5701930 original size:21 final size:21
Alignment explanation
Indices: 5701904--5701943 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5701894 AAATTCAAAA
*
5701904 AAAAAATCAATAAAAAAAATC
1 AAAAAATCAAAAAAAAAAATC
5701925 AAAAAATCAAAAAAAAAAA
1 AAAAAATCAAAAAAAAAAA
5701944 GAAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (21 bp):
AAAAAATCAAAAAAAAAAATC
Found at i:5701943 original size:13 final size:13
Alignment explanation
Indices: 5701890--5701930 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
5701880 GTTTAGACTT
*
5701890 AAAAAAATTC-AA
1 AAAAAAAATCAAA
*
5701902 AAAAAAAATCAAT
1 AAAAAAAATCAAA
5701915 AAAAAAAATCAAA
1 AAAAAAAATCAAA
5701928 AAA
1 AAA
5701931 TCAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAAATCAAA
Found at i:5701948 original size:10 final size:10
Alignment explanation
Indices: 5701935--5702002 Score: 66
Period size: 10 Copynumber: 6.5 Consensus size: 10
5701925 AAAAAATCAA
5701935 AAAAAAAAAG
1 AAAAAAAAAG
5701945 AAAAAAGAAA-
1 AAAAAA-AAAG
*
5701955 AAGAAAAAAG
1 AAAAAAAAAG
5701965 AAGGAAAAAATAG
1 AA--AAAAAA-AG
**
5701978 GGAAAAAAAG
1 AAAAAAAAAG
5701988 AAAAAAAAAG
1 AAAAAAAAAG
5701998 AAAAA
1 AAAAA
5702003 GGAGAGGTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
9 3 0.06
10 28 0.60
11 9 0.19
12 5 0.11
13 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:5701948 original size:20 final size:20
Alignment explanation
Indices: 5701900--5701966 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
5701890 AAAAAAATTC
5701900 AAAA-AAAAAATCAATAAAAA
1 AAAAGAAAAAATCAA-AAAAA
**
5701920 AAATCAAAAAATCAAAAAAA
1 AAAAGAAAAAATCAAAAAAA
*
5701940 AAAAGAAAAAA-GAAAAAGAA
1 AAAAGAAAAAATCAAAAA-AA
5701960 AAAAGAA
1 AAAAGAA
5701967 GGAAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.12
20 26 0.63
21 10 0.24
ACGTcount: A:0.84, C:0.04, G:0.06, T:0.06
Consensus pattern (20 bp):
AAAAGAAAAAATCAAAAAAA
Found at i:5701956 original size:34 final size:34
Alignment explanation
Indices: 5701891--5701956 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
5701881 TTTAGACTTA
* *
5701891 AAAAAATTCAAAAAAAAAATCAATAAAAAAAATC
1 AAAAAATTCAAAAAAAAAAACAAAAAAAAAAATC
*
5701925 AAAAAA-TCAAAAAAAAAAAGAAAAAAGAAAAA
1 AAAAAATTCAAAAAAAAAAACAAAAAA-AAAAA
5701957 GAAAAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 17 0.61
34 11 0.39
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (34 bp):
AAAAAATTCAAAAAAAAAAACAAAAAAAAAAATC
Found at i:5701964 original size:13 final size:13
Alignment explanation
Indices: 5701933--5701966 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
5701923 TCAAAAAATC
5701933 AAAAAA-AAAAAG
1 AAAAAAGAAAAAG
5701945 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
5701958 AAAAAAGAA
1 AAAAAAGAA
5701967 GGAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:5701993 original size:7 final size:7
Alignment explanation
Indices: 5701933--5701966 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
5701923 TCAAAAAATC
5701933 AAAAA-A
1 AAAAAGA
5701939 AAAAAGA
1 AAAAAGA
5701946 AAAAAG-
1 AAAAAGA
5701952 AAAAAGA
1 AAAAAGA
5701959 AAAAAGA
1 AAAAAGA
5701966 A
1 A
5701967 GGAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:5702856 original size:6 final size:6
Alignment explanation
Indices: 5702840--5702930 Score: 58
Period size: 6 Copynumber: 13.8 Consensus size: 6
5702830 ACTTTGAGTA
* * * *
5702840 AAAAAG AAAAAAG AAAAA- AGAAAAG AAAATG AAAATG AAAATG AAAATG
1 AAAAAG -AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG
5702889 AAAGAATG AAAAAATG AAAAATG AAAAAGG AAAAAGG AAAAA
1 AAA-AA-G -AAAAA-G AAAAA-G AAAAA-G AAAAA-G AAAAA
5702931 TGGAGAGGCT
Statistics
Matches: 76, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
5 1 0.01
6 34 0.45
7 33 0.43
8 5 0.07
9 3 0.04
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.08
Consensus pattern (6 bp):
AAAAAG
Found at i:5702898 original size:8 final size:7
Alignment explanation
Indices: 5702839--5702932 Score: 83
Period size: 7 Copynumber: 14.0 Consensus size: 7
5702829 CACTTTGAGT
*
5702839 AAAAAAG
1 AAAAATG
*
5702846 AAAAAAG
1 AAAAATG
*
5702853 AAAAAAG
1 AAAAATG
5702860 -AAAA-G
1 AAAAATG
5702865 -AAAATG
1 AAAAATG
5702871 -AAAATG
1 AAAAATG
5702877 -AAAATG
1 AAAAATG
5702883 -AAAATG
1 AAAAATG
5702889 AAAGAATG
1 AAA-AATG
5702897 AAAAAATG
1 -AAAAATG
5702905 AAAAATG
1 AAAAATG
*
5702912 AAAAAGG
1 AAAAATG
*
5702919 AAAAAGG
1 AAAAATG
5702926 AAAAATG
1 AAAAATG
5702933 GAGAGGCTAA
Statistics
Matches: 81, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
5 5 0.06
6 23 0.28
7 42 0.52
8 8 0.10
9 3 0.04
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:5704171 original size:45 final size:45
Alignment explanation
Indices: 5704096--5704181 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
5704086 TGAAGACATT
* *
5704096 AGATCTTGCTTTCTTGTACTGACTGCGAAGCAGATCAAAGACAAC
1 AGATCTTGCTTTCCTGTACTGACAGCGAAGCAGATCAAAGACAAC
* * *
5704141 AGATCTTGCTTTCCTG-CCTTGACAGTGAAGCAGATCGAAGA
1 AGATCTTGCTTTCCTGTAC-TGACAGCGAAGCAGATCAAAGA
5704182 TACAAGCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (45 bp):
