Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 21 of 349
Found at i:5777883 original size:35 final size:35
Alignment explanation
Indices: 5777837--5777906 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
5777827 GAAAAAAATC
5777837 TTGTAGCTGCTCTCTCTTATCTATTTTCATTTTCT
1 TTGTAGCTGCTCTCTCTTATCTATTTTCATTTTCT
5777872 TTGTAGCTGCTCTCTCTTATCTATTTTCATTTTCT
1 TTGTAGCTGCTCTCTCTTATCTATTTTCATTTTCT
5777907 AAGTGTCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.09, T:0.57
Consensus pattern (35 bp):
TTGTAGCTGCTCTCTCTTATCTATTTTCATTTTCT
Found at i:5787586 original size:25 final size:25
Alignment explanation
Indices: 5787549--5787598 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5787539 AAAAATACAA
* * *
5787549 TTTTATCATTTTTAATAGTTTAAAT
1 TTTTATCAATTTTAAAAGATTAAAT
*
5787574 TTTTATGAATTTTAAAAGATTAAAT
1 TTTTATCAATTTTAAAAGATTAAAT
5787599 CAAATTTGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (25 bp):
TTTTATCAATTTTAAAAGATTAAAT
Found at i:5791381 original size:40 final size:40
Alignment explanation
Indices: 5791336--5791416 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
5791326 AACTTAATCT
5791336 ATGCATTATAAACGATAAAAAAAAAACTAATATATATATG
1 ATGCATTATAAACGATAAAAAAAAAACTAATATATATATG
5791376 ATGCATTATAAACGATAAAAAAAAAACTAATATATATATG
1 ATGCATTATAAACGATAAAAAAAAAACTAATATATATATG
5791416 A
1 A
5791417 GAAGAGATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.27
Consensus pattern (40 bp):
ATGCATTATAAACGATAAAAAAAAAACTAATATATATATG
Found at i:5793751 original size:5 final size:5
Alignment explanation
Indices: 5793741--5793777 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
5793731 TTCATCGTAC
*
5793741 AAATA AAATA AAATA AAATA AAAT- AAATA CAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
5793778 AACAAGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:5793761 original size:15 final size:14
Alignment explanation
Indices: 5793741--5793777 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5793731 TTCATCGTAC
5793741 AAATAAAATAAAATA
1 AAATAAAAT-AAATA
5793756 AAATAAAATAAATA
1 AAATAAAATAAATA
*
5793770 CAATAAAA
1 AAATAAAA
5793778 AACAAGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:5803855 original size:26 final size:26
Alignment explanation
Indices: 5803826--5803877 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
5803816 TTTTTGGTTT
5803826 GGCATATACTAAGGATAATTTGACTA
1 GGCATATACTAAGGATAATTTGACTA
5803852 GGCATATACTAAGGATAATTTGACTA
1 GGCATATACTAAGGATAATTTGACTA
5803878 TGGTTTGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (26 bp):
GGCATATACTAAGGATAATTTGACTA
Found at i:5809598 original size:14 final size:14
Alignment explanation
Indices: 5809579--5809607 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5809569 AAGTACCCAA
5809579 ATATATTTATATAT
1 ATATATTTATATAT
5809593 ATATATTTATATAT
1 ATATATTTATATAT
5809607 A
1 A
5809608 AGTATATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATTTATATAT
Found at i:5809626 original size:14 final size:14
Alignment explanation
Indices: 5809609--5809640 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5809599 TTATATATAA
5809609 GTATATGTATGCAT
1 GTATATGTATGCAT
*
5809623 GTATATGTATGTAT
1 GTATATGTATGCAT
5809637 GTAT
1 GTAT
5809641 GTAGGGATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (14 bp):
GTATATGTATGCAT
Found at i:5823531 original size:13 final size:13
Alignment explanation
Indices: 5823498--5823522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5823488 TTTGATTCCC
5823498 AGAAAAAAAGAAA
1 AGAAAAAAAGAAA
