Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 13 of 328
Found at i:3979037 original size:15 final size:14
Alignment explanation
Indices: 3978978--3979041 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
3978968 ATTTTTTGCT
3978978 AAAATAATATA-AA
1 AAAATAATATAGAA
*
3978991 AAAATAAAATAGGAA
1 AAAATAATATA-GAA
**
3979006 AATAAT-ATATTTTAA
1 AA-AATAATA-TAGAA
3979021 AAAATAATATACGAA
1 AAAATAATATA-GAA
3979036 AAAATA
1 AAAATA
3979042 TGAATAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.26
14 4 0.10
15 21 0.54
16 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (14 bp):
AAAATAATATAGAA
Found at i:3979096 original size:21 final size:22
Alignment explanation
Indices: 3979072--3979113 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3979062 GGGTTATTTA
3979072 TTAAA-AAAATATTTAAAACAC
1 TTAAATAAAATATTTAAAACAC
*
3979093 TTAAATAATATATTTAAAACA
1 TTAAATAAAATATTTAAAACA
3979114 TTATGTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAATAAAATATTTAAAACAC
Found at i:3979186 original size:13 final size:12
Alignment explanation
Indices: 3979168--3979197 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
3979158 AATATATTTA
3979168 AAAAAAAGATACG
1 AAAAAAA-ATACG
3979181 AAAAAAAATACG
1 AAAAAAAATACG
3979193 AAAAA
1 AAAAA
3979198 GTGTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.77, C:0.07, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAAAATACG
Found at i:3981275 original size:71 final size:72
Alignment explanation
Indices: 3981153--3981292 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 72
3981143 AGTCCGAGCG
*
3981153 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACTATTTC-CGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCTCGG
3981217 GCTCGTC
66 GCTCGTC
* * * *
3981224 ATCGCATTCACTTTCGGCTGATACTTCTTATCATCCTGATTTTGC-GAGCAATGACAATTTCTCG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAG-GCAATGACAATTTCTCG
3981288 GGCTC
65 GGCTC
3981293 ATCGGGGGGC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
70 1 0.02
71 54 0.87
72 7 0.11
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (72 bp):
ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCTCGG
GCTCGTC
Found at i:3985157 original size:15 final size:16
Alignment explanation
Indices: 3985138--3985199 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 16
3985128 TACCTTCTTT
3985138 TTTTCTTCTCCTTCT-
1 TTTTCTTCTCCTTCTA
*
3985153 TTTTCTTCCTCCTCTTCTC
1 TTTTCTT-CT-C-CTTCTA
* *
3985172 CTTTCTT-TCCTTTTA
1 TTTTCTTCTCCTTCTA
3985187 TTTTCTTCTCCTT
1 TTTTCTTCTCCTT
3985200 GCTGCTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 17 0.45
16 8 0.21
17 2 0.05
18 5 0.13
19 6 0.16
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTCTTCTCCTTCTA
Found at i:3985379 original size:19 final size:20
Alignment explanation
Indices: 3985343--3985392 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3985333 CCAATATTTT
3985343 ACTTTTTTTTTCGTTTTTCAG
1 ACTTTTTTTTTC-TTTTTCAG
3985364 -CTTTTTTTTT-TATTTTCAG
1 ACTTTTTTTTTCT-TTTTCAG
*
3985383 AGTTTTTTTT
1 ACTTTTTTTT
3985393 ACTGTTTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 7 0.27
20 18 0.69
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (20 bp):
ACTTTTTTTTTCTTTTTCAG
Found at i:3985986 original size:52 final size:52
Alignment explanation
Indices: 3985929--3986032 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
3985919 AACAGTTGGA
3985929 GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
1 GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
*
3985981 GTTATTTGAGTTAATCAAGTTATTCGGATCAATTCGAATAAAAAATTAAGTT
1 GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
3986033 TTTCGGTTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (52 bp):
GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
Found at i:3990960 original size:25 final size:25
Alignment explanation
Indices: 3990915--3990965 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
3990905 TATTAAAAAT
3990915 TAAAAAGGTAATTTAGATATTTTAA
1 TAAAAAGGTAATTTAGATATTTTAA
3990940 TAAAAATGGTAA-TTA-ATTATTTTAA
1 TAAAAA-GGTAATTTAGA-TATTTTAA
3990965 T
1 T
3990966 TATTTATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 1 0.04
25 18 0.75
26 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (25 bp):
TAAAAAGGTAATTTAGATATTTTAA
Found at i:3994198 original size:36 final size:36
Alignment explanation
Indices: 3994150--3994246 Score: 142
Period size: 36 Copynumber: 2.7 Consensus size: 36
3994140 TATATATGTG
3994150 GTGTAACA-GTCTTGATTCCTCCTAAAGGGAATCACT
1 GTGTAA-AGGTCTTGATTCCTCCTAAAGGGAATCACT
*
3994186 GTGTAAAGGTCTTGATTCCTCCTAAAGGGAATCGCT
1 GTGTAAAGGTCTTGATTCCTCCTAAAGGGAATCACT
* * *
3994222 GTATAACGATCTTGATTCCTCCTAA
1 GTGTAAAGGTCTTGATTCCTCCTAA
3994247 GGGGGGTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
35 1 0.02
36 55 0.98
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (36 bp):
GTGTAAAGGTCTTGATTCCTCCTAAAGGGAATCACT
Found at i:3999905 original size:78 final size:78
Alignment explanation
Indices: 3999814--4000200 Score: 693
Period size: 78 Copynumber: 5.0 Consensus size: 78
3999804 GTTGATGGCG
*
3999814 CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGATACACCCAAGTCTACCAAATCC
1 CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
* *
3999879 AAGGATGATGTCG
66 AAGGAGGATGTCA
*
3999892 CTTCAAAAATAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
1 CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
3999957 AAGGAGGATGTCA
66 AAGGAGGATGTCA
*
3999970 CTTCAAGAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
1 CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
4000035 AAGGAGGATGTCA
66 AAGGAGGATGTCA
4000048 CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
1 CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
4000113 AAGGAGGATGTCA
66 AAGGAGGATGTCA
* * *
4000126 CTTCAAAAGTAGGCAACAAGTCCAAAAATGAGGACACTGGTGACACAGCCAAGTCTACCAAATCT
1 CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
*
4000191 AAGGATGATG
66 AAGGAGGATG
4000201 ACAATGTTAC
Statistics
Matches: 298, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 298 1.00
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.16
Consensus pattern (78 bp):
CTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTACCAAATCC
AAGGAGGATGTCA
Found at i:3999955 original size:42 final size:42
Alignment explanation
Indices: 3999830--4000114 Score: 140
Period size: 42 Copynumber: 7.2 Consensus size: 42
3999820 AAGTAGGCAA
*
3999830 CAAATCCAAAAATGAGGACACTGGTGATACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
** * * * ** * *
3999872 CAAATCCAAGGATGATGTCGCT--T--CA-A-AAATAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCA-AGTCTAC
3999908 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
** * * * **** * *
3999950 CAAATCCAAGGAGGATGTCACT--T--CA-AGAGTAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
3999986 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
** * * * **** * *
4000028 CAAATCCAAGGAGGATGTCACT--T--CA-AAAGTAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
4000064 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
4000106 CAAATCCAA
1 CAAATCCAA
4000115 GGAGGATGTC
Statistics
Matches: 160, Mismatches: 63, Indels: 40
0.61 0.24 0.15
Matches are distributed among these distances:
36 55 0.34
37 12 0.08
38 8 0.05
40 9 0.06
41 12 0.08
42 64 0.40
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (42 bp):
CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
Found at i:4003852 original size:2 final size:2
Alignment explanation
Indices: 4003845--4003877 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4003835 ATAATAGATT
4003845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4003878 TGTTCTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4004915 original size:15 final size:14
Alignment explanation
Indices: 4004868--4004934 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
4004858 GTTTGTAGGT
* *
4004868 AAAATGTTTTCCAG
1 AAAATGATTTCTAG
*
4004882 AAAATGATTTCTGG
1 AAAATGATTTCTAG
4004896 AAAATGATTTCCTAG
1 AAAATGATTT-CTAG
*
4004911 AAAATGATTTCTGG
1 AAAATGATTTCTAG
4004925 AAAATGATTT
1 AAAATGATTT
4004935 ACTTTTCTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 34 0.72
15 13 0.28
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (14 bp):
AAAATGATTTCTAG
Found at i:4004919 original size:29 final size:28
Alignment explanation
Indices: 4004868--4004934 Score: 116
Period size: 29 Copynumber: 2.4 Consensus size: 28
4004858 GTTTGTAGGT
*
4004868 AAAATGTTTTCCAGAAAATGATTTCTGG
1 AAAATGATTTCCAGAAAATGATTTCTGG
4004896 AAAATGATTTCCTAGAAAATGATTTCTGG
1 AAAATGATTTCC-AGAAAATGATTTCTGG
4004925 AAAATGATTT
1 AAAATGATTT
4004935 ACTTTTCTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 11 0.30
29 26 0.70
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (28 bp):
AAAATGATTTCCAGAAAATGATTTCTGG
Found at i:4005052 original size:22 final size:22
Alignment explanation
Indices: 4005025--4005066 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4005015 CTGTTTTTAC
4005025 ATATATTAATAAATTTATATAT
1 ATATATTAATAAATTTATATAT
4005047 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
