Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 16 of 59
Found at i:5752625 original size:13 final size:13
Alignment explanation
Indices: 5752609--5752638 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5752599 ATTATACAAA
5752609 AAAATTACTTGAT
1 AAAATTACTTGAT
5752622 AAAATTACTTGAT
1 AAAATTACTTGAT
5752635 AAAA
1 AAAA
5752639 ATAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (13 bp):
AAAATTACTTGAT
Found at i:5752658 original size:18 final size:18
Alignment explanation
Indices: 5752637--5752674 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
5752627 TACTTGATAA
5752637 AAATAAATAAT-AAGTAAT
1 AAAT-AATAATAAAGTAAT
5752655 AAATAATAATAAAGTAAT
1 AAATAATAATAAAGTAAT
5752673 AA
1 AA
5752675 CAATTCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAATAATAATAAAGTAAT
Found at i:5758132 original size:73 final size:72
Alignment explanation
Indices: 5758034--5758230 Score: 286
Period size: 73 Copynumber: 2.7 Consensus size: 72
5758024 GGCTGGTTTA
* * *
5758034 AAAATAGAGACGACTTAATCAACTAAGAAGCATTGTTGGTCGACTAAGAGCTTACTACCAGAAAT
1 AAAATAGAGATGACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTACCAGAAAT
*
5758099 TGGGTTC
66 TGGATTC
* ** * *
5758106 AGAAATAGGGATGACTTAATTGACTAAGAAGCATAGTTAGTCGACTAAGAGCTTATTGCCAGAAA
1 A-AAATAGAGATGACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTACCAGAAA
5758171 TTGGATTC
65 TTGGATTC
*
5758179 AAAGATAGAGATGACTTAATCAACTAAGAAGCATAGTTAGTTGACTAAGAGC
1 AAA-ATAGAGATGACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGC
5758231 ATTCTATCTG
Statistics
Matches: 110, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
72 3 0.03
73 107 0.97
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (72 bp):
AAAATAGAGATGACTTAATCAACTAAGAAGCATAGTTAGTCGACTAAGAGCTTACTACCAGAAAT
TGGATTC
Found at i:5762099 original size:35 final size:35
Alignment explanation
Indices: 5762029--5762101 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
5762019 CTTACTCAGC
* *
5762029 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCCTACACACACAAGGCAAAATCA
***
5762064 TCATGTGCACTCCCTACACACACATTTCAAAATCA
1 TCATGTGCACTCCCTACACACACAAGGCAAAATCA
5762099 TCA
1 TCA
5762102 CACGCACTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.34, G:0.10, T:0.23
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACACACAAGGCAAAATCA
Found at i:5763393 original size:19 final size:19
Alignment explanation
Indices: 5763369--5763410 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
5763359 GGTGGTATGG
5763369 TGAAAATAGCATGGGAGCA
1 TGAAAATAGCATGGGAGCA
* *
5763388 TGAAAATGGCGTGGGAGCA
1 TGAAAATAGCATGGGAGCA
5763407 TGAA
1 TGAA
5763411 GGAGAAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.36, T:0.17
Consensus pattern (19 bp):
TGAAAATAGCATGGGAGCA
Found at i:5765744 original size:26 final size:26
Alignment explanation
Indices: 5765688--5765746 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
5765678 GGCCGGCCAT
* *
5765688 AAGGAAAGAACAAGAGAGAAAATCGA
1 AAGGAAAGAACAAAAGAGAAAAACGA
* *
5765714 GAGGAAAGGAAGAAAAGAGAAAAAC-A
1 AAGGAAA-GAACAAAAGAGAAAAACGA
5765740 AAGGAAA
1 AAGGAAA
5765747 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAAACGA
Found at i:5771621 original size:67 final size:66
Alignment explanation
Indices: 5771458--5771625 Score: 196
Period size: 67 Copynumber: 2.5 Consensus size: 66
5771448 CACAATCTTT
* * * *
5771458 AACAATGGTTTTTCATGGGATCAACCAAAACCCAAAGTGGTTTTTTAAGACTCAATCACAACCTT
1 AACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTAAAGACTCAACCACAACCTA
*
5771523 T
66 C
* * * * * *
5771524 TACACTAGTTTTTCACGGGCT-AAGCTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACC
1 AACAATGGTTTTTCACGGGATCAA-CCAAAACCCAAAGTGGTTTTT-AAAGACTCAACCACAACC
5771588 TAC
64 TAC
5771591 AACAATGGTTTTT-ACCGGGATCAACCAAAACCCAA
1 AACAATGGTTTTTCA-CGGGATCAACCAAAACCCAA
5771626 CAACTAACTT
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
65 2 0.02
66 37 0.45
67 41 0.50
68 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (66 bp):
AACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTAAAGACTCAACCACAACCTA
C
Found at i:5774467 original size:43 final size:42
Alignment explanation
Indices: 5774419--5774571 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 42
5774409 TTCCCAGCTC
**
5774419 ATGCGCACTCCTTACTCGCACATGGCTAGG-TCATCACCGGGTT
1 ATGCGCACTCC-TACTCGCACAT-AATAGGATCATCACCGGGTT
* *
5774462 ATGCGCACTCCCTACTCACACATAATCGGATCATCACCGGGTT
1 ATGCGCACT-CCTACTCGCACATAATAGGATCATCACCGGGTT
* * * * * *
5774505 ATGCGCACTTCCTACTTGCACATAATCGGGTCATCATCAGCTT
1 ATGCGCAC-TCCTACTCGCACATAATAGGATCATCACCGGGTT
*
5774548 ATGCACACTCCCTACTCGCACATA
1 ATGCGCACT-CCTACTCGCACATA
5774572 GCCGAGTCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 4 0.04
43 87 0.93
44 3 0.03
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCGCACTCCTACTCGCACATAATAGGATCATCACCGGGTT
Found at i:5774612 original size:2 final size:2
Alignment explanation
Indices: 5774605--5774630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5774595 CAATGTATTC
5774605 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
5774631 CAACACAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5781764 original size:66 final size:67
Alignment explanation
Indices: 5781682--5781868 Score: 252
Period size: 66 Copynumber: 2.8 Consensus size: 67
5781672 GACTTTTCGC
* *
5781682 AGGCTCAGCCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTC
1 AGGCTCAACCACAACCTTTAACAATGATTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTC
5781747 -A
66 AA
* * * * * * *
5781748 AGGCTCAACCACAACCTTTTACACTAATTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTTC
1 AGGCTCAACCACAACCTTTAACAATGATTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTC
5781813 AA
66 AA
* *
5781815 AGGCTCAACCACAACCTATAACAATGATTTTT-ACCGAGATCAACCAAAACCCAA
1 AGGCTCAACCACAACCTTTAACAATGATTTTTCA-CGGGATCAACCAAAACCCAA
5781869 CAACCAACTT
Statistics
Matches: 102, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
66 57 0.56
67 45 0.44
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (67 bp):
AGGCTCAACCACAACCTTTAACAATGATTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTC
AA
Found at i:5793509 original size:73 final size:73
Alignment explanation
Indices: 5793389--5793589 Score: 197
Period size: 73 Copynumber: 2.8 Consensus size: 73
5793379 ATTAAGATGG
* * * * ** *
5793389 CTGG-TTCAAAAACAAAGATGACTTAATCGATTAAGAAGTATTTTTAGTTGACTAAAAACCTACT
1 CTGGATTCAGAAACAAAGACGACTTAATCGACTAAGAAGCATAATTAGTCGACTAAAAACCTACT
* *
5793453 ATTAGAAA
66 ATCAAAAA
* * *** * * *
5793461 CTGGGTTTAGAAATTGAGACGACTTAATCGACTAAGAAGCATAATTAGTCGACTAAGAGCTTACT
1 CTGGATTCAGAAACAAAGACGACTTAATCGACTAAGAAGCATAATTAGTCGACTAAAAACCTACT
5793526 ATCAAAAA
66 ATCAAAAA
** * * *
5793534 CTGGATTCAGAGGCAAAGACGACATAATCAACTAAGAAGCATAGTTAGTCGACTAA
1 CTGGATTCAGAAACAAAGACGACTTAATCGACTAAGAAGCATAATTAGTCGACTAA
5793590 GAGCATTCTA
Statistics
Matches: 102, Mismatches: 26, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
72 4 0.04
73 98 0.96
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (73 bp):
CTGGATTCAGAAACAAAGACGACTTAATCGACTAAGAAGCATAATTAGTCGACTAAAAACCTACT
ATCAAAAA
Found at i:5798818 original size:13 final size:14
Alignment explanation
Indices: 5798800--5798832 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5798790 GCAACTTTCC
5798800 TTAAAA-ATTCTTT
1 TTAAAAGATTCTTT
*
5798813 TTAAAAGATTTTTT
1 TTAAAAGATTCTTT
5798827 TTAAAA
1 TTAAAA
5798833 TAAGTACGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (14 bp):
TTAAAAGATTCTTT
Found at i:5800024 original size:19 final size:20
Alignment explanation
Indices: 5800000--5800046 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
5799990 TAAAATGGAA
5800000 AGAAAAAAGAAA-AGAAAAG
1 AGAAAAAAGAAAGAGAAAAG
*
5800019 A-AAAAAAGAAAGAGTAAAG
1 AGAAAAAAGAAAGAGAAAAG
5800038 AAGAAAAAA
1 -AGAAAAAA
5800047 AATTGACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
20 1 0.04
21 6 0.25
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AGAAAAAAGAAAGAGAAAAG
Found at i:5803895 original size:19 final size:19
Alignment explanation
Indices: 5803873--5803914 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
5803863 AAGAGACAAG
5803873 ATAAAATCTTTA-AAATAAA
1 ATAAAAT-TTTATAAATAAA
* *
5803892 ATAATATTTTATTAATAAA
1 ATAAAATTTTATAAATAAA
5803911 ATAA
1 ATAA
5803915 TATTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAATTTTATAAATAAA
Found at i:5804422 original size:28 final size:28
Alignment explanation
Indices: 5804390--5804465 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
5804380 TTCGAAGTAT
5804390 AAGGGTAAAATGATAATTTTACCGCCCC
1 AAGGGTAAAATGATAATTTTACCGCCCC
* * *
5804418 AAGGGTAAAATGGTAATTTTGCCGCCTC
1 AAGGGTAAAATGATAATTTTACCGCCCC
* * *
5804446 ATGGGCAAAATTATAATTTT
1 AAGGGTAAAATGATAATTTT
