Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 183 of 322
Found at i:60128219 original size:936 final size:936
Alignment explanation
Indices: 60126409--60128264 Score: 3595
Period size: 936 Copynumber: 2.0 Consensus size: 936
60126399 ATTCTCAAGA
*
60126409 CATATATTCATTCAACATTGATCAAAATCATATAATCAATAATAATTCAATTCAAAATACATTTA
1 CATATATTCATTCAACATTGATCAAAAGCATATAATCAATAATAATTCAATTCAAAATACATTTA
60126474 TTTGTATATTGACTTACCTCGTACGGACTCGAATAAACAGAATCGGCTATTCAACGACTTTCGAC
66 TTTGTATATTGACTTACCTCGTACGGACTCGAATAAACAGAATCGGCTATTCAACGACTTTCGAC
60126539 TTTCCCCGGTCTAATTCTGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTA
131 TTTCCCCGGTCTAATTCTGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTA
*
60126604 TTCACCAAATCATTCAAATCAATCCAAAAACACATATTTAGGCCATTTGAAAAATTAGCCCTCAC
196 TTAACCAAATCATTCAAATCAATCCAAAAACACATATTTAGGCCATTTGAAAAATTAGCCCTCAC
60126669 ATTTTCACATTTTTACAATTTAGTCCCTAATTCATAAAATCACAAAATACACCAAATTTCTTTAA
261 ATTTTCACATTTTTACAATTTAGTCCCTAATTCATAAAATCACAAAATACACCAAATTTCTTTAA
60126734 ACATATGCTTGGCTGAATATTCCTATAGCTCATACAAGCCCACATATTTCATTTATTTCACATTT
326 ACATATGCTTGGCTGAATATTCCTATAGCTCATACAAGCCCACATATTTCATTTATTTCACATTT
*
60126799 TAGTCCCTCAAAAATTCATTTTCACAATTTAGTCCATTTTACTCAAATTCATCAAAAATTTAAAG
391 TAGTCCCTCAAAAATTCATTTTCACAATTTAGTCCATTTTACTCAAATTCATCAAAAATTCAAAG
* *
60126864 ACAAAATATACTAACCCAAAACATATCTTTCATTTTCCATCAACTAACTTCACAAAGCTTACAAA
456 ACAAAATATAATAACCCAAAACATATCTTTCATTTTCCATCAACTAACTTCAAAAAGCTTACAAA
60126929 ATCAACAATGACATAACTCAAAATCATCATCAAAATCAGAAATTAGGGCATGGGCTTGATAGATT
521 ATCAACAATGACATAACTCAAAATCATCATCAAAATCAGAAATTAGGGCATGGGCTTGATAGATT
60126994 ACTTAGCAACGATTACAAAAACGTAGAAATCATCAAAAACCAATCAAATTTCATACCTTAATCAC
586 ACTTAGCAACGATTACAAAAACGTAGAAATCATCAAAAACCAATCAAATTTCATACCTTAATCAC
60127059 CAAAATAAGTAGCCGAACCCTAGCTTGTATTTTCTTTTCTTTTCCTTTGTATTTCCTGTTATGGA
651 CAAAATAAGTAGCCGAACCCTAGCTTGTATTTTCTTTTCTTTTCCTTTGTATTTCCTGTTATGGA
60127124 TGAACACAAATGGTCCATTTTCATGCCTTTGTTTTATTATGAATCATTTAATTCTTCAGTTACGA
716 TGAACACAAATGGTCCATTTTCATGCCTTTGTTTTATTATGAATCATTTAATTCTTCAGTTACGA
60127189 ATTTGCCTTTATAAATTAACATATAAAATCACATATATTAAGGCCATTAATGTCCATTAACCTTG
781 ATTTGCCTTTATAAATTAACATATAAAATCACATATATTAAGGCCATTAATGTCCATTAACCTTG
60127254 TTAATGGTCCAATTGCAACATAAGGACCTTTCATTTACAAAGACATATCAAATAAGCACTTTAAC
846 TTAATGGTCCAATTGCAACATAAGGACCTTTCATTTACAAAGACATATCAAATAAGCACTTTAAC
*
60127319 CAATAGCAGGCAACATTGTTTAAAAG
911 CAACAGCAGGCAACATTGTTTAAAAG
* *
60127345 CATATATTCATTCAACATTGTTTAAAAGCATATAATCAATAATAATTCAATTCAAAATACATTTA
1 CATATATTCATTCAACATTGATCAAAAGCATATAATCAATAATAATTCAATTCAAAATACATTTA
60127410 TTTGTATATTGACTTACCTCGTACGGACTCGAATAAACAGAATCGGCTATTCAACGACTTTCGAC
66 TTTGTATATTGACTTACCTCGTACGGACTCGAATAAACAGAATCGGCTATTCAACGACTTTCGAC
60127475 TTTCCCCGGTCTAATTCTGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTA
131 TTTCCCCGGTCTAATTCTGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTA
60127540 TTAACCAAATCATTCAAATCAATCCAAAAACACATATTTAGGCCATTTGAAAAATTAGCCCTCAC
196 TTAACCAAATCATTCAAATCAATCCAAAAACACATATTTAGGCCATTTGAAAAATTAGCCCTCAC
60127605 ATTTTCACATTTTTACAATTTAGTCCCTAATTCATAAAATCACAAAATACACCAAATTTCTTTAA
261 ATTTTCACATTTTTACAATTTAGTCCCTAATTCATAAAATCACAAAATACACCAAATTTCTTTAA
60127670 ACATATGCTTGGCTGAATATTCCTATAGCTCATACAAGCCCACATATTTCATTTATTTCACATTT
326 ACATATGCTTGGCTGAATATTCCTATAGCTCATACAAGCCCACATATTTCATTTATTTCACATTT
60127735 TAGTCCCTCAAAAATTCATTTTCACAATTTAGTCCATTTTACTCAAATTCATCAAAAATTCAAAG
391 TAGTCCCTCAAAAATTCATTTTCACAATTTAGTCCATTTTACTCAAATTCATCAAAAATTCAAAG
60127800 ACAAAATATAATAACCCAAAACATATCTTTCATTTTCCATCAACTAACTTCAAAAAGCTTACAAA
456 ACAAAATATAATAACCCAAAACATATCTTTCATTTTCCATCAACTAACTTCAAAAAGCTTACAAA
*
60127865 ATCAACAATGGCATAACTCAAAATCATCATCAAAATCAGAAATTAGGGCATGGGCTTGATAGATT
521 ATCAACAATGACATAACTCAAAATCATCATCAAAATCAGAAATTAGGGCATGGGCTTGATAGATT
*
60127930 ACTTAGCAACGATTACAAAAACTTAGAAATCATCAAAAACCAATCAAATTTCATACCTTAATCAC
586 ACTTAGCAACGATTACAAAAACGTAGAAATCATCAAAAACCAATCAAATTTCATACCTTAATCAC
*
60127995 CAAAATAAGTAGCCGAACCCTCGCTTGTATTTTCTTTTCTTTTCCTTTGTATTTCCTGTTATGGA
651 CAAAATAAGTAGCCGAACCCTAGCTTGTATTTTCTTTTCTTTTCCTTTGTATTTCCTGTTATGGA
60128060 TGAACACAAATGGTCCATTTTCATGCCTTTGTTTTATTATGAATCATTTAATTCTTCAGTTACGA
716 TGAACACAAATGGTCCATTTTCATGCCTTTGTTTTATTATGAATCATTTAATTCTTCAGTTACGA
60128125 ATTTGCCTTTATAAATTAACATATAAAATCACATATATTAAGGCCATTAATGTCCATTAACCTTG
781 ATTTGCCTTTATAAATTAACATATAAAATCACATATATTAAGGCCATTAATGTCCATTAACCTTG
**
60128190 TTAATGGTCTGATTGCAACATAAGGACCTTTCATTTACAAAGACATATCAAATAAGCACTTTAAC
846 TTAATGGTCCAATTGCAACATAAGGACCTTTCATTTACAAAGACATATCAAATAAGCACTTTAAC
60128255 CAACAGCAGG
911 CAACAGCAGG
60128265 AAACTTTTAC
Statistics
Matches: 907, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
936 907 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (936 bp):
CATATATTCATTCAACATTGATCAAAAGCATATAATCAATAATAATTCAATTCAAAATACATTTA
TTTGTATATTGACTTACCTCGTACGGACTCGAATAAACAGAATCGGCTATTCAACGACTTTCGAC
TTTCCCCGGTCTAATTCTGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTA
TTAACCAAATCATTCAAATCAATCCAAAAACACATATTTAGGCCATTTGAAAAATTAGCCCTCAC
ATTTTCACATTTTTACAATTTAGTCCCTAATTCATAAAATCACAAAATACACCAAATTTCTTTAA
ACATATGCTTGGCTGAATATTCCTATAGCTCATACAAGCCCACATATTTCATTTATTTCACATTT
TAGTCCCTCAAAAATTCATTTTCACAATTTAGTCCATTTTACTCAAATTCATCAAAAATTCAAAG
ACAAAATATAATAACCCAAAACATATCTTTCATTTTCCATCAACTAACTTCAAAAAGCTTACAAA
ATCAACAATGACATAACTCAAAATCATCATCAAAATCAGAAATTAGGGCATGGGCTTGATAGATT
ACTTAGCAACGATTACAAAAACGTAGAAATCATCAAAAACCAATCAAATTTCATACCTTAATCAC
CAAAATAAGTAGCCGAACCCTAGCTTGTATTTTCTTTTCTTTTCCTTTGTATTTCCTGTTATGGA
TGAACACAAATGGTCCATTTTCATGCCTTTGTTTTATTATGAATCATTTAATTCTTCAGTTACGA
ATTTGCCTTTATAAATTAACATATAAAATCACATATATTAAGGCCATTAATGTCCATTAACCTTG
TTAATGGTCCAATTGCAACATAAGGACCTTTCATTTACAAAGACATATCAAATAAGCACTTTAAC
CAACAGCAGGCAACATTGTTTAAAAG
Found at i:60130879 original size:34 final size:34
Alignment explanation
Indices: 60130841--60130906 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
60130831 TTAAACTACC
* *
60130841 AACATACATTTCATACT-TTCATAATAATAAAATA
1 AACATACATGT-ATACTCTTCATAACAATAAAATA
* *
60130875 AACATATATGTATACTCTTGATAACAATAAAA
1 AACATACATGTATACTCTTCATAACAATAAAA
60130907 CATCGCCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 5 0.19
34 22 0.81
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (34 bp):
AACATACATGTATACTCTTCATAACAATAAAATA
Found at i:60134166 original size:24 final size:24
Alignment explanation
Indices: 60134134--60134181 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60134124 TCTTAGGCCG
60134134 TACGAAATTTTAGAGAGAATCAGA
1 TACGAAATTTTAGAGAGAATCAGA
60134158 TACGAAATTTTAGAGAGAATCAGA
1 TACGAAATTTTAGAGAGAATCAGA
60134182 CCTATAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (24 bp):
TACGAAATTTTAGAGAGAATCAGA
Found at i:60135797 original size:19 final size:17
Alignment explanation
Indices: 60135763--60135797 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
60135753 CCAAAACCAA
60135763 ATCAACCAAACATAATC
1 ATCAACCAAACATAATC
60135780 ATCAAGCCAAAGCATAAT
1 ATCAA-CCAAA-CATAAT
60135798 TCCAAGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.51, C:0.26, G:0.06, T:0.17
Consensus pattern (17 bp):
ATCAACCAAACATAATC
Found at i:60136854 original size:39 final size:39
Alignment explanation
Indices: 60136811--60136888 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
60136801 TTAAACGTTG
*
60136811 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
*
60136850 AGGTTAGCATTTGGGTTGTTCAATATGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
60136889 TTAGGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:60138577 original size:48 final size:48
Alignment explanation
Indices: 60138519--60138954 Score: 865
Period size: 48 Copynumber: 9.1 Consensus size: 48
60138509 AATTCTAAAT
60138519 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138566 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138614 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138662 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138710 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138758 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138806 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138854 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138902 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60138950 TGTGA
1 TGTGA
60138955 CGGGGCCGAG
Statistics
Matches: 388, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
47 4 0.01
48 384 0.99
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (48 bp):
TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:60141790 original size:43 final size:43
Alignment explanation
Indices: 60141659--60141830 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
60141649 AAATTGTACA
* * * * * * * *
60141659 ATGCCAACGTCCCTGACGTGGTCTTACATGTAATCACATGTCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATCG
* * *
60141702 ATGCCATTGTCCCAGACAAGGTCTTACAC-AAATCACA-ATTACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATA-T-CG
* *
60141745 ATGCCAATGTCCCAAACATGGTCTTACTCGAAAACACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATCG
* * * * *