5823511 AGAAAAAAAGAA
1 AGAAAAAAAGAA
5823523 CAAATAAAAG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAGAAA
Found at i:5823818 original size:3 final size:3
Alignment explanation
Indices: 5823810--5823834 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5823800 TTGTAGTTTC
5823810 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
5823835 AAGTGAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5833291 original size:38 final size:38
Alignment explanation
Indices: 5833235--5833313 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
5833225 TCTAGCCATT
5833235 TAAACATTTGTACCTAAATTGCTTGGACAACTTGAATC
1 TAAACATTTGTACCTAAATTGCTTGGACAACTTGAATC
*
5833273 TAAACATTTGTACTTAAATTGCTTGGACAACTTGAATC
1 TAAACATTTGTACCTAAATTGCTTGGACAACTTGAATC
5833311 TAA
1 TAA
5833314 CATGTTAGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (38 bp):
TAAACATTTGTACCTAAATTGCTTGGACAACTTGAATC
Found at i:5833329 original size:24 final size:24
Alignment explanation
Indices: 5833297--5833347 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
5833287 TAAATTGCTT
5833297 GGACAACTTGAATCTAACATGTTA
1 GGACAACTTGAATCTAACATGTTA
5833321 GGACAACTTGAATCTAACATGTTA
1 GGACAACTTGAATCTAACATGTTA
5833345 GGA
1 GGA
5833348 AAATGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (24 bp):
GGACAACTTGAATCTAACATGTTA
Found at i:5833562 original size:19 final size:19
Alignment explanation
Indices: 5833538--5833576 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5833528 AAGGAAGAAA
5833538 GATCTTTGATCCAATGGAT
1 GATCTTTGATCCAATGGAT
5833557 GATCTTTGATCCAATGGAT
1 GATCTTTGATCCAATGGAT
5833576 G
1 G
5833577 CTTGAAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (19 bp):
GATCTTTGATCCAATGGAT
Found at i:5834192 original size:26 final size:25
Alignment explanation
Indices: 5834163--5834226 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
5834153 TTATAGATTA
**
5834163 TTAATTTAAATTTTATTATTAAATAT
1 TTAATTTAAATTTTAAGATTAAA-AT
*
5834189 TTAATTCAAATATTTAAGATTAAAAT
1 TTAATTTAAAT-TTTAAGATTAAAAT
5834215 TT-ATTATAAATT
1 TTAATT-TAAATT
5834227 AAATTTATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 4 0.12
26 18 0.56
27 10 0.31
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TTAATTTAAATTTTAAGATTAAAAT
Found at i:5835778 original size:53 final size:53
Alignment explanation
Indices: 5835701--5835840 Score: 183
Period size: 53 Copynumber: 2.6 Consensus size: 53
5835691 CACATATCAT
* * * *
5835701 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATTACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * * *
5835754 ATCGATGTCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
5835807 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
5835841 GCGCACTTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
52 1 0.01
53 74 0.99
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:5836944 original size:61 final size:61
Alignment explanation
Indices: 5836849--5836972 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
5836839 ATAGGGGTAT
*
5836849 TTTGTTCTTTGAAAGGGGATGGATTACTTTTGGATTCTCACTTTAATTTGGAATTGGATTA
1 TTTGTTCTTTGAAAGGGGATGGATTACTTTTGGATTCCCACTTTAATTTGGAATTGGATTA
5836910 TTTGTTCTTTGAAAGGGGATGGATTACTTTTGGATTCCCACTTTAATTTGGAATTGGATTA
1 TTTGTTCTTTGAAAGGGGATGGATTACTTTTGGATTCCCACTTTAATTTGGAATTGGATTA
5836971 TT
1 TT
5836973 CTCTCTTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.46
Consensus pattern (61 bp):
TTTGTTCTTTGAAAGGGGATGGATTACTTTTGGATTCCCACTTTAATTTGGAATTGGATTA
Found at i:5837456 original size:14 final size:15
Alignment explanation