AGATCTTGCTTTCCTGTACTGACAGCGAAGCAGATCAAAGACAAC
Found at i:5704327 original size:87 final size:86
Alignment explanation
Indices: 5704140--5704398 Score: 283
Period size: 87 Copynumber: 3.0 Consensus size: 86
5704130 TCAAAGACAA
* * * *
5704140 CAGATCTTGCTTTCCTGCCTTGACAGTGAAGCAGATCGAAGATAC-AAGCT-TTGTCTCCATCAG
1 CAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAA-A-ACAAAG-TATTGTCTCCATCGG
* * *
5704203 TTGCGGTGGAACT-AGTTGATGATAG
63 TTGCAGT-GAGCTGA-TTGAAGATAG
* *
5704228 CA-AGTCTGGCCTTCCTGCGTTAACAGTGAAGCAGATTGAAAACAAAGTATTGTCTCCATCGGTT
1 CAGA-TCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGTATTGTCTCCATCGGTT
*
5704292 GTAGTAGAGCTGATTGAAGATAG
65 GCAGT-GAGCTGATTGAAGATAG
** * * *
5704315 CAGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAGCATTGCCCCCATCGGTTG
1 CAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGTATTGTCTCCATCGGTTG
5704380 CAGTGAAGCTGATTGAAGA
66 CAGTG-AGCTGATTGAAGA
5704399 AATGATCTTA
Statistics
Matches: 146, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
86 4 0.03
87 107 0.73
88 35 0.24
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (86 bp):
CAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGTATTGTCTCCATCGGTTG
CAGTGAGCTGATTGAAGATAG
Found at i:5704549 original size:44 final size:43
Alignment explanation
Indices: 5704445--5704960 Score: 215
Period size: 44 Copynumber: 11.7 Consensus size: 43
5704435 TCGCACCAGG
* * * ** * *
5704445 TCTTATTTCCCTGAGATTACGGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AA-AGTA-A
* * *
5704491 TCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAATATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AAAGTAA
* * * *
5704535 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-AAAGTAA
* * * * ** *
5704579 TCTTATC-CCTCTGA-AGTTACAGTAGAGTAGATCGCACCAG--G
1 TCTTATCTCC-CTGAGA-TTACAGTGGAGCAGATTGAAAAAGTAA
* * * *
5704620 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAA-GT-A-A
* * **
5704666 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AAAGTAA
* * * * *
5704710 TCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA--AAGTAA
* * * * * ** *
5704754 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAAAAGTAA
* * * ** ** *
5704795 TCTTATTTCCCTGAGATTACAGTGAAACAGACCGAAGAATTTCAGG
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AAAGT-A-A
* **
5704841 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AAAGTAA
* * * * * *
5704885 TCCTATCTACCTGAGATTACAGTGGAGCGGATTAAAACAAATGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-AAGTAA
* * *
5704929 TCTTATCTCACTGA-AGTTACAGTAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
5704961 CGCATCAGGT
Statistics
Matches: 344, Mismatches: 104, Indels: 46
0.70 0.21 0.09
Matches are distributed among these distances:
41 51 0.15
42 8 0.02
43 6 0.02
44 171 0.50
45 12 0.03
46 95 0.28
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAAGTAA
Found at i:5704610 original size:175 final size:175
Alignment explanation
Indices: 5704402--5704970 Score: 967
Period size: 175 Copynumber: 3.3 Consensus size: 175
5704392 TTGAAGAAAT
* *
5704402 GATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACGG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
* * **
5704467 TGGAACAGACCGAAGAATTGCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAATATAG
66 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
*
5704532 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
131 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAG
*
5704577 GATCTTATCCCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
* * *
5704642 TGGAACAGACTGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAG
66 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
* *
5704707 TAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCAAG
131 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAG
5704752 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
* *
5704817 TGAAACAGACCGAAGAATTTCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
66 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
* *
5704882 TAATCCTATCTACCTGAGATTACAGTGGAGCGGATTAAAACAAAT
131 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAG
* *
5704927 GATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCATCAGGT
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGT
5704971 TTTACCTCCC
Statistics
Matches: 369, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 369 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAG
Found at i:5710431 original size:23 final size:23
Alignment explanation
Indices: 5710379--5710424 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
5710369 GTTGTTGAAT
*
5710379 AATAATGAATTGATTAAATTGTG
1 AATAATGAATTGATTAAATTATG
5710402 AATAATGAATTGATTAAATTATG
1 AATAATGAATTGATTAAATTATG
5710425 TAAAATGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (23 bp):
AATAATGAATTGATTAAATTATG
Found at i:5716606 original size:3 final size:3
Alignment explanation
Indices: 5716598--5716628 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5716588 CCACTTAACC
*