60141788 ATGCCAACGTCCTAGACGTGGCCTTACACGAGAACACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATCG
60141831 GAAATCCTAT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 8 0.08
43 87 0.84
44 8 0.08
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATCG
Found at i:60143817 original size:40 final size:40
Alignment explanation
Indices: 60143723--60143867 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
60143713 TACTCGAATG
*
60143723 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
60143764 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
60143804 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
60143844 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
60143868 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:60146205 original size:14 final size:15
Alignment explanation
Indices: 60146188--60146216 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60146178 GCACGAAAAT
60146188 TTCACACAT-ATAAA
1 TTCACACATAATAAA
60146202 TTCACACATAATAAA
1 TTCACACATAATAAA
60146217 CACTGAAAAT
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:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:60146492 original size:18 final size:19
Alignment explanation
Indices: 60146469--60146507 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
60146459 TTTGTAATTA
*
60146469 ATTTGAA-TAATTGTTTCT
1 ATTTGAAGTAAATGTTTCT
60146487 ATTTGAAGTTAAATGTTTCT
1 ATTTGAAG-TAAATGTTTCT
60146507 A
1 A
60146508 AACATGATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
ATTTGAAGTAAATGTTTCT
Found at i:60152070 original size:30 final size:30
Alignment explanation
Indices: 60152003--60152072 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 30
60151993 ATCATCGACC
* *
60152003 AATGAAAAAGGATATCTTCGGCTATCGATT
1 AATGAAAAGGGATAGCTTCGGCTATCGATT
60152033 -ATGAAAAGGGATAGCTTCGGCTATCGATT
1 AATGAAAAGGGATAGCTTCGGCTATCGATT
60152062 AATGAAAAGGG
1 AATGAAAAGGG
60152073 GTGGTGATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (30 bp):
AATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:60152130 original size:45 final size:45
Alignment explanation
Indices: 60152055--60152144 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
60152045 AGCTTCGGCT
* *
60152055 ATCGATTAATGAAAAGGGGTGGTGATGACCATCAACTATGAAAAG
1 ATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAG
* * *
60152100 ATCGATTTATGAAAAGGGATGGT-TTCGACCATTAAATATGAAAAG
1 ATCGATTAATGAAAAGGGATGGTGAT-GACCATCAAATATGAAAAG
60152145 GGACGTTTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (45 bp):
ATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAG
Found at i:60162216 original size:28 final size:28
Alignment explanation
Indices: 60162155--60162222 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
60162145 TATGGGACTC
*
60162155 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* *
60162183 AGTGTGCGAGATATTTAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
60162211 AGTGTGCAAAAT
1 AGTGTGCGAAAT
60162223 GTCGAATGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:60162664 original size:21 final size:22
Alignment explanation
Indices: 60162633--60162673 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
60162623 GAATGTATTG
*
60162633 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
60162655 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
60162674 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:60167416 original size:8 final size:8
Alignment explanation
Indices: 60167374--60167398 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60167364 ATATAGACTA
60167374 AATAAAAT
1 AATAAAAT
60167382 AATAAAAT
1 AATAAAAT
60167390 AATAAAAT
1 AATAAAAT
60167398 A
1 A
60167399 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:60167422 original size:29 final size:31
Alignment explanation
Indices: 60167371--60167439 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
60167361 TATATATAGA
*
60167371 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
60167400 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
60167431 CTAATTAAA
1 CTAATTAAA
60167440 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:60167929 original size:12 final size:12
Alignment explanation
Indices: 60167912--60167954 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
60167902 GTGGTAGCGA
60167912 GAGGTGTGTTGT
1 GAGGTGTGTTGT
60167924 GAGGTG-GTACTGT
1 GAGGTGTGT--TGT
*
60167937 GAGGTGTGTTGC
1 GAGGTGTGTTGT
60167949 GAGGTG
1 GAGGTG
60167955 GTACAACGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 2 0.07
12 14 0.52
13 9 0.33
14 2 0.07
ACGTcount: A:0.12, C:0.05, G:0.51, T:0.33
Consensus pattern (12 bp):
GAGGTGTGTTGT
Found at i:60167932 original size:25 final size:24
Alignment explanation
Indices: 60167898--60167980 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 24
60167888 ACAGAGATCA
60167898 TGAGGTGGTAGCGAGAGGTGTGTTG
1 TGAGGTGGTA-CGAGAGGTGTGTTG
*
60167923 TGAGGTGGTACTGTGAGGTGTGTTG
1 TGAGGTGGTAC-GAGAGGTGTGTTG
* * *
60167948 CGAGGTGGTACAACGAGGTGAGATTG
1 TGAGGTGGTACGA-GAGGTGTG-TTG
60167974 TGAGGTG
1 TGAGGTG
60167981 TATTGCAAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.02
25 39 0.80
26 9 0.18
ACGTcount: A:0.18, C:0.06, G:0.48, T:0.28
Consensus pattern (24 bp):
TGAGGTGGTACGAGAGGTGTGTTG
Found at i:60175734 original size:14 final size:16
Alignment explanation
Indices: 60175712--60175749 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
60175702 AGAAAATGAA
*
60175712 GATACATGAAA-A-GT
1 GATATATGAAATATGT
60175726 GATATATGAAATATGT
1 GATATATGAAATATGT
60175742 GATATATG
1 GATATATG
60175750 TTATGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (16 bp):
GATATATGAAATATGT
Found at i:60176223 original size:49 final size:49
Alignment explanation
Indices: 60176057--60176294 Score: 307
Period size: 49 Copynumber: 4.8 Consensus size: 49
60176047 TGAGGTCGCA
* * * * *
60176057 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
60176108 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
60176158 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
** *
60176207 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
60176256 TGTGTAGTACTATA-TGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTA-AGTGCAGGCTACTACGTGTACCAGATA
60176295 GCTTTGACTA
Statistics
Matches: 167, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
49 88 0.53
50 46 0.28
51 33 0.20
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:60176237 original size:99 final size:100
Alignment explanation
Indices: 60176050--60176289 Score: 324
Period size: 99 Copynumber: 2.4 Consensus size: 100
60176040 TCTATTGTGA
* *
60176050 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
60176115 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
60176150 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
60176213 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** *
60176249 GGTTGCATGTGTAGTACTATA-TGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTA-AGTGCAGGCTACTACGCGTACC
60176290 AGATAGCTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
98 34 0.28
99 47 0.38
100 1 0.01
101 41 0.33
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:60180093 original size:23 final size:23
Alignment explanation
Indices: 60180050--60180093 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
60180040 CCAATTCAAC
*
60180050 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
60180073 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
60180094 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:60185966 original size:86 final size:86
Alignment explanation
Indices: 60185822--60186079 Score: 473
Period size: 86 Copynumber: 3.0 Consensus size: 86
60185812 TAGATGAACA
* **
60185822 TACCTAATTTTAAT-CAAAAAGGTTGAGTATAGATTGAGATATTGGTATATAAAGTTTGTTATGT
1 TACCTAATTTTAATAAAAAAAGGTTGAGTATAGATCAAGATATTGGTATATAAAGTTTGTTATGT
60185886 TAATAGTTTATATGTTAATGG
66 TAATAGTTTATATGTTAATGG
*
60185907 TACCTAATTTTAATAAAAAAAGGTTGAGTATAGATCAAGATATTGTTATATAAAGTTTGTTATGT
1 TACCTAATTTTAATAAAAAAAGGTTGAGTATAGATCAAGATATTGGTATATAAAGTTTGTTATGT
60185972 TAATAGTTTATATGTTAATGG
66 TAATAGTTTATATGTTAATGG
60185993 TACCTAATTTTAATAAAAAAAGGTTGAGTATAGATCAAGATATTGGTATATAAAGTTTGTTATGT
1 TACCTAATTTTAATAAAAAAAGGTTGAGTATAGATCAAGATATTGGTATATAAAGTTTGTTATGT
60186058 TAATAGTTTATATGTTAATGG
66 TAATAGTTTATATGTTAATGG
60186079 T
1 T
60186080 TTAAGTTACA
Statistics
Matches: 167, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
85 14 0.08
86 153 0.92
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (86 bp):
TACCTAATTTTAATAAAAAAAGGTTGAGTATAGATCAAGATATTGGTATATAAAGTTTGTTATGT
TAATAGTTTATATGTTAATGG
Found at i:60186073 original size:15 final size:15
Alignment explanation
Indices: 60186053--60186082 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60186043 TAAAGTTTGT
60186053 TATGTTAATAGTTTA
1 TATGTTAATAGTTTA
*
60186068 TATGTTAATGGTTTA
1 TATGTTAATAGTTTA
60186083 AGTTACATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TATGTTAATAGTTTA
Found at i:60187025 original size:5 final size:5
Alignment explanation
Indices: 60187015--60187059 Score: 72
Period size: 5 Copynumber: 8.6 Consensus size: 5
60187005 TAAGAAAATA