5804466 TCACCATCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGTAAAATGATAATTTTACCGCCCC
Found at i:5805057 original size:10 final size:11
Alignment explanation
Indices: 5805039--5805075 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
5805029 GTGGCTGAAA
5805039 TTGATGATATT
1 TTGATGATATT
5805050 TT-ATGATATT
1 TTGATGATATT
*
5805060 TTGGTGATA-T
1 TTGATGATATT
5805070 TTGATG
1 TTGATG
5805076 TTTGGTGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (11 bp):
TTGATGATATT
Found at i:5828403 original size:21 final size:21
Alignment explanation
Indices: 5828379--5828418 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
5828369 AAGTTACATA
5828379 AAAAATCTAAATTATGTATTG
1 AAAAATCTAAATTATGTATTG
5828400 AAAAATCTAAATTATGTAT
1 AAAAATCTAAATTATGTAT
5828419 GTTATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
AAAAATCTAAATTATGTATTG
Found at i:5831166 original size:2 final size:2
Alignment explanation
Indices: 5831159--5831207 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
5831149 GAAAAATACC
5831159 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5831201 AT AT AT A
1 AT AT AT A
5831208 NNATATAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5831614 original size:26 final size:26
Alignment explanation
Indices: 5831585--5831689 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
5831575 TCATGGTAAG
*
5831585 TGACGTGATGAAACACAACATAAAGA
1 TGACGTGGTGAAACACAACATAAAGA
** *
5831611 TGACACGGTAAAACACAACATAAAAGA
1 TGACGTGGTGAAACACAACAT-AAAGA
* *
5831638 TATACGTGGCGAAACACGAA-ATAAAGGA
1 T-GACGTGGTGAAACAC-AACATAAA-GA
*
5831666 TGACGTGGTGAAACACGACATAAA
1 TGACGTGGTGAAACACAACATAAA
5831690 TAATTGAAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
26 18 0.29
27 27 0.44
28 15 0.24
29 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (26 bp):
TGACGTGGTGAAACACAACATAAAGA
Found at i:5832362 original size:45 final size:45
Alignment explanation
Indices: 5832298--5832387 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
5832288 TGTTGTGCAT
5832298 ACATGCATGACCATTTCTTTAATCCAAGGTTCCACAAATGTGAAC
1 ACATGCATGACCATTTCTTTAATCCAAGGTTCCACAAATGTGAAC
5832343 ACATGCATGACCATTTCTTTAATCCAAGGTTCCACAAATGTGAAC
1 ACATGCATGACCATTTCTTTAATCCAAGGTTCCACAAATGTGAAC
5832388 TAACTATTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (45 bp):
ACATGCATGACCATTTCTTTAATCCAAGGTTCCACAAATGTGAAC
Found at i:5832975 original size:19 final size:19
Alignment explanation
Indices: 5832938--5832975 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5832928 TTTATTTTAA
*
5832938 CTCTTTCTCGTTGATTTCT
1 CTCTTTCTCGTAGATTTCT
5832957 CTCTTTCTC-TAGATATTCT
1 CTCTTTCTCGTAGAT-TTCT
5832976 GTTCAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.11, C:0.26, G:0.08, T:0.55
Consensus pattern (19 bp):
CTCTTTCTCGTAGATTTCT
Found at i:5841979 original size:10 final size:10
Alignment explanation
Indices: 5841961--5842001 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
5841951 TATAATTAAT
5841961 TATATTAAAAA
1 TATA-TAAAAA
*
5841972 TACATAAAAA
1 TATATAAAAA
5841982 T-TA-AAAAA
1 TATATAAAAA
5841990 TATATAAAAA
1 TATATAAAAA
5842000 TA
1 TA
5842002 AAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.23
9 3 0.12
10 14 0.54
11 3 0.12
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
TATATAAAAA
Found at i:5841990 original size:18 final size:17
Alignment explanation
Indices: 5841967--5842008 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
5841957 TAATTATATT
5841967 AAAAATACATAAAAATTA
1 AAAAATACATAAAAA-TA
*
5841985 AAAAATATATAAAAATA
1 AAAAATACATAAAAATA
5842002 AAAAATA
1 AAAAATA
5842009 ATTCATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATACATAAAAATA
Found at i:5852436 original size:30 final size:30
Alignment explanation
Indices: 5852402--5852484 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
5852392 TAATTTTGAT
5852402 AAATATTAATATTTAACTTAAAATATTAAA
1 AAATATTAATATTTAACTTAAAATATTAAA
*
5852432 AAATATTAATATTTAATTTAAAATATTAAA
1 AAATATTAATATTTAACTTAAAATATTAAA
* *
5852462 AAATATTAGTATTT-AGTTAAAAT
1 AAATATTAATATTTAACTTAAAAT
5852485 TTTTAACTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 8 0.16
30 42 0.84
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (30 bp):
AAATATTAATATTTAACTTAAAATATTAAA
Found at i:5855883 original size:5 final size:5
Alignment explanation
Indices: 5855873--5855913 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
5855863 GAACTTTTTC
5855873 TCTTT TCTTT TC-TT TCTTT T-TTT CTCTTT CTCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT -TCTTT -TCTTT TCTTT T
5855914 TCATTTTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 7 0.21
5 17 0.52
6 9 0.27
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:5855890 original size:14 final size:16
Alignment explanation
Indices: 5855869--5855913 Score: 67
Period size: 14 Copynumber: 2.9 Consensus size: 16
5855859 TGATGAACTT
5855869 TTTCTCTTTTCTTTTC
1 TTTCTCTTTTCTTTTC
*
5855885 TTTCT-TTTT-TTCTC
1 TTTCTCTTTTCTTTTC
5855899 TTTCTCTTTTCTTTT
1 TTTCTCTTTTCTTTT
5855914 TCATTTTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 9 0.36
15 8 0.32
16 8 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTCTTTTCTTTTC
Found at i:5855906 original size:25 final size:25
Alignment explanation
Indices: 5855867--5855962 Score: 105
Period size: 25 Copynumber: 3.9 Consensus size: 25
5855857 TCTGATGAAC
5855867 TTTTTCTCTTTTCTTTTCTTTCTT-
1 TTTTTCTCTTTTCTTTTCTTTCTTA
5855891 TTTTTCTCTTTCTCTTTTCTTT-TTCA
1 TTTTTCTCTTT-TCTTTTCTTTCTT-A
5855917 TTTTTC-CTTTTCCTTTTC--TCTTA
1 TTTTTCTCTTTT-CTTTTCTTTCTTA
5855940 TTTTTCTCTTCTTCTATTT-TTTC
1 TTTTTCTCTT-TTCT-TTTCTTTC
5855963 CTTTCCCTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 18
0.77 0.00 0.22
Matches are distributed among these distances:
23 8 0.13
24 21 0.34
25 25 0.40
26 8 0.13
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTTCTCTTTTCTTTTCTTTCTTA
Found at i:5855910 original size:13 final size:13
Alignment explanation
Indices: 5855868--5855938 Score: 55
Period size: 13 Copynumber: 5.7 Consensus size: 13
5855858 CTGATGAACT
5855868 TTTTCTCTTT-TC
1 TTTTCTCTTTCTC
*
5855880 -TTT-TCTTTCTTT
1 TTTTCTCTTTC-TC
5855892 TTTTCTCTTTCTC
1 TTTTCTCTTTCTC
*
5855905 TTTTCTTTTTCAT-
1 TTTTCTCTTTC-TC
5855918 TTTTC-CTTT-TCC
1 TTTTCTCTTTCT-C
5855930 TTTTCTCTT
1 TTTTCTCTT
5855939 ATTTTTCTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
10 6 0.13
11 3 0.06
12 9 0.19
13 22 0.47
14 7 0.15
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTCTCTTTCTC
Found at i:5855914 original size:6 final size:6
Alignment explanation
Indices: 5855866--5855935 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 6
5855856 TTCTGATGAA
*
5855866 CTTTTT CTCTTTT C-TTTT CTTTCTT -TTTTT CTCTTT CTCTTTT CTTTTT
1 CTTTTT CT-TTTT CTTTTT CTTT-TT CTTTTT CTTTTT CT-TTTT CTTTTT
* *
5855915 CATTTTT CCTTTT CCTTTT CT
1 C-TTTTT CTTTTT CTTTTT CT
5855936 CTTATTTTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 7 0.13
6 29 0.54
7 18 0.33
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.74
Consensus pattern (6 bp):
CTTTTT
Found at i:5856531 original size:23 final size:26
Alignment explanation
Indices: 5856485--5856531 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
5856475 TTTATTTTAT
*
5856485 TTTTTCGCATCTTTATCCTTTCCTTC
1 TTTTTCGCATCTTTATCCTCTCCTTC
5856511 TTTTTC-CAT-TTT-TCCTCTCCT
1 TTTTTCGCATCTTTATCCTCTCCT
5856532 CTCTCTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 3 0.15
25 3 0.15
26 6 0.30
ACGTcount: A:0.06, C:0.32, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTTCGCATCTTTATCCTCTCCTTC
Found at i:5858680 original size:29 final size:29
Alignment explanation
Indices: 5858568--5858670 Score: 102
Period size: 29 Copynumber: 3.5 Consensus size: 29
5858558 ATTTAAAAAA
* * *
5858568 AATTAAAATAAGTTGTTATATTTTTGTTGT-
1 AATT-AAATAAATT-TTATATTTTTATTTTG
* * *
5858598 ATTTAATTAAATTTTTATATTTATATTTTG
1 AATTAAATAAA-TTTTATATTTTTATTTTG
5858628 AATTAAATAAATTTTATATTTTTATTTT-
1 AATTAAATAAATTTTATATTTTTATTTTG
5858656 AAGTTAAATAAATTT
1 AA-TTAAATAAATTT
5858671 AATTAATTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.03
29 45 0.74
30 14 0.23
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (29 bp):
AATTAAATAAATTTTATATTTTTATTTTG
Found at i:5858704 original size:24 final size:23
Alignment explanation
Indices: 5858642--5858704 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
5858632 AAATAAATTT
5858642 TATATTT-TTATTTTAAGTTAAA
1 TATATTTATTATTTTAAGTTAAA
* *
5858664 TAAATTTAATTAATTTAA-TTAAAA
1 TATATTT-ATTATTTTAAGTT-AAA
5858688 TATTATTTATTATTTTA
1 TA-TATTTATTATTTTA
5858705 TACTGCGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 21 0.64
25 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATTTATTATTTTAAGTTAAA
Found at i:5859185 original size:22 final size:21