5716598 TCT TCT TCT TGT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
5716629 TCCTTTCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:5718187 original size:21 final size:20
Alignment explanation
Indices: 5718159--5718198 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5718149 TACACATTCG
* *
5718159 AATAATTATAATTATAATAC
1 AATAATTAAAATTAAAATAC
5718179 AATAGATTAAAATTAAAATA
1 AATA-ATTAAAATTAAAATA
5718199 TATACGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
AATAATTAAAATTAAAATAC
Found at i:5718758 original size:13 final size:14
Alignment explanation
Indices: 5718735--5718767 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
5718725 ATGGTTTGAA
5718735 GTTCAGAGTTCAGG
1 GTTCAGAGTTCAGG
5718749 GTTC-GAGTTCAGG
1 GTTCAGAGTTCAGG
*
5718762 ATTCAG
1 GTTCAG
5718768 GGTCATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.30
Consensus pattern (14 bp):
GTTCAGAGTTCAGG
Found at i:5723791 original size:3 final size:3
Alignment explanation
Indices: 5723785--5723809 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5723775 AATTTTTTTC
5723785 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
5723810 ATATTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:5726081 original size:3 final size:3
Alignment explanation
Indices: 5726075--5726108 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5726065 AATCACACCC
5726075 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
5726109 TGGGGATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:5730498 original size:25 final size:26
Alignment explanation
Indices: 5730456--5730509 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
5730446 TATTTTGTTG
* *
5730456 TTTTGGACCAAAACTAAATATAATAA
1 TTTTGGACCAAAACTAAACATAACAA
* *
5730482 TTTTGGA-TAAAATTAAACATAACAA
1 TTTTGGACCAAAACTAAACATAACAA
5730507 TTT
1 TTT
5730510 GATTATTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (26 bp):
TTTTGGACCAAAACTAAACATAACAA
Found at i:5734613 original size:24 final size:24
Alignment explanation
Indices: 5734580--5734630 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
5734570 TAATACAAGT
*
5734580 AAAAATATG-AGAAAGGTGAAGACA
1 AAAAAGATGAAGAAA-GTGAAGACA
*
5734604 AAAAAGATGATAGAAATTGAAGACA
1 AAAAAGATGA-AGAAAGTGAAGACA
5734629 AA
1 AA
5734631 TATTAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 10 0.43
26 5 0.22
ACGTcount: A:0.61, C:0.04, G:0.22, T:0.14
Consensus pattern (24 bp):
AAAAAGATGAAGAAAGTGAAGACA
Found at i:5757879 original size:14 final size:14
Alignment explanation
Indices: 5757847--5757878 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5757837 TTAATTTGGG
5757847 TTTTTTCTTCTTCT
1 TTTTTTCTTCTTCT
5757861 TTTTTTCTTC--CT
1 TTTTTTCTTCTTCT
5757873 TTTTTT
1 TTTTTT
5757879 TAGTTTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
14 10 0.56
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTCTTCT
Found at i:5768908 original size:44 final size:44
Alignment explanation
Indices: 5768858--5768942 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
5768848 GCCAAATAAT
5768858 ATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAACTAAC
1 ATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAACTAAC
* *
5768902 ATTAAAATAACCTATACTAATCAGAGTTTAAGTGGGAAACT
1 ATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAACT
5768943 TAAAATAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (44 bp):
ATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAACTAAC
Found at i:5770875 original size:44 final size:44
Alignment explanation
Indices: 5770825--5770915 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
5770815 GTAGGTCAAA
*
5770825 TAATATTAAAATAACA-TACACTAATTAGAGTTTAAGT-GAGAAAC
1 TAATATTAAAATAA-ATTACACTAATCAGAGTTTAAGTAGA-AAAC
*
5770869 TAATATTAAAATAAATTACACTCATCAGAGTTTAAGTAGAAAAC
1 TAATATTAAAATAAATTACACTAATCAGAGTTTAAGTAGAAAAC
5770913 TAA
1 TAA
5770916 AAACAGAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 40 0.93
45 2 0.05
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAAATTACACTAATCAGAGTTTAAGTAGAAAAC
Found at i:5771832 original size:16 final size:16
Alignment explanation
Indices: 5771794--5771833 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5771784 TTATGTCTCA
*
5771794 AGACTTAAGAGTTTTG
1 AGACTTAAGAGTCTTG
* *
5771810 TGTCTTAAGAGTCTTG
1 AGACTTAAGAGTCTTG
5771826 AGACTTAA
1 AGACTTAA
5771834 TTACTAAAAC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (16 bp):
AGACTTAAGAGTCTTG
Found at i:5775593 original size:11 final size:11
Alignment explanation
Indices: 5775577--5775602 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5775567 TATTATGGGC
5775577 AAATAACATGA
1 AAATAACATGA
5775588 AAATAACATGA
1 AAATAACATGA
5775599 AAAT
1 AAAT
5775603 GCAATCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (11 bp):
AAATAACATGA
Found at i:5777374 original size:31 final size:31
Alignment explanation
Indices: 5777339--5777397 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
5777329 TTTTTTAGTG
5777339 AAATTTAACTC-TCAACCTTTTAAAAAGAGTT
1 AAATTTAAC-CATCAACCTTTTAAAAAGAGTT
* * *
5777370 AAATTTGACCATTAATCTTTTAAAAAGA
1 AAATTTAACCATCAACCTTTTAAAAAGA