60187015 ATATT ATATT ATATT ATATT ATTATT ATATT ATATT AATATT ATA
1 ATATT ATATT ATATT ATATT A-TATT ATATT ATATT -ATATT ATA
60187060 ATTAAATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:60187042 original size:16 final size:15
Alignment explanation
Indices: 60187015--60187059 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 15
60187005 TAAGAAAATA
60187015 ATATTATATTATATT
1 ATATTATATTATATT
60187030 ATATTATTATTATATT
1 ATATTA-TATTATATT
60187046 ATATTAATATTATA
1 ATATT-ATATTATA
60187060 ATTAAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.21
16 21 0.75
17 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTATATTATATT
Found at i:60187071 original size:17 final size:16
Alignment explanation
Indices: 60187020--60187071 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
60187010 AAATAATATT
* *
60187020 ATATTATATTATATTA
1 ATATTATATTAAATGA
* * *
60187036 TTATTATATTATATTA
1 ATATTATATTAAATGA
60187052 ATATTATAATTAAATGA
1 ATATTAT-ATTAAATGA
60187069 ATA
1 ATA
60187072 AAACAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 21 0.68
17 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATTATATTAAATGA
Found at i:60194877 original size:28 final size:28
Alignment explanation
Indices: 60194809--60194878 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
60194799 GAATCATTCG
*
60194809 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
60194837 ATATCTCACACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
60194865 ATATTTCGTACACT
1 ATATTTCGCACACT
60194879 GAGTACCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:60199572 original size:28 final size:28
Alignment explanation
Indices: 60199538--60199749 Score: 174
Period size: 28 Copynumber: 7.5 Consensus size: 28
60199528 AACCGATCTT
*
60199538 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
60199566 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
* *
60199595 GCACACACAGTGCTTGGTTACGGAACTT
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
60199623 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
*
60199652 GCACACACAGTGCTCGGTTACGGAAATC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
60199680 GCACACACAGTGCCTCAACAATC-GATCTT
1 GCACACACAGTG-CTCGGTTA-CGGAACTC
60199709 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
*
60199737 ACACACACAGTGC
1 GCACACACAGTGC
60199750 CTATGTTCAC
Statistics
Matches: 135, Mismatches: 44, Indels: 10
0.71 0.23 0.05
Matches are distributed among these distances:
27 1 0.01
28 73 0.54
29 60 0.44
30 1 0.01
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:60199585 original size:57 final size:57
Alignment explanation
Indices: 60199519--60199751 Score: 385
Period size: 57 Copynumber: 4.1 Consensus size: 57
60199509 ACACACTTAA
* * *
60199519 TGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAG
* *
60199576 TGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTTGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAG
*
60199633 TGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAATCGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAG
* * *
60199690 TGCCTCAACAATCGATCTTGCACACACAGTGCTCGGTTACGGAACTCACACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAG
60199747 TGCCT
1 TGCCT
60199752 ATGTTCACTT
Statistics
Matches: 166, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 166 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.18
Consensus pattern (57 bp):
TGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAG
Found at i:60199604 original size:29 final size:29
Alignment explanation
Indices: 60199519--60199721 Score: 151
Period size: 29 Copynumber: 7.1 Consensus size: 29
60199509 ACACACTTAA
* *
60199519 TGCCCCAACAACCGATCTTGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAG
***** * *
60199548 TG-CTTGGTTACGGAACTCGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAG
60199576 TGCCTCAACAACCGATCTCGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAG
***** * * *
60199605 TG-CTTGGTTACGGAACTTGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAG
60199633 TGCCTCAACAACCGATCTCGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAG
**** * **
60199662 TG-CTCGGTTACGGAAATCGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAG
* *
60199690 TGCCTCAACAATCGATCTTGCACACACAG
1 TGCCTCAACAACCGATCTCGCACACACAG
60199719 TGC
1 TGC
60199722 TCGGTTACGG
Statistics
Matches: 123, Mismatches: 48, Indels: 6
0.69 0.27 0.03
Matches are distributed among these distances:
28 60 0.49
29 63 0.51
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (29 bp):
TGCCTCAACAACCGATCTCGCACACACAG
Found at i:60201527 original size:127 final size:127
Alignment explanation
Indices: 60201364--60201745 Score: 764
Period size: 127 Copynumber: 3.0 Consensus size: 127
60201354 CTCACATATA
60201364 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
1 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
60201429 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
66 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
60201491 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
1 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
60201556 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
66 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
60201618 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
1 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
60201683 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
66 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
60201745 T
1 T
60201746 TAACACAAGG
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 255 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (127 bp):
TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
Found at i:60202000 original size:26 final size:26
Alignment explanation
Indices: 60201971--60202030 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
60201961 TCCCTTTGAA
* * *
60201971 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
60201997 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
60202025 TCATTC
1 TCATTC
60202031 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:60202046 original size:28 final size:28
Alignment explanation
Indices: 60201986--60202047 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
60201976 CGATATTTTG
*
60201986 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGTCATTCTCAATATCTCA
*
60202014 CACACTAAGTGTCATTCTCAATATTTCA
1 CACACTAAGTGTCATTCTCAATATCTCA
*
60202042 TACACT
1 CACACT
60202048 CAGTACCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (28 bp):
CACACTAAGTGTCATTCTCAATATCTCA
Found at i:60203737 original size:27 final size:27
Alignment explanation
Indices: 60203707--60203759 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
60203697 GACCCCGGTT
*
60203707 TGTAAAATCACCGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* **
60203734 TGTAAAATGACCTTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
60203760 TGTTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:60204030 original size:22 final size:22
Alignment explanation
Indices: 60204005--60204047 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60203995 TTGCGATATT
*
60204005 TATGGCCTTTAGCCGTTCTGTC
1 TATGGCCTTGAGCCGTTCTGTC
*
60204027 TATGGCGTTGAGCCGTTCTGT
1 TATGGCCTTGAGCCGTTCTGT
60204048 TCACTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.23, G:0.28, T:0.40
Consensus pattern (22 bp):
TATGGCCTTGAGCCGTTCTGTC
Found at i:60208075 original size:14 final size:14
Alignment explanation
Indices: 60208056--60208084 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60208046 ATGGTAGCAT
60208056 GGTATATGGTATAA
1 GGTATATGGTATAA
60208070 GGTATATGGTATAA
1 GGTATATGGTATAA
60208084 G
1 G
60208085 ACCATAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (14 bp):
GGTATATGGTATAA
Found at i:60208504 original size:15 final size:17
Alignment explanation
Indices: 60208480--60208513 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
60208470 GCTAAGGACT
60208480 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
60208496 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
60208512 AA
1 AA
60208514 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:60209316 original size:17 final size:17
Alignment explanation
Indices: 60209294--60209326 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60209284 ATCTGACAAA
*
60209294 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
60209311 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
60209327 ATGATAAAAA
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:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:60209713 original size:57 final size:56
Alignment explanation
Indices: 60209556--60209715 Score: 151
Period size: 57 Copynumber: 2.8 Consensus size: 56
60209546 ATTGACCTCA
* * * * * *
60209556 TTATAGAAAGGATTTAACCTGGACTAGTAACCCCGATATAAGCCCCCTCGAGCATATG
1 TTATAGAAAGGATTTAGCCTGGACTAGTAA-TCC-AGATAAGCTCTCTAGAGCATATG
* ** * *
60209614 TTATGGATTGGATTTAGCCCGGAC-AGGTAATCCAGATCAAGCTCTTTAGAGCATATG
1 TTATAGAAAGGATTTAGCCTGGACTA-GTAATCCAGAT-AAGCTCTCTAGAGCATATG
* *
60209671 TTATAAAAAGGATTTAGCCTGGACTAGTAATCCTGAGTAAGCTCT