4005067 TTTAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATATTAATAAATTTATATAT
Found at i:4006513 original size:21 final size:21
Alignment explanation
Indices: 4006489--4006530 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4006479 TCAATATCAT
4006489 TATCCAAC-TAAATAAATTCAA
1 TATCCAACAT-AATAAATTCAA
*
4006510 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
4006531 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:4006564 original size:21 final size:21
Alignment explanation
Indices: 4006499--4006564 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
4006489 TATCCAACTA
4006499 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
4006520 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
4006545 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
4006565 AATTCAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 15 0.41
22 2 0.05
23 2 0.05
24 2 0.05
25 16 0.43
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:4006565 original size:32 final size:32
Alignment explanation
Indices: 4006538--4006598 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
4006528 CAACAAGCTT
* *
4006538 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
4006570 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
4006599 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:4010916 original size:17 final size:16
Alignment explanation
Indices: 4010888--4010921 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4010878 TGGTCAAGTT
4010888 AATAAAAAATTTAATA
1 AATAAAAAATTTAATA
*
4010904 AATAAATAAATTTGATA
1 AATAAA-AAATTTAATA
4010921 A
1 A
4010922 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AATAAAAAATTTAATA
Found at i:4013018 original size:18 final size:18
Alignment explanation
Indices: 4012995--4013029 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4012985 GAAAATATTT
4012995 TAAATT-TTATTTCAAAAA
1 TAAATTATTATTT-AAAAA
4013013 TAAATTATTATTTAAAA
1 TAAATTATTATTTAAAA
4013030 CCATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATTATTATTTAAAAA
Found at i:4013398 original size:16 final size:17
Alignment explanation
Indices: 4013365--4013406 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
4013355 TCAGTATTTC
4013365 TTTTTCAACGCTTAATT
1 TTTTTCAACGCTTAATT
** *
4013382 TTTTTCAACTTTTATTT
1 TTTTTCAACGCTTAATT
4013399 TTTTTCAA
1 TTTTTCAA
4013407 TTTATAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTTCAACGCTTAATT
Found at i:4013410 original size:15 final size:16
Alignment explanation
Indices: 4013359--4013411 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
4013349 AATTTTTCAG
*
4013359 TATTTCTTTTTCAACGCT
1 TATTT-TTTTTCAAC-TT
*
4013377 TAATTTTTTTCAACTTT
1 TATTTTTTTTCAAC-TT
4013394 TATTTTTTTTCAA-TT
1 TATTTTTTTTCAACTT
4013409 TAT
1 TAT
4013412 AAACTGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 5 0.16
17 22 0.71
18 4 0.13
ACGTcount: A:0.21, C:0.13, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTTTTTTTCAACTT
Found at i:4019989 original size:53 final size:53
Alignment explanation
Indices: 4019848--4019998 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
4019838 ACAAGTGTGC
* **
4019848 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
4019901 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* * *
4019954 CCGTATACGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
4019999 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:4030095 original size:18 final size:17
Alignment explanation
Indices: 4030062--4030095 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4030052 GATATTAAAA
*
4030062 TTAAGTGATATTATTTT
1 TTAAGTGAGATTATTTT
4030079 TTAAGTGAGATTTATTT
1 TTAAGTGAGA-TTATTT
4030096 GTGACAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
TTAAGTGAGATTATTTT
Found at i:4034068 original size:2 final size:2
Alignment explanation
Indices: 4034063--4034087 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4034053 CTTCTCTACT
4034063 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4034088 TATGTATGTA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4040835 original size:89 final size:89
Alignment explanation
Indices: 4040684--4040860 Score: 354
Period size: 89 Copynumber: 2.0 Consensus size: 89
4040674 ATGAAAATTA
4040684 TATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTATA
1 TATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTATA
4040749 GCTGCTACTCAAAGCCCAAGCGAT
66 GCTGCTACTCAAAGCCCAAGCGAT
4040773 TATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTATA
1 TATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTATA
4040838 GCTGCTACTCAAAGCCCAAGCGA
66 GCTGCTACTCAAAGCCCAAGCGA
4040861 GTGTTGGATA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (89 bp):
TATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTATA
GCTGCTACTCAAAGCCCAAGCGAT
Found at i:4044491 original size:24 final size:24
Alignment explanation
Indices: 4044464--4044514 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
4044454 ATAAAAACTT
*
4044464 AAAATAAATAATA-AAAGGATTTTA
1 AAAATAAATAATATAAA-AATTTTA
*
4044488 AAAATAAGTAATATAAAAATTTTA
1 AAAATAAATAATATAAAAATTTTA
4044512 AAA
1 AAA
4044515 TGAATAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAATAAATAATATAAAAATTTTA
Found at i:4044747 original size:28 final size:28
Alignment explanation
Indices: 4044705--4044820 Score: 107
Period size: 28 Copynumber: 4.2 Consensus size: 28
4044695 ACTAAAAAAC
* * *
4044705 ATATAAAAGATTTTAAAATAGATAATAT
1 ATATAAAATAATTTAAAATAAATAATAT
*
4044733 ATATAAAATAATTTAAAATGAAA-GATAT
1 ATATAAAATAATTTAAAAT-AAATAATAT
* *
4044761 ATATGAAAT-A-TCAAAATAAATAATAT
1 ATATAAAATAATTTAAAATAAATAATAT
* *
4044787 GTAT--AATAGTTTAAAAATAAATAATAT
1 ATATAAAATAATTT-AAAATAAATAATAT
4044814 ATATAAA
1 ATATAAA
4044821 GTCTAAAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
24 3 0.04
25 3 0.04
26 14 0.20
27 18 0.26
28 29 0.41
29 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (28 bp):
ATATAAAATAATTTAAAATAAATAATAT
Found at i:4044837 original size:25 final size:27
Alignment explanation
Indices: 4044773--4044828 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
4044763 ATGAAATATC
* *
4044773 AAAATAAATAATATGTATAATAGTTTA
1 AAAATAAATAATATATATAATAGTCTA
4044800 AAAATAAATAATATATATAA-AGTCTA
1 AAAATAAATAATATATATAATAGTCTA
4044826 AAA
1 AAA
4044829 TAGACAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAATAAATAATATATATAATAGTCTA
Found at i:4045502 original size:127 final size:128
Alignment explanation
Indices: 4045311--4045643 Score: 409
Period size: 131 Copynumber: 2.6 Consensus size: 128
4045301 CATTTAGTCC
* * * * **
4045311 AACGAAAAACCGAAACCCAGTACGGTAGGGCATGATTCCTCGAACTTCCAAACATTGAACATTGC
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCATGATTCCTCGAATTTCCAAACATCAAACATTGC
* * * ** *
4045376 CTTGTTTTAGAATTT-AAAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAATA
66 CTTGTTTTAGAATTTAAAAAAACACGAATGAAATTCTAAAGGAAGATTCAATTATTTTGAACA
* * * *
4045438 AACGAGAAATCGAAACCCAACACGATAGGGCATGGTTCCTCGAATTTCCAAGCATCAAACATTGC
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCATGATTCCTCGAATTTCCAAACATCAAACATTGC
** *
4045503 CTTGTTTTAGAATTTAGAAAAAAAACACGTGTGAAATTCTAAAGGAAGGTTCAATTATTTTGAAC
66 CTTGTTTTAGAATTT---AAAAAAACACGAATGAAATTCTAAAGGAAGATTCAATTATTTTGAAC
4045568 A
128 A
* * *
4045569 AACGGGAAATCGAAACCCAGCACGGTAGGGCACGATTTCC-CGAATTTTCAAACATCAAACATTG
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCATGA-TTCCTCGAATTTCCAAACATCAAACATTG
4045633 CCTTCGTTTTA
65 CCTT-GTTTTA
4045644 AGGAATTTTT
Statistics
Matches: 174, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
127 70 0.40
131 94 0.54
132 10 0.06
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (128 bp):
AACGAGAAATCGAAACCCAGCACGGTAGGGCATGATTCCTCGAATTTCCAAACATCAAACATTGC
CTTGTTTTAGAATTTAAAAAAACACGAATGAAATTCTAAAGGAAGATTCAATTATTTTGAACA
Found at i:4046645 original size:32 final size:30
Alignment explanation
Indices: 4046604--4046671 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
4046594 ACTTTAAAAG
* *
4046604 AAAT-TACATATGCAAAATAAAATGAGATTAA
1 AAATATACATA-G-AAAATAAAAGGAGAGTAA
* *
4046635 TAATATACATAGAATATAAAAGGAGAGTAA
1 AAATATACATAGAAAATAAAAGGAGAGTAA
4046665 AAATATA
1 AAATATA
4046672 TAATAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 21 0.68
31 4 0.13
32 6 0.19
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.25
Consensus pattern (30 bp):
AAATATACATAGAAAATAAAAGGAGAGTAA
Found at i:4046737 original size:31 final size:31
Alignment explanation
Indices: 4046699--4046761 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
4046689 AGGAAATACT
* * *
4046699 TATACATATAATAGATTTA-AAAACATATATA
1 TATACATA-AATAAATTTAGAAAAAAAATATA
4046730 TATACATAAATAAATTTAGAAAAAAAATATA
1 TATACATAAATAAATTTAGAAAAAAAATATA
4046761 T
1 T
4046762 GCAAGAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (31 bp):
TATACATAAATAAATTTAGAAAAAAAATATA
Found at i:4047967 original size:6 final size:6
Alignment explanation
Indices: 4047952--4047985 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
4047942 ATCATTCTTC
*
4047952 AAAAAG AAAAAC AAAAA- AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