5777398 AATAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (31 bp):
AAATTTAACCATCAACCTTTTAAAAAGAGTT
Found at i:5782365 original size:20 final size:20
Alignment explanation
Indices: 5782324--5782367 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
5782314 AAATTTTTAT
5782324 ATTAATCATAAATTAAATTA
1 ATTAATCATAAATTAAATTA
5782344 ATTAAGTCATAAATTAAA-TA
1 ATTAA-TCATAAATTAAATTA
5782364 ATTA
1 ATTA
5782368 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTAATCATAAATTAAATTA
Found at i:5785444 original size:16 final size:16
Alignment explanation
Indices: 5785407--5785448 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
5785397 TTAATCATAT
*
5785407 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
5785423 TT-AAATATATTATAA
1 TTAAAATATATTATAA
5785438 TTAAAATATAT
1 TTAAAATATAT
5785449 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:5785455 original size:14 final size:15
Alignment explanation
Indices: 5785416--5785457 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5785406 TTTAAACATA
*
5785416 ATTATTATTAAATAT
1 ATTATAATTAAATAT
5785431 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
5785445 A-TATAATTTAATA
1 ATTATAATTAAATA
5785458 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:5785575 original size:14 final size:15
Alignment explanation
Indices: 5785526--5785577 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
5785516 GTAAAATATA
5785526 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
5785541 TATTAAATATATTAT
1 AATTAAATATATTAT
5785556 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
5785569 AATTTAATA
1 AATTAAATA
5785578 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:5785623 original size:120 final size:120
Alignment explanation
Indices: 5785410--5785674 Score: 530
Period size: 120 Copynumber: 2.2 Consensus size: 120
5785400 ATCATATTTA
5785410 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
5785475 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5785530 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
5785595 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
5785650 AACATAATTATTATTAAATATATTA
1 AACATAATTATTATTAAATATATTA
5785675 CTTGAAAATT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 145 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:5793947 original size:50 final size:50
Alignment explanation
Indices: 5793888--5794046 Score: 318
Period size: 50 Copynumber: 3.2 Consensus size: 50
5793878 GTATTTGCAA
5793888 TAAAAATATTATTTGCTAGTTAAAATTATCACATTCTCATAAGTAATAGG
1 TAAAAATATTATTTGCTAGTTAAAATTATCACATTCTCATAAGTAATAGG
5793938 TAAAAATATTATTTGCTAGTTAAAATTATCACATTCTCATAAGTAATAGG
1 TAAAAATATTATTTGCTAGTTAAAATTATCACATTCTCATAAGTAATAGG
5793988 TAAAAATATTATTTGCTAGTTAAAATTATCACATTCTCATAAGTAATAGG
1 TAAAAATATTATTTGCTAGTTAAAATTATCACATTCTCATAAGTAATAGG
5794038 TAAAAATAT
1 TAAAAATAT
5794047 ATCAACAATC
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 109 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (50 bp):
TAAAAATATTATTTGCTAGTTAAAATTATCACATTCTCATAAGTAATAGG
Found at i:5795487 original size:16 final size:18
Alignment explanation
Indices: 5795456--5795488 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
5795446 TGTTAATTAT
5795456 TAATTATTTATATTTAAA
1 TAATTATTTATATTTAAA
5795474 TAATT-TTT-TATTTAA
1 TAATTATTTATATTTAA
5795489 TCTAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATTATTTATATTTAAA
Found at i:5796793 original size:18 final size:19
Alignment explanation
Indices: 5796766--5796805 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
5796756 ATGTATTTAA
5796766 ATATTATTATTT-TAAGAT
1 ATATTATTATTTATAAGAT
*
5796784 ATATTTTTATTTATAAGAT
1 ATATTATTATTTATAAGAT
5796803 ATA
1 ATA
5796806 AAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATATTATTATTTATAAGAT
Found at i:5803568 original size:39 final size:39
Alignment explanation
Indices: 5803416--5803569 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 39
5803406 AAACAGGCTT
** **
5803416 TTAGCGGCGTTTGAACAAAAAACGCCGGTAAAAATAGAGCA
1 TTAGCGGCGTTT-ATGAAAAAACGCCACTAAAAAT-GAGCA
* * *
5803457 TTAGCGGCGCTTAATG-AAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTATGAAAAAACGCCACTAAA-AATGAGCA
* * *
5803497 TTAGCGGCGTTTCTCAAAAAACGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTATGAAAAAACGCCACTAAAAATGAGCA
* *
5803536 TTAGCGGCGTTTTTTGAAAAAACGCCACAAAAAA
1 TTAGCGGCG-TTTATGAAAAAACGCCACTAAAAA
5803570 CCTAAGCCCA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
39 19 0.21
40 59 0.64
41 12 0.13
42 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (39 bp):
TTAGCGGCGTTTATGAAAAAACGCCACTAAAAATGAGCA
Found at i:5803729 original size:41 final size:41
Alignment explanation
Indices: 5803603--5803748 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
5803593 CATTTTCGAG
* * * *
5803603 CTTTAGCGGCGTTATTAAAAAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGAAAAAGCGACGCTAATGCTCGGGT
* * *
5803644 CTTTAGCGGCGTTTTTG-AACAGCGTCGCTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGAAAAAGCGACGCTAATGCTCGGGT
