Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 28 of 210
Found at i:9949154 original size:23 final size:23
Alignment explanation
Indices: 9949128--9949171 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9949118 GCTCGATTCA
*
9949128 TTTAGCGTTCACAAACATGTTTG
1 TTTAACGTTCACAAACATGTTTG
* *
9949151 TTTAACGTTCGCATACATGTT
1 TTTAACGTTCACAAACATGTT
9949172 CGTGAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
TTTAACGTTCACAAACATGTTTG
Found at i:9951911 original size:73 final size:74
Alignment explanation
Indices: 9951791--9951929 Score: 226
Period size: 73 Copynumber: 1.9 Consensus size: 74
9951781 AGATTTTTTA
* * *
9951791 AAAAAAGGGGATCATGCCCAATGAGTTAGGACATGATCTTTTCTTAATTCCCGAGATCGTTTAAA
1 AAAAAAGGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
9951856 AATTTGAGG
66 AATTTGAGG
* *
9951865 AAAAAA-GGGATTATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
1 AAAAAAGGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
9951929 A
66 A
9951930 TTTAAGTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
73 54 0.90
74 6 0.10
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (74 bp):
AAAAAAGGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
AATTTGAGG
Found at i:9953436 original size:19 final size:18
Alignment explanation
Indices: 9953396--9953430 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9953386 TTTCGAAATA
9953396 AAAATAAATATAAAAAAC
1 AAAATAAATATAAAAAAC
9953414 AAAATAAATATAAAAAA
1 AAAATAAATATAAAAAA
9953431 AGAAAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAATATAAAAAAC
Found at i:9953436 original size:24 final size:24
Alignment explanation
Indices: 9953391--9953438 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9953381 TAGTATTTCG
*
9953391 AAATAAAAATAAATATAAAAAACA
1 AAATAAAAATAAATAAAAAAAACA
*
9953415 AAATAAATATAAA-AAAAGAAAACA
1 AAATAAAAATAAATAAAA-AAAACA
9953439 CCTTTAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (24 bp):
AAATAAAAATAAATAAAAAAAACA
Found at i:9954837 original size:16 final size:16
Alignment explanation
Indices: 9954793--9954844 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
9954783 TTTGGTTCGC
*
9954793 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
9954809 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
9954825 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
9954841 TGTA
1 TGTA
9954845 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9955229 original size:16 final size:16
Alignment explanation
Indices: 9955185--9955236 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
9955175 TTTGGTTCGC
*
9955185 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
9955201 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
9955217 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
9955233 TGTA
1 TGTA
9955237 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9955311 original size:392 final size:392
Alignment explanation
Indices: 9954587--9955371 Score: 1570
Period size: 392 Copynumber: 2.0 Consensus size: 392
9954577 CACACAACCA
9954587 TCTAAATGTCTTTTATATTGTGTAGTTGTACCATCCTTGTTCTTGGCAAGTTCAATCTTACATTG
1 TCTAAATGTCTTTTATATTGTGTAGTTGTACCATCCTTGTTCTTGGCAAGTTCAATCTTACATTG
9954652 ATTACACTGCACTTTTTCGGTCCCATCCGCAAGCTTAACTACAGTTAGTTCCTGCCAAACAATTC
66 ATTACACTGCACTTTTTCGGTCCCATCCGCAAGCTTAACTACAGTTAGTTCCTGCCAAACAATTC
9954717 ATGTCTTCTTTCTATTTCTCCTCGTATAAGTGACAACTTTAATATCATCCAAACACTTAGGGTGT
131 ATGTCTTCTTTCTATTTCTCCTCGTATAAGTGACAACTTTAATATCATCCAAACACTTAGGGTGT
9954782 GTTTGGTTCGCTGTATTGGATTAAAGGTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTAAT
196 GTTTGGTTCGCTGTATTGGATTAAAGGTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTAAT
9954847 AGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
261 AGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
9954912 AATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAGAATACCCTTAGCATAAA
326 AATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAGAATACCCTTAGCATAAA
9954977 TT
391 TT
9954979 TCTAAATGTCTTTTATATTGTGTAGTTGTACCATCCTTGTTCTTGGCAAGTTCAATCTTACATTG
1 TCTAAATGTCTTTTATATTGTGTAGTTGTACCATCCTTGTTCTTGGCAAGTTCAATCTTACATTG
9955044 ATTACACTGCACTTTTTCGGTCCCATCCGCAAGCTTAACTACAGTTAGTTCCTGCCAAACAATTC
66 ATTACACTGCACTTTTTCGGTCCCATCCGCAAGCTTAACTACAGTTAGTTCCTGCCAAACAATTC
9955109 ATGTCTTCTTTCTATTTCTCCTCGTATAAGTGACAACTTTAATATCATCCAAACACTTAGGGTGT
131 ATGTCTTCTTTCTATTTCTCCTCGTATAAGTGACAACTTTAATATCATCCAAACACTTAGGGTGT
9955174 GTTTGGTTCGCTGTATTGGATTAAAGGTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTAAT
196 GTTTGGTTCGCTGTATTGGATTAAAGGTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTAAT
9955239 AGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
261 AGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
9955304 AATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAGAATACCCTTAGCATAAA
326 AATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAGAATACCCTTAGCATAAA
9955369 TT
391 TT
9955371 T
1 T
9955372 GTTTTGGTAA
Statistics
Matches: 393, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
392 393 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (392 bp):
TCTAAATGTCTTTTATATTGTGTAGTTGTACCATCCTTGTTCTTGGCAAGTTCAATCTTACATTG
ATTACACTGCACTTTTTCGGTCCCATCCGCAAGCTTAACTACAGTTAGTTCCTGCCAAACAATTC
ATGTCTTCTTTCTATTTCTCCTCGTATAAGTGACAACTTTAATATCATCCAAACACTTAGGGTGT
GTTTGGTTCGCTGTATTGGATTAAAGGTGTATTGGATTAGAGGTGTATTGGATTAGAGATGTAAT
AGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
AATGGAATAGAGGTGTAATAGCATAATGGAAAAAACTAAAATGACTAGAATACCCTTAGCATAAA
TT
Found at i:9958848 original size:11 final size:11
Alignment explanation
Indices: 9958832--9958859 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9958822 AATCGGGAGG
9958832 CGAAGGTAGAA
1 CGAAGGTAGAA
9958843 CGAAGGTAGAA
1 CGAAGGTAGAA
9958854 CGAAGG
1 CGAAGG
9958860 AAGAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:9961870 original size:17 final size:18
Alignment explanation
Indices: 9961831--9961877 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
9961821 AATAGCATTA
*
9961831 AATATTTT-TTTAGTATT
1 AATATTTTATTTAATATT
9961848 ACATATTTTATTTAAT-TT
1 A-ATATTTTATTTAATATT
*
9961866 AATATATTATTT
1 AATATTTTATTT
9961878 TAAAAATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 11 0.42
18 10 0.38
19 5 0.19
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
AATATTTTATTTAATATT
Found at i:9962374 original size:45 final size:45
Alignment explanation
Indices: 9962301--9962416 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
9962291 TCAAGGATGT
* * * * *
9962301 CATAGCGTCTTTCAGCCACGGTCCTATTTATTTTCGACATAATGC
1 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTCGACATAATGC
*** **
9962346 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTTTTCATGTTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTCGACATAATGC
*
9962391 CATAGTATCTTTCAACTATGGTCTTA
1 CATAGTGTCTTTCAACTATGGTCTTA
9962417 ACCGTTTTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.44
Consensus pattern (45 bp):
CATAGTGTCTTTCAACTATGGTCTTATTTATTTTCGACATAATGC
Found at i:9970544 original size:16 final size:16
Alignment explanation
Indices: 9970523--9970553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9970513 GTTTTGTTGC
*
9970523 TAATTTTACTTTTTCG
1 TAATTTCACTTTTTCG
9970539 TAATTTCACTTTTTC
1 TAATTTCACTTTTTC
9970554 ACTTTCAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.16, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATTTCACTTTTTCG
Found at i:9970751 original size:46 final size:43
Alignment explanation
Indices: 9970678--9970776 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
9970668 AATAATAACA
*
9970678 GATACGCGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* *
9970724 GATATCCGGTGAGATT-AGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGTG-GATTCAGCACACAGCAACCACCTTATAATCAAT
9970768 GATACCGGT
1 GATACCGGT
9970777 TCACATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 13 0.27
45 2 0.04
46 23 0.48
47 5 0.10
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:9974570 original size:15 final size:15
Alignment explanation
Indices: 9974517--9974573 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
9974507 TTTAATAGAT
*
9974517 TTAATATTAAATTTAA
1 TTAATATTATA-TTAA
* *
9974533 TCTAATATTTATCTTGA
1 T-TAATA-TTATATTAA
*
9974550 TAAATATTATATTAA
1 TTAATATTATATTAA
9974565 TTAATATTA
1 TTAATATTA
9974574 AAGTGATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 15 0.47
16 5 0.16
17 9 0.28
18 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAATATTATATTAA
Found at i:9981195 original size:26 final size:24
Alignment explanation
Indices: 9981166--9981223 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
9981156 ATTTAAATTT
9981166 ATTTATAATATCAATCATAAAATTAA
1 ATTTATAATATCAATCATAAAA-T-A
*
9981192 ATTTATAA-A-CAATTATAAAATA
1 ATTTATAATATCAATCATAAAATA
9981214 ATTTA-AATAT
1 ATTTATAATAT
9981224 ATTTTAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.07
22 7 0.24
23 1 0.03
24 10 0.34
25 1 0.03
26 8 0.28
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTATAATATCAATCATAAAATA
Found at i:9982414 original size:18 final size:17
Alignment explanation
Indices: 9982375--9982419 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
9982365 AAACCAAATG
*
9982375 TTAATTTAATTATAAAA
1 TTAATTTAATTACAAAA
9982392 TTAATTTATATTACATAAA
1 TTAATTTA-ATTACA-AAA
9982411 -TAATTTAAT
1 TTAATTTAAT
9982420 GAAAAACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTTAATTACAAAA
Found at i:9999605 original size:42 final size:41
Alignment explanation
Indices: 9999517--9999595 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 41
9999507 CCTAATTGGG
*
9999517 AAAACAATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
9999558 AAAATAATTCCCTTATTCTAATTAAACTA-TAAAAGATA
1 AAAATAATTCCCTTATTCTAA-TAAACTACTAAAAGATA
9999596 GAATAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 29 0.81
42 7 0.19