Alignment explanation
Indices: 5859151--5859200 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
5859141 TATATATATA
5859151 AATACTATTTATAGATAAT-TAT
1 AATA-TATTTATA-ATAATGTAT
*
5859173 AATATATTATATATTAATGTAT
1 AATATATT-TATAATAATGTAT
5859195 AATATA
1 AATATA
5859201 AAATATGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (21 bp):
AATATATTTATAATAATGTAT
Found at i:5859197 original size:7 final size:7
Alignment explanation
Indices: 5859109--5859215 Score: 53
Period size: 7 Copynumber: 15.0 Consensus size: 7
5859099 TAAGCTTTAC
5859109 AATATA-
1 AATATAT
5859115 AAT-TAT
1 AATATAT
5859121 GAATAT-T
1 -AATATAT
5859128 ATATATCAT
1 A-ATAT-AT
*
5859137 AATTTAT
1 AATATAT
5859144 -ATATAT
1 AATATAT
5859150 AAATACTATT
1 -AATA-TA-T
* *
5859160 TATAGAT
1 AATATAT
5859167 AAT-TAT
1 AATATAT
5859173 AATATAT
1 AATATAT
*
5859180 TATATATT
1 AATATA-T
*
5859188 AATGTAT
1 AATATAT
*
5859195 AATATAA
1 AATATAT
*
5859202 AATATGT
1 AATATAT
5859209 AATATAT
1 AATATAT
5859216 TATTTTGTTG
Statistics
Matches: 75, Mismatches: 14, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
5 2 0.03
6 14 0.19
7 38 0.51
8 13 0.17
9 7 0.09
10 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (7 bp):
AATATAT
Found at i:5859206 original size:22 final size:21
Alignment explanation
Indices: 5859166--5859206 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5859156 TATTTATAGA
**
5859166 TAATTATAATATATTATATAT
1 TAATTATAATATAAAATATAT
5859187 TAATGTATAATATAAAATAT
1 TAAT-TATAATATAAAATAT
5859207 GTAATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATTATAATATAAAATATAT
Found at i:5870196 original size:8 final size:8
Alignment explanation
Indices: 5870181--5870216 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
5870171 GACCCTTTTC
5870181 TTTT-TTT
1 TTTTATTT
5870188 TTTTATTT
1 TTTTATTT
5870196 TTTTATTT
1 TTTTATTT
5870204 TTTTGATTT
1 TTTT-ATTT
5870213 TTTT
1 TTTT
5870217 GAATGACCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 4 0.15
8 15 0.56
9 8 0.30
ACGTcount: A:0.08, C:0.00, G:0.03, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:5870204 original size:17 final size:17
Alignment explanation
Indices: 5870181--5870216 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5870171 GACCCTTTTC
5870181 TTTT-TTTTTTT-ATTT
1 TTTTATTTTTTTGATTT
5870196 TTTTATTTTTTTGATTT
1 TTTTATTTTTTTGATTT
5870213 TTTT
1 TTTT
5870217 GAATGACCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTATTTTTTTGATTT
Found at i:5870217 original size:9 final size:9
Alignment explanation
Indices: 5870184--5870218 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
5870174 CCTTTTCTTT
*
5870184 TTTTTTTTA
1 TTTTTTTGA
5870193 TTTTTTT-A
1 TTTTTTTGA
5870201 TTTTTTTGA
1 TTTTTTTGA
5870210 TTTTTTTGA
1 TTTTTTTGA
5870219 ATGACCTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:5870258 original size:3 final size:3
Alignment explanation
Indices: 5870250--5870290 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5870240 AATATATTAA
5870250 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5870291 AGTAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5870305 original size:6 final size:6
Alignment explanation
Indices: 5870248--5870340 Score: 54
Period size: 6 Copynumber: 16.3 Consensus size: 6
5870238 AAAATATATT
* * * * * * *
5870248 AAAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAAT- AAAGTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
5870295 AAAA-A ATAA-A AAAATA AAGAAT- AAAATA GAAAT- AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA
5870339 AA
1 AA
5870341 TCAAAACCGA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
5 23 0.31
6 48 0.65
7 3 0.04
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:5870346 original size:10 final size:10
Alignment explanation
Indices: 5870247--5870340 Score: 71
Period size: 12 Copynumber: 8.4 Consensus size: 10
5870237 AAAAATATAT
5870247 TAAAATAATAA
1 TAAAATAA-AA
5870258 TAATAATAATAA
1 TAA-AATAA-AA
5870270 TAATAATAATAA
1 TAA-AATAA-AA
*
5870282 TAATAATAAAG
1 TAA-AATAAAA
*
5870293 TAAAAAAATAA
1 TAAAATAA-AA
*
5870304 AAAAATAAAGAA
1 TAAAAT-AA-AA
5870316 TAAAATAGAAA
1 TAAAATA-AAA
5870327 TAAAATAAAA
1 TAAAATAAAA
5870337 TAAA
1 TAAA
5870341 TCAAAACCGA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
10 11 0.15
11 22 0.31
12 39 0.54
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:5880183 original size:22 final size:23
Alignment explanation
Indices: 5880155--5880201 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
5880145 ATTTCTATGC
*
5880155 ATTACTACAAGAACTAAGCT-AA
1 ATTACTACAAAAACTAAGCTCAA
* *
5880177 ATTACTATAAAAATTAAGCTCAA
1 ATTACTACAAAAACTAAGCTCAA
5880200 AT
1 AT
5880202 AACTTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (23 bp):
ATTACTACAAAAACTAAGCTCAA
Found at i:5880310 original size:27 final size:27
Alignment explanation
Indices: 5880240--5880460 Score: 83
Period size: 27 Copynumber: 8.3 Consensus size: 27
5880230 TCCATGCTTA
* * *
5880240 GAACACCCATGGGTGCTTC-GCGCTTG
1 GAACACCCTTGGGCGCTTCTGCACTTG
* ** * *
5880266 AAACACTTTTAGGTGCTTCTGCACTTG
1 GAACACCCTTGGGCGCTTCTGCACTTG
* ***
5880293 GAACACCCTTGGGCGCTTCCGTGTTTG
1 GAACACCCTTGGGCGCTTCTGCACTTG
* *
5880320 GAGCATCCTT-GGCGCTT-TCGCACTTG
1 GAACACCCTTGGGCGCTTCT-GCACTTG
* * * *
5880346 TAATGA-CCTTGGGC-ATTTTCGCACTTG
1 GAA-CACCCTTGGGCGCTTCT-GCACTTG
** **
5880373 GAACACTTTTGGGCATTTCTGCACTTG
1 GAACACCCTTGGGCGCTTCTGCACTTG
* * * ***
5880400 GATCACTCTTGGGTGCTTCCATACTTG
1 GAACACCCTTGGGCGCTTCTGCACTTG
* * * **
5880427 GAACACCCATAGGCACTTCTGTGCTTG
1 GAACACCCTTGGGCGCTTCTGCACTTG
5880454 GAACACC
1 GAACACC
5880461 TTTGATGTAA
Statistics
Matches: 140, Mismatches: 48, Indels: 13
0.70 0.24 0.06
Matches are distributed among these distances:
26 33 0.24
27 104 0.74
28 3 0.02
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (27 bp):
GAACACCCTTGGGCGCTTCTGCACTTG
Found at i:5881280 original size:52 final size:52
Alignment explanation
Indices: 5881183--5881354 Score: 224
Period size: 52 Copynumber: 3.3 Consensus size: 52
5881173 TATAAGCATT
*
5881183 TAAAGC-TGTAGCCTAA-TTGTGAATAGCAAACTATGGCCAAAAAGTGAGCAA
1 TAAAGCTTGCAGCC-AATTTGTGAATAGCAAACTATGGCCAAAAAGTGAGCAA
* *
5881234 TAAATCTTGCAGCCAATTTGTGAATAGCAAACTATGGCCAAGAAGTGAGCAA
1 TAAAGCTTGCAGCCAATTTGTGAATAGCAAACTATGGCCAAAAAGTGAGCAA
** * **
5881286 TAAAGCTTGC-GACCAACATGTGAATAGCAAACTATGGCCAAAAAGTAAGTGA
1 TAAAGCTTGCAG-CCAATTTGTGAATAGCAAACTATGGCCAAAAAGTGAGCAA
*
5881338 TAAAGCTTGCAACCAAT
1 TAAAGCTTGCAGCCAAT
5881355 AGTGTAATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
51 8 0.08
52 97 0.92
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (52 bp):
TAAAGCTTGCAGCCAATTTGTGAATAGCAAACTATGGCCAAAAAGTGAGCAA
Found at i:5881281 original size:25 final size:25
Alignment explanation
Indices: 5881253--5881331 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 25
5881243 CAGCCAATTT
*
5881253 GTGAATAGCAAACTATGGCCAAGAA
1 GTGAATAGCAAACTATGGCCAAAAA
** ** * *
5881278 GTGAGCAATAAAGCT-TGCGACCAACAT
1 GTGAATAGCAAA-CTATG-G-CCAAAAA
5881305 GTGAATAGCAAACTATGGCCAAAAA
1 GTGAATAGCAAACTATGGCCAAAAA
5881330 GT
1 GT
5881332 AAGTGATAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
25 17 0.45
26 6 0.16
27 15 0.39
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (25 bp):
GTGAATAGCAAACTATGGCCAAAAA
Found at i:5884830 original size:43 final size:42
Alignment explanation
Indices: 5884769--5885027 Score: 320
Period size: 43 Copynumber: 6.0 Consensus size: 42
5884759 CCTGCCACAC
* *
5884769 TCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCC-ACACGCACATAACTGGGTCATCA
* * * *
5884812 TCAGCTCATGTGCACTCCCTACTCGCAGATAGCCGGGTCATCA
1 TCAGCTCATGTGCACTCCC-ACACGCACATAACTGGGTCATCA
* * *
5884855 TTAGCTTATGTGCACCCCCACACCGCACATAACTGGGTCATCA
1 TCAGCTCATGTGCACTCCCACA-CGCACATAACTGGGTCATCA
* * *
5884898 TCATCTCATGTGCACCCCCACACTGCACATAACTGGGTTATCA
1 TCAGCTCATGTGCACTCCCACAC-GCACATAACTGGGTCATCA
* *
5884941 TCAGCTCATGTGCACTCCCACACAGCACATAGCTGGGTCGTCA
1 TCAGCTCATGTGCACTCCCACAC-GCACATAACTGGGTCATCA
* *
5884984 TCAACTCATGTGCACTCCCACACCGCATATAACTGGGTCATCA
1 TCAGCTCATGTGCACTCCCACA-CGCACATAACTGGGTCATCA
5885027 T
1 T
5885028 TATCATACAA
Statistics
Matches: 190, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
42 3 0.02
43 186 0.98
44 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (42 bp):
TCAGCTCATGTGCACTCCCACACGCACATAACTGGGTCATCA
Found at i:5885004 original size:129 final size:129
Alignment explanation
Indices: 5884773--5885027 Score: 361
Period size: 129 Copynumber: 2.0 Consensus size: 129
5884763 CCACACTCAG
* * * *
5884773 CTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCTACTCGC
1 CTCATGTGCACCCCCCACTCGCACATAACTGGGTCATCATCAGCTCATGTGCACTCCCTACACGC
* * * *
5884838 AGATAGCCGGGTCATCATTAGCTTATGTGCACCCCCACACCGCACATAACTGGGTCATCATCAT