4047986 TAGAAAGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4047974 original size:17 final size:17
Alignment explanation
Indices: 4047952--4047985 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4047942 ATCATTCTTC
4047952 AAAAAGAAAAACAAAAA
1 AAAAAGAAAAACAAAAA
*
4047969 AAAAAGAAAAAGAAAAA
1 AAAAAGAAAAACAAAAA
4047986 TAGAAAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAACAAAAA
Found at i:4051266 original size:20 final size:18
Alignment explanation
Indices: 4051241--4051277 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4051231 ATTGCTAAGT
4051241 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
4051261 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
4051278 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:4053848 original size:13 final size:13
Alignment explanation
Indices: 4053830--4053854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4053820 TGTTGAATAA
4053830 ATTAATTATTTTT
1 ATTAATTATTTTT
4053843 ATTAATTATTTT
1 ATTAATTATTTT
4053855 GAATTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTAATTATTTTT
Found at i:4058769 original size:8 final size:7
Alignment explanation
Indices: 4058748--4058772 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4058738 CAAATTAATA
4058748 TAATTTT
1 TAATTTT
4058755 TAATTTT
1 TAATTTT
4058762 TAATTTT
1 TAATTTT
4058769 TAAT
1 TAAT
4058773 GATAAATTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TAATTTT
Found at i:4065126 original size:20 final size:21
Alignment explanation
Indices: 4065082--4065126 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
4065072 TTTTATTTTC
4065082 TAAAAATAATAAATAAATCTA
1 TAAAAATAATAAATAAATCTA
*
4065103 -AAAAATAA-ATATAAAT-TA
1 TAAAAATAATAAATAAATCTA
*
4065121 TTAAAA
1 TAAAAA
4065127 GTATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.10
19 11 0.52
20 8 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATAATAAATAAATCTA
Found at i:4066588 original size:14 final size:15
Alignment explanation
Indices: 4066564--4066594 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4066554 TACTAAATTG
4066564 TGCATATTAAAAAAA
1 TGCATATTAAAAAAA
*
4066579 TGCATATAAAAAAAA
1 TGCATATTAAAAAAA
4066594 T
1 T
4066595 CAAAATAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (15 bp):
TGCATATTAAAAAAA
Found at i:4069741 original size:20 final size:18
Alignment explanation
Indices: 4069699--4069734 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4069689 ATTTCTCCAT
4069699 AAATTTCTCAAAGCTCTC
1 AAATTTCTCAAAGCTCTC
*
4069717 AAATTTCTCAAAGATCTC
1 AAATTTCTCAAAGCTCTC
4069735 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (18 bp):
AAATTTCTCAAAGCTCTC
Found at i:4071503 original size:18 final size:18
Alignment explanation
Indices: 4071480--4071522 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4071470 TGCCAGGTGC
*
4071480 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
4071498 GTATCCTAATCCTTATAT
1 GTATCCTAACCCTTATAT
*
4071516 GTTTCCT
1 GTATCCT
4071523 GTTGAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:4072593 original size:28 final size:27
Alignment explanation
Indices: 4072538--4072610 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
4072528 ATCTAACATG
* *
4072538 AATAAAATGTAAAAC-AATTTGAAATAA
1 AATAATATGTAAAACAAATTTCAAAT-A
*
4072565 AATAATATATAAAACAAATTTCAAATA
1 AATAATATGTAAAACAAATTTCAAATA
* *
4072592 AACAATATGTTAAACAAAT
1 AATAATATGTAAAACAAAT
4072611 CAAGATGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (27 bp):
AATAATATGTAAAACAAATTTCAAATA
Found at i:4073281 original size:23 final size:23
Alignment explanation
Indices: 4073237--4073299 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
4073227 TTAATTAACT
* * *
4073237 TAATAATATGATGATAGCAATAG
1 TAATAATATAATAATAACAATAG
* *
4073260 TAATAATATAATAATAATAATAT
1 TAATAATATAATAATAACAATAG
*
4073283 TAAATAAAATAA-AATAA
1 T-AATAATATAATAATAA
4073300 GTAGTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (23 bp):
TAATAATATAATAATAACAATAG
Found at i:4078165 original size:127 final size:126
Alignment explanation
Indices: 4077880--4078244 Score: 520
Period size: 127 Copynumber: 2.9 Consensus size: 126
4077870 ATTGATGTGT
*
4077880 GAGCTTTTTTCA-TCAATTTTGCTGACAGTGCA-TCATGCTTGAAGCGTTTTTGACAATATTTGT
1 GAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATTC-TGCTTGAAGCGTTTTTGACACTATTTGT
* *
4077943 TCAGAACCGTCTTCTTAATATTATTTTTTCAGGAACTACTAG-AGAAAAAGAGCGTCCACGTAG
64 TCAGAACCGTCTTCTTAAAATTATTTTTTCAGGAATTACT-GTAGAAAAAGAGCGTCCACGTAG
** * *
4078006 GATATTTTTTCAGTAATTTTGCTGACAGTGCATTCTGCTTAAAGCGCTTTTGACACTATTTGTTC
1 GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATTCTGCTTGAAGCGTTTTTGACACTATTTGTTC
* * * * *
4078071 AAAAACGTCTTCTCAAAATTATTTTTTTCAGGAATTACTGTAGAAAAATAGCGTCCACGTGG
66 AGAACCGTCTTCTTAAAATTA-TTTTTTCAGGAATTACTGTAGAAAAAGAGCGTCCACGTAG
* * *
4078133 GAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTGCTTGAAGCGTTTTTCACACTATTTGTTC
1 GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATTCTGCTTGAAGCGTTTTTGACACTATTTGTTC
* *
4078198 AGAACCGTATTCTTAAAATTATTTTTTCAAGAATTACTGTAGAAAAA
66 AGAACCGTCTTCTTAAAATTATTTTTTCAGGAATTACTGTAGAAAAA
4078245 ATAAAATCCT
Statistics
Matches: 211, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
126 98 0.46
127 113 0.54
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATTCTGCTTGAAGCGTTTTTGACACTATTTGTTC
AGAACCGTCTTCTTAAAATTATTTTTTCAGGAATTACTGTAGAAAAAGAGCGTCCACGTAG
Found at i:4078341 original size:34 final size:34
Alignment explanation
Indices: 4078303--4078424 Score: 129
Period size: 34 Copynumber: 3.5 Consensus size: 34
4078293 CACAATATTA
*
4078303 TTTTTTAAAAAAACTAAAACCTAATTTAATTATT
1 TTTTTTAAAAAAACTAAAACCTAATTTAATTAAT
* **
4078337 TTTTTTAAAAACACTAAGCCCTAATTTAATTAAT
1 TTTTTTAAAAAAACTAAAACCTAATTTAATTAAT
* ** *
4078371 TTATTT-AAAATCCTTAAACCTTAATTTAATTAAT
1 TTTTTTAAAAAAACTAAAACC-TAATTTAATTAAT
*
4078405 TTTTTAAAAAGAACACTAAA
1 TTTTTTAAAA-AA-ACTAAA
4078425 TACTTATTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
33 9 0.13
34 52 0.75
35 3 0.04
36 1 0.01
37 4 0.06
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (34 bp):
TTTTTTAAAAAAACTAAAACCTAATTTAATTAAT
Found at i:4078544 original size:15 final size:15
Alignment explanation
Indices: 4078520--4078559 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4078510 TTATTTTAAC
* * *
4078520 AAAACACTAACCCTA
1 AAAACCCTAAACCAA
4078535 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
4078550 AAAACCCTAA
1 AAAACCCTAA
4078560 GGACTAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:4078544 original size:42 final size:42
Alignment explanation
Indices: 4078462--4078540 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
4078452 AATCCAGAAC
*
4078462 CCTAAATTATTTTAACAAAACACTAAAACCTAGAAACCTAAG
1 CCTAAATTATTTTAACAAAACACTAAAACCTAAAAACCTAAG
*
4078504 CCTAAATTATTTTAACAAAACACT-AACCCTAAAAACC
1 CCTAAATTATTTTAACAAAACACTAAAACCTAAAAACC
4078541 CTAAACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 11 0.31
42 24 0.69
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (42 bp):
CCTAAATTATTTTAACAAAACACTAAAACCTAAAAACCTAAG
Found at i:4080527 original size:3 final size:3
Alignment explanation
Indices: 4080519--4080547 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4080509 TTTTAAGCTT
4080519 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4080548 TTAATATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4081295 original size:17 final size:17
Alignment explanation
Indices: 4081252--4081295 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4081242 GAAGAGAATG
4081252 AAAA-AAAAAAGAAAAT
1 AAAATAAAAAAGAAAAT
*
4081268 AAAAGT-TAAAAGAAAAT
1 AAAA-TAAAAAAGAAAAT
4081285 AAAATAAAAAA
1 AAAATAAAAAA
4081296 TTAAATTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAGAAAAT
Found at i:4081529 original size:2 final size:2
Alignment explanation
Indices: 4081522--4081553 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4081512 AAAATGACTA
4081522 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
4081554 GCAACTTTCA
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:4089032 original size:3 final size:3
Alignment explanation
Indices: 4088967--4089014 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
4088957 ATTTTTTTCC
4088967 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4089015 TATCTTTCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4092673 original size:17 final size:17
Alignment explanation
Indices: 4092642--4092701 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
4092632 TTAAAAAATA
4092642 TTAAAAGAT-TATATATT
1 TTAAAA-ATATATATATT
**
4092659 TTAAAAATATATATAAA
1 TTAAAAATATATATATT
*
4092676 TTATAAATATATA-ATT
1 TTAAAAATATATATATT
4092692 GTCTAAAAAT
1 -T-TAAAAAT
4092702 TAAAAATATG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 3 0.09
17 25 0.74
18 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAAAATATATATATT
Found at i:4093468 original size:24 final size:26
Alignment explanation
Indices: 4093414--4093468 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 26
4093404 ACTTCTAATA
4093414 AATTTTAGTAATTTTTATATTGTTTT