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (41 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
Found at i:9999658 original size:19 final size:19
Alignment explanation
Indices: 9999634--9999674 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9999624 TGATTTATTC
9999634 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
9999653 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
9999672 TAA
1 TAA
9999675 CTTGTTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:10010472 original size:54 final size:54
Alignment explanation
Indices: 10010386--10010491 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
10010376 GTGTACCTGA
* *
10010386 TTCAATTGATTCTCCTAAAACGGAAATCTGTGAGAAGGATTTATCTACAAGTGT
1 TTCAATTGATTCTCCTAAAAAGGAAATCTGTGAGAAGGATCTATCTACAAGTGT
* * *
10010440 TTCAATTGATTCTCCTAAAAAGGAACTTTGTGAGAAGGATCTATCTAGAAGT
1 TTCAATTGATTCTCCTAAAAAGGAAATCTGTGAGAAGGATCTATCTACAAGT
10010492 TTTGAACTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (54 bp):
TTCAATTGATTCTCCTAAAAAGGAAATCTGTGAGAAGGATCTATCTACAAGTGT
Found at i:10027834 original size:18 final size:18
Alignment explanation
Indices: 10027789--10027840 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
10027779 CAAGGTGAAT
* *
10027789 ATTTTGTAACCTTAGGAG
1 ATTTTGTAATCTTAGAAG
10027807 ATTTTGTAATCTTAGAAG
1 ATTTTGTAATCTTAGAAG
*
10027825 ATTTTGTAATATTAGA
1 ATTTTGTAATCTTAGA
10027841 GGATCTTGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (18 bp):
ATTTTGTAATCTTAGAAG
Found at i:10030289 original size:27 final size:27
Alignment explanation
Indices: 10030259--10030325 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
10030249 AACACATCAG
*
10030259 GAAAGAAATGCCTATGTGGCATAATAT
1 GAAAGAAATGCCTATGTGGCACAATAT
10030286 GAAATGAACA--CCTATGTGGCACAATAT
1 GAAA-GAA-ATGCCTATGTGGCACAATAT
10030313 GAAAGAAATGCCT
1 GAAAGAAATGCCT
10030326 TTGTTGCGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 27 0.77
28 3 0.09
29 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (27 bp):
GAAAGAAATGCCTATGTGGCACAATAT
Found at i:10034030 original size:14 final size:15
Alignment explanation
Indices: 10034002--10034037 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
10033992 AATTATTATT
10034002 TTAT-TATAAAGAAA
1 TTATATATAAAGAAA
10034016 TTATATATAAA-AAA
1 TTATATATAAAGAAA
10034030 TTATATAT
1 TTATATAT
10034038 TATCCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TTATATATAAAGAAA
Found at i:10041786 original size:23 final size:24
Alignment explanation
Indices: 10041730--10041786 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
10041720 GAGATTAAAT
*
10041730 TGTTAAAT-TGTTGAAGTTTTAAG
1 TGTTAAATATGTTGAAGTATTAAG
* *
10041753 TGTGAACTATGTTGAA-TATTAAG
1 TGTTAAATATGTTGAAGTATTAAG
*
10041776 TGTTAAGTATG
1 TGTTAAATATG
10041787 CCTCATATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.44
Consensus pattern (24 bp):
TGTTAAATATGTTGAAGTATTAAG
Found at i:10044889 original size:20 final size:21
Alignment explanation
Indices: 10044856--10044894 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
10044846 TTTTGGGTGA
10044856 ATTATGGTTTAAGCATTTTTT
1 ATTATGGTTTAAGCATTTTTT
10044877 ATTATGG-TTAAGCATTTT
1 ATTATGGTTTAAGCATTTT
10044895 ATGGATGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (21 bp):
ATTATGGTTTAAGCATTTTTT
Found at i:10046258 original size:23 final size:23
Alignment explanation
Indices: 10046232--10046304 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
10046222 CTGGTGGGAG
*
10046232 CATTTTGGCACTACGGTGCAATT
1 CATTTTGGCACTACAGTGCAATT
* * *
10046255 CATTTTGCCACTACTGTGCAACT
1 CATTTTGGCACTACAGTGCAATT
* * * *
10046278 CATTCTAGCACTTCAATGCAATT
1 CATTTTGGCACTACAGTGCAATT
10046301 CATT
1 CATT
10046305 CTATGGAGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.36
Consensus pattern (23 bp):
CATTTTGGCACTACAGTGCAATT
Found at i:10052217 original size:23 final size:24
Alignment explanation
Indices: 10052191--10052237 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10052181 GAGTTACCTG
*
10052191 TTAAGCTC-AATGAGCTTCTTGTT
1 TTAAACTCTAATGAGCTTCTTGTT
* *
10052214 TTAAACTCTTATGAGTTTCTTGTT
1 TTAAACTCTAATGAGCTTCTTGTT
10052238 ATAGCCCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (24 bp):
TTAAACTCTAATGAGCTTCTTGTT
Found at i:10058490 original size:28 final size:28
Alignment explanation
Indices: 10058432--10058562 Score: 108
Period size: 28 Copynumber: 4.7 Consensus size: 28
10058422 CCATTGGGAC
* * *
10058432 AGTAAACAC-AGGTGAGTCTGTC-GAGAC
1 AGTAAACACGAGGTAAGTCT-ACAGAGAT
* *
10058459 AGTAAACATGAGGTAAGTCTACAGGGAT
1 AGTAAACACGAGGTAAGTCTACAGAGAT
* * *
10058487 AGTACACACGAGGTATGT-TCACCGAGAT
1 AGTAAACACGAGGTAAGTCT-ACAGAGAT
* *
10058515 AGTAAACATGAGGTAAGTCTACCA-AGAC
1 AGTAAACACGAGGTAAGTCTA-CAGAGAT
*
10058543 AGTAATCACGAGGTAAGTCT
1 AGTAAACACGAGGTAAGTCT
10058563 GATGGGACGC
Statistics
Matches: 82, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
27 10 0.12
28 70 0.85
29 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.21
Consensus pattern (28 bp):
AGTAAACACGAGGTAAGTCTACAGAGAT
Found at i:10063185 original size:6 final size:6
Alignment explanation
Indices: 10063167--10063216 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
10063157 TGCAAATGAA
* *
10063167 TCATTT CTCATTT TCATTT TCATTT TCATTT TCATTT CCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
10063216 T
1 T
10063217 GGGAAAACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (6 bp):
TCATTT
Found at i:10063452 original size:14 final size:13
Alignment explanation
Indices: 10063412--10063452 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10063402 TAAAATGTTA
*
10063412 AAAAATTAGAATT
1 AAAAATTAAAATT
*
10063425 AAAAATTAATATT
1 AAAAATTAAAATT
10063438 AAGAAATTAAAATT
1 AA-AAATTAAAATT
10063452 A
1 A
10063453 GGTGTTCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:10064916 original size:23 final size:23
Alignment explanation
Indices: 10064864--10064972 Score: 91
Period size: 23 Copynumber: 4.7 Consensus size: 23
10064854 TCACTTTTTG
* *
10064864 GGTTGTGTTTGAAGGCTATACT-T
1 GGTTGTGTTTGGAGGGTATA-TAT
10064887 -GTATGTGTTTGGAGGGTATATAT
1 GGT-TGTGTTTGGAGGGTATATAT
* *
10064910 GGTTGTGTTTGGTAGAG-ATATTT
1 GGTTGTGTTTGG-AGGGTATATAT
*
10064933 GGTTGTGTTTAGAGGGTATA-AT
1 GGTTGTGTTTGGAGGGTATATAT
* *
10064955 CGATTGTGATTGGAGGGT
1 -GGTTGTGTTTGGAGGGT
10064973 GATAGCTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
22 7 0.10
23 58 0.83
24 5 0.07
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (23 bp):
GGTTGTGTTTGGAGGGTATATAT
Found at i:10066043 original size:16 final size:16
Alignment explanation
Indices: 10066022--10066053 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10066012 AGTCCTTAAC
10066022 TGCATGATTAAGTATT
1 TGCATGATTAAGTATT
10066038 TGCATGATTAAGTATT
1 TGCATGATTAAGTATT
10066054 GTATGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
TGCATGATTAAGTATT
Found at i:10068483 original size:27 final size:27
Alignment explanation
Indices: 10068453--10068522 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
10068443 AACAAGTCAG
*
10068453 GAAAGGAACGCCTTTGTGGCGCAATAT
1 GAAAGGAAAGCCTTTGTGGCGCAATAT
* *
10068480 GAAAGGAAAGCCATTATGGCGCAATAT
1 GAAAGGAAAGCCTTTGTGGCGCAATAT
* *
10068507 GAAAAGAATGCCTTTG
1 GAAAGGAAAGCCTTTG
10068523 GGAGAATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (27 bp):
GAAAGGAAAGCCTTTGTGGCGCAATAT
Found at i:10069869 original size:41 final size:41
Alignment explanation
Indices: 10069791--10069890 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 41
10069781 CTATGTGATT
* * *
10069791 AGCACTAAGTGTGCG-AATTAAATGATGAGGTTGAATAACG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
10069831 AGCACTAAGTGTGCGAAACTAAATAATGATGTTAAATAACG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
10069872 GGCACTAAGTGTGCGAAAC
1 AGCACTAAGTGTGCGAAAC
10069891 CGAGATCAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 15 0.28
41 39 0.72
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
Found at i:10077604 original size:41 final size:41
Alignment explanation
Indices: 10077526--10077626 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
10077516 CTATATGATT
* * * *
10077526 AGCACTAAGTGTGTG-AATTAAATGATGAGGTTGAATAACG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
10077566 AGCACTAAGTGTGCGAAACTAAATAATGATGTTAAATAACG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
10077607 GGCACTAAGTGTGCGAAACT
1 AGCACTAAGTGTGCGAAACT
10077627 GAGATCAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 14 0.26
41 40 0.74
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
Found at i:10084202 original size:13 final size:13
Alignment explanation
Indices: 10084184--10084209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10084174 ACCCACACGG
10084184 CCTAATTAATGCA
1 CCTAATTAATGCA
10084197 CCTAATTAATGCA
1 CCTAATTAATGCA
10084210 AGTCAATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
CCTAATTAATGCA
Found at i:10104536 original size:2 final size:2
Alignment explanation
Indices: 10104529--10104555 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10104519 CACAAATTGC
10104529 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10104556 TTAAGTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10115115 original size:49 final size:49
Alignment explanation
Indices: 10115062--10115156 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
10115052 TCAGTTTATG
** * *
10115062 GTGGTTATACGGTCAC-GGTTTCAAGTATAACTAGGGCTCTCAGTTGGCA
1 GTGGTTATACAATCACAGG-TTCAAGTATAACTAGGGCCCCCAGTTGGCA
* *
10115111 GTGGTTATGCAATCACAGGTTCAAGTATAACTCGGGCCCCCAGTTG
1 GTGGTTATACAATCACAGGTTCAAGTATAACTAGGGCCCCCAGTTG
10115157 ATGGTGATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 37 0.95
50 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (49 bp):
GTGGTTATACAATCACAGGTTCAAGTATAACTAGGGCCCCCAGTTGGCA
Found at i:10125056 original size:29 final size:27
Alignment explanation
Indices: 10124992--10125050 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