66 ACATAGCCGGGTCATCATCAACTCATGTGCACCCCCACACCGCACATAACTGGGTCATCATCAT
*
5884902 CTCATGTGCACCCCCACACT-GCACATAACTGGGTTATCATCAGCTCATGTGCACTCCC-ACACA
1 CTCATGTGCACCCCC-CACTCGCACATAACTGGGTCATCATCAGCTCATGTGCACTCCCTACAC-
* * * *
5884965 GCACATAGCTGGGTCGTCATCAACTCATGTGCACTCCCACACCGCATATAACTGGGTCATCAT
64 GCACATAGCCGGGTCATCATCAACTCATGTGCACCCCCACACCGCACATAACTGGGTCATCAT
5885028 TATCATACAA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
128 3 0.03
129 105 0.95
130 3 0.03
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (129 bp):
CTCATGTGCACCCCCCACTCGCACATAACTGGGTCATCATCAGCTCATGTGCACTCCCTACACGC
ACATAGCCGGGTCATCATCAACTCATGTGCACCCCCACACCGCACATAACTGGGTCATCATCAT
Found at i:5886886 original size:26 final size:26
Alignment explanation
Indices: 5886780--5886947 Score: 122
Period size: 27 Copynumber: 6.3 Consensus size: 26
5886770 ACTTTCACGT
* * *
5886780 TTGGAACACCCCTAGGCACTTCTCTGC
1 TTGGAACA-CCCTTGGCGCTTCTATGC
****
5886807 TTGGAACACCCTTGAGCGCTTCCGCAC
1 TTGGAACACCCTTG-GCGCTTCTATGC
**
5886834 TTCAAACACCCTTGGGCGCTT-TCATGC
1 TTGGAACACCCTT-GGCGCTTCT-ATGC
*
5886861 TTGGAACACTCTTGGCGCTTCTATGC
1 TTGGAACACCCTTGGCGCTTCTATGC
* * *
5886887 TTAGAACACCCTTGGCGCTTCCACGC
1 TTGGAACACCCTTGGCGCTTCTATGC
* * * *
5886913 TTGTAACAACCCTAGGCGTTTCTGTGC
1 TTGGAAC-ACCCTTGGCGCTTCTATGC
*
5886940 TTAGAACA
1 TTGGAACA
5886948 ATCTTGAGAG
Statistics
Matches: 108, Mismatches: 28, Indels: 11
0.73 0.19 0.07
Matches are distributed among these distances:
26 44 0.41
27 63 0.58
28 1 0.01
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (26 bp):
TTGGAACACCCTTGGCGCTTCTATGC
Found at i:5886898 original size:53 final size:53
Alignment explanation
Indices: 5886838--5886981 Score: 141
Period size: 53 Copynumber: 2.7 Consensus size: 53
5886828 CCGCACTTCA
5886838 AACACCCTTGGGCGCTTTCATGCTTGGAACACTCTTGGCGCTTCTATGCTTAG
1 AACACCCTTGGGCGCTTTCATGCTTGGAACACTCTTGGCGCTTCTATGCTTAG
* * * * * * *
5886891 AACACCCTT-GGCGCTTCCACGCTTGTAACAACCCTAGGCGTTTCTGTGCTTAG
1 AACACCCTTGGGCGCTTTCATGCTTGGAAC-ACTCTTGGCGCTTCTATGCTTAG
** * *
5886944 AACAATCTTGAGAG-TTT-ATGCACTTGGAACACTCTTGG
1 AACACCCTTGGGCGCTTTCATG--CTTGGAACACTCTTGG
5886982 ATGCTTCTGT
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
52 19 0.27
53 43 0.61
54 9 0.13
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.31
Consensus pattern (53 bp):
AACACCCTTGGGCGCTTTCATGCTTGGAACACTCTTGGCGCTTCTATGCTTAG
Found at i:5886948 original size:27 final size:27
Alignment explanation
Indices: 5886848--5886948 Score: 84
Period size: 26 Copynumber: 3.8 Consensus size: 27
5886838 AACACCCTTG
* * *
5886848 GGCGCTT-TCATGCTTGGAAC-ACTCTT
1 GGCGCTTCT-ATGCTTAGAACAACCCTA
*
5886874 GGCGCTTCTATGCTTAGAAC-ACCCTT
1 GGCGCTTCTATGCTTAGAACAACCCTA
* *
5886900 GGCGCTTCCACGCTT-GTAACAACCCTA
1 GGCGCTTCTATGCTTAG-AACAACCCTA
* *
5886927 GGCGTTTCTGTGCTTAGAACAA
1 GGCGCTTCTATGCTTAGAACAA
5886949 TCTTGAGAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.02
26 38 0.61
27 22 0.35
28 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.30
Consensus pattern (27 bp):
GGCGCTTCTATGCTTAGAACAACCCTA
Found at i:5891664 original size:23 final size:23
Alignment explanation
Indices: 5891634--5891681 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
5891624 GTCTTTACTC
5891634 CATTCTCTCCATGAGAACCCAGA
1 CATTCTCTCCATGAGAACCCAGA
5891657 CATTCTCTCCATGAGAACCCAGA
1 CATTCTCTCCATGAGAACCCAGA
5891680 CA
1 CA
5891682 AGTTAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.21
Consensus pattern (23 bp):
CATTCTCTCCATGAGAACCCAGA
Found at i:5896585 original size:17 final size:16
Alignment explanation
Indices: 5896548--5896596 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
5896538 AATTTTTTTT
5896548 TAATTATTTTAAATAA
1 TAATTATTTTAAATAA
5896564 TAATTATTTATAAAT-A
1 TAATTATTT-TAAATAA
5896580 TAA--ATTTTGAAATAA
1 TAATTATTTT-AAATAA
5896595 TA
1 TA
5896597 TTTAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 8 0.27
15 3 0.10
16 13 0.43
17 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATTATTTTAAATAA
Found at i:5896610 original size:31 final size:30
Alignment explanation
Indices: 5896553--5896611 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
5896543 TTTTTTAATT
** *
5896553 ATTTTAAATAATAATTATTTATAAATATAA
1 ATTTTAAATAATAATTAAATAAAAATATAA
*
5896583 ATTTTGAAATAATATTTAAATAAAAATAT
1 ATTTT-AAATAATAATTAAATAAAAATAT
5896612 TTTTAATCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
ATTTTAAATAATAATTAAATAAAAATATAA
Found at i:5907439 original size:21 final size:22
Alignment explanation
Indices: 5907415--5907461 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
5907405 GTTTTATGTT
*
5907415 TTATATTTAGT-TAA-AAGAAAA
1 TTATATTGAGTATAAGAA-AAAA
*
5907436 TTATCTTGAGTATAAGAAAAAA
1 TTATATTGAGTATAAGAAAAAA
5907458 TTAT
1 TTAT
5907462 TAATTTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 9 0.41
22 11 0.50
23 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (22 bp):
TTATATTGAGTATAAGAAAAAA
Found at i:5908974 original size:75 final size:75
Alignment explanation
Indices: 5908873--5909029 Score: 278
Period size: 75 Copynumber: 2.1 Consensus size: 75
5908863 AGATTTTCAG
*
5908873 TGAAGGAGATTTAAGTACACCAATGCTGCAGAGAGTGCAATTTGTTGAAAGTGAAGATGAAGCAT
1 TGAAGGAGATTTAAGAACACCAATGCTGCAGAGAGTGCAATTTGTTGAAAGTGAAGATGAAGCAT
5908938 GTAGCGAAGA
66 GTAGCGAAGA
* *
5908948 TGAAGGAGATTTAAGAACACCAATGCTGCGGAGAGTGCAATTTGTTGAAAGTGAAGATGGAGCAT
1 TGAAGGAGATTTAAGAACACCAATGCTGCAGAGAGTGCAATTTGTTGAAAGTGAAGATGAAGCAT
*
5909013 GTAGTGAAGA
66 GTAGCGAAGA
5909023 TGAAGGA
1 TGAAGGA
5909030 TGTTGGGAAG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.37, C:0.10, G:0.31, T:0.22
Consensus pattern (75 bp):
TGAAGGAGATTTAAGAACACCAATGCTGCAGAGAGTGCAATTTGTTGAAAGTGAAGATGAAGCAT
GTAGCGAAGA
Found at i:5909032 original size:18 final size:18
Alignment explanation
Indices: 5908997--5909032 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5908987 ATTTGTTGAA
*
5908997 AGTGAAGATGGAGCATGT
1 AGTGAAGATGAAGCATGT
*
5909015 AGTGAAGATGAAGGATGT
1 AGTGAAGATGAAGCATGT
5909033 TGGGAAGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.39, T:0.22
Consensus pattern (18 bp):
AGTGAAGATGAAGCATGT
Found at i:5914732 original size:78 final size:78
Alignment explanation
Indices: 5914574--5914737 Score: 267
Period size: 79 Copynumber: 2.1 Consensus size: 78
5914564 CCAATATTTG
* * *
5914574 TTTTCTCTTTATCATTACTTACTCTTTCATATTTTTGTCCTTAAATATTTGATTCCCCTGTTTTT
1 TTTTCTCTCTATCATTACTTACTCTTTCATATTTTTGTCCTTAAATATTTGATTCCACTGTTTCT
5914639 GTTGCAGCACTTT
66 GTTGCAGCACTTT
* *
5914652 TTTTCTCTCTATCCTTACTTACTCTTTCATATTTTTTTTCCTTAAATATTTGATTCCACTGTTTC
1 TTTTCTCTCTATCATTACTTACTCTTTCATA-TTTTTGTCCTTAAATATTTGATTCCACTGTTTC
5914717 TGTTGCAGCAC-TT
65 TGTTGCAGCACTTT
5914730 TTTTCTCT
1 TTTTCTCT
5914738 ACTGGTTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 39 0.49
79 41 0.51
ACGTcount: A:0.16, C:0.22, G:0.07, T:0.55
Consensus pattern (78 bp):
TTTTCTCTCTATCATTACTTACTCTTTCATATTTTTGTCCTTAAATATTTGATTCCACTGTTTCT
GTTGCAGCACTTT
Found at i:5926964 original size:2 final size:2
Alignment explanation
Indices: 5926959--5926985 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5926949 TATAAGTATT
5926959 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
5926986 TTTTAGACAT
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:5927139 original size:36 final size:36
Alignment explanation
Indices: 5927080--5927163 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
5927070 AGTCATATGT
*
5927080 ACTCCCACACCCCACATAACTATTATTATCATGTGC
1 ACTCCCACACCGCACATAACTATTATTATCATGTGC
* * *
5927116 ACTCCCAAACCGCTCATAGCTATTATTATCATGTGC
1 ACTCCCACACCGCACATAACTATTATTATCATGTGC
5927152 ACTCCCACACCG
1 ACTCCCACACCG
5927164 TACACAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.29, C:0.37, G:0.08, T:0.26
Consensus pattern (36 bp):
ACTCCCACACCGCACATAACTATTATTATCATGTGC
Found at i:5927193 original size:35 final size:35
Alignment explanation
Indices: 5927154--5927274 Score: 116
Period size: 35 Copynumber: 3.4 Consensus size: 35
5927144 TCATGTGCAC
*
5927154 TCCCACACCGTACACAATCATTGGGTCATGAGCTT
1 TCCCACACCGTACACAATCATTGCGTCATGAGCTT
* * * * * **
5927189 TCCCACACCGTACACCACCATTACCATCATGTGCAC
1 TCCCACACCGTACACAATCATT-GCGTCATGAGCTT
** * * *
5927225 TCCCACACCACACACGATCATCGTGTCATGAGCTT
1 TCCCACACCGTACACAATCATTGCGTCATGAGCTT
5927260 TCCCACACCGTACAC
1 TCCCACACCGTACAC
5927275 CACCATTATC
Statistics
Matches: 64, Mismatches: 21, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
35 40 0.62
36 24 0.38
ACGTcount: A:0.26, C:0.40, G:0.12, T:0.21
Consensus pattern (35 bp):
TCCCACACCGTACACAATCATTGCGTCATGAGCTT
Found at i:5927218 original size:71 final size:71
Alignment explanation
Indices: 5927143--5927311 Score: 266
Period size: 71 Copynumber: 2.4 Consensus size: 71
5927133 AGCTATTATT
* *