1 AATTTTAGTAATTTTTATATTGTTTT
*
4093440 --TTTTTGTAA-TTTTATAGTT-TTTT
1 AATTTTAGTAATTTTTATA-TTGTTTT
4093463 AATTTT
1 AATTTT
4093469 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
23 11 0.44
24 10 0.40
25 4 0.16
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (26 bp):
AATTTTAGTAATTTTTATATTGTTTT
Found at i:4093477 original size:16 final size:16
Alignment explanation
Indices: 4093458--4093514 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
4093448 ATTTTATAGT
4093458 TTTTTAATTTTTTTTA
1 TTTTTAATTTTTTTTA
* * *
4093474 TTTTTAATAAATTTGTCA
1 TTTTTAAT--TTTTTTTA
4093492 TTTTATAA-TTTTTTTA
1 TTTT-TAATTTTTTTTA
4093508 TTTTTAA
1 TTTTTAA
4093515 AAATTCTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 3 0.09
16 17 0.53
18 9 0.28
19 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTAATTTTTTTTA
Found at i:4093530 original size:35 final size:35
Alignment explanation
Indices: 4093409--4093530 Score: 96
Period size: 34 Copynumber: 3.5 Consensus size: 35
4093399 TTTAAACTTC
*
4093409 TAATAAATTTTAGTAATTTT-TATATTGTTTTTT-TTTG
1 TAATAAA-TTTA-TAATTTTATA-ATT-TTTTTTATTTT
* *
4093446 TAAT---TTTATAGTTTTTTAATTTTTTTTATTTT
1 TAATAAATTTATAATTTTATAATTTTTTTTATTTT
* *
4093478 TAATAAATTTGTCATTTTATAA-TTTTTTTATTTT
1 TAATAAATTTATAATTTTATAATTTTTTTTATTTT
4093512 TAA-AAATTCTATAAATTTT
1 TAATAAATT-TAT-AATTTT
4093531 TTTTTGGATG
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
31 6 0.09
32 16 0.23
33 11 0.16
34 17 0.24
35 16 0.23
37 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (35 bp):
TAATAAATTTATAATTTTATAATTTTTTTTATTTT
Found at i:4095850 original size:22 final size:21
Alignment explanation
Indices: 4095815--4095862 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
4095805 TTCTAATAAA
4095815 TTTTAGTAATTTTTATATTGTTT
1 TTTTAGTAATTTTTATA--GTTT
*
4095838 TTTTTGTAA-TTTTATAGTTT
1 TTTTAGTAATTTTTATAGTTT
4095858 TTTTA
1 TTTTA
4095863 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
22 7 0.30
23 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (21 bp):
TTTTAGTAATTTTTATAGTTT
Found at i:4095875 original size:17 final size:18
Alignment explanation
Indices: 4095836--4095875 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
4095826 TTTATATTGT
4095836 TTTTTTTGTAATTTTATA
1 TTTTTTTGTAATTTTATA
* *
4095854 GTTTTTT-TAATTTTTTA
1 TTTTTTTGTAATTTTATA
4095871 TTTTT
1 TTTTT
4095876 AATAAATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTTTGTAATTTTATA
Found at i:4095907 original size:16 final size:17
Alignment explanation
Indices: 4095862--4095918 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
4095852 TAGTTTTTTT
4095862 AATTTTTTATTTTTAATA
1 AATTTTTTA-TTTTAATA
* *
4095880 AATTTGTCATTTT-ATA
1 AATTTTTTATTTTAATA
*
4095896 ATTTTTTTATTTTTAA-A
1 AATTTTTTA-TTTTAATA
4095913 AATTTT
1 AATTTT
4095919 ATAAATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 9 0.29
17 14 0.45
18 8 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
AATTTTTTATTTTAATA
Found at i:4095923 original size:42 final size:42
Alignment explanation
Indices: 4095840--4095926 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
4095830 TATTGTTTTT
* * *
4095840 TTTGTAATTTTATAGTTTTTTTAATTTTTTATTTTTAATAAA
1 TTTGTAATTTTATAATTTTTTTAATTTTTAAATTTTAATAAA
*
4095882 TTTGTCATTTTATAATTTTTTT-ATTTTTAAAAATTTT-ATAAA
1 TTTGTAATTTTATAATTTTTTTAATTTTT--AAATTTTAATAAA
4095924 TTT
1 TTT
4095927 TTTTTTGGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 6 0.15
42 28 0.72
43 5 0.13
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (42 bp):
TTTGTAATTTTATAATTTTTTTAATTTTTAAATTTTAATAAA
Found at i:4098021 original size:50 final size:50
Alignment explanation
Indices: 4097946--4098272 Score: 528
Period size: 50 Copynumber: 6.5 Consensus size: 50
4097936 CCATGGCAAC
* *
4097946 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
4097996 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
4098046 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
4098096 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATTAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
4098146 AAGTGATAAGTGATAGCTTCTGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
4098196 AAGTGATAAGTGATGGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
4098247 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
4098273 CTGATCAATG
Statistics
Matches: 257, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
50 235 0.91
51 22 0.09
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:4098290 original size:31 final size:31
Alignment explanation
Indices: 4098252--4098310 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
4098242 ATGGCAAGTA
4098252 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
4098283 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
4098311 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:4098318 original size:46 final size:46
Alignment explanation
Indices: 4098265--4098356 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
4098255 AGTGGTAGCT
* *
4098265 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
4098311 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
4098357 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:4098372 original size:31 final size:31
Alignment explanation
Indices: 4098312--4098372 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
4098302 ACCTGATCAT
* * *
4098312 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* *
4098343 CGGCTACCTGATCAGTGAATAGTGATAGCT
1 CGGCTACCTGATCAGTGAAAAATGATAGCT
4098373 TCGACTACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:4101718 original size:10 final size:10
Alignment explanation
Indices: 4101686--4101719 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
4101676 TGTAAAATAA
4101686 TTTTTATAGTT
1 TTTTTATA-TT
4101697 TTTTTATAATT
1 TTTTTAT-ATT
4101708 TTTTTATATT
1 TTTTTATATT
4101718 TT
1 TT
4101720 AAAAGATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 16 0.73
12 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTTTATATT
Found at i:4104138 original size:47 final size:50
Alignment explanation
Indices: 4104051--4104151 Score: 138
Period size: 47 Copynumber: 2.1 Consensus size: 50
4104041 ATATTTTAAA
*
4104051 ATTATTTTATTGTACAAATTAATTATAAAAATAAACTTAAATTTAAAATAT
1 ATTATTTTATTGTACAAATTAA-TATAAAAATAAAATTAAATTTAAAATAT
*
4104102 ATTATTTTTTTGTACAAA-TAA-A-AAATAA-AAAATTAAATTTAAAATAT
1 ATTATTTTATTGTACAAATTAATATAAA-AATAAAATTAAATTTAAAATAT
4104149 ATT
1 ATT
4104152 TAAAATTGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
47 24 0.51
48 3 0.06
50 3 0.06
51 17 0.36
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (50 bp):
ATTATTTTATTGTACAAATTAATATAAAAATAAAATTAAATTTAAAATAT
Found at i:4108619 original size:3 final size:3
Alignment explanation
Indices: 4108611--4108669 Score: 59
Period size: 3 Copynumber: 19.0 Consensus size: 3
4108601 AATAGGGGTG
*
4108611 ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CAT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA
4108656 TATA TATA ATA ATA
1 -ATA -ATA ATA ATA
4108670 GTAGTCAGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
2 3 0.06
3 37 0.74
4 10 0.20
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4108755 original size:3 final size:3
Alignment explanation
Indices: 4108742--4108816 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
4108732 GAGGGTATAT
4108742 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
4108786 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
4108817 AAAAATAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
2 7 0.12
3 40 0.69
4 9 0.16
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4108768 original size:18 final size:18
Alignment explanation
Indices: 4108738--4108824 Score: 88
Period size: 18 Copynumber: 4.7 Consensus size: 18
4108728 TGGAGAGGGT
4108738 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
4108756 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
*
4108775 CATGAGAAATAATAATAATA
1 -AT-ATAAATAATAATAATA
* *
4108795 ATATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
*
4108813 ATA-AAAAAATAA
1 ATATAAATAATAA
4108825 AAAAATAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.17
18 27 0.46
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:4108826 original size:7 final size:8
Alignment explanation
Indices: 4108809--4108834 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4108799 AAATAATAGT
4108809 AAAAATAA
1 AAAAATAA
4108817 AAAAATAA
1 AAAAATAA
4108825 AAAAATAA
1 AAAAATAA
4108833 AA
1 AA
4108835 CAAAGCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:4110062 original size:87 final size:86
Alignment explanation
Indices: 4109898--4110307 Score: 473
Period size: 87 Copynumber: 4.8 Consensus size: 86
4109888 TTCAGCTTGG
*** * *
4109898 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTC-ACTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
4109963 AAGATCTATAAATTTAGCCTGT
65 AAGATCTGTAAATTTAGCCTGT
**
4109985 TACCCTACTATTTAGGGG-TTAAGGCTTGTCACATTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAC-TTCGATCTGTTTCCCTACTGCTTAGGGGG-T
4110049 TAAGATCTGTAAATCTTCAGCCTGT
64 TAAGATCTGTAAAT-TT-AGCCTGT