5803684 CTTTAGCGGCATTTTTGAAAAAGCGACGCTAATGCTCAGGG-
1 CTTTAGCGGCATTTTTGAAAAAGCGACGCTAATGCTC-GGGT
5803725 CTTTAGCGGCATTTTTGAAAAAGC
1 CTTTAGCGGCATTTTTGAAAAAGC
5803749 TCGCTAAAAG
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
40 37 0.39
41 56 0.58
42 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTGAAAAAGCGACGCTAATGCTCGGGT
Found at i:5803753 original size:81 final size:81
Alignment explanation
Indices: 5803603--5803755 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
5803593 CATTTTCGAG
* * * *
5803603 CTTTAGCGGCGTTATTAAAAAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTGAACAGCG
1 CTTTAGCGGCATTATTAAAAAAGCGACGCTAATGCTCGGGTCTTTAGCGGCATTTTTGAAAAGCG
5803668 TCGCTAATGCTCGGGT
66 TCGCTAATGCTCGGGT
* *
5803684 CTTTAGCGGCATTTTTGAAAAAGCGACGCTAATGCTCAGGG-CTTTAGCGGCATTTTTGAAAAAG
1 CTTTAGCGGCATTATTAAAAAAGCGACGCTAATGCTC-GGGTCTTTAGCGGCATTTTTG-AAAAG
5803748 C-TCGCTAA
64 CGTCGCTAA
5803756 AAGCATTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
81 56 0.88
82 8 0.12
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (81 bp):
CTTTAGCGGCATTATTAAAAAAGCGACGCTAATGCTCGGGTCTTTAGCGGCATTTTTGAAAAGCG
TCGCTAATGCTCGGGT
Found at i:5804466 original size:15 final size:14
Alignment explanation
Indices: 5804426--5804505 Score: 72
Period size: 14 Copynumber: 5.6 Consensus size: 14
5804416 ACGGATTATA
5804426 GTTTAAGGGTT-GG
1 GTTTAAGGGTTAGG
*
5804439 GCTTTAAGGTTTAGG
1 G-TTTAAGGGTTAGG
5804454 GTTTAAGGGTTTAGG
1 GTTTAAGGG-TTAGG
* **
5804469 GGTTAAACGTTAGG
1 GTTTAAGGGTTAGG
* *
5804483 GGTTAAGAGTTAGG
1 GTTTAAGGGTTAGG
5804497 GATTTAAGG
1 G-TTTAAGG
5804506 TATAGGGATT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
13 1 0.02
14 34 0.63
15 19 0.35
ACGTcount: A:0.24, C:0.03, G:0.39, T:0.35
Consensus pattern (14 bp):
GTTTAAGGGTTAGG
Found at i:5804806 original size:25 final size:25
Alignment explanation
Indices: 5804776--5804868 Score: 111
Period size: 25 Copynumber: 3.7 Consensus size: 25
5804766 TTGATATATT
5804776 TAAATATTAGTTTAAATAGAATTAA
1 TAAATATTAGTTTAAATAGAATTAA
* *
5804801 TAAATA--AGTTTAAATAAAATATATT
1 TAAATATTAGTTTAAATAGAAT-TA-A
5804826 TAAATATTAGTTTAAATAGAATTAA
1 TAAATATTAGTTTAAATAGAATTAA
*
5804851 TAGATATATA-TTTAAATA
1 TAAATAT-TAGTTTAAATA
5804869 TTAGTTTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 13 0.22
24 2 0.03
25 26 0.45
26 4 0.07
27 13 0.22
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (25 bp):
TAAATATTAGTTTAAATAGAATTAA
Found at i:5804837 original size:27 final size:27
Alignment explanation
Indices: 5804769--5804843 Score: 104
Period size: 23 Copynumber: 2.9 Consensus size: 27
5804759 AAACCATTTG
*
5804769 ATATATTTAAATATTAGTTTAAATAGA
1 ATATATTTAAATATTAGTTTAAATAAA
*
5804796 AT-TA-ATAAATA--AGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAAA
5804819 ATATATTTAAATATTAGTTTAAATA
1 ATATATTTAAATATTAGTTTAAATA
5804844 GAATTAATAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
23 13 0.32
24 2 0.05
25 12 0.29
26 2 0.05
27 12 0.29
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (27 bp):
ATATATTTAAATATTAGTTTAAATAAA
Found at i:5806853 original size:366 final size:366
Alignment explanation
Indices: 5806165--5806977 Score: 1583
Period size: 366 Copynumber: 2.2 Consensus size: 366
5806155 CTTGAGGAAG
* *
5806165 GGGGGTTGAAAGT-AATATTATATTTAAATAGGGTTTAAATTGAATATTTTATAACTGGAAGGGA
1 GGGGGTTGAAAGTAAACATTATATTTGAATAGGGTTTAAATTGAATATTTTATAACTGGAAGGGA
5806229 CTAAAGTTGGTATTAGTCCATTTAATCAAGGGGAGCCAAGGCCCCCTTTGTGTGAAAGTAATTTT
66 CTAAAGTTGGTATTAGTCCATTTAATCAAGGGGAGCCAAGGCCCCCTTTGTGTGAAAGTAATTTT
5806294 GTCATCTCTATTTATGCTTTGAATAACCATAGTTTTATTTGCTGCTTCATTTTGTTAGTGTTGTT
131 GTCATCTCTATTTATGCTTTGAATAACCATAGTTTTATTTGCTGCTTCATTTTGTTAGTGTTGTT
5806359 TACTTGTTTTGAAACACTGGTTCCTATCCATACCTGTTTGAGTGTTGCTAGTGGATTGTGATATT
196 TACTTGTTTTGAAACACTGGTTCCTATCCATACCTGTTTGAGTGTTGCTAGTGGATTGTGATATT
5806424 TGATACAGAGCTGAACTTAGAAGAAGGGAATGGAATTATCAATGTGAAAGCAGAGACGAAGCTAG
261 TGATACAGAGCTGAACTTAGAAGAAGGGAATGGAATTATCAATGTGAAAGCAGAGACGAAGCTAG
5806489 AAATTCGGTTTTGGGGGGTCAAAATAAAATTTTAAAAGTTT
326 AAATTCGGTTTTGGGGGGTCAAAATAAAATTTTAAAAGTTT
5806530 GGGGGTTGAAAGTAAACATTATATTTGAATAGGGTTTAAATTGAATATTTTATAACTGGAAGGGA
1 GGGGGTTGAAAGTAAACATTATATTTGAATAGGGTTTAAATTGAATATTTTATAACTGGAAGGGA
5806595 CTAAAGTTGGTATTAGTCCATTTAATCAAGGGGAGCCAAGGCCCCCTTTGTGTGAAAGTAATTTT
66 CTAAAGTTGGTATTAGTCCATTTAATCAAGGGGAGCCAAGGCCCCCTTTGTGTGAAAGTAATTTT
5806660 GTCATCTCTATTTATGCTTTGAATAACCATAGTTTTATTTGCTGCTTCATTTTGTTAGTGTTGTT
131 GTCATCTCTATTTATGCTTTGAATAACCATAGTTTTATTTGCTGCTTCATTTTGTTAGTGTTGTT
5806725 TACTTGTTTTGAAACACTGGTTCCTATCCATACCTGTTTGAGTGTTGCTAGTGGATTGTGATATT
196 TACTTGTTTTGAAACACTGGTTCCTATCCATACCTGTTTGAGTGTTGCTAGTGGATTGTGATATT
5806790 TGATACAGAGCTGAACTTAGAAGAAGGGAATGGAATTATCAATGTGAAAGCAGAGACGAAGCTAG
261 TGATACAGAGCTGAACTTAGAAGAAGGGAATGGAATTATCAATGTGAAAGCAGAGACGAAGCTAG
5806855 AAATTCGGTTTTGGGGGGTCAAAATAAAATTTTAAAAGTTT
326 AAATTCGGTTTTGGGGGGTCAAAATAAAATTTTAAAAGTTT
*
5806896 GGGGGTTGAAAGTAAACATTATATTTGAATAGGGTTTAAATTGAATATTTTATAACTGGATGGGA
1 GGGGGTTGAAAGTAAACATTATATTTGAATAGGGTTTAAATTGAATATTTTATAACTGGAAGGGA
*
5806961 CTAAAGTTGCTATTAGT