5927143 ATCATGTGCACTCCCACACCGTACACAATCATTGGGTCATGAGCTTTCCCACACCGTACACCACC
1 ATCATGTGCACTCCCACACCGCACACAATCATCGGGTCATGAGCTTTCCCACACCGTACACCACC
5927208 ATTACC
66 ATTACC
* * *
5927214 ATCATGTGCACTCCCACACCACACACGATCATCGTGTCATGAGCTTTCCCACACCGTACACCACC
1 ATCATGTGCACTCCCACACCGCACACAATCATCGGGTCATGAGCTTTCCCACACCGTACACCACC
*
5927279 ATTATC
66 ATTACC
* *
5927285 ATCATGTGCACTCTCATACCGCACACA
1 ATCATGTGCACTCCCACACCGCACACA
5927312 CACAGTTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 88 1.00
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.22
Consensus pattern (71 bp):
ATCATGTGCACTCCCACACCGCACACAATCATCGGGTCATGAGCTTTCCCACACCGTACACCACC
ATTACC
Found at i:5931638 original size:20 final size:20
Alignment explanation
Indices: 5931613--5931650 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5931603 TCCACACTAA
*
5931613 AAGTATAGATACTTGTTCAT
1 AAGTATAGATACATGTTCAT
*
5931633 AAGTATCGATACATGTTC
1 AAGTATAGATACATGTTC
5931651 TTCAGAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
AAGTATAGATACATGTTCAT
Found at i:5933255 original size:119 final size:118
Alignment explanation
Indices: 5933039--5933275 Score: 447
Period size: 119 Copynumber: 2.0 Consensus size: 118
5933029 TCTAAATTTT
*
5933039 TATAGATTTTCTTTCCCAAATTTCTACAAACCATTAAATGTATTCATTTTCTTTCTTTTTTGTAA
1 TATAAATTTTCTTTCCCAAATTTCTACAAACCATTAAATGTATTCATTTTCTTTCTTTTTTGTAA
5933104 TATAATATGTGATATCTACCATCTACTTGTCATATTCTTCTTTTTTATGTGAC
66 TATAATATGTGATATCTACCATCTACTTGTCATATTCTTCTTTTTTATGTGAC
*
5933157 NTATAAATTTTCTTTTCCAAATTTCTACAAACCATTAAATGTATTCATTTTCTTTCTTTTTTGTA
1 -TATAAATTTTCTTTCCCAAATTTCTACAAACCATTAAATGTATTCATTTTCTTTCTTTTTTGTA
5933222 ATATAATATGTGATATCTACCATCTACTTGTCATATTCTTCTTTTTTATGTGAC
65 ATATAATATGTGATATCTACCATCTACTTGTCATATTCTTCTTTTTTATGTGAC
5933276 GTAGATTTTA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 116 1.00
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.50
Consensus pattern (118 bp):
TATAAATTTTCTTTCCCAAATTTCTACAAACCATTAAATGTATTCATTTTCTTTCTTTTTTGTAA
TATAATATGTGATATCTACCATCTACTTGTCATATTCTTCTTTTTTATGTGAC
Found at i:5936635 original size:21 final size:21
Alignment explanation
Indices: 5936610--5936685 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
5936600 TATTCGTTAT
*
5936610 ATTTAAATTTAATTTGTTTAA
1 ATTTAAATTTAATTTATTTAA
* * *
5936631 ATTTAAA-TAAATATTAATTAC
1 ATTTAAATTTAAT-TTATTTAA
*
5936652 ATTTAAATTTAATTTATTGAA
1 ATTTAAATTTAATTTATTTAA
*
5936673 ATTTAAATATAAT
1 ATTTAAATTTAAT
5936686 ATTCTATCCT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 4 0.09
21 36 0.82
22 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTTAAATTTAATTTATTTAA
Found at i:5942317 original size:69 final size:69
Alignment explanation
Indices: 5942206--5942340 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
5942196 TTTGGTTTAG
5942206 GAGATTTTTGCCAAGCTTGAACATTACTAGGCATCTTAGTGAAGCTGTTGTACTTTATTGTAACA
1 GAGATTTTTGCCAAGCTTGAACATTACTAGGCATCTTAGTGAAGCTGTTGTACTTTATTGTAACA
5942271 ATAA
66 ATAA
* * *
5942275 GAGATTTTTGCCAAGCTTGAACATTACTGGGCATCTTAGTGAAGTTGTTGTTCTTTATTGTAACA
1 GAGATTTTTGCCAAGCTTGAACATTACTAGGCATCTTAGTGAAGCTGTTGTACTTTATTGTAACA
5942340 A
66 A
5942341 CACAGCTGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (69 bp):
GAGATTTTTGCCAAGCTTGAACATTACTAGGCATCTTAGTGAAGCTGTTGTACTTTATTGTAACA
ATAA
Found at i:5943684 original size:15 final size:15
Alignment explanation
Indices: 5943664--5943693 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5943654 ATTTGTGGAT
5943664 AATTAACTAATATTC
1 AATTAACTAATATTC
*
5943679 AATTAATTAATATTC
1 AATTAACTAATATTC
5943694 GATGTTATTC
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:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTAACTAATATTC
Found at i:5951170 original size:11 final size:13
Alignment explanation
Indices: 5951144--5951175 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
5951134 ACTTTATTCA
5951144 TTTATATGTTATT
1 TTTATATGTTATT
5951157 TTTAT-TGTTATT
1 TTTATATGTTATT
5951169 TTTATAT
1 TTTATAT
5951176 TTGTAGCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (13 bp):
TTTATATGTTATT
Found at i:5951561 original size:70 final size:70
Alignment explanation
Indices: 5951419--5951553 Score: 234
Period size: 70 Copynumber: 1.9 Consensus size: 70
5951409 TAGGGATTTA
*
5951419 CCTTAGTGGGCTAAAAGTGGCCCAAATGGTCAACCCACTTCAGCCAACCCGCCACTAGAAGCCCG
1 CCTTAGTGGGCTAAAAGCGGCCCAAATGGTCAACCCACTTCAGCCAACCCGCCACTAGAAGCCCG
5951484 CAGAT
66 CAGAT
* * *
5951489 CCTTGGTGGGCTAAAAGCGGCCCAAATGGTCAACCCACTTCAGCTAACCCGTCACTAGAAGCCCG
1 CCTTAGTGGGCTAAAAGCGGCCCAAATGGTCAACCCACTTCAGCCAACCCGCCACTAGAAGCCCG
5951554 TGGATCCTGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.27, C:0.34, G:0.22, T:0.16
Consensus pattern (70 bp):
CCTTAGTGGGCTAAAAGCGGCCCAAATGGTCAACCCACTTCAGCCAACCCGCCACTAGAAGCCCG
CAGAT
Found at i:5952542 original size:18 final size:18
Alignment explanation
Indices: 5952519--5952563 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
5952509 CACCATCATC
*
5952519 ATTTTTTTATATTTTTTA
1 ATTTTTTTATAATTTTTA
*
5952537 ATTTTTTTTTAATTTTTA
1 ATTTTTTTATAATTTTTA
*
5952555 TTTTTTTTA
1 ATTTTTTTA
5952564 ATAGATGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTTTTATAATTTTTA
Found at i:5953091 original size:121 final size:120
Alignment explanation
Indices: 5952814--5953465 Score: 853
Period size: 120 Copynumber: 5.4 Consensus size: 120
5952804 TAAAAAACAA
* * * *
5952814 AAATTTCTAGACTTGATCTAGACTCGACCTATCT--CAAAACAGGTTCGACTTAAAAATTGAAAT
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGA-TAAAAAATTGAAAT
* * * *
5952877 TCCTAGACTTGATCTAGGCTCGACCTATCTCAC-AACAGGTTCGACTTAAAGATTTG
65 TCCTAGACTTGACCTAGGCTCGACCCATCTCACAAACAGGTTCGATTTAAA-AATTG
* * * *
5952933 AAATTTCTAGACTTGACCTAGGCTAGATCTATTTCACAAAACAGGTTCGATAAAAAATTGAAATT
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATAAAAAATTGAAATT
* * * *
5952998 CTTAGGCTTGACCTAGGCTCGATCCATCTCACAAAACAAGTTCGATTTAAAAATTG
66 CCTAGACTTGACCTAGGCTCGACCCATCTCAC-AAACAGGTTCGATTTAAAAATTG
* * *
5953054 AAATTCCTAAACTTGACCTAGGCTCGACCCATCTCACAAAACAGGTTCGATAAAAAATTAAAATT
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATAAAAAATTGAAATT
* *
5953119 CCTAGACTTGACCTAGGCTCAACCCATCTCACGAAACAGATTCGATTTAAAAAATTG
66 CCTAGACTTGACCTAGGCTCGACCCATCTCAC-AAACAGGTTCGATTT-AAAAATTG
* * *
5953176 AAATTCTTAGACTTGACCTAGGCTCGACCCATCTCACAAAACAGGTTTGATAAAAAATTGAAATT
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATAAAAAATTGAAATT
* * * *
5953241 CCTAGACTTGACCTAGGCTCCATCCATCTCACAAACAGGTTCGATTTAAGAATTA
66 CCTAGACTTGACCTAGGCTCGACCCATCTCACAAACAGGTTCGATTTAAAAATTG
* * * * *
5953296 AAATTCCTAAACTTGATCTAGGGTCGACCTATCTCACAAAACAGATTCGATAAAAAATTAAAATT
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATAAAAAATTGAAATT
* * * *
5953361 CCTAAACTTGACCTAGGCTCGACCCATCTCATAAATAGGTTCGATTTAAAAATTA
66 CCTAGACTTGACCTAGGCTCGACCCATCTCACAAACAGGTTCGATTTAAAAATTG
** * * *
5953416 AAATTTATAGACTTAACCTAGGCTCAACCTATCTCA-TAAACAGGTTCGAT
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGAT
5953466 TTAAATCACA
Statistics
Matches: 468, Mismatches: 60, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
119 41 0.09
120 182 0.39
121 131 0.28
122 114 0.24
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (120 bp):
AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATAAAAAATTGAAATT
CCTAGACTTGACCTAGGCTCGACCCATCTCACAAACAGGTTCGATTTAAAAATTG
Found at i:5953467 original size:60 final size:61
Alignment explanation
Indices: 5952814--5953470 Score: 773
Period size: 60 Copynumber: 10.9 Consensus size: 61
5952804 TAAAAAACAA
* * * *
5952814 AAATTTCTAGACTTGATCTAGACTCGACCTATCT--CAAAACAGGTTCGACTTAAAAATTG
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAAAATTG
* * *
5952873 AAATTCCTAGACTTGATCTAGGCTCGACCTATCTCAC--AACAGGTTCGACTTAAAGATTTG
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAA-AATTG
* * * * *
5952933 AAATTTCTAGACTTGACCTAGGCTAGATCTATTTCACAAAACAGGTTCGA-TAAAAAATTG
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAAAATTG
* * *
5952993 AAATTCTTAGGCTTGACCTAGGCTCGATCC-ATCTCACAAAACAAGTTCGATTTAAAAATTG
1 AAATTCCTAGACTTGACCTAGGCTCGA-CCTATCTCACAAAACAGGTTCGATTTAAAAATTG
* * * *
5953054 AAATTCCTAAACTTGACCTAGGCTCGACCCATCTCACAAAACAGGTTCGA-TAAAAAATTA
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAAAATTG
* * * *
5953114 AAATTCCTAGACTTGACCTAGGCTCAACCCATCTCACGAAACAGATTCGATTTAAAAAATTG
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTT-AAAAATTG
* * * *
5953176 AAATTCTTAGACTTGACCTAGGCTCGACCCATCTCACAAAACAGGTTTGA-TAAAAAATTG
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAAAATTG
* * *
5953236 AAATTCCTAGACTTGACCTAGGCTCCATCC-ATCTCAC-AAACAGGTTCGATTTAAGAATTA
1 AAATTCCTAGACTTGACCTAGGCTCGA-CCTATCTCACAAAACAGGTTCGATTTAAAAATTG
* * * * * *
5953296 AAATTCCTAAACTTGATCTAGGGTCGACCTATCTCACAAAACAGATTCGA-TAAAAAATTA
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAAAATTG
* * * * *
5953356 AAATTCCTAAACTTGACCTAGGCTCGACCCATCTCA-TAAATAGGTTCGATTTAAAAATTA
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAAAATTG
** * * *
5953416 AAATTTATAGACTTAACCTAGGCTCAACCTATCTCA-TAAACAGGTTCGATTTAAA
1 AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAA
5953471 TCACAAATGC
Statistics
Matches: 520, Mismatches: 63, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
59 72 0.14
60 312 0.60
61 73 0.14
62 63 0.12
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (61 bp):
AAATTCCTAGACTTGACCTAGGCTCGACCTATCTCACAAAACAGGTTCGATTTAAAAATTG
Found at i:5969760 original size:28 final size:28
Alignment explanation
Indices: 5969708--5969767 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
5969698 GAAAAAATGT
** *
5969708 CCTAGTGGTGGAAAATTACTGTTTTGCC
1 CCTAGTGGTGGAAAATTACCATTTTACC
5969736 CCTAG-GGTGGTAAAATTACCATTTTACC
1 CCTAGTGGTGG-AAAATTACCATTTTACC
5969764 CCTA
1 CCTA
5969768 TACTCCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (28 bp):
CCTAGTGGTGGAAAATTACCATTTTACC
Found at i:5978918 original size:7 final size:7
Alignment explanation
Indices: 5978906--5978930 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5978896 AGGCCATTGG
5978906 CTTTCTT
1 CTTTCTT
5978913 CTTTCTT
1 CTTTCTT
5978920 CTTTCTT
1 CTTTCTT
5978927 CTTT
1 CTTT
5978931 GGTAAGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
CTTTCTT
Found at i:5996527 original size:22 final size:23
Alignment explanation
Indices: 5996499--5996542 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
5996489 AGTAATAGTG
5996499 TGAAAAATTAAGC-ACATTTATA
1 TGAAAAATTAAGCAACATTTATA
5996521 TGAAAAATTAAGCAACATTTAT
1 TGAAAAATTAAGCAACATTTAT
5996543 TAAAGCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (23 bp):
TGAAAAATTAAGCAACATTTATA
Found at i:5997623 original size:115 final size:112
Alignment explanation
Indices: 5997438--5997661 Score: 369
Period size: 115 Copynumber: 2.0 Consensus size: 112
5997428 CAGAACAGAC
5997438 TGTAGCAGGAGGATAAACAAAATCAATAGTCTATCCAAAATAACAAAATGTTCTAATCAAATATT
1 TGTAGCAGGAGGATAAACAAAATCAATAGTCTATCCAAAATAACAAAATGTTCTAATCAAATATT
5997503 GAGTTATTAACAAAATCAACTATTGAAAATAAATTACAAATATAGAT
66 GAGTTATTAACAAAATCAACTATTGAAAATAAATTACAAATATAGAT
* * *
5997550 TGTAGCAGGAGGATAAATAAAATCAATAGTTGGTTTATCCAAAA-AACAAAATGTTCTAATTAAA
1 TGTAGCAGGAGGATAAACAAAATCAATA----GTCTATCCAAAATAACAAAATGTTCTAATCAAA
*
5997614 TATTGAGTTATTAACAAAATCAATTATTGAAAATAAATTACAAATATA
62 TATTGAGTTATTAACAAAATCAACTATTGAAAATAAATTACAAATATA
5997662 TTCAGGTTTT
Statistics
Matches: 104, Mismatches: 4, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
112 27 0.26
115 66 0.63
116 11 0.11
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (112 bp):
TGTAGCAGGAGGATAAACAAAATCAATAGTCTATCCAAAATAACAAAATGTTCTAATCAAATATT
GAGTTATTAACAAAATCAACTATTGAAAATAAATTACAAATATAGAT
Found at i:5998157 original size:25 final size:26
Alignment explanation
Indices: 5998094--5998158 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
5998084 TAAGTGAGTG
*
5998094 AAGAAAAGATTGCGTAACAGAATGCT
1 AAGAAAAGATTGTGTAACAGAATGCT
* * *
5998120 TAGCAGAAG--TGTGTAAGAGAATGC-
1 AAG-AAAAGATTGTGTAACAGAATGCT
5998144 AAGAAAAGATTGTGT
1 AAGAAAAGATTGTGT
5998159 GAAAGGTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
23 4 0.13
24 2 0.07
25 18 0.60
26 2 0.07
27 4 0.13
ACGTcount: A:0.43, C:0.08, G:0.28, T:0.22
Consensus pattern (26 bp):
AAGAAAAGATTGTGTAACAGAATGCT
Found at i:5998516 original size:39 final size:40
Alignment explanation
Indices: 5998464--5998544 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
5998454 GAATAGTGGA
*
5998464 AAACAAAAAGAAGCTTTTAAGTATAGCTATCCCTA-TTAC
1 AAACAAAAAGAAGCTTTTAAGCATAGCTATCCCTATTTAC
*
5998503 AAACAAAACGAAGCTTTTAAGCATAGCTATCCCTATTTAC
1 AAACAAAAAGAAGCTTTTAAGCATAGCTATCCCTATTTAC
5998543 AA
1 AA
5998545 CTTCTTTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 33 0.85
40 6 0.15
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (40 bp):
AAACAAAAAGAAGCTTTTAAGCATAGCTATCCCTATTTAC
Found at i:6006963 original size:20 final size:20
Alignment explanation
Indices: 6006938--6006983 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6006928 CTTCTAAACC
6006938 TCAAATAATACTCCAATAAG
1 TCAAATAATACTCCAATAAG
* *
6006958 TCAAATTATACTCTAATAAG
1 TCAAATAATACTCCAATAAG
6006978 TCAAAT
1 TCAAAT
6006984 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATAATACTCCAATAAG
Found at i:6010500 original size:79 final size:78
Alignment explanation
Indices: 6010325--6010500 Score: 277
Period size: 79 Copynumber: 2.3 Consensus size: 78
6010315 ATAATTACTA
*
6010325 TTAT-ATATATTAACGTTACAAAAAT-T-ATAACTTATAAAATTATTAATCATAATATATATACC
1 TTATAATATATAAAC-TTA-AAAAATATAATAACTTATAAAATTATTAATCATAATATATATACC
6010387 ATTATTTTTATAAAC
64 ATTATTTTTATAAAC
*
6010402 TTATAATATATATACTTAAANAAATATAATAACTTATAAAATTATTAATCATAATATATATACCA
1 TTATAATATATAAACTTAAA-AAATATAATAACTTATAAAATTATTAATCATAATATATATACCA
6010467 TTATTTTTATAAAC
65 TTATTTTTATAAAC
*
6010481 TTATAATATATAAATTTAAA
1 TTATAATATATAAACTTAAA
6010501 GAGAAGTTGT
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
76 2 0.02
77 11 0.12
78 9 0.10
79 69 0.76
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (78 bp):
TTATAATATATAAACTTAAAAAATATAATAACTTATAAAATTATTAATCATAATATATATACCAT
TATTTTTATAAAC
Found at i:6011925 original size:34 final size:34
Alignment explanation
Indices: 6011886--6011958 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 34
6011876 TATAATGTTG
**
6011886 TTTAAGTTGTTATTTG-GATATT-TGTTTTTAATTA
1 TTTAAGTTGACATTTGAGATATTAT-TTTTT-ATTA
6011920 TTTAAGTTGACATTTGAGATATTATTTTTTATTA
1 TTTAAGTTGACATTTGAGATATTATTTTTTATTA
6011954 TTTAA
1 TTTAA
6011959 ATTTAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 23 0.66
35 11 0.31
36 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.12, T:0.59
Consensus pattern (34 bp):
TTTAAGTTGACATTTGAGATATTATTTTTTATTA
Found at i:6012656 original size:34 final size:34
Alignment explanation
Indices: 6012604--6012670 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
6012594 AACTTGTGAT
*
6012604 GTTATTTAAGTTGTTATTTGA-ATATTTGTTTTTA
1 GTTATTTAAGTTGATATTTGAGATA-TTGTTTTTA
*
6012638 GTTATTTATGTTGATATTTGAGATATTGTTTTT
1 GTTATTTAAGTTGATATTTGAGATATTGTTTTT
6012671 GATAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.61
Consensus pattern (34 bp):
GTTATTTAAGTTGATATTTGAGATATTGTTTTTA
Found at i:6012679 original size:34 final size:34
Alignment explanation
Indices: 6012607--6012680 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
6012597 TTGTGATGTT
* *
6012607 ATTTAAGTTGTTATTTGAATATTTGTTTTTAGTT
1 ATTTAAGTTGATATTTGAATATTTGTTTTTAGTA
*
6012641 ATTTATGTTGATATTTGAGATA-TTGTTTTT-GATA
1 ATTTAAGTTGATATTTGA-ATATTTGTTTTTAG-TA
6012675 ATTTAA
1 ATTTAA
6012681 ATTTAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 1 0.03
34 30 0.88
35 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (34 bp):
ATTTAAGTTGATATTTGAATATTTGTTTTTAGTA
Found at i:6013011 original size:32 final size:33
Alignment explanation
Indices: 6012974--6013068 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 33
6012964 TTTTACACTA
* *
6012974 GTTTTTCACGGGCTAAACTAAAACCCAAT-ATG
1 GTTTTTCACGGGCTCAACCAAAACCCAATAATG
** *
6013006 GTTTTTCAAAGGCTCAACCACAACCTTTC-ATAATG
1 GTTTTTCACGGGCTCAACCAAAACC---CAATAATG
6013041 GTTTTTCACGGGCTCAACCAAAACCCAA
1 GTTTTTCACGGGCTCAACCAAAACCCAA
6013069 AGTGATTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
32 21 0.42
33 1 0.02
34 2 0.04
35 26 0.52
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (33 bp):
GTTTTTCACGGGCTCAACCAAAACCCAATAATG
Found at i:6013064 original size:67 final size:67
Alignment explanation
Indices: 6012947--6013098 Score: 189
Period size: 67 Copynumber: 2.3 Consensus size: 67
6012937 TGGCTTTTAC
* * * * * *
6012947 AAGGCTCAGCCAAAACCTTTTACACTAGTTTTTCACGGGCTAAACTAAAACCCAATA-TGGTTTT
1 AAGGCTCAACCACAACCTTTCACAATAGTTTTTCACGGGCTAAACCAAAACCCAA-AGTGATTTT
6013011 TCA
65 TCA
* * *
6013014 AAGGCTCAACCACAACCTTTCATAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGATTTTT
1 AAGGCTCAACCACAACCTTTCACAATAGTTTTTCACGGGCTAAACCAAAACCCAAAGTGATTTTT
6013079 CA
66 CA
* *
6013081 AAGGTTCAACCGCAACCT
1 AAGGCTCAACCACAACCT
6013099 ACAATAATCA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 1 0.01
67 72 0.99
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (67 bp):
AAGGCTCAACCACAACCTTTCACAATAGTTTTTCACGGGCTAAACCAAAACCCAAAGTGATTTTT
CA
Found at i:6013090 original size:32 final size:31
Alignment explanation
Indices: 6012974--6013091 Score: 101
Period size: 32 Copynumber: 3.6 Consensus size: 31
6012964 TTTTACACTA
** * *
6012974 GTTTTTCACGGGCTAAACTAAAACCCAATATG
1 GTTTTTCAAAGGCTCAACCAAAACCCAA-ATG
*
6013006 GTTTTTCAAAGGCTCAACCACAACCTTTCATAATG
1 GTTTTTCAAAGGCTCAACCAAAACC---CA-AATG
**
6013041 GTTTTTCACGGGCTCAACCAAAACCCAAAGTG