* * * *
4110074 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTTTCTTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCA-CTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
4110134 --G-TCTGTAAATTTAACCTGT
65 AAGATCTGTAAATTTAGCCTGT
* * * * *
4110153 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTC-ACTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
4110218 AAGATCTGTAAATTCAGCCTGT
65 AAGATCTGTAAATTTAGCCTGT
*
4110240 TACCCTACTGCTTAGGGGTTTAAGGCCCATTG-C-CTTCGATCTGTTTCCCTACTGCTTAGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGG--C-TTGTCACTTCGATCTGTTTCCCTACTGCTTAGGGGG
4110303 TTAAG
63 TTAAG
4110308 GCCCATCGCC
Statistics
Matches: 274, Mismatches: 31, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
79 55 0.20
80 2 0.01
81 9 0.03
82 2 0.01
85 1 0.00
86 38 0.14
87 104 0.38
88 2 0.01
89 25 0.09
90 35 0.13
91 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (86 bp):
TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACTTCGATCTGTTTCCCTACTGCTTAGGGGGTTA
AGATCTGTAAATTTAGCCTGT
Found at i:4110127 original size:44 final size:44
Alignment explanation
Indices: 4109900--4110610 Score: 275
Period size: 44 Copynumber: 16.5 Consensus size: 44
4109890 CAGCTTGGTA
*** ** *
4109900 CCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
* * ** * ** *
4109944 CCCTACTGCTTA-GGGTGTTAA-GATCTAT-AAATTTAGCCTGTTA
1 CCCTACTGCTTAGGGGT-TTAAGGCT-TGTCACCTTCAATCTGTTT
** * *
4109987 CCCTACTATTTAGGGG-TTAAGGCTTGTCACATTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
* * * ** *
4110030 CCCTACTGCTTAGGGGGTTTAA-GATCTGTAAATCTTCAGCCTGTTA
1 CCCTACTGCTTA-GGGGTTTAAGGCT-TGT-CACCTTCAATCTGTTT
4110076 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
* * * ** * * *
4110120 TCTTACTGTTTA-GGG--T----C-TGT-AAATTTAACCTGTTA
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
* ** ** *
4110155 CCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
* ** ** *
4110199 CCCTACTGCTTA-GGGTGTTAA-GATCTGT-AAATTCAGCCTGTTA
1 CCCTACTGCTTAGGGGT-TTAAGGCT-TGTCACCTTCAATCTGTTT
*** ** *
4110242 CCCTACTGCTTAGGGGTTTAAGGCCCATTGCCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
*** * * *
4110286 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTATTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
* * * ** ** *
4110330 CCCTCCTGCTTAGGGGGTTAA-GATCTGT-AAATTCAGCCTGTTA
1 CCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCAATCTGTTT
* * ** *
4110373 CCCTACTACTTAGGGGGTTAAGG-TCCATCGCCTTCAATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCAATCTGTTT
* * ** * * *
4110417 CCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTTAACCTGTTA
1 CCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCAATCTGTTT
*** * *
4110460 CCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
* * ** * ** * *
4110504 CCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTTAGCCTGCTA
1 CCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCAATCTGTTT
* * ** * *
4110547 CCCTATTGCTTAGGGGGTTAAGGC-CATCGCCTTCTATCTGTTT
1 CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
*
4110590 CCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGTTTAA
4110611 AATGTAACAC
Statistics
Matches: 483, Mismatches: 151, Indels: 67
0.69 0.22 0.10
Matches are distributed among these distances:
35 19 0.04
36 6 0.01
37 1 0.00
38 1 0.00
41 1 0.00
42 8 0.02
43 192 0.40
44 213 0.44
45 19 0.04
46 23 0.05
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (44 bp):
CCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCAATCTGTTT
Found at i:4110309 original size:131 final size:129
Alignment explanation
Indices: 4109900--4110438 Score: 512
Period size: 131 Copynumber: 4.2 Consensus size: 129
4109890 CAGCTTGGTA
*
4109900 CCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTTAA
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGCTTAGGGTGTTAA
* * * *
4109965 GATCTATAAATTTAGCCTGTTACCCTACTATTTAGGGG-TTAAGGC-TTGTCACATTCGATCTGT
66 GATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCATTG-C-C-TTCAATCTGT
4110028 TT
128 TT
** ** ** * * *
4110030 CCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTAGGG-GT
1 CCCTACTGCTTA-GGGGTTTAAGGCCCAT-CGTCTTCGA-TCTATTTCCCTACTGCTTAGGGTG-
* ** ** ** * **
4110093 TTAAG-GCTTGTCACCTTCAATCTGTTTTCTTACTGTTTA-GGGTCTGTAA---A-T---TT-AA
62 TTAAGATC-TGT-AAATTCAGCCTGTTACCCTACTACTTAGGGGT-T-TAAGGCATTGCCTTCAA
* *
4110148 CCTGTTA
123 TCTGTTT
** *
4110155 CCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTCCCTACTGCTTAGGGTGTTAA
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGCTTAGGGTGTTAA
* *
4110220 GATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATTGCCTTCGATCTGTT
66 GATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGG--CATTGCCTTCAATCTGTT
4110285 T
129 T
* * *
4110286 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTATTTCCCTCCTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGCTTAGGGTGTTAA
* *
4110351 GATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGTCCATCGCCTTCAATCTGTT
66 GATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGG--CATTGCCTTCAATCTGTT
4110416 T
129 T
*
4110417 CCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGTTTAAG
4110439 ATCTGTAAAT
Statistics
Matches: 329, Mismatches: 56, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
121 3 0.01
122 20 0.06
123 35 0.11
124 15 0.05
125 18 0.05
126 3 0.01
127 1 0.00
130 14 0.04
131 162 0.49
132 36 0.11
133 18 0.05
134 1 0.00
135 3 0.01
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (129 bp):
CCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGCTTAGGGTGTTAA
GATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCATTGCCTTCAATCTGTTT
Found at i:4110371 original size:87 final size:87
Alignment explanation
Indices: 4110280--4110610 Score: 520
Period size: 87 Copynumber: 3.8 Consensus size: 87
4110270 TGCCTTCGAT
* * * *
4110280 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTATTTCCCTCCTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGG
*
4110345 GGTTAAGATCTGTAAATTCAGC
66 GGTTAAGATCTGTAAATTTAGC
* * *
4110367 CTGTTACCCTACTACTTAGGGGGTTAAGGTCCATCGCCTTCAATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGG
*
4110432 GGTTAAGATCTGTAAATTTAAC
66 GGTTAAGATCTGTAAATTTAGC
* **
4110454 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGG
4110519 GGTTAAGATCTGTAAATTTAGC
66 GGTTAAGATCTGTAAATTTAGC
* * *
4110541 CTGCTACCCTATTGCTTAGGGGGTTAAGG-CCATCGCCTTCTATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGG
4110605 GGTTAA
66 GGTTAA
4110611 AATGTAACAC
Statistics
Matches: 222, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
86 38 0.17
87 184 0.83
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (87 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGG
GGTTAAGATCTGTAAATTTAGC
Found at i:4112814 original size:3 final size:3
Alignment explanation
Indices: 4112808--4112835 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4112798 ACACTACTAT
4112808 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4112836 ATATAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4113069 original size:3 final size:3
Alignment explanation
Indices: 4113031--4113057 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4113021 AATAGGGGTG
4113031 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
4113058 CAAACAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4113177 original size:3 final size:3
Alignment explanation
Indices: 4113164--4113247 Score: 68
Period size: 3 Copynumber: 27.3 Consensus size: 3
4113154 GAGGGTATAT
4113164 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
4113208 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
4113248 AAAAAATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
2 7 0.10
3 49 0.73
4 9 0.13
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4113194 original size:30 final size:30
Alignment explanation
Indices: 4113160--4113256 Score: 88
Period size: 33 Copynumber: 3.0 Consensus size: 30
4113150 TGGAGAGGGT
4113160 ATATATAATATAATAATAATATAAATAATA
1 ATATATAATATAATAATAATATAAATAATA
*
4113190 ATATATACATGAGAAATAATAATAATAATATAAATA
1 ATATATA-AT-A-TAATAATAAT-ATAA-AT-AATA
* * *
4113226 ATAGTA-AAAATAATAATAATAAAAAAAATA
1 ATA-TATAATATAATAATAATATAAATAATA
4113256 A
1 A
4113257 AGCTCTCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
30 12 0.22
31 3 0.05
32 4 0.07
33 18 0.33
34 5 0.09
35 3 0.05
36 8 0.15
37 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (30 bp):
ATATATAATATAATAATAATATAAATAATA
Found at i:4113208 original size:21 final size:18
Alignment explanation
Indices: 4113169--4113247 Score: 79
Period size: 18 Copynumber: 4.2 Consensus size: 18
4113159 TATATATAAT
*
4113169 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
4113187 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
4113208 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
4113226 ATAGTAAAAATA-ATAATA
1 ATAATAATAATAGA-AATA
4113244 ATAA
1 ATAA
4113248 AAAAAATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.02
18 29 0.56
19 5 0.10
20 5 0.10
21 12 0.23
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:4113215 original size:27 final size:26