10124982 TTAGGCAAAT
10124992 ACAATAGATAATTTTTTTAGACATCCA
1 ACAATAGATAATTTTTTTAGACATCCA
10125019 ACAATAGATAATTTTTTTAGACATCC-
1 ACAATAGATAATTTTTTTAGACATCCA
10125045 ACAATA
1 ACAATA
10125051 AGAGATTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (27 bp):
ACAATAGATAATTTTTTTAGACATCCA
Found at i:10127095 original size:13 final size:14
Alignment explanation
Indices: 10127071--10127119 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
10127061 TGTTAACTTT
10127071 TTTTATTTTATTAC
1 TTTTATTTTATTAC
10127085 TTTTA-TTTATTA-
1 TTTTATTTTATTAC
*
10127097 TTATTATTTTATTTC
1 TT-TTATTTTATTAC
*
10127112 ATTTATTT
1 TTTTATTT
10127120 ACCTTGTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.07
13 10 0.33
14 17 0.57
15 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTTTATTAC
Found at i:10137762 original size:55 final size:55
Alignment explanation
Indices: 10137703--10137814 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
10137693 TTAGGAGTAA
*
10137703 GATTAAAACTAGACTATTATTAGTTTTATTTTTTTGTTTTACATTTTCTATATTG
1 GATTAAAACTAGACTATTATTAGTTTTATTTTTCTGTTTTACATTTTCTATATTG
*
10137758 GATTAAAACTAGACTATTATTTGTTTTATTTTTCTGTTTTACATTTTCTATATTG
1 GATTAAAACTAGACTATTATTAGTTTTATTTTTCTGTTTTACATTTTCTATATTG
10137813 GA
1 GA
10137815 ATCCTATACG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (55 bp):
GATTAAAACTAGACTATTATTAGTTTTATTTTTCTGTTTTACATTTTCTATATTG
Found at i:10144239 original size:36 final size:36
Alignment explanation
Indices: 10144183--10144283 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
10144173 GGAAAATATT
* * **
10144183 CATTACTTACATTTTATATCACCAATGAACAATTTA
1 CATTTCTTACATTTTATATCATCAATGAACAACCTA
* * *
10144219 CATTTCTTCCATTTTATATCATCAATGGACGACCTA
1 CATTTCTTACATTTTATATCATCAATGAACAACCTA
** *
10144255 CACCTCTTGCATTTTATATCATCAATGAA
1 CATTTCTTACATTTTATATCATCAATGAA
10144284 TGATTTTGCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.39
Consensus pattern (36 bp):
CATTTCTTACATTTTATATCATCAATGAACAACCTA
Found at i:10152422 original size:26 final size:25
Alignment explanation
Indices: 10152384--10152433 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
10152374 AATCAAATAT
*
10152384 TAAAAATATATTTATATTAATATTC
1 TAAAAATAAATTTATATTAATATTC
* *
10152409 TAAAAATTAAATTTATTTTTATATT
1 TAAAAA-TAAATTTATATTAATATT
10152434 TAATTTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAAAATAAATTTATATTAATATTC
Found at i:10153039 original size:20 final size:21
Alignment explanation
Indices: 10152995--10153039 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10152985 AACCATGTTG
* *
10152995 TTTTGTTGTTGTTTTTCCATG
1 TTTTGTTGTTGTTTTCCCATC
10153016 TTTTGTTGTTGTTTTCCCA-C
1 TTTTGTTGTTGTTTTCCCATC
10153036 TTTT
1 TTTT
10153040 TACCATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.04, C:0.13, G:0.16, T:0.67
Consensus pattern (21 bp):
TTTTGTTGTTGTTTTCCCATC
Found at i:10153040 original size:21 final size:21
Alignment explanation
Indices: 10152993--10153034 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10152983 GAAACCATGT
*
10152993 TGTTTTGTTGTTGTTTTTCCA
1 TGTTTTGTTGTTGTTTTCCCA
10153014 TGTTTTGTTGTTGTTTTCCCA
1 TGTTTTGTTGTTGTTTTCCCA
10153035 CTTTTTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.12, G:0.19, T:0.64
Consensus pattern (21 bp):
TGTTTTGTTGTTGTTTTCCCA
Found at i:10154455 original size:14 final size:14
Alignment explanation
Indices: 10154401--10154467 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
10154391 ATTATTTTAT
**
10154401 CTTAAACCTCAAAC
1 CTTAAACCTTGAAC
*
10154415 CCTAAACCTTGAA-
1 CTTAAACCTTGAAC
* *
10154428 -TTCGAACATTGAAC
1 CTT-AAACCTTGAAC
10154442 CTTAAACCTTGAAC
1 CTTAAACCTTGAAC
*
10154456 CTCAAACCTTGA
1 CTTAAACCTTGA
10154468 GGTTCGAGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
12 1 0.02
13 8 0.20
14 30 0.73
15 2 0.05
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.25
Consensus pattern (14 bp):
CTTAAACCTTGAAC
Found at i:10158863 original size:37 final size:36
Alignment explanation
Indices: 10158822--10158992 Score: 119
Period size: 37 Copynumber: 4.6 Consensus size: 36
10158812 GGTTAAATAT
* *
10158822 TGAATGTGCTCAAATGAGCAATACCTACTAATTCTGC
1 TGAATGTGCTCAAA-GAGCAATACCTACTAATTATAC
* *
10158859 TGAATGTGCTCATACA-AGCAATATCTACTGATTATAC
1 TGAATGTGCTCA-A-AGAGCAATACCTACTAATTATAC
* * * * * *
10158896 TGAACGTTCTCAGAAGAGCAATGCCTACTGATTGTAT
1 TGAATGTGCTCA-AAGAGCAATACCTACTAATTATAC
* * * * * **
10158933 TGAAAGTTTCTCAAACAAGCAATATCTAGTGGTTATAC
1 TGAATG-TGCTCAAA-GAGCAATACCTACTAATTATAC
10158971 TGAATGTGCTCAAAAGAGCAAT
1 TGAATGTGCTC-AAAGAGCAAT
10158993 GTCTACTGAA
Statistics
Matches: 106, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
36 1 0.01
37 74 0.70
38 30 0.28
39 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (36 bp):
TGAATGTGCTCAAAGAGCAATACCTACTAATTATAC
Found at i:10158959 original size:75 final size:75
Alignment explanation
Indices: 10158822--10159124 Score: 240
Period size: 75 Copynumber: 4.0 Consensus size: 75
10158812 GGTTAAATAT
* * * * * *
10158822 TGAATGTGCTCAAATGAGCAATACCTACT-AAT-TCTGCTGAATG-TGCTCATACAAGCAATATC
1 TGAACGTGCTCAAAAGAGCAATGCCTACTGAATATAT--TGAAAGTTGCTCAAACAAGCAATATC
10158884 TACTGATTATAC
64 TACTGATTATAC
* * * * *
10158896 TGAACGTTCTCAGAAGAGCAATGCCTACTGATTGTATTGAAAGTTTCTCAAACAAGCAATATCTA
1 TGAACGTGCTCAAAAGAGCAATGCCTACTGAATATATTGAAAGTTGCTCAAACAAGCAATATCTA
* *
10158961 GTGGTTATAC
66 CTGATTATAC
* * * * *
10158971 TGAATGTGCTCAAAAGAGCAATGTCTACTGAATATATTGAAAGTTGCTCAAACAAGCTATACCCA
1 TGAACGTGCTCAAAAGAGCAATGCCTACTGAATATATTGAAAGTTGCTCAAACAAGCAATATCTA
*
10159036 CTGATTTTAC
66 CTGATTATAC
* * * * ** *
10159046 TAAATGTTTGCTCAAACGAGCGATAT-CC-ACTGATTATCCT-AAATGTTTGCTCAAACAAGCGA
1 TGAACG--TGCTCAAAAGAGC-A-ATGCCTACTGAATATATTGAAA-G-TTGCTCAAACAAGCAA
* *
10159108 TATCCACAGATTATAC
60 TATCTACTGATTATAC
10159124 T
1 T
10159125 AAATGTTTGC
Statistics
Matches: 185, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
74 29 0.16
75 96 0.52
76 5 0.03
77 22 0.12
78 31 0.17
79 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (75 bp):
TGAACGTGCTCAAAAGAGCAATGCCTACTGAATATATTGAAAGTTGCTCAAACAAGCAATATCTA
CTGATTATAC
Found at i:10159203 original size:39 final size:39
Alignment explanation
Indices: 10158858--10159206 Score: 306
Period size: 39 Copynumber: 9.2 Consensus size: 39
10158848 ACTAATTCTG
* *
10158858 CTGAATG--TGCTCATACAAGCAATATCTACTGATTATA
1 CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
* * * *
10158895 CTGAACG-TT-CTCAGAA-GAGCAAT-GCCTACTGATTGTA
1 CTGAATGTTTGCTCA-AACAAGCAATATCC-ACTGATTATA
* * * * *
10158932 TTGAAAGTTT-CTCAAACAAGCAATATCTAGTGGTTATA
1 CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
* * *
10158970 CTGAATG--TGCTCAAA-AGAGCAATGTCTACTGAATATA
1 CTGAATGTTTGCTCAAACA-AGCAATATCCACTGATTATA
* * * * *
10159007 TTGAAAG-TTGCTCAAACAAGCTATACCCACTGATTTTA
1 CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
* * * *
10159045 CTAAATGTTTGCTCAAACGAGCGATATCCACTGATTATC
1 CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
* * *
10159084 CTAAATGTTTGCTCAAACAAGCGATATCCACAGATTATA
1 CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
* * **
10159123 CTAAATGTTTGCTCAAACAAGCAATATCCACTGGTCGTA
1 CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
* *
10159162 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
1 CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
10159201 CTGAAT
1 CTGAAT
10159207 AATATCTTTC
Statistics
Matches: 251, Mismatches: 50, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
36 3 0.01
37 59 0.24
38 52 0.21
39 137 0.55
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (39 bp):
CTGAATGTTTGCTCAAACAAGCAATATCCACTGATTATA
Found at i:10164326 original size:39 final size:39
Alignment explanation
Indices: 10164084--10164508 Score: 393
Period size: 39 Copynumber: 11.2 Consensus size: 39
10164074 CAGTTAAATC
* * *
10164084 CTGAATG--TGCTCAAACGAGCAATATCTATTGATTATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* ** * *
10164121 CTGAATG--TGCTCAAATGAGAAATATCTATTGATTATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* ** * *
10164158 CTGAATG--TGCTCAAAAGAGTAATGTCTACTGATTATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* ** * *
10164195 CTGAAAGTTT-CTCAAACGAGTAATATCTACTGATTATT
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* * * * * * * *
10164233 CTGAACG--TACTCAAAAGAGCAATGTCTATTGAATATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* * * * * *
10164270 CTAAAAG-TTGCTTAAATGAGCGGTATCCACTTATTATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* *
10164308 CTGAATGTTTGCTCAAATGAGCGATATCCACTGATTACA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* *
10164347 CTGAATGTTTGCTCAAATGAGCGATATCCACTGATCATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* * * *
10164386 CTAAATGTTTTCTCCAACGAGCGATATCCACTGATCATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
*
10164425 CTGAATGTTTGCTGAAACGAGCGATATCCACTGATTATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
* *
10164464 CTGAATGTTTTCTCAAACGAGTGATATCCACTGATTATA
1 CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
10164503 CTGAAT
1 CTGAAT
10164509 ATGATCTTTT
Statistics
Matches: 334, Mismatches: 49, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
36 1 0.00
37 101 0.30
38 56 0.17
39 176 0.53
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (39 bp):
CTGAATGTTTGCTCAAACGAGCGATATCCACTGATTATA
Found at i:10165958 original size:76 final size:76
Alignment explanation
Indices: 10165830--10165973 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 76
10165820 TAGCTCGGTT
* *
10165830 GAGTAACCTGATGTGTCATTATAAAGGTTTAGCTCGAAAGGGTAACTCGATATATATATGTATAC
1 GAGTAACCTGATGTGTCATTACAAAGGTTTAGCTCGAAAGAGTAACTCGATATATATATGTATAC
10165895 TAAACTCTGTC
66 TAAACTCTGTC
* * * * *
10165906 GAGTAA-CTCGATGTGTCATTGCAAAGGTTTAGCTTGGACGAGTAACTTGATATATATATGTATA
1 GAGTAACCT-GATGTGTCATTACAAAGGTTTAGCTCGAAAGAGTAACTCGATATATATATGTATA
10165970 CTAA
65 CTAA