1 GTTTTTCAAAGGCTCAACCAAAACCCAAA-TG
* *
6013073 ATTTTTCAAAGGTTCAACC
1 GTTTTTCAAAGGCTCAACC
6013092 GCAACCTACA
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
31 2 0.03
32 39 0.57
35 27 0.39
36 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (31 bp):
GTTTTTCAAAGGCTCAACCAAAACCCAAATG
Found at i:6014056 original size:2 final size:2
Alignment explanation
Indices: 6014049--6014073 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6014039 TCAGATTAAG
6014049 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 T
6014074 TCTGGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6022262 original size:32 final size:32
Alignment explanation
Indices: 6022225--6022348 Score: 115
Period size: 32 Copynumber: 3.8 Consensus size: 32
6022215 ATTTACGCTA
* *
6022225 GTTTTTCACGGGCTAAACTAAAACCCAAAGTG
1 GTTTTTCACGGGCTCAACCAAAACCCAAAGTG
** *
6022257 GTTTTTCAAAGGCTCAACCACAACCTTTCACAA-TG
1 GTTTTTCACGGGCTCAACCAAAACC---CA-AAGTG
* *
6022292 GTTTTTCACGAGCTCAACCAAAACCCAAAGTA
1 GTTTTTCACGGGCTCAACCAAAACCCAAAGTG
** *
6022324 GTTTTTCAAAGGCTCAACCACAACC
1 GTTTTTCACGGGCTCAACCAAAACC
6022349 TACAACAATC
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
31 2 0.03
32 44 0.60
35 25 0.34
36 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (32 bp):
GTTTTTCACGGGCTCAACCAAAACCCAAAGTG
Found at i:6022357 original size:67 final size:67
Alignment explanation
Indices: 6022225--6022357 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
6022215 ATTTACGCTA
* * * *
6022225 GTTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTTCACAA
1 GTTTTTCACGAGCTAAACCAAAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACCTTACACAA
6022290 TG
66 TG
*
6022292 GTTTTTCACGAGCTCAACCAAAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACC-TACAACA
1 GTTTTTCACGAGCTAAACCAAAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACCTTAC-ACA
6022356 AT
65 AT
6022358 CAAGCTATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 2 0.03
67 58 0.97
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (67 bp):
GTTTTTCACGAGCTAAACCAAAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACCTTACACAA
TG
Found at i:6029912 original size:2 final size:2
Alignment explanation
Indices: 6029905--6029936 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6029895 AAGCAAATTA
6029905 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
6029937 TTGAACTTTT
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:6030633 original size:31 final size:31
Alignment explanation
Indices: 6030598--6030659 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
6030588 AATCCCCCAA
* *
6030598 TTAGCTTCTTGTCATTCTTCATTAATATCAG
1 TTAGCTTCTTCTCATTCTTCATAAATATCAG
*
6030629 TTAGCTTCTTCTCATTCTTCATAAATTTCAG
1 TTAGCTTCTTCTCATTCTTCATAAATATCAG
6030660 CCAAGGGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (31 bp):
TTAGCTTCTTCTCATTCTTCATAAATATCAG
Found at i:6034396 original size:17 final size:17
Alignment explanation
Indices: 6034360--6034393 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6034350 AAATACGAAG
*
6034360 ATATAAAAAAATAATAA
1 ATATAAAAAAAGAATAA
6034377 ATAT-AAAAAAGAATAA
1 ATATAAAAAAAGAATAA
6034393 A
1 A
6034394 ATAGATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
ATATAAAAAAAGAATAA
Found at i:6034411 original size:24 final size:25
Alignment explanation
Indices: 6034381--6034444 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 25
6034371 TAATAAATAT
6034381 AAAAAAGAATAAAATAGATAG-TTA
1 AAAAAAGAATAAAATAGATAGATTA
* * * *
6034405 TATAAAGTAT-AATTAGATAGATTA
1 AAAAAAGAATAAAATAGATAGATTA
6034429 AAAAAAGAA-AAAATAG
1 AAAAAAGAATAAAATAG
6034445 GATATTTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAAAAGAATAAAATAGATAGATTA
Found at i:6034696 original size:3 final size:3
Alignment explanation
Indices: 6034680--6034730 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
6034670 TTAAATTAAT
* * * *
6034680 TAA TAA AAA AAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6034728 TAA
1 TAA
6034731 CGCTAATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:6035013 original size:25 final size:25
Alignment explanation
Indices: 6034985--6035032 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
6034975 CATACTAGGA
*
6034985 TTTGCATTTATAAAAATATTGTTGG
1 TTTGCATTCATAAAAATATTGTTGG
6035010 TTTGCATTCATAAAAATATTGTT
1 TTTGCATTCATAAAAATATTGTT
6035033 TTTACCCACA
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:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (25 bp):
TTTGCATTCATAAAAATATTGTTGG
Found at i:6037145 original size:10 final size:10
Alignment explanation
Indices: 6037130--6037188 Score: 66
Period size: 10 Copynumber: 5.8 Consensus size: 10
6037120 CTTAAAAGAT
6037130 TAAAAATATA
1 TAAAAATATA
*
6037140 TAAAAATAAGA
1 TAAAAAT-ATA
6037151 CTAAAAATATA
1 -TAAAAATATA
*
6037162 TAAATATATA
1 TAAAAATATA
*
6037172 TAAATATAT-
1 TAAAAATATA
6037181 TAAAAATA
1 TAAAAATA
6037189 GGAGGTCCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
9 7 0.16
10 25 0.58
11 4 0.09
12 7 0.16
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAATATA
Found at i:6037167 original size:20 final size:21
Alignment explanation
Indices: 6037125--6037165 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
6037115 TGTTCCTTAA
*
6037125 AAGATTAAAAATATATAAAAAT
1 AAGACTAAAAATATAT-AAAAT
6037147 AAGACTAAAAATATATAAA
1 AAGACTAAAAATATATAAA
6037166 TATATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (21 bp):
AAGACTAAAAATATATAAAAT
Found at i:6038531 original size:28 final size:29
Alignment explanation
Indices: 6038489--6038554 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
6038479 TGCATTTTGG
*
6038489 TAATTTTTCAATTTT-TGGGGTAAAAATA
1 TAATTTTTCAATTTTAGGGGGTAAAAATA
* * *
6038517 TAATTTTTCACTTTTACGGGGGTAAAAGTG
1 TAATTTTTCAATTTTA-GGGGGTAAAAATA
6038547 TAATTTTT
1 TAATTTTT
6038555 AAAAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 14 0.44
30 18 0.56
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (29 bp):
TAATTTTTCAATTTTAGGGGGTAAAAATA
Found at i:6041776 original size:19 final size:20
Alignment explanation
Indices: 6041752--6041789 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
6041742 TCAATAAAGT
6041752 TTGTTTATGTAT-CTTGTGA
1 TTGTTTATGTATCCTTGTGA
6041771 TTGTTTATGTATCCTTGTG
1 TTGTTTATGTATCCTTGTG
6041790 TTTCAAGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.13, C:0.08, G:0.21, T:0.58
Consensus pattern (20 bp):
TTGTTTATGTATCCTTGTGA
Found at i:6041921 original size:15 final size:16
Alignment explanation
Indices: 6041903--6041935 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6041893 ATTTTCTGAG
*
6041903 TTCTTTTT-TTATTTC
1 TTCTTTTTCATATTTC
6041918 TTCTTTTTCATATTTC
1 TTCTTTTTCATATTTC
6041934 TT
1 TT
6041936 AATGATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTTCATATTTC
Found at i:6043399 original size:19 final size:20
Alignment explanation
Indices: 6043362--6043400 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6043352 GAAAGAGAAA
**
6043362 AGAAAAAAGGAAATGAAGAG
1 AGAAAAAAGGAAAAAAAGAG
6043382 AGAAAAAA-GAAAAAAAGAG
1 AGAAAAAAGGAAAAAAAGAG
6043401 GTTTTATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (20 bp):
AGAAAAAAGGAAAAAAAGAG
Found at i:6047046 original size:21 final size:21
Alignment explanation
Indices: 6047020--6047064 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
6047010 CGATGTATAG
6047020 AACAATTATTT-TACATTTTGT
1 AACAATT-TTTGTACATTTTGT
6047041 AACAATTTTTGTACATTTTGT
1 AACAATTTTTGTACATTTTGT
6047062 AAC
1 AAC
6047065 GAATGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (21 bp):
AACAATTTTTGTACATTTTGT
Found at i:6052005 original size:165 final size:162
Alignment explanation
Indices: 6051733--6052216 Score: 549
Period size: 165 Copynumber: 2.9 Consensus size: 162
6051723 GTTGATATGG
* * * *
6051733 TAAAATGCCACACGGCATAAAATAATAGACGATAATGAGAAACACTAGGCCTCATAGGTGATTAT
1 TAAAATGCCACACGACATAAAATAATAGACGAAAATGAGAAACGCTAGTCCTCATAGGTGATTAT
* * * * * *
6051798 GTGACCCGCCAACCCTTACAAGTAAATACGTGACATGCCATGCATGAAATGGGAAAACATAAGTT
66 GCGA-CCGCTAA-CCTTA-AAGCAAATACGCGACACGCCATGCATGAAATGGGAAAACATAGGTT
***
6051863 GATATGATAAAATGCCACACGCCATCCATGTTGGT
128 GATATGATAAAATGCCACACGCCATCCATGCCAGT
* * * **
6051898 TAAAATGCCACACAACATAAAATGACAGACGAAAATGAGATGCGCTAGTCCTCATAGGTGATTAT
1 TAAAATGCCACACGACATAAAATAATAGACGAAAATGAGAAACGCTAGTCCTCATAGGTGATTAT
* * *
6051963 GCGACTCGCTAACCTTAATAGGCAAATACGCGGCACGCCATGCATGCAATGGGAAAACATAGGCT
66 GCGAC-CGCTAACCTTAA-A-GCAAATACGCGACACGCCATGCATGAAATGGGAAAACATAGGTT
*
6052028 GATATGATAAAATGCCACACGCCATTCATGCCAGT
128 GATATGATAAAATGCCACACGCCATCCATGCCAGT
* * * * * * * *
6052063 TAAAATGCCACATGACATTAAATAATAGATGAAAATGAGACATGTTAGGT-CTCATTGATGATTA
1 TAAAATGCCACACGACATAAAATAATAGACGAAAATGAGAAACGCTA-GTCCTCATAGGTGATTA
* * * *