66 CTAAAGTTGGTATTAGT
5806978 TACGCCCTTG
Statistics
Matches: 443, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
365 13 0.03
366 430 0.97
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.36
Consensus pattern (366 bp):
GGGGGTTGAAAGTAAACATTATATTTGAATAGGGTTTAAATTGAATATTTTATAACTGGAAGGGA
CTAAAGTTGGTATTAGTCCATTTAATCAAGGGGAGCCAAGGCCCCCTTTGTGTGAAAGTAATTTT
GTCATCTCTATTTATGCTTTGAATAACCATAGTTTTATTTGCTGCTTCATTTTGTTAGTGTTGTT
TACTTGTTTTGAAACACTGGTTCCTATCCATACCTGTTTGAGTGTTGCTAGTGGATTGTGATATT
TGATACAGAGCTGAACTTAGAAGAAGGGAATGGAATTATCAATGTGAAAGCAGAGACGAAGCTAG
AAATTCGGTTTTGGGGGGTCAAAATAAAATTTTAAAAGTTT
Found at i:5807603 original size:18 final size:17
Alignment explanation
Indices: 5807589--5807622 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5807579 TTGTAAAAGA
5807589 AATAAAATATATAAAAAT
1 AATAAAATA-ATAAAAAT
*
5807607 TATAAAATAATAAAAA
1 AATAAAATAATAAAAA
5807623 ACTTGAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAATAATAAAAAT
Found at i:5807622 original size:27 final size:26
Alignment explanation
Indices: 5807525--5807622 Score: 67
Period size: 27 Copynumber: 3.7 Consensus size: 26
5807515 TTATACTTGT
*
5807525 ATTTAAAATAATAAAACT-TA-AAAA
1 ATTTAAAATAATAAAAATATATAAAA
* * *
5807549 AGTTTAAAACAAATTAAAAATACATAAAT
1 A-TTTAAAA-TAA-TAAAAATATATAAAA
* *
5807578 TTTGTAAAAGAA-ATAAAATATATAAAA
1 ATT-TAAAATAATA-AAAATATATAAAA
5807605 ATTATAAAATAATAAAAA
1 ATT-TAAAATAATAAAAA
5807623 ACTTGAAAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
24 1 0.02
25 7 0.13
26 3 0.05
27 30 0.55
28 6 0.11
29 8 0.15
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (26 bp):
ATTTAAAATAATAAAAATATATAAAA
Found at i:5809751 original size:43 final size:43
Alignment explanation
Indices: 5809664--5809934 Score: 357
Period size: 43 Copynumber: 6.3 Consensus size: 43
5809654 TTTTTGCTAG
* * *
5809664 AAGCGCCGCTAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAA
* * * *
5809706 AAGCGCCACTAAAGGTCATGGTCTATAGCGGCGTTAGTGGGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAA
*
5809749 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTAGTGAG-AA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GTAA
5809792 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAA
* * * *
5809835 AAACACCGCTGAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAA
* * * **
5809878 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTTTTCTAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAA
*
5809921 AAACGCCGCTAAAG
1 AAGCGCCGCTAAAG
5809935 TTAGCGACGC
Statistics
Matches: 204, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
42 16 0.08
43 187 0.92
44 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAA
Found at i:5813484 original size:40 final size:40
Alignment explanation
Indices: 5813384--5813648 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
5813374 GCTCCTCGTT
* * * *
5813384 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
5813424 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
5813463 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
5813503 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
5813543 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
5813583 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
5813624 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
5813649 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:5813608 original size:80 final size:80
Alignment explanation
Indices: 5813351--5813648 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
5813341 AAATCACGTA
* ** * * *
5813351 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
5813413 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
5813429 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
5813492 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
5813509 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
5813573 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
5813589 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
5813649 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:5813657 original size:41 final size:41
Alignment explanation
Indices: 5813580--5813657 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
5813570 TTTGTATCTC
* * *
5813580 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
5813621 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
5813658 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:5816396 original size:6 final size:6
Alignment explanation
Indices: 5816385--5816411 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5816375 TCTAGTTAGT
5816385 ATTATA ATTATA ATTATA ATTATA ATT
1 ATTATA ATTATA ATTATA ATTATA ATT
5816412 TTATACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATA
Found at i:5818763 original size:23 final size:23
Alignment explanation
Indices: 5818737--5818784 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5818727 ATACAAGAAC
* *
5818737 AATTTAAAGTACATAAA-ATAAAA
1 AATTTAAAATA-AAAAATATAAAA
5818760 AATTTAAAATAAAAAATATAAAA
1 AATTTAAAATAAAAAATATAAAA
5818783 AA
1 AA