Alignment explanation
Indices: 4113164--4113246 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
4113154 GAGGGTATAT
* *
4113164 ATAATATAATAATAATATAAATAATA
1 ATAATATAATAATAGTAAAAATAATA
*
4113190 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATA-ATAATAGTAAA-AATAATA
4113214 ATAATATAAATAATAGTAAAAATAATA
1 ATAATAT-AATAATAGTAAAAATAATA
4113241 ATAATA
1 ATAATA
4113247 AAAAAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
23 2 0.04
24 10 0.22
25 11 0.24
26 5 0.11
27 15 0.33
28 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (26 bp):
ATAATATAATAATAGTAAAAATAATA
Found at i:4113252 original size:18 final size:19
Alignment explanation
Indices: 4113169--4113256 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 19
4113159 TATATATAAT
*
4113169 ATAATAATAAT-ATAAATA
1 ATAATAAAAATAATAAATA
* * *
4113187 ATAATATATACATGAGAAATA
1 ATAATA-A-AAATAATAAATA
*
4113208 ATAATAATAAT-ATAAATA
1 ATAATAAAAATAATAAATA
*
4113226 ATAGTAAAAATAAT-AATA
1 ATAATAAAAATAATAAATA
*
4113244 ATAAAAAAAATAA
1 ATAATAAAAATAA
4113257 AGCTCTCAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
18 36 0.64
19 5 0.09
20 3 0.05
21 12 0.21
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (19 bp):
ATAATAAAAATAATAAATA
Found at i:4113255 original size:12 final size:12
Alignment explanation
Indices: 4113171--4113257 Score: 61
Period size: 12 Copynumber: 7.0 Consensus size: 12
4113161 TATATAATAT
*
4113171 AATAATAATATA
1 AATAATAATAAA
4113183 AATAATAATATATA
1 AATAATAATA-A-A
* *
4113197 CATGAGA-AATAAT
1 AAT-A-ATAATAAA
*
4113210 AATAATAATATA
1 AATAATAATAAA
*
4113222 AATAATAGTAAA
1 AATAATAATAAA
4113234 AATAATAATAATA
1 AATAATAATAA-A
*
4113247 AA-AAAAATAAA
1 AATAATAATAAA
4113258 GCTCTCAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
11 2 0.03
12 42 0.71
13 5 0.08
14 4 0.07
15 5 0.08
16 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:4114132 original size:14 final size:14
Alignment explanation
Indices: 4114109--4114142 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4114099 ACGTTTTTTT
4114109 CATA-AATCGCTTC
1 CATAGAATCGCTTC
4114122 CATAGAATCGCTTC
1 CATAGAATCGCTTC
4114136 CATAGAA
1 CATAGAA
4114143 CTTTCTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (14 bp):
CATAGAATCGCTTC
Found at i:4116124 original size:53 final size:53
Alignment explanation
Indices: 4116043--4116193 Score: 198
Period size: 53 Copynumber: 2.8 Consensus size: 53
4116033 CTTACACGGT
*
4116043 TCACATATCATACCGAA-GCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACC-AATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
4116098 TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
4116151 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGG
4116194 GCACACTTGT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 3 0.03
53 78 0.89
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:4118509 original size:17 final size:15
Alignment explanation
Indices: 4118467--4118520 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
4118457 AAAAAACTAA
4118467 TTCTTTTA-TTTTTT
1 TTCTTTTATTTTTTT
4118481 TTCTCTTTATTTCTTTT
1 TTCT-TTTATTT-TTTT
*
4118498 TTCTTTTCATTTTTTG
1 TTCTTTT-ATTTTTTT
4118514 TTCTTTT
1 TTCTTTT
4118521 TTCGTCTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 4 0.11
15 4 0.11
16 15 0.43
17 12 0.34
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.80
Consensus pattern (15 bp):
TTCTTTTATTTTTTT
Found at i:4120282 original size:4 final size:4
Alignment explanation
Indices: 4120273--4120297 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4120263 AACATGTTTT
4120273 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
4120298 TTCTTCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:4124275 original size:8 final size:9
Alignment explanation
Indices: 4124262--4124315 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
4124252 TATTAAAAAT
4124262 ATTTTTATA
1 ATTTTTATA
4124271 ATTTTTATA
1 ATTTTTATA
4124280 ATTTTTATA
1 ATTTTTATA
*
4124289 ATTTTTAAA
1 ATTTTTATA
4124298 TATTTTTAATA
1 -ATTTTT-ATA
*
4124309 AATTTTA
1 ATTTTTA
4124316 ATTTAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
9 27 0.68
10 11 0.28
11 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:4124309 original size:20 final size:19
Alignment explanation
Indices: 4124258--4124316 Score: 84
Period size: 18 Copynumber: 3.1 Consensus size: 19
4124248 AAAATATTAA
4124258 AAATATTTTTATAATTTTT
1 AAATATTTTTATAATTTTT
*
4124277 ATA-ATTTTTATAATTTTT
1 AAATATTTTTATAATTTTT
*
4124295 AAATATTTTTAATAAATTTT
1 AAATATTTTT-ATAATTTTT
4124315 AA
1 AA
4124317 TTTAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 17 0.49
19 8 0.23
20 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATATTTTTATAATTTTT
Found at i:4125110 original size:17 final size:18
Alignment explanation
Indices: 4125088--4125122 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4125078 TTGTAAATAT
4125088 TAATATTTATTTT-AAAA
1 TAATATTTATTTTGAAAA
*
4125105 TAATATTTTTTTTGAAAA
1 TAATATTTATTTTGAAAA
4125123 AGAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TAATATTTATTTTGAAAA
Found at i:4125345 original size:22 final size:22
Alignment explanation
Indices: 4125298--4125348 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4125288 TATTTAAAGT
*
4125298 GAAAAAAATATTCATAACATTA
1 GAAAAAAATATTAATAACATTA
*
4125320 -AAAAATAATATTAAT-ATATTA
1 GAAAAA-AATATTAATAACATTA
4125341 GAAAAAAA
1 GAAAAAAA
4125349 ACTAATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (22 bp):
GAAAAAAATATTAATAACATTA
Found at i:4127814 original size:18 final size:18
Alignment explanation
Indices: 4127791--4127829 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4127781 TCTATATTAG
4127791 AATGAGAAATAGTAAATA
1 AATGAGAAATAGTAAATA
4127809 AATGAGAAATAGTAAATA
1 AATGAGAAATAGTAAATA
4127827 AAT
1 AAT
4127830 ACCATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
AATGAGAAATAGTAAATA
Found at i:4131714 original size:15 final size:15
Alignment explanation
Indices: 4131694--4131745 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
4131684 AGTGAATTGG
4131694 AAATAAAAATATATT
1 AAATAAAAATATATT
4131709 AAATAAAAA-ATAATTT
1 AAATAAAAATAT-A-TT
4131725 ATTAATAAAATATATATT
1 A--AATAAAA-ATATATT
4131743 AAA
1 AAA
4131746 ATGATTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.06
15 10 0.32
16 5 0.16
18 10 0.32
19 2 0.06
20 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATAAAAATATATT
Found at i:4131719 original size:16 final size:16
Alignment explanation
Indices: 4131694--4131745 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
4131684 AGTGAATTGG
4131694 AAAT-AAAAATATATT
1 AAATAAAAAATATATT
4131709 AAATAAAAAATA-ATTT
1 AAATAAAAAATATA-TT
*
4131725 ATTAATAAAATATATATT
1 A--AATAAAAAATATATT
4131743 AAA
1 AAA
4131746 ATGATTTGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
18 13 0.42
19 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAAAAAATATATT
Found at i:4141173 original size:10 final size:10
Alignment explanation
Indices: 4141149--4141293 Score: 65
Period size: 10 Copynumber: 14.7 Consensus size: 10
4141139 TATATATTTG
4141149 ATTTTT-TAA
1 ATTTTTATAA
4141158 ATTTTTTATAA
1 A-TTTTTATAA
*
4141169 ATTTTTAAAA
1 ATTTTTATAA
*
4141179 ATTATTA-AA
1 ATTTTTATAA
*
4141188 A--TTTATAT
1 ATTTTTATAA
*
4141196 ATTATTTATAT
1 ATT-TTTATAA
4141207 ATTTTTATAAA
1 ATTTTTAT-AA
*
4141218 AATTTTA-AA
1 ATTTTTATAA
**
4141227 TATATTTTATTG
1 -AT-TTTTATAA
*
4141239 A-TTTGATAA
1 ATTTTTATAA
4141248 ATTTTTA-ATA
1 ATTTTTATA-A
* *
4141258 ATTTAT-TAG
1 ATTTTTATAA
4141267 ATTTTT-TATA
1 ATTTTTATA-A
4141277 ATTTTTATAA
1 ATTTTTATAA
*
4141287 GTTTTTA
1 ATTTTTA
4141294 AGATTTTTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
7 3 0.03
8 2 0.02
9 20 0.19
10 49 0.48
11 29 0.28
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:4141261 original size:39 final size:37
Alignment explanation
Indices: 4141162--4141261 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 37
4141152 TTTTAAATTT
4141162 TTTATAAATTTTTAAAAATTATTAAAATTTATATATTA
1 TTTATAAATTTTTAAAAATT-TTAAAATTTATATATTA
*
4141200 TTTATATATTTTTATAAAAATTTTAAATATATT-T-TATTGA
1 TTTATA-AATTTT-TAAAAATTTTAAA-AT-TTATATATT-A
*
4141240 TTTGATAAATTTTTAATAATTT
1 TTT-ATAAATTTTTAAAAATTT
4141262 ATTAGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
38 6 0.11
39 22 0.42
40 20 0.38
41 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (37 bp):
TTTATAAATTTTTAAAAATTTTAAAATTTATATATTA
Found at i:4141317 original size:91 final size:94
Alignment explanation
Indices: 4141208--4141382 Score: 223
Period size: 91 Copynumber: 1.9 Consensus size: 94
4141198 TATTTATATA
** * *
4141208 TTTTTATAAAAATTTTAAATATATTTTA-TTGATTTGATAAATTTTTAATA-AT-TTATTAGATT
1 TTTTTATAAAAATTTTAAATAT-GCTTAGTTAATTTGATAAATTTTTAATATATATTATTAAATT
**
4141270 TTTTATAATTTTTATAAGTTTTTAAGATTT
65 TTTTATAATACTTATAAGTTTTTAAGATTT
* * * *
4141300 TTTTTAT-AAAATTTTAAATATGCTTAGTTAATTTTATTATTTTTTAATATATATTTTTAAATTT
1 TTTTTATAAAAATTTTAAATATGCTTAGTTAATTTGATAAATTTTTAATATATATTATTAAATTT
4141364 TTTATAATACTTATAAGTT
66 TTTATAATACTTATAAGTT
4141383 ATTATTATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
90 3 0.04