10165974 GCTCAGACGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 2 0.03
76 58 0.97
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (76 bp):
GAGTAACCTGATGTGTCATTACAAAGGTTTAGCTCGAAAGAGTAACTCGATATATATATGTATAC
TAAACTCTGTC
Found at i:10177408 original size:16 final size:18
Alignment explanation
Indices: 10177387--10177423 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10177377 ATCATTCATA
10177387 CATTTAG-GTA-AAATTG
1 CATTTAGAGTAGAAATTG
*
10177403 CATTTAGATTAGAAATTG
1 CATTTAGAGTAGAAATTG
10177421 CAT
1 CAT
10177424 AGTGATCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (18 bp):
CATTTAGAGTAGAAATTG
Found at i:10195753 original size:15 final size:16
Alignment explanation
Indices: 10195728--10195760 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10195718 ATCGACTAGG
10195728 AAAATTAAAAATATTT
1 AAAATTAAAAATATTT
10195744 AAAA-TAAAAATATTT
1 AAAATTAAAAATATTT
10195759 AA
1 AA
10195761 TTAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTAAAAATATTT
Found at i:10205992 original size:17 final size:17
Alignment explanation
Indices: 10205970--10206002 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10205960 GTTAGTGCAC
10205970 ATTGTCACTGCATTTTT
1 ATTGTCACTGCATTTTT
*
10205987 ATTGTCATTGCATTTT
1 ATTGTCACTGCATTTT
10206003 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:10206236 original size:29 final size:29
Alignment explanation
Indices: 10206203--10206260 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10206193 TCAATGAATG
10206203 AGTTGGATAAATTTGATTGAATGTTGTAT
1 AGTTGGATAAATTTGATTGAATGTTGTAT
10206232 AGTTGGATAAATTTGATTGAATGTTGTAT
1 AGTTGGATAAATTTGATTGAATGTTGTAT
10206261 CTTCAATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (29 bp):
AGTTGGATAAATTTGATTGAATGTTGTAT
Found at i:10210313 original size:24 final size:24
Alignment explanation
Indices: 10210285--10210342 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
10210275 CGCTCACTGT
10210285 CTTATTTCTCTTTCTCTCATATTC
1 CTTATTTCTCTTTCTCTCATATTC
10210309 CTTATTTCTCTTTCTCTCATATTC
1 CTTATTTCTCTTTCTCTCATATTC
10210333 CTTATTTCTC
1 CTTATTTCTC
10210343 CTTTATAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (24 bp):
CTTATTTCTCTTTCTCTCATATTC
Found at i:10213603 original size:42 final size:42
Alignment explanation
Indices: 10213541--10213628 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
10213531 TGCATTGATT
* *
10213541 ATAGGAAGTACGTCCCTTGATTCTGGGTGATTAGAGTTAAAG
1 ATAGGAAGTACGTCCCTTGATTCGGGGTGATTAAAGTTAAAG
* *
10213583 ATAGGGAGTACGTCCTTTGATTCGGGGTGATTAAAGTTAAAG
1 ATAGGAAGTACGTCCCTTGATTCGGGGTGATTAAAGTTAAAG
10213625 ATAG
1 ATAG
10213629 ATAATTTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.31
Consensus pattern (42 bp):
ATAGGAAGTACGTCCCTTGATTCGGGGTGATTAAAGTTAAAG
Found at i:10220245 original size:31 final size:31
Alignment explanation
Indices: 10220210--10220269 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10220200 ACTGAAAGTG
* * *
10220210 CGTCCTATAGGGCGTGTCTTCAC-TGAAAACA
1 CGTCCTACAAGGCATGTCTTC-CTTGAAAACA
10220241 CGTCCTACAAGGCATGTCTTCCTTGAAAA
1 CGTCCTACAAGGCATGTCTTCCTTGAAAA
10220270 TTTTCTTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
CGTCCTACAAGGCATGTCTTCCTTGAAAACA
Found at i:10226390 original size:19 final size:19
Alignment explanation
Indices: 10226366--10226419 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
10226356 CATGAAAAAG
*
10226366 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
10226385 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
10226404 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
10226420 AAATAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:10227307 original size:24 final size:22
Alignment explanation
Indices: 10227275--10227336 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 22
10227265 AGTGTATTGT
10227275 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTA-ATTTATCA
* *
10227298 TGTTTTATTATTTGTAATTTATCA
1 -ATATTATTATTT-TAATTTATCA
10227322 ATATTATTATTTTAA
1 ATATTATTATTTTAA
10227337 ATTCACTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.09
23 10 0.30
24 18 0.55
25 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (22 bp):
ATATTATTATTTTAATTTATCA
Found at i:10227356 original size:70 final size:69
Alignment explanation
Indices: 10227279--10227476 Score: 172
Period size: 69 Copynumber: 2.9 Consensus size: 69
10227269 TATTGTATAT
* ** *
10227279 TATTATTTTAGATTTATCATGTTTTAT-TATTTGTAATTTATCAATATTATTATTTTAAATTCAC
1 TATTATTTTAGATTTATCATG-TATATCTATTTCAAATTTATCAATAATA-T-TTTTAAATTCAC
* *
10227343 TGTTAAC
63 TATAAAC
* * * * *
10227350 -ATTATTTTAAATTTACCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATTTATTAT
1 TATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATTCACTAT
10227414 AAAC
66 AAAC
* * * *
10227418 TATTATTTTGGATTTATCACGTATGAT-TATTCCAGAA-TTATC-ATCAAAATTTTTAAATT
1 TATTATTTTAGATTTATCATGTAT-ATCTATTTCA-AATTTATCAAT-AATATTTTTAAATT
10227477 TTATATGTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
68 16 0.15
69 48 0.46
70 40 0.38
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (69 bp):
TATTATTTTAGATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATTCACTAT
AAAC
Found at i:10227426 original size:24 final size:23
Alignment explanation
Indices: 10227279--10227409 Score: 81
Period size: 23 Copynumber: 5.7 Consensus size: 23
10227269 TATTGTATAT
* * **
10227279 TATTATTTTAGATTTATCATGTTT
1 TATTATTTTAAATTTACCAT-TAA
* * *
10227303 TATTATTTGT-AATTTATCAATAT
1 TATTATTT-TAAATTTACCATTAA
* **
10227326 TATTATTTTAAATTCACTGTTAA
1 TATTATTTTAAATTTACCATTAA
*
10227349 CATTATTTTAAATTTACCATGT-A
1 TATTATTTTAAATTTACCAT-TAA
* *
10227372 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTTAAATTTACCATTAA
10227396 TA-T-TTTTAAATTTA
1 TATTATTTTAAATTTA
10227410 TTATAAACTA
Statistics
Matches: 85, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
21 10 0.12
22 2 0.02
23 37 0.44
24 35 0.41
25 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTATTTTAAATTTACCATTAA
Found at i:10229289 original size:16 final size:16
Alignment explanation
Indices: 10229264--10229298 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10229254 TTATGTTTTG
*
10229264 TTTTGCCTGCATGACA
1 TTTTGACTGCATGACA
*
10229280 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
10229296 TTT
1 TTT
10229299 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:10231841 original size:12 final size:11
Alignment explanation
Indices: 10231823--10231890 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
10231813 AAAAAATCAA
10231823 AAAAATGAAAATG
1 AAAAA-GAAAA-G
* *
10231836 AAAATGATA-G
1 AAAAAGAAAAG
10231846 AAAAAGAAAAG
1 AAAAAGAAAAG
*
10231857 AAAAGGAAAAAG
1 AAAAAG-AAAAG
10231869 AAAAAGAAAAGG
1 AAAAAGAAAA-G
*
10231881 AAAAGGAAAA
1 AAAAAGAAAA
10231891 AGAGAGGCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
10 8 0.18
11 10 0.22
12 23 0.51
13 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:10231873 original size:7 final size:6
Alignment explanation
Indices: 10231844--10231893 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
10231834 TGAAAATGAT
* * *
10231844 AGAAAA AG-AAA AGAAAA GGAAAA AGAAAA AGAAAA GGAAAA GGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
10231891 AGA
1 AGA
10231894 GAGGCCAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:10231873 original size:18 final size:18
Alignment explanation
Indices: 10231845--10231893 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
10231835 GAAAATGATA
10231845 GAAAAAG-AAAAGAAAAG
1 GAAAAAGAAAAAGAAAAG
10231862 GAAAAAGAAAAAGAAAAG
1 GAAAAAGAAAAAGAAAAG
*
10231880 GAAAAGGAAAAAGA
1 GAAAAAGAAAAAGA
10231894 GAGGCCAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 7 0.23
18 23 0.77
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAAAG
Found at i:10234147 original size:45 final size:45
Alignment explanation
Indices: 10234093--10234867 Score: 1027
Period size: 45 Copynumber: 17.2 Consensus size: 45
10234083 GGAGTAGGTT
* * * *
10234093 GAAGATAGCATATTTTGTCCTCCTGTATTGGCAG-TACAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA-AGTAGATC
* ** *
10234138 GAAGTTAGCAGATCTTGTCTTCCTACATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
10234183 GAAGATAGCAGATCTTGTCTTTCTATATTGGCAGCGAAGTAAATTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-TC
* * *
10234229 -AAGTTAGTAGATATTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
10234273 GAACATAGCAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
10234318 GAATATAGCA-ATTTTTGTCTTCTTGTACTGGCAGCGAAGTAGATC
1 GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
10234363 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
10234408 GAAGCTAGCAGATCTTATCTTCCTGTATTGGCAGCGAAATAAATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
10234453 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCTAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
10234498 GAAGATAGCAAATCTTGTCTTCATGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
10234543 GAAGATAGCAGATC-TGATCTTCTTGTATTGACAGTGAAGTAGATT
1 GAAGATAGCAGATCTTG-TCTTCCTGTATTGGCAGCGAAGTAGATC
* *
10234588 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCACCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
10234633 GAAGATAGCAGATTTTGTCTTCCTGTATTGACAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
10234678 AAAGTTAGCAGATCTTGTCTTCCTGTATTGGAAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
10234723 GTAGATAGCAGATCTTGTATTCCTGTAGTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
10234768 GAAGTTAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
10234813 AAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCAAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
10234858 CAAGATAGCA
1 GAAGATAGCA
10234868 AATATTGTTG
Statistics
Matches: 634, Mismatches: 89, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
44 5 0.01
45 623 0.98
46 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:10236504 original size:45 final size:45