1 TTATAGAAAGGATTTAGCCTGGACTAGTAATCCAGA-TAAGCTCT
60209716 ATTGAGTAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
56 3 0.04
57 53 0.65
58 25 0.31
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (56 bp):
TTATAGAAAGGATTTAGCCTGGACTAGTAATCCAGATAAGCTCTCTAGAGCATATG
Found at i:60220234 original size:20 final size:21
Alignment explanation
Indices: 60220209--60220248 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
60220199 AGGGACTAAA
*
60220209 ATGAAAAGTT-ATAAAATTTG
1 ATGAAAAGTTCAGAAAATTTG
60220229 ATGAAAAGTTCAGAAAATTT
1 ATGAAAAGTTCAGAAAATTT
60220249 ATTAATACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.33
Consensus pattern (21 bp):
ATGAAAAGTTCAGAAAATTTG
Found at i:60222103 original size:22 final size:22
Alignment explanation
Indices: 60222049--60222105 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
60222039 ACACGGCCTC
*
60222049 CCACACGGGCATGTCCCAGGGT
1 CCACACGGGCGTGTCCCAGGGT
**
60222071 -CACACGGGCGTGTCCCTTGGT
1 CCACACGGGCGTGTCCCAGGGT
*
60222092 CCACACGAGCGTGT
1 CCACACGGGCGTGT
60222106 GAGCCCTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.18
Consensus pattern (22 bp):
CCACACGGGCGTGTCCCAGGGT
Found at i:60233108 original size:25 final size:24
Alignment explanation
Indices: 60233080--60233186 Score: 74
Period size: 25 Copynumber: 4.4 Consensus size: 24
60233070 ACAAGCTGTA
* *
60233080 AATCGGTAAGCTCATACGAGTTGAG
1 AATCGGTAAGCTCATACGAGCTG-C
* *
60233105 AATCAGTAAGC-CCTCACGAGCTGC
1 AATCGGTAAGCTCAT-ACGAGCTGC
* * *
60233129 AATCGGTAAGCTCATACTATCTGAA
1 AATCGGTAAGCTCATACGAGCTG-C
* * *
60233154 AATTGGTAAGCTC-TCATGAGTTGC
1 AATCGGTAAGCTCAT-ACGAGCTGC
60233178 AATCGGTAA
1 AATCGGTAA
60233187 TCCCAATGAC
Statistics
Matches: 62, Mismatches: 16, Indels: 9
0.71 0.18 0.10
Matches are distributed among these distances:
24 27 0.44
25 35 0.56
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGC
Found at i:60233143 original size:49 final size:49
Alignment explanation
Indices: 60233080--60233186 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 49
60233070 ACAAGCTGTA
*
60233080 AATCGGTAAGCTCATACGAGT-TGAGAATCAGTAAGCCCTCACGAGCTGC
1 AATCGGTAAGCTCATACGA-TCTGAAAATCAGTAAGCCCTCACGAGCTGC
* ** * * *
60233129 AATCGGTAAGCTCATACTATCTGAAAATTGGTAAGCTCTCATGAGTTGC
1 AATCGGTAAGCTCATACGATCTGAAAATCAGTAAGCCCTCACGAGCTGC
60233178 AATCGGTAA
1 AATCGGTAA
60233187 TCCCAATGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 1 0.02
49 49 0.98
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (49 bp):
AATCGGTAAGCTCATACGATCTGAAAATCAGTAAGCCCTCACGAGCTGC
Found at i:60240791 original size:25 final size:25
Alignment explanation
Indices: 60240723--60240841 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 25
60240713 ATAAGCCATG
* * * *
60240723 AATCGGTATGCTCTTACGAGCTGTA
1 AATCGGTAAGCTCTCACGAGTTGAA
** *
60240748 AATTAGTAAGCTCAT-ACGAATTGAA
1 AATCGGTAAGCTC-TCACGAGTTGAA
* *
60240773 AATCGGTAAGCTCTCACGAGCTG-C
1 AATCGGTAAGCTCTCACGAGTTGAA
60240797 AATCGGTAAGCTC-CTACGAGTT-AA
1 AATCGGTAAGCTCTC-ACGAGTTGAA
*
60240821 GAATTGGTAAGCTCTCACGAG
1 -AATCGGTAAGCTCTCACGAG
60240842 CTGCAATGGG
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
23 1 0.01
24 20 0.27
25 51 0.69
26 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACGAGTTGAA
Found at i:60240805 original size:24 final size:24
Alignment explanation
Indices: 60240773--60240854 Score: 96
Period size: 24 Copynumber: 3.4 Consensus size: 24
60240763 ACGAATTGAA
60240773 AATCGGTAAGCTCTCACGAGCTGC
1 AATCGGTAAGCTCTCACGAGCTGC
*
60240797 AATCGGTAAGCTC-CTACGAGTTAAG-
1 AATCGGTAAGCTCTC-ACGAGCT--GC
*
60240822 AATTGGTAAGCTCTCACGAGCTGC
1 AATCGGTAAGCTCTCACGAGCTGC
*
60240846 AATGGGTAA
1 AATCGGTAA
60240855 TCCCTAATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.04
24 27 0.55
25 18 0.37
26 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (24 bp):
AATCGGTAAGCTCTCACGAGCTGC
Found at i:60240830 original size:49 final size:49
Alignment explanation
Indices: 60240723--60240854 Score: 158
Period size: 49 Copynumber: 2.7 Consensus size: 49
60240713 ATAAGCCATG
* * * **
60240723 AATCGGTATGCTCTTACGAGCTGTAAATTAGTAAGCTCATACGAATTGAA
1 AATCGGTAAGCTCTCACGAGCTG-CAATCGGTAAGCTCATACGAATTGAA
* *
60240773 AATCGGTAAGCTCTCACGAGCTGCAATCGGTAAGCTCCTACGAGTT-AA
1 AATCGGTAAGCTCTCACGAGCTGCAATCGGTAAGCTCATACGAATTGAA
* *
60240821 GAATTGGTAAGCTCTCACGAGCTGCAATGGGTAA
1 -AATCGGTAAGCTCTCACGAGCTGCAATCGGTAA
60240855 TCCCTAATGA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
48 2 0.03
49 49 0.68
50 21 0.29
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (49 bp):
AATCGGTAAGCTCTCACGAGCTGCAATCGGTAAGCTCATACGAATTGAA
Found at i:60259947 original size:41 final size:40
Alignment explanation
Indices: 60259829--60260001 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
60259819 GCTCCTCGTT
* * *
60259829 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
60259869 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
60259908 CGAATGCCTTCGGGACTTAATCCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAA-CCCGGATTTAGTAACTCGCA
* * * **
60259949 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATTTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
60259989 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60260002 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 35 0.30
40 44 0.37
41 39 0.33
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60259988 original size:40 final size:41
Alignment explanation
Indices: 60259829--60260047 Score: 195
Period size: 40 Copynumber: 5.5 Consensus size: 41
60259819 GCTCCTCGTT
* * * * *
60259829 CAAATGCCTTCGGGACAT-AGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAATCCCGGATTTAGTATCTCGCA
* * *
60259869 C-AATGCCTTCGGGACATAA-CCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAATCCCGGATTTAGTATCTCGCA
*
60259908 CGAATGCCTTCGGGACTTAATCCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAATCCCGGATTTAGTATCTCGCA
* * *
60259949 CAAAGGCCTTCGGGGCTTAA-CCCGGAATTT-GTATTTCGCA
1 CAAATGCCTTCGGGACTTAATCCCGG-ATTTAGTATCTCGCA
* * * *
60259989 CAAATGCCTTC-GGATCTTAGT-CCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAATCCCGGATTTAGT-ATC-TCGCA
60260030 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
60260048 GCCCGGACAG
Statistics
Matches: 152, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
39 39 0.26
40 62 0.41
41 51 0.34
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAATCCCGGATTTAGTATCTCGCA
Found at i:60260063 original size:41 final size:41
Alignment explanation
Indices: 60259986--60260063 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60259976 TTTGTATTTC
* * *
60259986 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60260027 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60260064 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:60265417 original size:46 final size:46
Alignment explanation
Indices: 60265240--60265417 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
60265230 ATTGTCAGCT
* * * * *
60265240 AGTGTAAGAAATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GACGAGAGCC
* * * *
60265286 AGTGTAAGATCATGTCTAGGACATGGCATTGGC-ATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGACGAGAGCC
* *
60265334 AGTGTAAGACATATCTGGGACATGCATCGGCCT-CGAGACGTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGG-CTACGAGACG-AGAGCC
60265380 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGA
60265418 GTGTCAGCGT
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 56 0.52
47 27 0.25
48 22 0.20
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGACGAGAGCC
Found at i:60282986 original size:26 final size:26
Alignment explanation
Indices: 60282940--60283010 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
60282930 TCTCATCCCT
* *
60282940 ATTTTA-CCCAAGCAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
* *
60282965 CTTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
60282991 ATTTTTCCCCTAGTAAAATT
1 ATTTTACCCCTAGTAAAATT
60283011 GTGAAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 5 0.13
26 34 0.87
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:60283179 original size:17 final size:17
Alignment explanation
Indices: 60283154--60283191 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
60283144 AGGATTATAA
*
60283154 ATTTCTATTTTCATTTC
1 ATTTATATTTTCATTTC
60283171 ATTTATATTTTCATTTC
1 ATTTATATTTTCATTTC
60283188 ATTT
1 ATTT
60283192 TCATTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATATTTTCATTTC
Found at i:60283197 original size:17 final size:17
Alignment explanation
Indices: 60283155--60283197 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
60283145 GGATTATAAA
60283155 TTTCTATTTTCATTTCAT
1 TTTC-ATTTTCATTTCAT
60283173 TTAT-ATTTTCATTTCAT
1 TT-TCATTTTCATTTCAT
60283190 TTTCATTT
1 TTTCATTT
60283198 CTATTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 2 0.09
19 1 0.04
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCATTTTCATTTCAT
Found at i:60300071 original size:48 final size:48
Alignment explanation
Indices: 60299503--60300059 Score: 554
Period size: 48 Copynumber: 11.6 Consensus size: 48
60299493 ACAAGAGGAT