5818785 GAGGTCTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (23 bp):
AATTTAAAATAAAAAATATAAAA
Found at i:5818767 original size:14 final size:14
Alignment explanation
Indices: 5818749--5818782 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
5818739 TTTAAAGTAC
5818749 ATAAAATAAAAAAT
1 ATAAAATAAAAAAT
*
5818763 TTAAAATAAAAAAT
1 ATAAAATAAAAAAT
5818777 ATAAAA
1 ATAAAA
5818783 AAGAGGTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAATAAAAAAT
Found at i:5819001 original size:26 final size:26
Alignment explanation
Indices: 5818972--5819025 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
5818962 GGCCATTCAT
* *
5818972 AATAAATAACATATGAAATAATTTAA
1 AATAAATAACATATAAAATAATATAA
* * *
5818998 AATACATAATATCTAAAATAATATAA
1 AATAAATAACATATAAAATAATATAA
5819024 AA
1 AA
5819026 CAATCTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.30
Consensus pattern (26 bp):
AATAAATAACATATAAAATAATATAA
Found at i:5819045 original size:24 final size:23
Alignment explanation
Indices: 5819013--5819065 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
5819003 ATAATATCTA
*
5819013 AAATAATATAAAACAATCTAATAT
1 AAATAATATAAAA-AATCTAAAAT
* *
5819037 AAATAATATATAAAATTTAAAAT
1 AAATAATATAAAAAATCTAAAAT
5819060 AAATAA
1 AAATAA
5819066 AAATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATAATATAAAAAATCTAAAAT
Found at i:5824458 original size:3 final size:3
Alignment explanation
Indices: 5824430--5824476 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
5824420 AATAGAAGGA
* * * *
5824430 AAG AAG AAA AAG -AG AGG AGG AGG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
5824477 CAATAGGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:5838557 original size:21 final size:21
Alignment explanation
Indices: 5838489--5838559 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
5838479 TTTTGCTCTG
*
5838489 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
5838510 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
5838531 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
5838552 CTCTGCTT
1 CTCTGCTT
5838560 TAAGTTGTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.46, G:0.18, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:5843925 original size:9 final size:9
Alignment explanation
Indices: 5843908--5844218 Score: 191
Period size: 9 Copynumber: 35.9 Consensus size: 9
5843898 TATGTATTAA
*
5843908 GTAAATTAT
1 GTAAGTTAT
5843917 GTAAGTTAT
1 GTAAGTTAT
*
5843926 GTACGTGTA-
1 GTAAGT-TAT
5843935 -TAAGTTAT
1 GTAAGTTAT
5843943 GTAAGTTAT
1 GTAAGTTAT
*
5843952 GT-A-TTAA
1 GTAAGTTAT
*
5843959 GTAAGCTAT
1 GTAAGTTAT
*
5843968 GTAAGTTGT
1 GTAAGTTAT
5843977 GT-A-TTAT
1 GTAAGTTAT
5843984 GTAAGTTAT
1 GTAAGTTAT
5843993 GTAAGTTAT
1 GTAAGTTAT
** *
5844002 CAAAGTAAT
1 GTAAGTTAT
*
5844011 GTATGTTAT
1 GTAAGTTAT
5844020 GTAAG-T-T
1 GTAAGTTAT
5844027 GTAAGTTAT
1 GTAAGTTAT
*
5844036 -TATGTATTAT
1 GTAAG--TTAT
5844046 GTAAGTTA-
1 GTAAGTTAT
5844054 G-AAGTTAT
1 GTAAGTTAT
* *
5844062 -TATGTATTGT
1 GTAAG--TTAT
5844072 GTAAG-T-T
1 GTAAGTTAT
*
5844079 GCAAGTTAAAT
1 GTAAGTT--AT
5844090 GT-A-TTAT
1 GTAAGTTAT
5844097 GTAAG-T-T
1 GTAAGTTAT
5844104 GTAAGTTAT
1 GTAAGTTAT
*
5844113 -TATGTATTAT
1 GTAAG--TTAT
5844123 GTAAGTTAT
1 GTAAGTTAT
5844132 GTAAGTTAT
1 GTAAGTTAT
5844141 GTAAGTTAAAT
1 GTAAGTT--AT
5844152 GT-A-TTAT
1 GTAAGTTAT
*
5844159 GTAGGTTAT
1 GTAAGTTAT
*
5844168 GTAAGTTGT
1 GTAAGTTAT
*
5844177 GTAAGATAT
1 GTAAGTTAT
*
5844186 TTAAGTTAT
1 GTAAGTTAT
*
5844195 GTAAGTTTT
1 GTAAGTTAT
5844204 GT-A-TTAT
1 GTAAGTTAT
5844211 GTAAGTTA
1 GTAAGTTA
5844219 AAACAGAAAA
Statistics
Matches: 232, Mismatches: 36, Indels: 68
0.69 0.11 0.20
Matches are distributed among these distances:
7 48 0.21
8 26 0.11
9 128 0.55
10 15 0.06
11 15 0.06
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:5843928 original size:25 final size:25
Alignment explanation
Indices: 5843897--5844001 Score: 133
Period size: 25 Copynumber: 4.2 Consensus size: 25
5843887 TGATATATAT
*
5843897 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
5843922 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
5843948 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
5843973 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
5843998 TTAT
1 TTAT
5844002 CAAAGTAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 44 0.64
26 19 0.28
27 2 0.03
28 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:5844052 original size:26 final size:26
Alignment explanation
Indices: 5843965--5844140 Score: 186
Period size: 26 Copynumber: 6.7 Consensus size: 26
5843955 TTAAGTAAGC
5843965 TATGTAAGTTGT--G-TATTATGTAAGT
1 TATGTAAGTTGTAAGTTATTATGT-A-T
* *
5843990 TATGTAAGTTATCAAAGTAATGTATG--T
1 TATGTAAGTTGT--AAGTTAT-TATGTAT
5844017 TATGTAAGTTGTAAGTTATTATGTAT
1 TATGTAAGTTGTAAGTTATTATGTAT
5844043 TATGTAAGTTAG-AAGTTATTATGTAT
1 TATGTAAGTT-GTAAGTTATTATGTAT
* * *
5844069 TGTGTAAGTTGCAAGTTA-AATGTAT
1 TATGTAAGTTGTAAGTTATTATGTAT
5844094 TATGTAAGTTGTAAGTTATTATGTAT
1 TATGTAAGTTGTAAGTTATTATGTAT
5844120 TATGTAAGTTATGTAAGTTAT
1 TATGTAAG-T-TGTAAGTTAT
5844141 GTAAGTTAAA
Statistics
Matches: 129, Mismatches: 9, Indels: 23