Alignment explanation
Indices: 10236440--10237813 Score: 1561
Period size: 45 Copynumber: 30.8 Consensus size: 45
10236430 ACAGCTACCA
* * *
10236440 CTTGTCTTCTTATATTGGCAGCAAAGTAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
10236485 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10236530 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCCAAGATAGCAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10236575 CTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCATAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10236620 CTTGTCTTCCTGTATTGGCAGGGAAGTAGATTGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
*
10236665 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * * * ** * * *
10236710 CTTGTCTGATAGCAGATTTTGTCTTCTTGCATTGGCAGCGAAGTAGATCAACGATAGCAGAT
1 CTTGTCT--T-CCTG-TATTGGCAGC--G-A--AGTA--G-A-TCG---AA-GATAGCAGAT
* * *
10236772 CTTGTCTTCCTGTAGTGGCAGTGAAGTAGAAT-GAAGTTAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCGAAGATAGCAGAT
* *
10236817 CTTCTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAACAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * *
10236862 CTTGTCTTCTTGTAGTGGCAGTGAAGTAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * *
10236907 CTTGTCTTCCTGTACTAGCAGCGAAGTAGATCGAAGATAGAAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* ** * *
10236952 CTTGTCTTTCTGTATTTACAGCGAAGTAAATCGAAGATAGCAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
*
10236997 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGTAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
*
10237042 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGCTAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * * * * * *
10237087 ATTATCTTTCTGTTTTGGCAGCAAAGTAAATCAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * *
10237132 CTTGTCTTCCTATATTGGCAGCTAAGTAGATCGAAGAGAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * * *
10237177 CTTGTCTTCCTGTATTGGCAGCGAAGCATATTG-AGTTAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
**
10237221 CTTGTCTTTTTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
** * *
10237266 CTTGTCTTCCTGTATTCACAGTGAAGTAGATCGAAAATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10237311 CTTGTCTTCCTGTACTGGCAGCAAAGTAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10237356 CTTGTATTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * * *
10237401 CTTGTCTTCTTGTGTTGGCATCGAAATAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * *
10237446 CTTGTCTTCCTGTACTGGCAGCAAAGTAGATTGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10237491 CTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * * * *
10237536 CCTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAGATAGTAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * *
10237581 CTTGTCGTCCTGTACT-G--GC-----AG--CGAAGATAGCAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * *
10237616 CTTGTTTTCCTGTACTGGCAGC---G-A-AT-----ATAGCAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10237651 CTTGTCTTCCTGTATTGGTAGCGAAGTAGATCGAAGATAGCCGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* *
10237696 CTTGTTTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
* * *
10237741 CTTGTGTTCCTATATT-G--GC-----AG--CGAAGATAGCAAAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
*
10237776 CTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGAT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
10237814 TGTAAATCTT
Statistics
Matches: 1131, Mismatches: 153, Indels: 90
0.82 0.11 0.07
Matches are distributed among these distances:
35 83 0.07
36 2 0.00
37 4 0.00
38 5 0.00
39 2 0.00
40 2 0.00
42 3 0.00
43 2 0.00
44 41 0.04
45 933 0.82
46 2 0.00
47 1 0.00
48 2 0.00
49 7 0.01
50 1 0.00
51 4 0.00
52 1 0.00
53 2 0.00
54 2 0.00
55 1 0.00
56 2 0.00
57 1 0.00
58 6 0.01
59 2 0.00
60 1 0.00
61 2 0.00
62 17 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGAT
Found at i:10236722 original size:17 final size:17
Alignment explanation
Indices: 10236700--10236733 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10236690 GTAGATTGAA
10236700 GATAGCAGATCTTGTCT
1 GATAGCAGATCTTGTCT
*
10236717 GATAGCAGATTTTGTCT
1 GATAGCAGATCTTGTCT
10236734 TCTTGCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (17 bp):
GATAGCAGATCTTGTCT
Found at i:10236752 original size:62 final size:62
Alignment explanation
Indices: 10236655--10236778 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
10236645 GTAGATTGAA
* *
10236655 GATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAA-GATAGCAGATCTTGTCT
1 GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGA-TCAACGATAGCAGATCTTGTCT
* *
10236717 GATAGCAGATTTTGTCTTCTTGCATTGGCAGCGAAGTAGATCAACGATAGCAGATCTTGTCT
1 GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATCAACGATAGCAGATCTTGTCT
10236779 TCCTGTAGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
61 3 0.05
62 54 0.95
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (62 bp):
GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATCAACGATAGCAGATCTTGTCT
Found at i:10236798 original size:107 final size:107
Alignment explanation
Indices: 10236610--10236819 Score: 314
Period size: 107 Copynumber: 2.0 Consensus size: 107
10236600 GTAGATCGAA
* * * *
10236610 GATAGCATATCTTGTCTTCCTGTATTGGCAGGGAAGTAGATTGAAGATAGCAGATCTTGTCTTCC
1 GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATTCAAGATAGCAGATCTTGTCTTCC
* *
10236675 TGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCT
66 TGTAGTGGCAGCGAAGTAGAATGAAGATAGCAGATCTTGTCT
* *
10236717 GATAGCAGATTTTGTCTTCTTGCATTGGCAGCGAAGTAGA-TCAACGATAGCAGATCTTGTCTTC
1 GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATTCAA-GATAGCAGATCTTGTCTTC
* *
10236781 CTGTAGTGGCAGTGAAGTAGAATGAAGTTAGCAGATCTT
65 CTGTAGTGGCAGCGAAGTAGAATGAAGATAGCAGATCTT
10236820 CTCTTCCTGT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 3 0.03
107 89 0.97
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (107 bp):
GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATTCAAGATAGCAGATCTTGTCTTCC
TGTAGTGGCAGCGAAGTAGAATGAAGATAGCAGATCTTGTCT
Found at i:10236841 original size:152 final size:152
Alignment explanation
Indices: 10236565--10236868 Score: 475
Period size: 152 Copynumber: 2.0 Consensus size: 152
10236555 GTAGATCCAA
* *
10236565 GATAGCAAATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCATATCTTGTCTTCC
1 GATAGCAAATCTTGTCTTCCTACATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCC
* * *
10236630 TGTATTGGCAGGGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
66 TGTAGTGGCAGGGAAGTAGAATGAAGATAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTAGA
* *
10236695 TTGAAGATAGCAGATCTTGTCT
131 TCGAAGATAACAGATCTTGTCT
* * * *
10236717 GATAGCAGATTTTGTCTTCTTGCATTGGCAGCGAAGTAGATC-AACGATAGCAGATCTTGTCTTC
1 GATAGCAAATCTTGTCTTCCTACATTGGCAGCGAAGTAGATCGAA-GATAGCAGATCTTGTCTTC
* *
10236781 CTGTAGTGGCAGTGAAGTAGAATGAAGTTAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTAG
65 CTGTAGTGGCAGGGAAGTAGAATGAAGATAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTAG
10236846 ATCGAAGATAACAGATCTTGTCT
130 ATCGAAGATAACAGATCTTGTCT
10236869 TCTTGTAGTG
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
151 2 0.01
152 136 0.99
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (152 bp):
GATAGCAAATCTTGTCTTCCTACATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCC
TGTAGTGGCAGGGAAGTAGAATGAAGATAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTAGA
TCGAAGATAACAGATCTTGTCT
Found at i:10236855 original size:197 final size:197
Alignment explanation
Indices: 10236520--10236913 Score: 603
Period size: 197 Copynumber: 2.0 Consensus size: 197
10236510 GTAGATCGAA
*
10236520 GATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCCAAGATAGCAAATCTTGTCTTCC
1 GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATCCAAGATAGCAAATCTTGTCTTCC
* * * *
10236585 TATATTGGCAGCGAAGTAGATCGAAGATAGCATATCTTGTCTTCCTGTATTGGCAGGGAAGTAGA
66 TATAGTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTAGA
* * * *
10236650 TTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGT
131 TCGAAGATAACAGATCTTGTCTTCCTGTAGTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
10236715 CT
196 CT
* * *
10236717 GATAGCAGATTTTGTCTTCTTGCATTGGCAGCGAAGTAGAT-CAACGATAGCAGATCTTGTCTTC
1 GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATCCAA-GATAGCAAATCTTGTCTTC
* * *
10236781 CTGTAGTGGCAGTGAAGTAGAAT-GAAGTTAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTA
65 CTATAGTGGCAGCGAAGTAG-ATCGAAGATAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTA
* *
10236845 GATCGAAGATAACAGATCTTGTCTTCTTGTAGTGGCAGTGAAGTAGATCGAAGATAGCAGATCTT
129 GATCGAAGATAACAGATCTTGTCTTCCTGTAGTGGCAGCGAAGTAGATCGAAGATAGCAGATCTT
10236910 GTCT
194 GTCT
10236914 TCCTGTACTA
Statistics
Matches: 178, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
196 3 0.02
197 173 0.97
198 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (197 bp):
GATAGCAGATCTTGTCTTCCTGCATTGGCAGCGAAGTAGATCCAAGATAGCAAATCTTGTCTTCC
TATAGTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTCTCTTCCTGTATTGGCAGCGAAGTAGA
TCGAAGATAACAGATCTTGTCTTCCTGTAGTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGT
CT
Found at i:10237616 original size:35 final size:35
Alignment explanation
Indices: 10237567--10237801 Score: 173
Period size: 35 Copynumber: 6.1 Consensus size: 35
10237557 TGAAGTAGAT
* *
10237567 CGAAGATAGTAAATCTTGTCGTCCTGTACTGGCAG
1 CGAAGATAGCAAATCTTGTCTTCCTGTACTGGCAG
*
10237602 CGAAGATAGCAAATCTTGTTTTCCTGTACTGGCAG
1 CGAAGATAGCAAATCTTGTCTTCCTGTACTGGCAG
* *
10237637 CGAATATAGCAAATCTTGTCTTCCTGTATTGGTAGCGAAGTAG
1 CGAAGATAGCAAATCTTGTCTTCCTGTACT-G--GC-----AG
** * *
10237680 ATCGAAGATAGCCGATCTTGTTTTCCTGTATTGGCAGCGAAGTAG
1 --CGAAGATAGCAAATCTTGTCTTCCTGTACT-G--GC-----AG
* * *
10237725 ATCGAAGATAGCAAATCTTGTGTTCCTATATTGGCAG
1 --CGAAGATAGCAAATCTTGTCTTCCTGTACTGGCAG
*
10237762 CGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAG
1 CGAAGATAGCAAATCTTGTCTTCCTGTACTGGCAG
10237797 CGAAG
1 CGAAG
10237802 CAGATCGAAG
Statistics
Matches: 173, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
35 97 0.56
36 1 0.01
37 2 0.01
38 2 0.01
42 2 0.01
43 2 0.01
44 1 0.01
45 66 0.38
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (35 bp):
CGAAGATAGCAAATCTTGTCTTCCTGTACTGGCAG
Found at i:10237635 original size:80 final size:80
Alignment explanation
Indices: 10237524--10237823 Score: 280
Period size: 80 Copynumber: 3.8 Consensus size: 80
10237514 AAGTAGATCA
* * * * *
10237524 AAGATAGCAGATCCTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAGATAGTAAATCTTGTCGT
1 AAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGTCGT
*
10237589 CCTGTACTGGCAGCG
66 CCTGTATTGGCAGCG
* * *
10237604 AAGATAGCAAATCTTGTTTTCCTGTACTGGCAGC---G-A-AT-----ATAGCAAATCTTGTCTT
1 AAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGTCGT
10237659 CCTGTATTGGTAGCGAAGTAGATCG
66 CCTGTATT-G--GC-----AG--CG
** *
10237684 AAGATAGCCGATCTTGTTTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGT-GT
1 AAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGTCG-
*
10237748 TCCTATATTGGCAGCG
65 TCCTGTATTGGCAGCG
* * *
10237764 AAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGATTGTAAATCTT
1 AAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTT
10237824 ATCTTCCCAA
Statistics
Matches: 179, Mismatches: 20, Indels: 42
0.74 0.08 0.17
Matches are distributed among these distances:
70 22 0.12
71 1 0.01
73 2 0.01
75 2 0.01
76 1 0.01
77 1 0.01
78 2 0.01
80 117 0.65
82 2 0.01
83 1 0.01
84 1 0.01
85 2 0.01
87 2 0.01
89 1 0.01
90 22 0.12
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (80 bp):
AAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGTCGT
CCTGTATTGGCAGCG
Found at i:10237762 original size:160 final size:160
Alignment explanation
Indices: 10237482--10237800 Score: 496
Period size: 160 Copynumber: 2.0 Consensus size: 160
10237472 TAGATTGAAG
*
10237482 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCT
1 ATAGCAAATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCT
* * *
10237547 ATATTGGCAGTGAAGTAGATCGAAGATAGTAAATCTTGTCGTCCTGTACTGGCAGCGAAGATAGC
66 ATATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGTCGTCCTATACTGGCAGCGAAGATAGC
*
10237612 AAATCTTGTTTTCCTGTACTGGCAGCGAAT
131 AAATCTTGTCTTCCTGTACTGGCAGCGAAT
* * * * * *
10237642 ATAGCAAATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCGAAGATAGCCGATCTTGTTTTCCT
1 ATAGCAAATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCT
* *
10237707 GTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGT-GTTCCTATATTGGCAGCGAAGATAG
66 ATATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGTCG-TCCTATACTGGCAGCGAAGATAG
*
10237771 CAAATCTTGTCTTCCTGTATTGGCAGCGAA
130 CAAATCTTGTCTTCCTGTACTGGCAGCGAA
10237801 GCAGATCGAA
Statistics
Matches: 144, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
159 1 0.01
160 143 0.99
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (160 bp):
ATAGCAAATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCT
ATATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTGTCGTCCTATACTGGCAGCGAAGATAGC
AAATCTTGTCTTCCTGTACTGGCAGCGAAT
Found at i:10237932 original size:44 final size:44
Alignment explanation
Indices: 10237869--10238075 Score: 141
Period size: 44 Copynumber: 4.7 Consensus size: 44
10237859 ACTAATCCCC
* * * **
10237869 TCTCCCTTAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCCTG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTAGATCCTG
* * * *
10237913 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCAGCAAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTAGATCCTG
* * ** * * **
10237957 TCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAAGCCACTA-ATCCCC
1 TC-TCCCTAA-GCAGTAGTGG-AGTAGATCGAAGACAGTAGATCCTG
* * * **
10238001 TCTCCCTTAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCCTG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTAGATCCTG
* * *
10238045 TATCCCTAAGTAGTAGTGGAGCAGATCGAAG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAG
10238076 GTAGCGAATC
Statistics
Matches: 120, Mismatches: 37, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
43 19 0.16
44 79 0.66
45 22 0.18
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTAGATCCTG
Found at i:10238040 original size:132 final size:132
Alignment explanation
Indices: 10237817--10238091 Score: 496
Period size: 132 Copynumber: 2.1 Consensus size: 132
10237807 CGAAGATTGT
10237817 AAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAATCCCCTCTCCCTTAGCAG
1 AAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAATCCCCTCTCCCTTAGCAG
* *
10237882 CAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCA
66 CAGTGGAGTAGGTCGAAGATTGTAGATCCTGTATCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
10237947 GC
131 GC
*
10237949 AAATCCTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAATCCCCTCTCCCTTAGCAG
1 AAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAATCCCCTCTCCCTTAGCAG
* *
10238014 CAGTGGAGTAGGTCGAAGATTGTAGATCCTGTATCCCTAAGTAGTAGTGGAGCAGATCGAAGGTA
66 CAGTGGAGTAGGTCGAAGATTGTAGATCCTGTATCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
10238079 GC
131 GC
*
10238081 GAATCTTATCT
1 AAATCTTATCT
10238092 CCTTGGCGCT
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 136 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (132 bp):
AAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAATCCCCTCTCCCTTAGCAG
CAGTGGAGTAGGTCGAAGATTGTAGATCCTGTATCCCTAAGCAGTAGTGGAGCAGATCGAAGGCA
GC
Found at i:10238614 original size:21 final size:23
Alignment explanation
Indices: 10238570--10238614 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
10238560 TATGATATGC
*
10238570 AATCTTAGAAGATAATATTTTGT
1 AATCTTAGAAGATAATAATTTGT
*
10238593 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATAATAATTTGT
10238614 A
1 A
10238615 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATAATAATTTGT
Found at i:10239485 original size:23 final size:23
Alignment explanation
Indices: 10239421--10239513 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
10239411 AGTGTATTGT
*
10239421 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTAAATTTATCA
* * * *
10239444 TGTTTTACTATTTTTAATTTATCA
1 -ATATTATTATTTTAAATTTATCA
* **
10239468 ATATTATTATTTTAAATTCATTG
1 ATATTATTATTTTAAATTTATCA
* **
10239491 TTAACATTATTTTAAATTTATCA
1 ATATTATTATTTTAAATTTATCA
10239514 TGTAAATCTA
Statistics
Matches: 51, Mismatches: 18, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
23 33 0.65
24 18 0.35
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.57
Consensus pattern (23 bp):
ATATTATTATTTTAAATTTATCA
Found at i:10239572 original size:24 final size:24
Alignment explanation
Indices: 10239420--10239649 Score: 106
Period size: 24 Copynumber: 9.9 Consensus size: 24
10239410 AAGTGTATTG
*
10239420 TATATTATTATTTTAGATTTATCA
1 TATATTATTATTTTAAATTTATCA
* * * *
10239444 TGTTTTACTATTTTTAATTTATCA
1 TATATTATTATTTTAAATTTATCA
* **
10239468 -ATATTATTATTTTAAATTCATTG
1 TATATTATTATTTTAAATTTATCA
**
10239491 T-TAACATTATTTTAAATTTATCA
1 TATATTATTATTTTAAATTTATCA
* * *
10239514 TGTA-AATCTATTTCAAATTTATCA
1 TATATTAT-TATTTTAAATTTATCA
* *
10239538 TCA-A--AAT-TTTTAAATTTATTA
1 T-ATATTATTATTTTAAATTTATCA
* **
10239559 TATACTATTATTTTGGATTTATCA
1 TATATTATTATTTTAAATTTATCA
** * *
10239583 CGTATGATTATTCTAGAA-TTATCA
1 TATATTATTATTTTA-AATTTATCA
* *
10239607 T-TA-AAAT-TTTTAAATTTTAT-A
1 TATATTATTATTTTAAA-TTTATCA
* *
10239628 TGTATTATTATTTCAAATTTAT
1 TATATTATTATTTTAAATTTAT
10239650 TATTTATTGT
Statistics
Matches: 151, Mismatches: 41, Indels: 29
0.68 0.19 0.13
Matches are distributed among these distances:
20 3 0.02
21 20 0.13
22 9 0.06
23 48 0.32
24 70 0.46
25 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (24 bp):
TATATTATTATTTTAAATTTATCA
Found at i:10244131 original size:34 final size:34
Alignment explanation
Indices: 10244078--10244142 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
10244068 TTTTTTAGGA
* * *
10244078 TTAGGGTTTTGTTTATTTAAATTAGGGTTTAAGG
1 TTAGGGTTTTATTTATTTAAAGTAAGGTTTAAGG
* *
10244112 TTAGGTTTTTATTTGTTTAAAGTAAGGTTTA
1 TTAGGGTTTTATTTATTTAAAGTAAGGTTTA
10244143 GGGGTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (34 bp):
TTAGGGTTTTATTTATTTAAAGTAAGGTTTAAGG
Found at i:10246115 original size:29 final size:29
Alignment explanation
Indices: 10246083--10246140 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10246073 AAGCCATTTC
10246083 CTTCACCCATTTCAAACGTGTACTTACAA
1 CTTCACCCATTTCAAACGTGTACTTACAA
10246112 CTTCACCCATTTCAAACGTGTACTTACAA
1 CTTCACCCATTTCAAACGTGTACTTACAA
10246141 GCAATATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (29 bp):
CTTCACCCATTTCAAACGTGTACTTACAA
Found at i:10251898 original size:2 final size:2
Alignment explanation
Indices: 10251891--10251919 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10251881 TGGGAGACAT
10251891 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10251920 TTTAAAGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10253377 original size:38 final size:38
Alignment explanation
Indices: 10253324--10253427 Score: 154
Period size: 38 Copynumber: 2.7 Consensus size: 38
10253314 TGGTAACCAA
* *
10253324 CCGATAACACGCCAGTTTGCTCATAAGAGCTATTTCAT
1 CCGATAACACACCAGTTTGCTCATAAGAGCTATTCCAT
* *
10253362 CTGATAACACACCAGTTTGCTCATAAGAGTTATTCCAT
1 CCGATAACACACCAGTTTGCTCATAAGAGCTATTCCAT
* *
10253400 CCAATAATACACCAGTTTGCTCATAAGA
1 CCGATAACACACCAGTTTGCTCATAAGA
10253428 TTTATAATTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (38 bp):
CCGATAACACACCAGTTTGCTCATAAGAGCTATTCCAT
Found at i:10260701 original size:7 final size:7
Alignment explanation
Indices: 10260689--10260722 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
10260679 ACTTTGGCTA
10260689 AAACCCT
1 AAACCCT
10260696 AAACCCT
1 AAACCCT
*
10260703 AAACTCT
1 AAACCCT
10260710 AAAACCCT
1 -AAACCCT
10260718 AAACC
1 AAACC