91 32 0.46
92 9 0.13
93 26 0.37
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (94 bp):
TTTTTATAAAAATTTTAAATATGCTTAGTTAATTTGATAAATTTTTAATATATATTATTAAATTT
TTTATAATACTTATAAGTTTTTAAGATTT
Found at i:4147522 original size:26 final size:25
Alignment explanation
Indices: 4147483--4147532 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
4147473 AAGTTATAAA
4147483 TATTTTAATTTTGAATATAATAATT
1 TATTTTAATTTTGAATATAATAATT
*
4147508 TATTTTATATTTTGAATTTAATAAT
1 TATTTTA-ATTTTGAATATAATAAT
4147533 ACAATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
TATTTTAATTTTGAATATAATAATT
Found at i:4147540 original size:26 final size:25
Alignment explanation
Indices: 4147486--4147546 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
4147476 TTATAAATAT
** *
4147486 TTTAATTTTGAATATAATAATTTAT
1 TTTAATTTTGAATATAATAATACAA
*
4147511 TTTATATTTTGAATTTAATAATACAA
1 TTTA-ATTTTGAATATAATAATACAA
*
4147537 TTTAAATTTG
1 TTTAATTTTG
4147547 TCTTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTAATTTTGAATATAATAATACAA
Found at i:4150460 original size:107 final size:107
Alignment explanation
Indices: 4150274--4150491 Score: 427
Period size: 107 Copynumber: 2.0 Consensus size: 107
4150264 AAAAGGTAAC
4150274 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
1 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
4150339 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
66 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
4150381 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
1 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
*
4150446 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAGAAACAA
66 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
4150488 TTAT
1 TTAT
4150492 AACATATGTA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (107 bp):
TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
Found at i:4152889 original size:24 final size:24
Alignment explanation
Indices: 4152843--4152890 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4152833 CTCCGAAATG
* *
4152843 AATTTATTAATTATTTTTATTTAA
1 AATTAATTAATTATATTTATTTAA
4152867 AATTAATTAATTATCATTT-TTTAA
1 AATTAATTAATTAT-ATTTATTTAA
4152891 CACATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
AATTAATTAATTATATTTATTTAA
Found at i:4160061 original size:27 final size:27
Alignment explanation
Indices: 4160030--4160087 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
4160020 TGTTTAATTT
*
4160030 TTAATTTAA-TAA-ATAATTCTAAAGTAA
1 TTAATTAAAGTAATATAATT-TAAA-TAA
*
4160057 TTAATTAAAGTAATATTATTTAAATAA
1 TTAATTAAAGTAATATAATTTAAATAA
4160084 TTAA
1 TTAA
4160088 ATATAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 15 0.56
28 7 0.26
29 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (27 bp):
TTAATTAAAGTAATATAATTTAAATAA
Found at i:4170979 original size:3 final size:3
Alignment explanation
Indices: 4170973--4170998 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4170963 AAAAGATGTT
4170973 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4170999 TAGTGTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4173374 original size:31 final size:29
Alignment explanation
Indices: 4173328--4173394 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
4173318 AAAGTATAAG
* *
4173328 GATTACAATTGACCAATTTAAAAAATATGAA
1 GATTAAAATTGACCAAATT--AAAATATGAA
*
4173359 GATTAAAATTTACCAAATTAAAATATGAA
1 GATTAAAATTGACCAAATTAAAATATGAA
*
4173388 GACTAAA
1 GATTAAA
4173395 TCCATCATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.50
31 16 0.50
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (29 bp):
GATTAAAATTGACCAAATTAAAATATGAA
Found at i:4175757 original size:3 final size:3
Alignment explanation
Indices: 4175749--4175787 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4175739 GTTATTTTCA
4175749 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4175788 GTGCTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4175940 original size:8 final size:8
Alignment explanation
Indices: 4175916--4175953 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
4175906 TACCAATGTT
4175916 TATATATG
1 TATATATG
*
4175924 T-TTTATG
1 TATATATG
4175931 TATATATG
1 TATATATG
*
4175939 TATATATA
1 TATATATG
4175947 TATATAT
1 TATATAT
4175954 ATATTTACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (8 bp):
TATATATG
Found at i:4176207 original size:19 final size:20
Alignment explanation
Indices: 4176171--4176208 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4176161 ATTAACCGTA
*
4176171 GTATATGTTTTGTTATATAC
1 GTATATATTTTGTTATATAC
4176191 GTATATATTTT-TTATATA
1 GTATATATTTTGTTATATA
4176209 TTATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (20 bp):
GTATATATTTTGTTATATAC
Found at i:4178334 original size:12 final size:12
Alignment explanation
Indices: 4178317--4178352 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4178307 ATTCATTTGA
*
4178317 CATTCATATATT
1 CATTCATACATT
*
4178329 CATTCATGCATT
1 CATTCATACATT
4178341 CATTCATACATT
1 CATTCATACATT
4178353 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (12 bp):
CATTCATACATT
Found at i:4183428 original size:16 final size:16
Alignment explanation
Indices: 4183407--4183437 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4183397 CTGAGGTAAT
*
4183407 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
4183423 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
4183438 TCAAAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:4183454 original size:90 final size:89
Alignment explanation
Indices: 4183347--4183599 Score: 375
Period size: 89 Copynumber: 2.8 Consensus size: 89
4183337 TTTATTTCTG
* *
4183347 TTTC-AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
*
4183411 ATTTCTGTTTTCTTCAATTTATGTT
66 ATTTCTGTTTT-TTCAATTTATGCT
* ** *
4183436 TTTCAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
* *
4183501 ATTTCTG-CTTTTCAATTTCTGCT
66 ATTTCTGTTTTTTCAATTTATGCT
*
4183524 TTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
*
4183589 AATTTATGTTT
65 AATTTCTGTTT
4183600 GTCAAAAAAA
Statistics
Matches: 145, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
88 15 0.10
89 68 0.47
90 62 0.43
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (89 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTGTTTTTTCAATTTATGCT
Found at i:4183514 original size:14 final size:14
Alignment explanation
Indices: 4183495--4183529 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
4183485 CGCTGAGGTA
4183495 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
4183509 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
4183523 TTTTCAA
1 TTTTCAA
4183530 AAAAATTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:4183608 original size:163 final size:163
Alignment explanation
Indices: 4183423--4184406 Score: 869
Period size: 163 Copynumber: 5.9 Consensus size: 163
4183413 TTCTGTTTTC
* *
4183423 TTCAATTTATGTTTTTC-AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTACG
1 TTCAATTTATGTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGTACG
*
4183487 CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAG
65 CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAG
4183552 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
130 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* *
4183586 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGTACG
* * *
4183651 CTGAGGTATTGTCGA-TT-T-C---T--ATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAG
65 CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAG
4183708 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
130 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * * * * ** *
4183742 TTTAATTTTTGTTTGTC--AAAAATTAACTCATATTGCGAAAGGTGAGTTGAGCCTTTTAATTTC
1 TTCAATTTATGTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TCAGGTAC
* * *** ** * * ** ** *
4183805 TGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC--A
64 -G--CT-GAGGTAT--TTTCA-ATTTC------TG-CTT--TTCAAT----TTCTGCTTTTCAAA
* * **
4183868 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTT
109 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGT-AAT
* *
4183926 TTCAATTTTTGTGTT-T-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAT
1 TTCAATTTATGT-TTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---T
** * * *
4183989 ATTCTGAGGTGTTTTCCATTTCTG-TTCTTCAATTTCTG-TGTTTCAAAAAAATCAGCTCATATT
62 ACGCTGAGGTATTTTCAATTTCTGCTT-TTCAATTTCTGCT-TTTCAAAAAAATCAACTCATATT
4184052 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
125 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * *
4184091 TTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGCTCACG
1 TTCAATTTATGTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-AC-
** *
4184156 TGCTGAGGTATTTTCAATTTCTATTTTTCAATTTCTG-TTCGTC---AAAATCAACTCATATTGC
64 -GCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTT-TTCAAAAAAATCAACTCATATTGC
4184217 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
127 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * * *
4184254 TTCAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGTCTCAGGTCACA
1 TTCAATTTATGTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT---A
* * * *
4184319 CGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGC-CTTCAAAAAAAAAAAAAATCAACTCA
63 CGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTC-------AAAAAAATCAACTCA
4184383 TATTGCGAGAGGTGAGTTGAGCCT
121 TATTGCGAGAGGTGAGTTGAGCCT
4184407 TTTAATTTCT
Statistics
Matches: 672, Mismatches: 86, Indels: 117
0.77 0.10 0.13
Matches are distributed among these distances:
154 34 0.05
155 1 0.00
156 87 0.13
158 2 0.00
159 3 0.00
161 3 0.00
162 4 0.01
163 163 0.24
164 60 0.09
165 18 0.03
166 93 0.14
167 2 0.00
168 38 0.06
170 3 0.00
171 2 0.00
172 36 0.05
173 2 0.00
179 5 0.01
180 2 0.00
181 39 0.06
182 2 0.00
183 23 0.03
184 13 0.02
185 36 0.05
186 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (163 bp):
TTCAATTTATGTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACGC
TGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
Found at i:4183633 original size:75 final size:75
Alignment explanation
Indices: 4183510--4183795 Score: 384
Period size: 75 Copynumber: 3.8 Consensus size: 75
4183500 AATTTCTGCT
* *
4183510 TTTCAATTTCTGCTTT-TCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTATG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
4183574 CGCTGAGGTAA
65 CGCTGAGGTAA
*
4183585 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
4183650 GCTGAGGT-A
66 GCTGAGGTAA
*
4183659 TTGTCGATTTCTAT-TTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TT-TC-AATT-TATGTT-TG----TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4183723 CAGGACACGCTGAGGTAA
58 CAGGACACGCTGAGGTAA
* * * *
4183741 TTTTAATTTTTGTTTGTC--AAAAATTAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4183796 TTTAATTTCT
Statistics
Matches: 190, Mismatches: 10, Indels: 24
0.85 0.04 0.11
Matches are distributed among these distances:
73 35 0.18
74 6 0.03
75 70 0.37
76 5 0.03
77 5 0.03
79 4 0.02
80 5 0.03
81 57 0.30
82 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (75 bp):
TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAA
Found at i:4183727 original size:156 final size:160
Alignment explanation
Indices: 4183423--4183795 Score: 569
Period size: 156 Copynumber: 2.3 Consensus size: 160
4183413 TTCTGTTTTC
* * *
4183423 TTCAATTTATGTTTTTCAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTACGC
1 TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
* * *
4183488 TGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGA
66 TGAGGTATTGTCAATTTCTGC--TT-AATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGA
4183553 GGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
128 GGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
4183586 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
4183651 CTGAGGTATTGTCGA-TT-T-C-T-ATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGG
65 CTGAGGTATTGTCAATTTCTGCTTAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGG
4183711 TGAGTTGAGCCTCAGGACACGCTGAGGTAAT
130 TGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * *
4183742 TTTAATTTTTGTTTGTC-AAAAATTAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4183796 TTTAATTTCT
Statistics
Matches: 198, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
154 35 0.18
156 84 0.42
158 1 0.01
161 1 0.01
162 1 0.01
163 18 0.09
164 58 0.29
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (160 bp):
TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTGTCAATTTCTGCTTAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGT
GAGTTGAGCCTCAGGACACGCTGAGGTAAT
Found at i:4183824 original size:54 final size:53
Alignment explanation
Indices: 4183741--4183903 Score: 263
Period size: 54 Copynumber: 3.0 Consensus size: 53
4183731 GCTGAGGTAA
* * *
4183741 TTTTAATTTTTGTTTGTCAAAAATTAACTCATATTGCGAAAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
4183795 TTTTAATTTCTGTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
4183849 TTTTAATTTCTGTTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
4183903 T
1 T
4183904 CGGGTCACAC
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
53 1 0.01
54 98 0.95
55 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (53 bp):
TTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:4184139 original size:75 final size:75
Alignment explanation
Indices: 4184016--4184339 Score: 362
Period size: 75 Copynumber: 4.1 Consensus size: 75
4184006 ATTTCTGTTC
* *
4184016 TTCAATTTCTGTGT-TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTCAATTTCTGT-TCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
4184080 GCTGAGGTAAT
65 GCTGAGGTAAT
* **
4184091 TTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGCTCACG
1 TTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-
*
4184156 TGCTGAGGTATT
65 -GCTGAGGTAAT
* ***
4184168 TTCAATTTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTCAATTTC---TGTTC-A-------TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
4184233 CTCAGGACACGCTGAGGTAAT
55 CTCAGGACACGCTGAGGTAAT
* * *
4184254 TTCAATTTCTGTTCATCAAAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGTCTCAGGTCACA
1 TTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACA
* *
4184319 CGCCGAGGTATT
64 CGCTGAGGTAAT
4184331 TTCAATTTC
1 TTCAATTTC
4184340 CGTTTTTCAA
Statistics
Matches: 210, Mismatches: 23, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
74 1 0.00
75 96 0.46
77 41 0.20
80 4 0.02
81 1 0.00
82 1 0.00
83 4 0.02
86 19 0.09
88 43 0.20
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (75 bp):
TTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAAT
Found at i:4184508 original size:54 final size:54
Alignment explanation
Indices: 4184370--4184623 Score: 474
Period size: 54 Copynumber: 4.7 Consensus size: 54
4184360 CAAAAAAAAA
4184370 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
4184424 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
*
4184480 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG-TTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
4184533 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
4184587 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4184624 CGGGTCACAT
Statistics
Matches: 195, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
53 52 0.27
54 89 0.46
56 54 0.28
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
Found at i:4184583 original size:107 final size:109
Alignment explanation
Indices: 4184370--4184619 Score: 468
Period size: 107 Copynumber: 2.3 Consensus size: 109
4184360 CAAAAAAAAA
*
4184370 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAAAATCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC-AAAAAATCAA
4184435 CTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
65 CTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
4184480 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG-TTTTC-AAAAATCAAC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTCAAAAAATCAAC
4184543 TCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
66 TCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
4184587 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
4184620 GCCTCGGGTC
Statistics
Matches: 139, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
107 87 0.63
109 5 0.04
110 47 0.34
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (109 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTCAAAAAATCAAC
TCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
Found at i:4186379 original size:3 final size:3
Alignment explanation
Indices: 4186371--4186403 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4186361 GTTATTTTCA
4186371 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4186404 GTGCTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4186814 original size:19 final size:20
Alignment explanation
Indices: 4186778--4186815 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4186768 ATTAACCGTA
*
4186778 GTATATGTTTTGTTATATAC
1 GTATATATTTTGTTATATAC
4186798 GTATATATTTT-TTATATA
1 GTATATATTTTGTTATATA
4186816 TTATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (20 bp):
GTATATATTTTGTTATATAC
Found at i:4188888 original size:22 final size:22
Alignment explanation
Indices: 4188863--4188932 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
4188853 ACATAATAGT
* *
4188863 GAAAACAACAAGAAAGTAGCGA
1 GAAAACAACAAGAAAATAGCAA
4188885 GAAAACAACAAGAAAATAGCAA
1 GAAAACAACAAGAAAATAGCAA
* ** *
4188907 CAAAACAGTAA-AAAATAGTAA
1 GAAAACAACAAGAAAATAGCAA
4188928 GAAAA
1 GAAAA
4188933 TAGGAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 13 0.32
22 28 0.68
ACGTcount: A:0.66, C:0.11, G:0.16, T:0.07
Consensus pattern (22 bp):
GAAAACAACAAGAAAATAGCAA
Found at i:4188923 original size:21 final size:21
Alignment explanation
Indices: 4188897--4188946 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
4188887 AAACAACAAG
*
4188897 AAAATAGCAACAAAACAGTAA
1 AAAATAGCAACAAAACAGGAA
* * *
4188918 AAAATAGTAAGAAAATAGGAA
1 AAAATAGCAACAAAACAGGAA
4188939 AAAATAGC
1 AAAATAGC
4188947 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.66, C:0.08, G:0.14, T:0.12
Consensus pattern (21 bp):
AAAATAGCAACAAAACAGGAA
Done.