* * * * *
60299503 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATGTCGA-GGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGTCG
* * *
60299551 ATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCGTCTCAAT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGTCG
* * * *
60299599 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGTCG
* * * * *
60299647 ATGCCATGTCCCAAACATGATCTTACACTAGCGCACATATCAATGCT-G
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGTCG
* * * *
60299695 ATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCACAACATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGTCG
* * * * *
60299743 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAGATCGTGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGTCG
* * * * * *
60299791 ATGTCGTGTCCCATACATGGTCTTACACTAGCTCTCGTCTCAATGCT-G
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGTCG
* * *
60299839 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATA--ATGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG-GTC-G
* * *
60299887 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGTCG
* * * * *
60299935 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGTCG
* * *
60299983 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCGTGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGTCG
* *
60300031 ATGCCATGTCCCAGATAAGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
60300060 GGCACACATA
Statistics
Matches: 414, Mismatches: 81, Indels: 28
0.79 0.15 0.05
Matches are distributed among these distances:
45 3 0.01
47 8 0.02
48 392 0.95
49 9 0.02
51 2 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGTCG
Found at i:60300675 original size:115 final size:115
Alignment explanation
Indices: 60300520--60300753 Score: 398
Period size: 115 Copynumber: 2.0 Consensus size: 115
60300510 TACTAGAAGC
*
60300520 AGCCCACATTCCCATCATTTCACATATTTACCCCAGAATTTATAACTTATGCAAAATGGTC-CTT
1 AGCCCACATTCCCATCATTTCACACATTTACCCCAGAATTTATAACTTATGCAAAATGGTCTCTT
*
60300584 AGGGTTTTCATGAAAACTATTTCACAAAAGTTGTTTGTTTAACAACCATG
66 AGGGTTTTCATGAAAACTACTTCACAAAAGTTGTTTGTTTAACAACCATG
60300634 AGCCCACAATTCCCATCATTTCACACATTTACCCCAGAATTTATAACTTATGCAAAATGGTCTTT
1 AGCCCAC-ATTCCCATCATTTCACACATTTACCCCAGAATTTATAACTTATGCAAAATGGTC--T
*
60300699 AGTTAGGGTTTTCATGAAAACTACTTCACAAAAGTTGTTTGTTTAACAACCATG
63 -CTTAGGGTTTTCATGAAAACTACTTCACAAAAGTTGTTTGTTTAACAACCATG
60300753 A
1 A
60300754 TTCATTTTCT
Statistics
Matches: 112, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
114 7 0.06
115 53 0.47
119 52 0.46
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (115 bp):
AGCCCACATTCCCATCATTTCACACATTTACCCCAGAATTTATAACTTATGCAAAATGGTCTCTT
AGGGTTTTCATGAAAACTACTTCACAAAAGTTGTTTGTTTAACAACCATG
Found at i:60318244 original size:39 final size:40
Alignment explanation
Indices: 60318199--60318370 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
60318189 GCTCCTCGTT
* * *
60318199 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
60318239 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60318278 CGAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60318318 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
60318358 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60318371 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60318299 original size:40 final size:39
Alignment explanation
Indices: 60318201--60318423 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
60318191 TCCTCGTTCA
* * * *
60318201 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
60318240 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
60318279 GAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
60318319 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
60318359 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
60318400 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60318424 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:60318432 original size:41 final size:41
Alignment explanation
Indices: 60318355--60318432 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60318345 TTTGTATCTC
* * *
60318355 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60318396 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60318433 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:60319634 original size:95 final size:93
Alignment explanation
Indices: 60319452--60319641 Score: 326
Period size: 95 Copynumber: 2.0 Consensus size: 93
60319442 TAAATGAAGG
60319452 TGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGGAAAA
1 TGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGGAAAA
60319517 GAATCAACTACTCACTTTTTTTTTTTTTTC
66 GAATCAACTACTCAC--TTTTTTTTTTTTC
60319547 TGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCACGGCAATTGGGGGGGGGA
1 TGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCACGGCAA-T--GGGGGGGA
*
60319612 AAAGAATCAACTATTCACTTTTTTTTTTTT
63 AAAGAATCAACTACTCACTTTTTTTTTTTT
60319642 TTGTGTAATC
Statistics
Matches: 91, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
95 53 0.58
96 13 0.14
98 25 0.27
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (93 bp):
TGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGGAAAA
GAATCAACTACTCACTTTTTTTTTTTTC
Found at i:60321599 original size:17 final size:19
Alignment explanation
Indices: 60321558--60321600 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
60321548 AGTATTTCAT
60321558 ATATTATTATATACATATG
1 ATATTATTATATACATATG
*
60321577 ATTATTATT-TTTACATATG
1 A-TATTATTATATACATATG
60321596 -TATTA
1 ATATTA
60321601 ATCCACACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATATTATTATATACATATG
Found at i:60322337 original size:17 final size:18
Alignment explanation
Indices: 60322312--60322349 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
60322302 GAAGTGGTTT
*
60322312 TGAATAAAAGTTA-AAAA
1 TGAACAAAAGTTATAAAA
*
60322329 TGAACAAAATTTATAAAA
1 TGAACAAAAGTTATAAAA
60322347 TGA
1 TGA
60322350 TTTTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.26
Consensus pattern (18 bp):
TGAACAAAAGTTATAAAA
Found at i:60334777 original size:42 final size:42
Alignment explanation
Indices: 60334726--60334814 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
60334716 CTCGAACAGT
* *
60334726 TCAATGAGCTCGGATGCCACATATATCATGAACCTGAACCAC
1 TCAACGAGCTCGGATGCCACATATATCATGAACCCGAACCAC
*
60334768 TCAACGAGCTCGGATGCCACATATATCATGAACCCGGACCAC
1 TCAACGAGCTCGGATGCCACATATATCATGAACCCGAACCAC
60334810 TCAAC
1 TCAAC
60334815 AAGTTTGGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (42 bp):
TCAACGAGCTCGGATGCCACATATATCATGAACCCGAACCAC
Found at i:60339751 original size:42 final size:43
Alignment explanation
Indices: 60339704--60339859 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 43
60339694 TACCATACCA
* * * *
60339704 ATGCCATATCCCAAATATAGTCTTATACAGGA-TCTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
* * * *
60339746 ATGCCAATAGCCCAACTATGGTCTTACA-AAAAGTCTCGTATTG
1 ATGCC-ATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
* * *
60339789 ATGCCATATCCCAGATATGGTCTTACAC-GAAGCCTCATATAG
1 ATGCCATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
*
60339831 ATGCCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAAATATGGTCTTACACA
60339860 TAGTCTTAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
Found at i:60341890 original size:27 final size:27
Alignment explanation
Indices: 60341852--60341906 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
60341842 TACTAAAGTT
*
60341852 CAACTTTGTACCTAGAGCCTCTTATAA
1 CAACTTTGTACCCAGAGCCTCTTATAA
60341879 CAACTTTGTACCCAGAGCCTCTTATAA
1 CAACTTTGTACCCAGAGCCTCTTATAA
60341906 C
1 C
60341907 TTCTTCCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (27 bp):
CAACTTTGTACCCAGAGCCTCTTATAA
Found at i:60349411 original size:43 final size:43
Alignment explanation
Indices: 60349346--60349428 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
60349336 CCCAGATGTT
* * * *
60349346 ATCACATATCGATGCCACTGTCCTAGACAGGGTTTTATACGGA
1 ATCACATAACGATGCCAATGTCCCAGACAGGGTCTTATACGGA
* *
60349389 ATCATATAACGATGCCAATGTCCCAGACATGGTCTTATAC
1 ATCACATAACGATGCCAATGTCCCAGACAGGGTCTTATAC
60349429 TATTCCTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGTCCCAGACAGGGTCTTATACGGA
Found at i:60357474 original size:27 final size:27
Alignment explanation
Indices: 60357444--60357498 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
60357434 GTGAAATGTG
60357444 TTTATTTTGATGTTTTATGGTAGAATA
1 TTTATTTTGATGTTTTATGGTAGAATA
60357471 TTTATTTTGATGTTTTATGGTAGAATA
1 TTTATTTTGATGTTTTATGGTAGAATA
60357498 T
1 T
60357499 GAAGCTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.56
Consensus pattern (27 bp):
TTTATTTTGATGTTTTATGGTAGAATA
Found at i:60359514 original size:16 final size:16
Alignment explanation
Indices: 60359495--60359531 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
60359485 TCTTGAGATA
60359495 TGTTTACTACGAGAAT
1 TGTTTACTACGAGAAT
60359511 TGTTTACTACGAGAAT
1 TGTTTACTACGAGAAT
60359527 TGTTT
1 TGTTT
60359532 GAACTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (16 bp):
TGTTTACTACGAGAAT
Found at i:60360564 original size:11 final size:11