10260723 TTTACAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:10274076 original size:13 final size:13
Alignment explanation
Indices: 10274058--10274089 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10274048 GAGCACATAT
10274058 AAAACATAACTTG
1 AAAACATAACTTG
*
10274071 AAAACATAAGTTG
1 AAAACATAACTTG
10274084 AAAACA
1 AAAACA
10274090 GAGTTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.19
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:10275278 original size:3 final size:3
Alignment explanation
Indices: 10275270--10275305 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10275260 AAGGGTCAAG
10275270 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10275306 ACAAAATGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10286886 original size:17 final size:17
Alignment explanation
Indices: 10286843--10286886 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
10286833 AAATTACCTG
*
10286843 TACAAATATAATATACA
1 TACAAATATAATACACA
* *
10286860 TACAAGTATAATACATA
1 TACAAATATAATACACA
*
10286877 TATAAATATA
1 TACAAATATA
10286887 TGTCTCACTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (17 bp):
TACAAATATAATACACA
Found at i:10287054 original size:21 final size:22
Alignment explanation
Indices: 10287028--10287071 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
10287018 TTGCAAATGA
*
10287028 TAAGACTTGAATCC-CAACCTT
1 TAAGACTTGAAGCCTCAACCTT
10287049 TAAGACTTGAAGCCTCAACCTT
1 TAAGACTTGAAGCCTCAACCTT
10287071 T
1 T
10287072 TCGATGAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (22 bp):
TAAGACTTGAAGCCTCAACCTT
Found at i:10291397 original size:2 final size:2
Alignment explanation
Indices: 10291390--10291417 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10291380 GTATTAAAAG
10291390 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10291418 GTGAGGCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10302179 original size:18 final size:18
Alignment explanation
Indices: 10302158--10302197 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10302148 CTTTCTTCAA
* *
10302158 TTTCTGTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
10302176 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
10302194 TTTC
1 TTTC
10302198 ACTCTCAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.25, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:10311070 original size:25 final size:25
Alignment explanation
Indices: 10311007--10311149 Score: 133
Period size: 25 Copynumber: 5.7 Consensus size: 25
10310997 GTCGTTATAG
* * * *
10311007 AATTTACCTCAAAGGCTTTCCAGGT
1 AATTCACCACAAAGGCTTTTCAGAT
* *
10311032 AATACGCCACAAAGGCTTTTCAGAT
1 AATTCACCACAAAGGCTTTTCAGAT
* ** *
10311057 AATTTACCGTAAAGGATTTTCAGAT
1 AATTCACCACAAAGGCTTTTCAGAT
** * *
10311082 AATTTGCCACAAATGCTTTTTAGAT
1 AATTCACCACAAAGGCTTTTCAGAT
* * *
10311107 AATTCACCATAAAGGCTTTTTAAAT
1 AATTCACCACAAAGGCTTTTCAGAT
10311132 AATTCACCACAAAGGCTT
1 AATTCACCACAAAGGCTT
10311150 GGTCTTGTTT
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 94 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (25 bp):
AATTCACCACAAAGGCTTTTCAGAT
Found at i:10311484 original size:23 final size:23
Alignment explanation
Indices: 10311454--10311502 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
10311444 ATCAAAGCAC
10311454 CACCACATGGTCTTTTATCTTAA
1 CACCACATGGTCTTTTATCTTAA
10311477 CACCACATGGTCTTTTATCTTAA
1 CACCACATGGTCTTTTATCTTAA
10311500 CAC
1 CAC
10311503 ATACTTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.37
Consensus pattern (23 bp):
CACCACATGGTCTTTTATCTTAA
Found at i:10313032 original size:10 final size:10
Alignment explanation
Indices: 10313017--10313043 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10313007 ATAAGTACCA
10313017 AAACATATTC
1 AAACATATTC
10313027 AAACATATTC
1 AAACATATTC
10313037 AAACATA
1 AAACATA
10313044 CCATTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (10 bp):
AAACATATTC
Found at i:10313707 original size:39 final size:39
Alignment explanation
Indices: 10313664--10313755 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 39
10313654 TCATTTCGAG
* * * *
10313664 TAATCAGTGGATATCATTCTTTTGAGAAAATATTCAGTA
1 TAATCAGTGGATATCACTCATTTAAGAAAACATTCAGTA
* * * *
10313703 TAATCAATGGGTATCGCTCATTTAAGCAAACATTCAGTA
1 TAATCAGTGGATATCACTCATTTAAGAAAACATTCAGTA
10313742 TAATCAGTGGATAT
1 TAATCAGTGGATAT
10313756 TGCTTGTTTG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (39 bp):
TAATCAGTGGATATCACTCATTTAAGAAAACATTCAGTA
Found at i:10313833 original size:36 final size:37
Alignment explanation
Indices: 10313735--10314151 Score: 463
Period size: 36 Copynumber: 11.4 Consensus size: 37
10313725 TAAGCAAACA
* * *
10313735 TTCAGTATAATCAGTGGATATTGCTTGTTTGAGCAACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGC-ACT
* * * *
10313773 ATTCAATAGAATTAGTAAATATTGCTCGTTTGAACAC-
1 -TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * * *
10313810 TTCAGTAGAACCAGTAGACATTGCTCTTTTGAGCACG
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * * *
10313847 TTCAATAGGATCAGTAGATATTGATTG-TTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
10313883 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
*
10313919 TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACAT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-T
* * *
10313957 TT-AGTAGGATCAGTAGATATTTCTCG-TTGAGCGCT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* *
10313992 TTCAGTAGAATCAATAGATATTGCTCGTTTGAGAACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * * *
10314029 TTCAGTAGAATCAGTAGACATTGCTTGTTTGATCACA
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * *
10314066 TTCAATAGGATCAGTAGATATTGCTTG-TTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
* * * *
10314102 TTCAGTAGTATTAGTAGATATTACTC-CTTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
10314138 TT-AGTAGAATCAGT
1 TTCAGTAGAATCAGT
10314152 GTTCCCCTTT
Statistics
Matches: 317, Mismatches: 54, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
35 13 0.04
36 162 0.51
37 111 0.35
38 4 0.01
39 27 0.09
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (37 bp):
TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACT
Found at i:10313889 original size:73 final size:73
Alignment explanation
Indices: 10313735--10314151 Score: 409
Period size: 73 Copynumber: 5.7 Consensus size: 73
10313725 TAAGCAAACA
* * * * *
10313735 TTCAGTATAATCAGTGGATATTGCT-TGTTTGAGCAACTATTCAATAGAATTAGTAAATATTGCT
1 TTCAGTAGAATCAGTAGACATTGCTCT-TTTGAGC-AC--TTCAATAGAATCAGTAGATATTGCT
*
10313799 CGTTTGAACAC-
62 CGTTTGAGCACT
* * * *
10313810 TTCAGTAGAACCAGTAGACATTGCTCTTTTGAGCACGTTCAATAGGATCAGTAGATATTGATTG-
1 TTCAGTAGAATCAGTAGACATTGCTCTTTTGAGCAC-TTCAATAGAATCAGTAGATATTGCTCGT
10313874 TTGAGCACT
65 TTGAGCACT
* * * *
10313883 TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCGTT
1 TTCAGTAGAATCAGTAGACATTGCTCTTTTGAGCACTTCAATAGAATCAGTAGATATTGCTCGTT
10313948 TGAGCACAT
66 TGAGCAC-T
* * * * * * *
10313957 TT-AGTAGGATCAGTAGATATTTCTC-GTTGAGCGCTTTCAGTAGAATCAATAGATATTGCTCGT
1 TTCAGTAGAATCAGTAGACATTGCTCTTTTGAGCAC-TTCAATAGAATCAGTAGATATTGCTCGT
*
10314020 TTGAGAACT
65 TTGAGCACT
* * *
10314029 TTCAGTAGAATCAGTAGACATTGCT-TGTTTGATCACATTCAATAGGATCAGTAGATATTGCTTG
1 TTCAGTAGAATCAGTAGACATTGCTCT-TTTGAGCAC-TTCAATAGAATCAGTAGATATTGCTCG
10314093 -TTGAGCACT
64 TTTGAGCACT
* * * * * * *
10314102 TTCAGTAGTATTAGTAGATATTACTC-CTTGAGCACTTTAGTAGAATCAGT
1 TTCAGTAGAATCAGTAGACATTGCTCTTTTGAGCACTTCAATAGAATCAGT
10314152 GTTCCCCTTT
Statistics
Matches: 286, Mismatches: 47, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
71 12 0.04
72 46 0.16
73 165 0.58
74 34 0.12
75 28 0.10
76 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (73 bp):
TTCAGTAGAATCAGTAGACATTGCTCTTTTGAGCACTTCAATAGAATCAGTAGATATTGCTCGTT
TGAGCACT
Found at i:10313911 original size:109 final size:109
Alignment explanation
Indices: 10313744--10314151 Score: 543
Period size: 109 Copynumber: 3.7 Consensus size: 109
10313734 ATTCAGTATA
* * * *
10313744 ATCAGTGGATATTGCTTGTTTGAGCAACTATTCAATAGAATTAGTAAATATTGCTCGTTTGAACA
1 ATCAGTAGATATTGCTTG-TTGAGC-ACT-TTCAGTAGAATCAGTAGATATTGCTCGTTTGAACA
* *
10313809 CTTCAGTAGAACCAGTAGACATTGCTCTTTTGAGCACGTTCAATAGG
63 CTTCAGTAGAATCAGTAGACATTGCTCTTTTGAGCACATTCAATAGG
* *
10313856 ATCAGTAGATATTGATTGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTT
1 ATCAGTAGATATTGCTTGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAACACTT
* * *
10313921 CAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTTAGTAGG
66 CAGTAGAATCAGTAGACATTGCTCTTTTGAGCACATTCAATAGG
* * * *
10313965 ATCAGTAGATATTTCTCGTTGAGCGCTTTCAGTAGAATCAATAGATATTGCTCGTTTGAGA-ACT
1 ATCAGTAGATATTGCTTGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGA-ACAC-
*
10314029 TTCAGTAGAATCAGTAGACATTGCT-TGTTTGATCACATTCAATAGG
64 TTCAGTAGAATCAGTAGACATTGCTCT-TTTGAGCACATTCAATAGG
* * * * *
10314075 ATCAGTAGATATTGCTTGTTGAGCACTTTCAGTAGTATTAGTAGATATTACTC-CTTGAGCACTT
1 ATCAGTAGATATTGCTTGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAACACTT
*
10314139 TAGTAGAATCAGT
66 CAGTAGAATCAGT
10314152 GTTCCCCTTT
Statistics
Matches: 261, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
108 14 0.05
109 135 0.52
110 90 0.34
111 6 0.02
112 16 0.06
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (109 bp):
ATCAGTAGATATTGCTTGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAACACTT
CAGTAGAATCAGTAGACATTGCTCTTTTGAGCACATTCAATAGG
Found at i:10317475 original size:75 final size:75
Alignment explanation
Indices: 10317291--10317454 Score: 222
Period size: 75 Copynumber: 2.2 Consensus size: 75
10317281 GGGGCACACA
*
10317291 TTCGTCGGTTTATCTTATTAGCGCTGGGCGCAAATATCATTGATTTATCCAACTAGAGCTGGACT
1 TTCGTCGGTTTATCTTACTAGCGCTGGGCGCAAATATCATTGATTTATCCAACTAGAGCTGGACT
*
10317356 CACTAATTAT
66 CACTAATGAT
* * * ** * * *
10317366 TTCATCGGTTTATCTTACTAGCGTTGGGCACAAATATTGTTGGTTTATCCTACTAGAGTTGTG-C
1 TTCGTCGGTTTATCTTACTAGCGCTGGGCGCAAATATCATTGATTTATCCAACTAGAGCTG-GAC