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.03
25 40 0.31
26 54 0.42
27 14 0.11
28 10 0.08
29 1 0.01
30 2 0.02
31 4 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (26 bp):
TATGTAAGTTGTAAGTTATTATGTAT
Found at i:5844143 original size:51 final size:52
Alignment explanation
Indices: 5843980--5844143 Score: 146
Period size: 51 Copynumber: 3.1 Consensus size: 52
5843970 AAGTTGTGTA
** *
5843980 TTATGTAAGTTATGTAAGTTATCAAAGTAATGTATG--TTATGTAAGT-TGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAGTTAT-TATGTATTATGTAAGTATGTAAG
* *
5844032 TTATTATGTATTATGTAAGTTA-G-AAGTTATTATGTATTGTGTAAGT-TGCAAG
1 ---TTATGTATTATGTAAGTTATGTAAGTTATTATGTATTATGTAAGTATGTAAG
5844084 TTAAATGTATTATGTAAG-T-TGTAAGTTATTATGTATTATGTAAGTTATGTAAG
1 TT--ATGTATTATGTAAGTTATGTAAGTTATTATGTATTATGTAAG-TATGTAAG
5844137 TTATGTA
1 TTATGTA
5844144 AGTTAAATGT
Statistics
Matches: 95, Mismatches: 6, Indels: 20
0.79 0.05 0.17
Matches are distributed among these distances:
49 2 0.02
50 6 0.06
51 46 0.48
52 15 0.16
53 19 0.20
54 1 0.01
55 6 0.06
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (52 bp):
TTATGTATTATGTAAGTTATGTAAGTTATTATGTATTATGTAAGTATGTAAG
Found at i:5844274 original size:18 final size:19
Alignment explanation
Indices: 5844232--5844275 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
5844222 CAGAAAATAA
*
5844232 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
5844251 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
5844269 AGAAACA
1 AGAAACA
5844276 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:5845046 original size:296 final size:296
Alignment explanation
Indices: 5844512--5845105 Score: 1125
Period size: 296 Copynumber: 2.0 Consensus size: 296
5844502 TAAACTAGAT
* *
5844512 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAGTATATTATAAAAGAAAAA
1 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAACAAAAA
*
5844577 AAAAAGATTGAATCTCAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAGTTTGAACTTACA
66 AAAAAGATTGAATCTCAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGAACTTACA
5844642 AGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAGTAGTATA
131 AGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAGTAGTATA
*
5844707 GTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAGTTTTGCAAATTT
196 GTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTGCAAATTT
*
5844772 CGACAGAACAACAGTAAATGATTCAACATGGTAGCA
261 CGACAAAACAACAGTAAATGATTCAACATGGTAGCA
5844808 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAACAAAAA
1 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAACAAAAA
5844873 AAAAAGATTGAATCTCAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGAACTTACA
66 AAAAAGATTGAATCTCAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGAACTTACA
5844938 AGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAGTAGTATA
131 AGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAGTAGTATA
*
5845003 GTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTGCAATTTT
196 GTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTGCAAATTT
*
5845068 CGACAAAACAGCAGTAAATGATTCAACATGGTAGCA
261 CGACAAAACAACAGTAAATGATTCAACATGGTAGCA
5845104 AT
1 AT
5845106 GGAAACTAAT
Statistics
Matches: 291, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
296 291 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (296 bp):
ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAACAAAAA
AAAAAGATTGAATCTCAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGAACTTACA
AGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAGTAGTATA
GTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTGCAAATTT
CGACAAAACAACAGTAAATGATTCAACATGGTAGCA
Found at i:5845790 original size:198 final size:197
Alignment explanation
Indices: 5845452--5845862 Score: 691
Period size: 198 Copynumber: 2.1 Consensus size: 197
5845442 TAACTAACCC
*
5845452 ATTTGCGGCGTTTGTATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
* * *
5845517 TAATTGAAACTCATGGCGTTTTAGAGAAAACGGCATTGTCTCCATAAAAATTAAAACATTTTTGC
66 TAACTCAAACTCATGGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
*
5845582 GGCGTTTACTAAAAGTGCCACTAAAAG-TAAATAAGAAAACGAAGCCGTTTTCCCT-AACAATTT
131 GGCGTTTACTAAAAGCGCCACT-AAAGTTAAATAAGAAAACGAAGCCGTTTT-CCTAAACAA-TT
5845645 CTGTA
193 CTGTA
*
5845650 ATTTGCGGTGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
*
5845715 TAACTCAAACTCATGGCGTTTTAGCGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
66 TAACTCAAACTCATGGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
*
5845780 GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGGAGCCGTTTTCCTAAACAATTCTG
131 GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTCTG
5845845 TA
196 TA
* *
5845847 AATTGTGGCGTTTATA
1 ATTTGCGGCGTTTATA
5845863 CATAAGCGCC
Statistics
Matches: 200, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
197 27 0.14
198 173 0.87
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (197 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
TAACTCAAACTCATGGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTCTG
TA
Done.