Alignment explanation
Indices: 60360548--60360572 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60360538 ATTCGATTCG
60360548 AAAAAATCGAA
1 AAAAAATCGAA
60360559 AAAAAATCGAA
1 AAAAAATCGAA
60360570 AAA
1 AAA
60360573 CAGATGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAATCGAA
Found at i:60360691 original size:9 final size:9
Alignment explanation
Indices: 60360679--60360711 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
60360669 GAATTATTCG
60360679 AATCGAGTT
1 AATCGAGTT
60360688 AATCGAGTT
1 AATCGAGTT
*
60360697 AATCGAATT
1 AATCGAGTT
60360706 AATCGA
1 AATCGA
60360712 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:60360712 original size:9 final size:9
Alignment explanation
Indices: 60360679--60360724 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
60360669 GAATTATTCG
*
60360679 AATCGAGTT
1 AATCGAATT
*
60360688 AATCGAGTT
1 AATCGAATT
60360697 AATCGAATT
1 AATCGAATT
*
60360706 AATCGAATC
1 AATCGAATT
60360715 AACTCGAATT
1 AA-TCGAATT
60360725 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:60360782 original size:9 final size:9
Alignment explanation
Indices: 60360768--60360801 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
60360758 ATTCTCAAAT
*
60360768 TCGAATAAC
1 TCGAATAAA
*
60360777 TCGAATAAT
1 TCGAATAAA
60360786 TCGAATAAA
1 TCGAATAAA
60360795 TCGAATA
1 TCGAATA
60360802 TAAACAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:60360788 original size:18 final size:18
Alignment explanation
Indices: 60360765--60360801 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60360755 TGAATTCTCA
*
60360765 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
60360783 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
60360801 A
1 A
60360802 TAAACAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:60377389 original size:29 final size:28
Alignment explanation
Indices: 60377354--60377431 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
60377344 TCATGAGATT
60377354 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
60377384 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
60377411 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
60377432 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:60377699 original size:173 final size:174
Alignment explanation
Indices: 60377384--60377710 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
60377374 AAATTGTACA
* *
60377384 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
60377449 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
60377514 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
60377558 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
60377623 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
60377687 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
60377711 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:60384283 original size:49 final size:50
Alignment explanation
Indices: 60384214--60384446 Score: 263
Period size: 49 Copynumber: 4.7 Consensus size: 50
60384204 ATCTATTGTA
* *
60384214 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
60384264 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
60384314 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
60384364 AGGTCATATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
60384414 -GGTCGCATGTGAAATACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
60384447 TGCGTACCAG
Statistics
Matches: 152, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 71 0.47
50 44 0.29
51 37 0.24
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:60386363 original size:12 final size:12
Alignment explanation
Indices: 60386346--60386374 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
60386336 GTACTCAAAG
60386346 AAACGATCACAA
1 AAACGATCACAA
60386358 AAACGATCACAA
1 AAACGATCACAA
60386370 AAACG
1 AAACG
60386375 TATAAATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.24, G:0.10, T:0.07
Consensus pattern (12 bp):
AAACGATCACAA
Found at i:60387583 original size:42 final size:42
Alignment explanation
Indices: 60387468--60387622 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
60387458 TACCATACCA
* * *
60387468 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATACCAGATATGGTCTTACACGAAG-TCTCGTATCG
60387510 ATGCCA-ATAGCCCA-ACTATGGTCTTACACGAAGTCTCGTATCG
1 ATGCCATATA--CCAGA-TATGGTCTTACACGAAGTCTCGTATCG
* *
60387553 ATGCCATATACCAGATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATACCAGATATGGTCTTACACGAAGTCTCGTATCG
* * *
60387595 ATGTCATATCCCAGATATGATCTTACAC
1 ATGCCATATACCAGATATGGTCTTACAC
60387623 ATAGTCTTAG
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.02
42 60 0.61
43 33 0.33
44 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATACCAGATATGGTCTTACACGAAGTCTCGTATCG
Found at i:60393820 original size:30 final size:30
Alignment explanation
Indices: 60393786--60393846 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
60393776 TTCCCGAGCC
60393786 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
60393816 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
60393846 T
1 T
60393847 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:60394629 original size:68 final size:67
Alignment explanation
Indices: 60394557--60394706 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
60394547 CATCATGTGT
* * * *
60394557 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
60394619 ATGTAG
62 ATGTAG
** * *
60394625 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
60394690 AG
66 AG
60394692 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
60394707 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:60394662 original size:64 final size:64
Alignment explanation
Indices: 60394581--60394764 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
60394571 AGACATTATG
* *
60394581 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
60394645 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60394710 AA
63 AA
* * * *
60394712 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
60394765 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60402332 original size:40 final size:39
Alignment explanation
Indices: 60402277--60402450 Score: 181
Period size: 40 Copynumber: 4.4 Consensus size: 39
60402267 TGATAACCGA
* * *
60402277 GCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTCCGG
*
60402317 GCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TCCGG
*
60402357 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTCCGG
* * * * *
60402397 GATATGTCCTGAAGGCATTCGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-TCCGG
* *
60402436 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
60402451 TACCTGGCTT
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.13
40 99 0.87
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTCCGG
Found at i:60402411 original size:80 final size:79
Alignment explanation
Indices: 60402277--60402450 Score: 208
Period size: 80 Copynumber: 2.2 Consensus size: 79
60402267 TGATAACCGA
* ** * *
60402277 GCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGTA-C
1 GCTAAGTCCCGAAGGCATTTGCGCGAGTGACTACATCCGGGATAAGTCCCGAAGGCATTCG-AGC
60402341 GAGTTA-CTATATCCGG
65 GAG-TAGCTATATCC-G
* * * *
60402357 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGATATGTCCTGAAGGCATTCGAGCG
1 GCTAAGTCCCGAAGGCATTTGCGCGAGTGACTACATCCGGGATAAGTCCCGAAGGCATTCGAGCG
60402422 AGTAGCTATATCCG
66 AGTAGCTATATCCG
* *
60402436 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
60402451 TACCTGGCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 17 0.21
80 64 0.79
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
GCTAAGTCCCGAAGGCATTTGCGCGAGTGACTACATCCGGGATAAGTCCCGAAGGCATTCGAGCG
AGTAGCTATATCCG
Found at i:60428107 original size:59 final size:59
Alignment explanation
Indices: 60428034--60428171 Score: 276
Period size: 59 Copynumber: 2.3 Consensus size: 59
60428024 TAGGGTCTGA
60428034 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGTAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGTAGGGG
60428093 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGTAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGTAGGGG
60428152 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
60428172 CCCGCTGCAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (59 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGTAGGGG
Found at i:60430754 original size:34 final size:34
Alignment explanation
Indices: 60430716--60430783 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
60430706 TGTTTTTGAG
*
60430716 ATTGTCAGATTATATGATGTGCTAGTTTCTGCTA
1 ATTGTCAAATTATATGATGTGCTAGTTTCTGCTA
60430750 ATTGTCAAATTATATGATGTGCTAGTTTCTGCTA
1 ATTGTCAAATTATATGATGTGCTAGTTTCTGCTA
60430784 TGTCTGATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (34 bp):
ATTGTCAAATTATATGATGTGCTAGTTTCTGCTA
Found at i:60434344 original size:40 final size:40
Alignment explanation
Indices: 60434300--60434646 Score: 601
Period size: 40 Copynumber: 8.7 Consensus size: 40
60434290 GCTACTTGCT
*
60434300 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