6052127 TGCTACC-CTAAACCCTAACAAGCGAATACGCGACACGCCATGCATGAAATGGGGAAACATAGGT
65 TGCGACCGCT-AA-CCTTA-AAGCAAATACGCGACACGCCATGCATGAAATGGGAAAACATAGGT
*
6052191 TGATATGGTAAAATGCCACACGCCAT
127 TGATATGATAAAATGCCACACGCCAT
6052217 AAAATAATAG
Statistics
Matches: 270, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
163 3 0.01
164 73 0.27
165 191 0.71
166 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (162 bp):
TAAAATGCCACACGACATAAAATAATAGACGAAAATGAGAAACGCTAGTCCTCATAGGTGATTAT
GCGACCGCTAACCTTAAAGCAAATACGCGACACGCCATGCATGAAATGGGAAAACATAGGTTGAT
ATGATAAAATGCCACACGCCATCCATGCCAGT
Found at i:6052445 original size:21 final size:20
Alignment explanation
Indices: 6052421--6052461 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
6052411 AATTAAGTTG
6052421 TTTTAGTTTAATTTTACTTTA
1 TTTTAGTTTAA-TTTACTTTA
6052442 TTTTAGTTTAATTTACTTTA
1 TTTTAGTTTAATTTACTTTA
6052462 AGAAGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTAGTTTAATTTACTTTA
Found at i:6054814 original size:2 final size:2
Alignment explanation
Indices: 6054807--6054855 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
6054797 GTAGGCAATC
6054807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6054849 ACT AT AT
1 A-T AT AT
6054856 GGATAGGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6054936 original size:2 final size:2
Alignment explanation
Indices: 6054929--6054977 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
6054919 TTTAATTTGN
6054929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6054970 AT ACT AT A
1 AT A-T AT A
6054978 CATGCACACT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6055985 original size:92 final size:92
Alignment explanation
Indices: 6055864--6056046 Score: 303
Period size: 92 Copynumber: 2.0 Consensus size: 92
6055854 GAATTCCTCC
*
6055864 AGCACACCTCATATTGTTCTTCCTAGCAAGAATGTAGTGATACATGAAGGGATGTATCGATACAT
1 AGCACACCTCATATTGTTCTTCCTAGCAAGAATGTAGTCATACATGAAGGGATGTATCGATACAT
* * *
6055929 CTTCTTTTGTAGGTAGTTTTAAGCTTT
66 CTTCCTCTGTAGGCAGTTTTAAGCTTT
* * *
6055956 AGCACACCTCATATTGTTCTTCTTGGCAAGAATGTATTCATACATGAAGGGATGTATCGATACAT
1 AGCACACCTCATATTGTTCTTCCTAGCAAGAATGTAGTCATACATGAAGGGATGTATCGATACAT
6056021 CTTCCTCTGTAGGCAGTTTTAAGCTT
66 CTTCCTCTGTAGGCAGTTTTAAGCTT
6056047 ATAAACTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (92 bp):
AGCACACCTCATATTGTTCTTCCTAGCAAGAATGTAGTCATACATGAAGGGATGTATCGATACAT
CTTCCTCTGTAGGCAGTTTTAAGCTTT
Found at i:6064745 original size:22 final size:21
Alignment explanation
Indices: 6064716--6064760 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
6064706 GCCAAAACAA
6064716 AATGTTTCTCACTGCAGTGAG
1 AATGTTTCTCACTGCAGTGAG
*
6064737 AATGCTTTCTCGCTGCAGTGAG
1 AATG-TTTCTCACTGCAGTGAG
6064759 AA
1 AA
6064761 GCAGGGCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (21 bp):
AATGTTTCTCACTGCAGTGAG
Found at i:6065081 original size:37 final size:37
Alignment explanation
Indices: 6065031--6065102 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
6065021 ATATACATGC
6065031 ATCATCATCATGTGTGCACTCCCTACTCGCACACTCT
1 ATCATCATCATGTGTGCACTCCCTACTCGCACACTCT
6065068 ATCATCATCATGTGTGCACTCCCTACTCGCACACT
1 ATCATCATCATGTGTGCACTCCCTACTCGCACACT
6065103 TCAACATCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.38, G:0.11, T:0.29
Consensus pattern (37 bp):
ATCATCATCATGTGTGCACTCCCTACTCGCACACTCT
Found at i:6065111 original size:37 final size:37
Alignment explanation
Indices: 6065033--6065111 Score: 133
Period size: 37 Copynumber: 2.1 Consensus size: 37
6065023 ATACATGCAT
*
6065033 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
6065070 CATCATCATGTGTGCACTCCCTACTCGCACACT-TCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCT-AA
6065107 CATCA
1 CATCA
6065112 CCACTCAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 1 0.03
37 39 0.98
ACGTcount: A:0.24, C:0.38, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
Found at i:6072687 original size:13 final size:14
Alignment explanation
Indices: 6072669--6072697 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6072659 GACATTGTTA
6072669 TTATTATTATT-TT
1 TTATTATTATTCTT
6072682 TTATTATTATTCTT
1 TTATTATTATTCTT
6072696 TT
1 TT
6072698 GCCTCGCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTATTATTCTT
Found at i:6072687 original size:16 final size:16
Alignment explanation
Indices: 6072666--6072697 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6072656 CCTGACATTG
6072666 TTATTATTATTATTTT
1 TTATTATTATTATTTT
*
6072682 TTATTATTATTCTTTT
1 TTATTATTATTATTTT
6072698 GCCTCGCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTATTATTATTTT
Found at i:6089171 original size:19 final size:19
Alignment explanation
Indices: 6089147--6089183 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6089137 TTTGCGAGTT
6089147 TCGAGTTCAACCTCACAAC
1 TCGAGTTCAACCTCACAAC
*
6089166 TCGAGTTCAGCCTCACAA
1 TCGAGTTCAACCTCACAA
6089184 TTGTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.35, G:0.14, T:0.22
Consensus pattern (19 bp):
TCGAGTTCAACCTCACAAC
Found at i:6099862 original size:38 final size:38
Alignment explanation
Indices: 6099778--6099863 Score: 165
Period size: 37 Copynumber: 2.3 Consensus size: 38
6099768 AAAGGCTTTT
6099778 AGGGTTTTTTTTTTCAAAGCTTTTTACAGTTTCACAGA
1 AGGGTTTTTTTTTTCAAAGCTTTTTACAGTTTCACAGA
6099816 AGGG-TTTTTTTTTCAAAGCTTTTTACAGTTTCACAGA
1 AGGGTTTTTTTTTTCAAAGCTTTTTACAGTTTCACAGA
6099853 AGGGTTTTTTT
1 AGGGTTTTTTT
6099864 CAAGGTTGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 37 0.79
38 10 0.21
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (38 bp):
AGGGTTTTTTTTTTCAAAGCTTTTTACAGTTTCACAGA
Found at i:6100728 original size:2 final size:2
Alignment explanation
Indices: 6100721--6100751 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6100711 TTTTATAGTT
6100721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6100752 NAGAGTGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6100807 original size:2 final size:2
Alignment explanation
Indices: 6100802--6100832 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6100792 TATTTATTAT
6100802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6100833 TATTGGTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6110451 original size:20 final size:20
Alignment explanation
Indices: 6110426--6110469 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
6110416 GGCAAAATGC
*
6110426 TCTTAGTCGACTAACCAATA
1 TCTTAGTCGACGAACCAATA
6110446 TCTTAGTCGACGAACCAATA
1 TCTTAGTCGACGAACCAATA
6110466 TCTT
1 TCTT
6110470 TCTTTTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (20 bp):
TCTTAGTCGACGAACCAATA
Found at i:6111636 original size:28 final size:29
Alignment explanation
Indices: 6111605--6111671 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
6111595 TCAGTTCTTC
6111605 ATGGAGTAATAATAATC-TTGTTTTCCTA
1 ATGGAGTAATAATAATCTTTGTTTTCCTA
*
6111633 ATGGAGTAGA-AATAATCTTTTTTTTCCTA
1 ATGGAGTA-ATAATAATCTTTGTTTTCCTA
*
6111662 ATGGTGTAAT
1 ATGGAGTAAT
6111672 GCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (29 bp):
ATGGAGTAATAATAATCTTTGTTTTCCTA
Found at i:6117116 original size:18 final size:18
Alignment explanation
Indices: 6117090--6117128 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6117080 ATCGTTGATC
* *
6117090 TATGAGTTATTTATGAAT
1 TATGAGTTACTTATAAAT
*
6117108 TATGTGTTACTTATAAAT
1 TATGAGTTACTTATAAAT
6117126 TAT
1 TAT
6117129 TTGTGAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (18 bp):
TATGAGTTACTTATAAAT
Found at i:6117898 original size:51 final size:51
Alignment explanation
Indices: 6117831--6117968 Score: 197
Period size: 51 Copynumber: 2.7 Consensus size: 51
6117821 GAAAGTATAT
** **
6117831 AACTCCTCATTCGAGGCTTTACAACTTTAAAAATGATTTAAAAAGATAAAC
1 AACTCCTCATAAGAGGCTTTACAACTTTAAAAACAATTTAAAAAGATAAAC
*
6117882 AACTCCTCATAAGAGGCTTTACAACTTTAAAAACAATTTGAAAAGATAAAC
1 AACTCCTCATAAGAGGCTTTACAACTTTAAAAACAATTTAAAAAGATAAAC
* *
6117933 AACTCCTCATTCA-AGGTTTTACAACTTTAAAAACAA
1 AACTCCTCA-TAAGAGGCTTTACAACTTTAAAAACAA
6117969 CTCCTGATCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 77 0.97
52 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (51 bp):
AACTCCTCATAAGAGGCTTTACAACTTTAAAAACAATTTAAAAAGATAAAC
Found at i:6118075 original size:36 final size:38
Alignment explanation
Indices: 6118008--6118084 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 38
6117998 AATAATATGA
* *
6118008 AAAGATAAACAACTACTCATCTGAGGTTTTACAACTTT
1 AAAGATAAACAACTACTAATCTGAGGCTTTACAACTTT
* *
6118046 AAAGAT-AA-AACTCCTAATCTGAGGCTTTACAATTTT
1 AAAGATAAACAACTACTAATCTGAGGCTTTACAACTTT
6118082 AAA
1 AAA
6118085 AATATATTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 27 0.77
37 2 0.06
38 6 0.17
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (38 bp):
AAAGATAAACAACTACTAATCTGAGGCTTTACAACTTT
Done.