10317430 TCACTAATGAT
65 TCACTAATGAT
10317441 TTCGTCGGTTTATC
1 TTCGTCGGTTTATC
10317455 AGACTAGCAC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 76 0.99
76 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (75 bp):
TTCGTCGGTTTATCTTACTAGCGCTGGGCGCAAATATCATTGATTTATCCAACTAGAGCTGGACT
CACTAATGAT
Found at i:10318640 original size:25 final size:25
Alignment explanation
Indices: 10318606--10318653 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
10318596 ACACGGTCAA
*
10318606 AGACACGGGCGTGTGACTCGGCCAG
1 AGACACGGGCGTATGACTCGGCCAG
10318631 AGACACGGGCGTATGACTCGGCC
1 AGACACGGGCGTATGACTCGGCC
10318654 GTATGAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.38, T:0.12
Consensus pattern (25 bp):
AGACACGGGCGTATGACTCGGCCAG
Found at i:10320604 original size:18 final size:18
Alignment explanation
Indices: 10320581--10320618 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10320571 CAGCCTGAAT
*
10320581 TAGGTCTTCGGCACATCC
1 TAGGTCTTCAGCACATCC
*
10320599 TAGGTCTTCAGCACTTCC
1 TAGGTCTTCAGCACATCC
10320617 TA
1 TA
10320619 AATTTTCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (18 bp):
TAGGTCTTCAGCACATCC
Found at i:10321810 original size:41 final size:41
Alignment explanation
Indices: 10321758--10321841 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
10321748 GTATGGGTGA
* * *
10321758 TTAGCTTGCTTCGGTAATCATAACCAACTGTCTTTTTGGGT
1 TTAGCTTGCTTCAGTAATCATAACCAACTGTCTCTTTAGGT
*
10321799 TTAGCTTGCTTCAGTAATCATAATCAACTGTCTCTTTAGGT
1 TTAGCTTGCTTCAGTAATCATAACCAACTGTCTCTTTAGGT
10321840 TT
1 TT
10321842 TCTTGTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (41 bp):
TTAGCTTGCTTCAGTAATCATAACCAACTGTCTCTTTAGGT
Found at i:10323419 original size:30 final size:35
Alignment explanation
Indices: 10323350--10323422 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 35
10323340 TTATTCCGCA
10323350 AAGAAAAGAACAAAAACTGAAATAAACCTAAAGCCT
1 AAGAAAAGAACAAAAACT-AAATAAACCTAAAGCCT
*
10323386 AAGAAAAGAA-AAAGACT-AA-AAA-CTAAA-CCT
1 AAGAAAAGAACAAAAACTAAATAAACCTAAAGCCT
10323416 AAGAAAA
1 AAGAAAA
10323423 ATTTATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 10 0.28
31 5 0.14
32 3 0.08
33 2 0.06
35 6 0.17
36 10 0.28
ACGTcount: A:0.66, C:0.14, G:0.11, T:0.10
Consensus pattern (35 bp):
AAGAAAAGAACAAAAACTAAATAAACCTAAAGCCT
Found at i:10331150 original size:16 final size:15
Alignment explanation
Indices: 10331114--10331159 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
10331104 TTAGGTTAGG
*
10331114 TTTTCTTTCTCTTTC
1 TTTTCTTTTTCTTTC
10331129 TCTTTCTTTTTCTTTCC
1 T-TTTCTTTTTCTTT-C
*
10331146 TTTTCGTTTTCTTT
1 TTTTCTTTTTCTTT
10331160 TCATTTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 1 0.04
16 24 0.89
17 2 0.07
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTTCTTTC
Found at i:10331150 original size:22 final size:22
Alignment explanation
Indices: 10331114--10331160 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
10331104 TTAGGTTAGG
10331114 TTTTCTTTCTCTTTC-TCTTTCT
1 TTTTCTTTCTCTTTCGT-TTTCT
10331136 TTTTCTTTC-CTTTTCGTTTTCT
1 TTTTCTTTCTC-TTTCGTTTTCT
10331158 TTT
1 TTT
10331161 CATTTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.04
22 21 0.91
23 1 0.04
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTCTTTCTCTTTCGTTTTCT
Found at i:10347679 original size:20 final size:20
Alignment explanation
Indices: 10347654--10347695 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10347644 AACCAGCTGG
*
10347654 TTCATTCTGACTGAACTAGA
1 TTCATTCTAACTGAACTAGA
10347674 TTCATTCTAACTGAACTAGA
1 TTCATTCTAACTGAACTAGA
10347694 TT
1 TT
10347696 TAGTTCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
TTCATTCTAACTGAACTAGA
Found at i:10350396 original size:7 final size:7
Alignment explanation
Indices: 10350384--10350413 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
10350374 AGAAAAGTTG
10350384 TAAATTT
1 TAAATTT
10350391 TAAATTT
1 TAAATTT
10350398 TAAATTT
1 TAAATTT
10350405 TAAATTT
1 TAAATTT
10350412 TA
1 TA
10350414 TAACTGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:10351688 original size:8 final size:8
Alignment explanation
Indices: 10351677--10351708 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
10351667 TTAATATATG
10351677 CATGCATA
1 CATGCATA
10351685 CATGCATA
1 CATGCATA
*
10351693 CATACATA
1 CATGCATA
10351701 CATGCATA
1 CATGCATA
10351709 TTTTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (8 bp):
CATGCATA
Found at i:10351691 original size:12 final size:12
Alignment explanation
Indices: 10351674--10351708 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10351664 ATTTTAATAT
10351674 ATGCATGCATAC
1 ATGCATGCATAC
*
10351686 ATGCATACATAC
1 ATGCATGCATAC
*
10351698 ATACATGCATA
1 ATGCATGCATA
10351709 TTTTTTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (12 bp):
ATGCATGCATAC
Found at i:10351733 original size:17 final size:17
Alignment explanation
Indices: 10351711--10351745 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10351701 CATGCATATT
10351711 TTTTTTTCCCAATCAGA
1 TTTTTTTCCCAATCAGA
10351728 TTTTTTTCCCAATCAGA
1 TTTTTTTCCCAATCAGA
10351745 T
1 T
10351746 GAGCAACGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (17 bp):
TTTTTTTCCCAATCAGA
Found at i:10358857 original size:25 final size:25
Alignment explanation
Indices: 10358812--10358859 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10358802 GGTTAATCAG
* *
10358812 AGTTTAAGTGGGAAACTAAAAACAA
1 AGTTTAACTGGGAAACAAAAAACAA
10358837 AGTTTAACTGGGAGAA-AAAAAAC
1 AGTTTAACTGGGA-AACAAAAAAC
10358860 CAAGAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.19
Consensus pattern (25 bp):
AGTTTAACTGGGAAACAAAAAACAA
Found at i:10361798 original size:37 final size:37
Alignment explanation
Indices: 10361754--10361838 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
10361744 TATCACTCTT
10361754 TTCACTCACAATGCTTTTGACACATTCA-A-TGCTTTTA
1 TTCACTCACAATGCTTTT-A-ACATTCACATTGCTTTTA
** * *
10361791 TTCACTCATTATGCTTTTAACCTTCACATTGCTTTTG
1 TTCACTCACAATGCTTTTAACATTCACATTGCTTTTA
10361828 TTCACTCACAA
1 TTCACTCACAA
10361839 AATTTTCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 6 0.15
36 2 0.05
37 32 0.80
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (37 bp):
TTCACTCACAATGCTTTTAACATTCACATTGCTTTTA
Found at i:10363204 original size:19 final size:18
Alignment explanation
Indices: 10363180--10363219 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
10363170 TATATTATAT
*
10363180 TATATTATACTATTATTTG
1 TATATTATAATA-TATTTG
10363199 TATATTATAATATATTTG
1 TATATTATAATATATTTG
10363217 TAT
1 TAT
10363220 GGCATTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATTATAATATATTTG
Found at i:10364575 original size:22 final size:22
Alignment explanation
Indices: 10364550--10364596 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
10364540 ACATAAAACT
10364550 TAAAATTCGAAAATCAAAACCA
1 TAAAATTCGAAAATCAAAACCA
10364572 TAAAATTCGAAAATCAAAACCA
1 TAAAATTCGAAAATCAAAACCA
10364594 TAA
1 TAA
10364597 TTCAAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (22 bp):
TAAAATTCGAAAATCAAAACCA
Found at i:10364618 original size:7 final size:7
Alignment explanation
Indices: 10364601--10364640 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
10364591 CCATAATTCA
*
10364601 AAATCTA
1 AAATCTG
*
10364608 AAATATG
1 AAATCTG
10364615 AAATCTG
1 AAATCTG
10364622 AAATCTG
1 AAATCTG
10364629 AAATCTG
1 AAATCTG
10364636 AAATC
1 AAATC
10364641 CAAAAACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (7 bp):
AAATCTG
Found at i:10366578 original size:24 final size:24
Alignment explanation
Indices: 10366550--10366598 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10366540 AGTTGATTAT
10366550 GAACTTAAGATTAATGCAAGCACG
1 GAACTTAAGATTAATGCAAGCACG
10366574 GAACTTAAGATTAATGCAAGCACG
1 GAACTTAAGATTAATGCAAGCACG
10366598 G
1 G
10366599 TATAATTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (24 bp):
GAACTTAAGATTAATGCAAGCACG
Found at i:10368685 original size:5 final size:5
Alignment explanation
Indices: 10368675--10368700 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10368665 GTAAAAAAAA
10368675 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
10368701 TCATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:10368979 original size:9 final size:9
Alignment explanation
Indices: 10368940--10369001 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
10368930 CACATCATAG
10368940 TCTCTCAAT
1 TCTCTCAAT
*
10368949 TCTTTCTAA-
1 TCTCTC-AAT
*
10368958 TCTC-CTAAC
1 TCTCTC-AAT
10368967 TCTCTCAAT
1 TCTCTCAAT
10368976 TCTCTCAAT
1 TCTCTCAAT
*
10368985 TTTCTCAAT
1 TCTCTCAAT
*
10368994 TTTCTCAA
1 TCTCTCAA
10369002 GTTTTTGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
8 4 0.09
9 39 0.85
10 3 0.07
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.47
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:10368990 original size:18 final size:19
Alignment explanation
Indices: 10368969--10369006 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10368959 CTCCTAACTC
10368969 TCTCAATTCTCTCAA-TTT
1 TCTCAATTCTCTCAAGTTT
*
10368987 TCTCAATTTTCTCAAGTTT
1 TCTCAATTCTCTCAAGTTT
10369006 T
1 T
10369007 TGTTCACTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (19 bp):
TCTCAATTCTCTCAAGTTT
Found at i:10372672 original size:2 final size:2
Alignment explanation
Indices: 10372665--10372696 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10372655 TCACATTTAA
10372665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10372697 TTGTTTAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10374090 original size:22 final size:24
Alignment explanation
Indices: 10374065--10374108 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
10374055 ATTTTGTTAA
10374065 ACTTTAACTTG-TAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
10374087 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
10374109 TATTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Done.