60434340 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
60434380 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
60434420 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
60434460 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
60434500 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
* *
60434540 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
* * *
60434580 CAAATGCCTTCGGG-CTTAGCCTGGAATT--AGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTAGAGTAACTCGCA
60434619 CAAATGCCTTCGGGACTTAGCCCGGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA
60434647 TCATCCGAAT
Statistics
Matches: 295, Mismatches: 8, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
38 2 0.01
39 32 0.11
40 260 0.88
41 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
Found at i:60440341 original size:21 final size:20
Alignment explanation
Indices: 60440290--60440342 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
60440280 TTGGTCTAAG
* *
60440290 GGACACGCCCGTGTGACGCT
1 GGACACGCCCGTGTCACCCT
*
60440310 GGAGCATGCCCGTGTCACCCT
1 GGA-CACGCCCGTGTCACCCT
60440331 AGGACACGCCCG
1 -GGACACGCCCG
60440343 CGCTATAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.17, C:0.38, G:0.32, T:0.13
Consensus pattern (20 bp):
GGACACGCCCGTGTCACCCT
Found at i:60443634 original size:49 final size:49
Alignment explanation
Indices: 60443578--60443809 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
60443568 CTGGTATGCA
*
60443578 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
60443627 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * *
60443677 TAGTAGCATGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
60443728 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
60443777 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
60443810 TCACAATAGA
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 37 0.24
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:60443747 original size:101 final size:98
Alignment explanation
Indices: 60443578--60443809 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 98
60443568 CTGGTATGCA
* * *
60443578 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* * *
60443643 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACAATCCGATACACG
* * * *
60443677 TAGTAGCATGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * *
60443742 TAGTACTACACATGCGACCAATAATCCGGTACACG
64 TAGTACTACACACGCGACCAACAATCCGATACACG
60443777 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
60443810 TCACAATAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 42 0.36
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACAATCCGATACACG
Found at i:60444086 original size:27 final size:27
Alignment explanation
Indices: 60444056--60444109 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
60444046 TCATACAACC
* *
60444056 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
60444083 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
60444110 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:60447410 original size:29 final size:29
Alignment explanation
Indices: 60447363--60447420 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
60447353 TATCTTCTAT
* *
60447363 TAGGAATAGCATTTTGATATGATAATAAA
1 TAGGAATAACATTTCGATATGATAATAAA
*
60447392 TAGGAATAACGTTTCGATATGATAATAAA
1 TAGGAATAACATTTCGATATGATAATAAA
60447421 AATGGGTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (29 bp):
TAGGAATAACATTTCGATATGATAATAAA
Found at i:60460262 original size:46 final size:46
Alignment explanation
Indices: 60460026--60460241 Score: 432
Period size: 46 Copynumber: 4.7 Consensus size: 46
60460016 ACCCCGCCCC
60460026 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
60460072 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
60460118 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
60460164 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
60460210 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
60460242 AATGCTCAAC
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 170 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:60468441 original size:21 final size:21
Alignment explanation
Indices: 60468399--60468441 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60468389 AGCACATGTA
* *
60468399 TTCATAAAATTTTATAATTTT
1 TTCATAAAATTTTACAACTTT
*
60468420 TTCATCAAATTTTACAACTTT
1 TTCATAAAATTTTACAACTTT
60468441 T
1 T
60468442 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
TTCATAAAATTTTACAACTTT
Found at i:60471825 original size:74 final size:74
Alignment explanation
Indices: 60471738--60471884 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 74
60471728 TACTTTTATC
*
60471738 ACTCAATTCATACTTCATTTCTATTCAATTTCCTATCACATTCTCTTTAAACATTAAATATTTAT
1 ACTCAATTCATACTTCATTTCTATTCAATTTCCTATCACATTCTCTTTAAACATTAAATATTCAT
60471803 GGTAAAACT
66 GGTAAAACT
60471812 ACTCAATTCATACTTCATTTCTATTCAATTTCCTATCACATTCTCTTTAAACATTAAATATTCAT
1 ACTCAATTCATACTTCATTTCTATTCAATTTCCTATCACATTCTCTTTAAACATTAAATATTCAT
60471877 GGTAAAAC
66 GGTAAAAC
60471885 CCTAATCTCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (74 bp):
ACTCAATTCATACTTCATTTCTATTCAATTTCCTATCACATTCTCTTTAAACATTAAATATTCAT
GGTAAAACT
Found at i:60472220 original size:26 final size:26
Alignment explanation
Indices: 60472170--60472220 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
60472160 ATTTCCCTTT
*
60472170 TCTTTTTCTTTCCTTCTTTCTTTCTC
1 TCTTTTTCTTTCCTTCTTTCGTTCTC
*
60472196 TCTTTTTCGTTTCTTTCTTT-GTTCT
1 TCTTTTTC-TTTCCTTCTTTCGTTCT
60472221 TATTCTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (26 bp):
TCTTTTTCTTTCCTTCTTTCGTTCTC
Found at i:60472254 original size:21 final size:22
Alignment explanation
Indices: 60472220--60472273 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
60472210 TTCTTTGTTC
* * *
60472220 TTATTCTTTTGTTTTATTTTAT
1 TTATTATTATGTTTTATTATAT
60472242 TTATT-TTATGTTTTATTATAT
1 TTATTATTATGTTTTATTATAT
60472263 TATATTATTAT
1 T-TATTATTAT
60472274 AACTTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.54
22 9 0.32
23 4 0.14
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTATTATTATGTTTTATTATAT
Found at i:60478067 original size:15 final size:16
Alignment explanation
Indices: 60478047--60478076 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60478037 ATAATAACAA
60478047 TACTTACC-TTTATAC
1 TACTTACCATTTATAC
60478062 TACTTACCATTTATA
1 TACTTACCATTTATA
60478077 TATAATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (16 bp):
TACTTACCATTTATAC
Found at i:60478744 original size:17 final size:19
Alignment explanation
Indices: 60478686--60478737 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
60478676 CCCTTTTCTT
*
60478686 TTTCTTTCT-T-TCCTTC-
1 TTTCTTTCTCTCTTCTTCA
*
60478702 TTTCTTTCTCTCTTTTTCA
1 TTTCTTTCTCTCTTCTTCA
*
60478721 TTTCTTTCTCTGTTCTT
1 TTTCTTTCTCTCTTCTT
60478738 ATTCTTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 9 0.31
17 1 0.03
18 4 0.14
19 15 0.52
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTCTTTCTCTCTTCTTCA
Found at i:60478789 original size:8 final size:8
Alignment explanation
Indices: 60478778--60478810 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
60478768 TTTTATTATG
60478778 TTATATTA
1 TTATATTA
60478786 TTATATTA
1 TTATATTA
*
60478794 ATATATTA
1 TTATATTA
60478802 TTATATTA
1 TTATATTA
60478810 T
1 T
60478811 ATACTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:60478811 original size:13 final size:13
Alignment explanation
Indices: 60478770--60478812 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
60478760 ATTTTATGTT
*
60478770 TTATTATGTTATA
1 TTATTATATTATA
60478783 TTATTATATTAATATA
1 TTATTATA-T--TATA
60478799 TTATTATATTATA
1 TTATTATATTATA
60478812 T
1 T
60478813 ACTTAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 12 0.46
14 1 0.04
15 1 0.04
16 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:60492974 original size:42 final size:43
Alignment explanation
Indices: 60492866--60493030 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 43
60492856 AGCTCATACA
* * *
60492866 ATGCCAAC-GTCCCATACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAAACATGGTCTTACATGAAATCAAATATCG
* * *
60492909 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAAATAT-G
1 ATGCCACTGTCCCAAACATGGTCTTACATGAAATCAAATATCG
* * *
60492951 ATGCTGA-TGTCCCAAACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGC-CACTGTCCCAAACATGGTCTTACATG-AAATCA-AATATCG
* * * *
60492995 ATGCCAGC-GTCCTAGACGTGGTCTTACACGAAATCA
1 ATGCCA-CTGTCCCAAACATGGTCTTACATGAAATCA
60493031 CATAACAAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
42 27 0.27
43 47 0.47
44 26 0.26
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAAACATGGTCTTACATGAAATCAAATATCG
Found at i:60494741 original size:7 final size:7
Alignment explanation
Indices: 60494729--60494755 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
60494719 GGGAATTAGG
60494729 GATTTGA
1 GATTTGA
60494736 GATTTGA
1 GATTTGA
60494743 GATTTGA
1 GATTTGA
60494750 GATTTG
1 GATTTG
60494756 TGGATTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (7 bp):
GATTTGA
Found at i:60494945 original size:21 final size:20
Alignment explanation
Indices: 60494896--60494946 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
60494886 TACATGGCCT
60494896 TGTCACAC-GGCTGTACCCC
1 TGTCACACGGGCTGTACCCC
* *
60494915 TGCGCTACACGGGCATGTACCTC
1 TG-TC-ACACGGGC-TGTACCCC
60494938 TGTCACACG
1 TGTCACACG
60494947 ACCATGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 2 0.08
20 1 0.04
21 9 0.36
22 4 0.16
23 9 0.36
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.22
Consensus pattern (20 bp):
TGTCACACGGGCTGTACCCC
Found at i:60495305 original size:14 final size:14
Alignment explanation
Indices: 60495288--60495318 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60495278 ATACATCCAG
60495288 ATACATACATCTGC
1 ATACATACATCTGC
*
60495302 ATACATTCATCTGC
1 ATACATACATCTGC
60495316 ATA
1 ATA
60495319 TAAATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (14 bp):
ATACATACATCTGC
Found at i:60498577 original size:21 final size:21
Alignment explanation
Indices: 60498553--60498629 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
60498543 GCCACTGCGC
* *
60498553 CACACAGGCGTTTGCCTCTGT
1 CACACGGGCGTGTGCCTCTGT
60498574 CACACGGGCGTGTGCCTCTGT
1 CACACGGGCGTGTGCCTCTGT
60498595 CACACGGGCGTGTGCCTCTGT
1 CACACGGGCGTGTGCCTCTGT
60498616 CACAC-GGCGTGTGC
1 CACACGGGCGTGTGC
60498630 TACCCTTTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 9 0.17
21 45 0.83
ACGTcount: A:0.12, C:0.34, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTCTGT
Found at i:60502106 original size:14 final size:14
Alignment explanation
Indices: 60502089--60502126 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
60502079 TGAATTGGTG
*
60502089 CATCTGCATTCATA
1 CATCTGCATACATA
*
60502103 CATCCGCATACATA
1 CATCTGCATACATA
60502117 CATCTGCATA
1 CATCTGCATA
60502127 TAAAGTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.29
Consensus pattern (14 bp):
CATCTGCATACATA
Found at i:60505694 original size:24 final size:23
Alignment explanation
Indices: 60505651--60505745 Score: 72
Period size: 25 Copynumber: 4.0 Consensus size: 23
60505641 TGGCCCTTAA
*
60505651 TCTTTGTATTTTTTATTTTTATT
1 TCTTTGTATTTATTATTTTTATT
60505674 TCTTTGTTATTCTATTA-TTTTATTT
1 TCTTTG-TATT-TATTATTTTTA-TT
*
60505699 TATTTAGTAATATTATTATTTTTA-T
1 TCTTT-GT-AT-TTATTATTTTTATT
* *
60505724 TATTTCT-TTTATTA-TTTTATT
1 TCTTTGTATTTATTATTTTTATT
60505745 T
1 T
60505746 TTAGCCCCAC
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
20 5 0.08
21 8 0.13
22 1 0.02
23 6 0.10
24 10 0.16
25 17 0.28
26 8 0.13
27 6 0.10
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (23 bp):
TCTTTGTATTTATTATTTTTATT
Found at i:60505827 original size:23 final size:21
Alignment explanation
Indices: 60505778--60505828 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
60505768 TATTTTGATC
*
60505778 ATTATTTTTATTGTTTTTTGTT
1 ATTA-TTTTATTATTTTTTGTT
60505800 ATTATTTTATTATTATTCTTGTT
1 ATTATTTTATTATT-TT-TTGTT
*
60505823 TTTATT
1 ATTATT
60505829 ACCAACCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
22 6 0.24
23 10 0.40
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.75
Consensus pattern (21 bp):
ATTATTTTATTATTTTTTGTT
Found at i:60510423 original size:6 final size:6
Alignment explanation
Indices: 60510412--60510470 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
60510402 AGTTTATTTC
60510412 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
60510460 TTTTAT TTTTA
1 TTTTAT TTTTA
60510471 CTTGTTTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:60512273 original size:33 final size:32
Alignment explanation
Indices: 60512228--60512303 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
60512218 ACACAGTGCA
* *
60512228 TATAGTAACAGTCTAGGCCAAAGCCCTATTTAG
1 TATAGT-ACAGTCTAGGCCAAAGCCCAATTCAG
* *
60512261 TAATAGTACAGTCTGGGCCTAAGCCCAATTCAG
1 T-ATAGTACAGTCTAGGCCAAAGCCCAATTCAG
60512294 TATCAGTACA
1 TAT-AGTACA
60512304 ATGCAGGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (32 bp):
TATAGTACAGTCTAGGCCAAAGCCCAATTCAG
Found at i:60516683 original size:41 final size:41
Alignment explanation
Indices: 60516606--60516683 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60516596 TTAGTATCTC
* * *
60516606 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60516647 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60516684 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60524434 original size:39 final size:40
Alignment explanation
Indices: 60524389--60524573 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
60524379 GCTCCTCGTT
* * *
60524389 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
60524429 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
60524468 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
60524508 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
60524549 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
60524574 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60524489 original size:40 final size:39
Alignment explanation
Indices: 60524356--60524573 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
60524346 AAATCACGTA
* * **
60524356 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
60524395 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
60524434 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
60524474 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
60524514 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
60524554 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
60524574 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:60536349 original size:48 final size:48
Alignment explanation
Indices: 60536276--60536367 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
60536266 CAACATTACA
*
60536276 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAACTTAGAACAAACTTTGTAATATAAATTAAAT
*
60536324 ACATTACAATATTAAAACTTAGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAACTTAGAACAAACTTTGTAATATAAATT
60536368 TTGTAATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (48 bp):
ACATTACAACATTAAAACTTAGAACAAACTTTGTAATATAAATTAAAT
Found at i:60536372 original size:14 final size:14
Alignment explanation
Indices: 60536347--60536381 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
60536337 AAAACTTAGA
*
60536347 ACAAACTTTGTAAT
1 ACAAATTTTGTAAT
*
60536361 ATAAATTTTGTAAT
1 ACAAATTTTGTAAT
60536375 ACAAATT
1 ACAAATT
60536382 AAATACATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (14 bp):
ACAAATTTTGTAAT
Found at i:60536381 original size:62 final size:62
Alignment explanation
Indices: 60536305--60536429 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
60536295 TGGAACAAAC
* *
60536305 TTTGTAATATAAATTAAATACATTACAATATTAAAACTTAGAACAAACTTTGTAATATAAAT
1 TTTGTAATACAAATTAAATACATTACAACATTAAAACTTAGAACAAACTTTGTAATATAAAT
*
60536367 TTTGTAATACAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 TTTGTAATACAAATTAAATACATTACAACATTAAAACTTAGAACAAACTTTGTAATATAAAT
60536429 T
1 T
60536430 AGGTACATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (62 bp):
TTTGTAATACAAATTAAATACATTACAACATTAAAACTTAGAACAAACTTTGTAATATAAAT
Found at i:60540109 original size:4 final size:4
Alignment explanation
Indices: 60540100--60540157 Score: 66
Period size: 4 Copynumber: 14.5 Consensus size: 4
60540090 AAAAATACAT
* *
60540100 TTTC TTTC TTTC TTT- TTTC TCT- TTTC TTTC TTTAT TTTC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C TTTC -TTTC TTTC
60540148 TTTC TTTC TT
1 TTTC TTTC TT
60540158 CTCCCTCTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 5 0.11
4 34 0.74
5 7 0.15
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:60540124 original size:9 final size:8
Alignment explanation
Indices: 60540099--60540157 Score: 64
Period size: 9 Copynumber: 6.9 Consensus size: 8
60540089 AAAAAATACA
60540099 TTTTCTTT
1 TTTTCTTT
*
60540107 CTTTCTTT
1 TTTTCTTT
60540115 TTTCTCTTT
1 TTT-TCTTT
60540124 TCTTTCTTT
1 T-TTTCTTT
60540133 ATTTTCTTT
1 -TTTTCTTT
60540142 TCTTTCTTT
1 T-TTTCTTT
*
60540151 CTTTCTT
1 TTTTCTT
60540158 CTCCCTCTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
8 16 0.36
9 25 0.57
10 3 0.07
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTCTTT
Found at i:60540127 original size:18 final size:19
Alignment explanation
Indices: 60540104--60540156 Score: 83
Period size: 18 Copynumber: 2.9 Consensus size: 19
60540094 ATACATTTTC
60540104 TTTCTTTCTTT-TTTCTCT
1 TTTCTTTCTTTATTTCTCT
60540122 TTTCTTTCTTTATTT-TCT
1 TTTCTTTCTTTATTTCTCT
*
60540140 TTTCTTTCTTTCTTTCT
1 TTTCTTTCTTTATTTCT
60540157 TCTCCCTCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 28 0.88
19 4 0.12
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTCTTTCTTTATTTCTCT
Found at i:60540127 original size:22 final size:23
Alignment explanation
Indices: 60540099--60540157 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
60540089 AAAAAATACA
60540099 TTTTCTTTCTTTCTTTT-TTCTC
1 TTTTCTTTCTTTCTTTTCTTCTC
* *
60540121 TTTTCTTTCTTTATTTTCTTTTC
1 TTTTCTTTCTTTCTTTTCTTCTC
60540144 -TTTCTTTCTTTCTT
1 TTTTCTTTCTTTCTT
60540158 CTCCCTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCTTTCTTTCTTTTCTTCTC
Done.