Indices: 5837424--5837457 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
5837414 ATATTATTAT
*
5837424 TATTTATCTAATTTT
1 TATTTATCTAATTTA
5837439 TATTTATC-AATTTA
1 TATTTATCTAATTTA
5837453 TATTT
1 TATTT
5837458 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:5837485 original size:17 final size:18
Alignment explanation
Indices: 5837448--5837508 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 18
5837438 TTATTTATCA
5837448 ATTTATATTTCTACTATT
1 ATTTATATTTCTACTATT
*
5837466 A-TTATATTTCTA-TTTCT
1 ATTTATATTTCTACTAT-T
* *
5837483 ATTTATA-TACTAATATT
1 ATTTATATTTCTACTATT
*
5837500 ATTTTTATT
1 ATTTATATT
5837509 GTTATTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.06
17 24 0.69
18 9 0.26
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATATTTCTACTATT
Found at i:5837629 original size:3 final size:3
Alignment explanation
Indices: 5837621--5837671 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
5837611 TTAAAACTTG
5837621 TAT TAT TAT 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 TAT TAT TAT
5837669 TAT
1 TAT
5837672 ATTTTTTTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5837747 original size:19 final size:19
Alignment explanation
Indices: 5837697--5837748 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
5837687 GTATTTATTC
5837697 ATTTATTTTATTTCCATTTT
1 ATTTA-TTTATTTCCATTTT
* *** *
5837717 TTTTACAAATTTCTATTTT
1 ATTTATTTATTTCCATTTT
5837736 ATTTATTTATTTC
1 ATTTATTTATTTC
5837749 AGATTTTTAC
Statistics
Matches: 23, Mismatches: 9, Indels: 1
0.70 0.27 0.03
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATTTATTTCCATTTT
Found at i:5840790 original size:138 final size:137
Alignment explanation
Indices: 5840499--5840895 Score: 372
Period size: 138 Copynumber: 2.8 Consensus size: 137
5840489 TCGAAACATC
* ***
5840499 TTAACAATGCATACATAGATGCATTAAAAACTTGCATCAGTTCCTAAACT-CGAAAGAAAGA-GG
1 TTAACAAAGCATACATAGATGCATT-AAAACTCATATCAGTTCCTAAACTACGAAAGAAA-ACGG
* * * * * * *
5840562 AAACCAAATGATACACAAGTATACTCATTAAT-AAATTAAATTCACAAGACAAAGAAAGGCTAGT
64 AAATCAAAAGACACACAAGTATACTTATTAATAAAAATAAATTCACAAAACAAAGAAAGGCTAAT
* *
5840626 CGAGACACC
129 CAAGACACA
* * * * *
5840635 TTAACAAGGTACACATAGATGCATTAGAAACTCATATCCGTTCCTAAACTTACCAAAGAAAACGG
1 TTAACAAAGCATACATAGATGCATTA-AAACTCATATCAGTTCCTAAAC-TACGAAAGAAAACGG
* *
5840700 AAATCAAAAGACACATAAGTATACTTATTAATAAAAATAAATTCACAAAAGAAAGAGAA-GCTAA
64 AAATCAAAAGACACACAAGTATACTTATTAATAAAAATAAATTCACAAAACAAAGA-AAGGCTAA
5840764 TCAAGACA-A
128 TCAAGACACA
* * * *
5840773 TTTACAAAGCATGCATAGATGCATTAAAAGCTCATATCGGTTCCTAAACACACGAAAGAAAGCAA
1 TTAACAAAGCATACATAGATGCATTAAAA-CTCATATCAGTTCCTAAAC-TAC----GAAAG--A
** * * *
5840838 AAAGCAAAAATCAAAGGGCACACAAGTATACTTATTAATAAAAATAAATTCATAAAAC
58 AAA-CGGAAATCAAAAGACACACAAGTATACTTATTAATAAAAATAAATTCACAAAAC
5840896 CTCTCTATCC
Statistics
Matches: 212, Mismatches: 35, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
135 1 0.00
136 40 0.19
137 5 0.02
138 78 0.37
139 31 0.15
140 2 0.01
142 4 0.02
144 4 0.02
145 47 0.22
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (137 bp):
TTAACAAAGCATACATAGATGCATTAAAACTCATATCAGTTCCTAAACTACGAAAGAAAACGGAA
ATCAAAAGACACACAAGTATACTTATTAATAAAAATAAATTCACAAAACAAAGAAAGGCTAATCA
AGACACA
Found at i:5841118 original size:40 final size:40
Alignment explanation
Indices: 5841092--5841172 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
5841082 TTTATTACTG
5841092 TTATTTAAAAAAACAATACATTCAAATTTAAAATTATCAT
1 TTATTTAAAAAAACAATACATTCAAATTTAAAATTATCAT
5841132 TTATTTAAAAAAACAATACATTCAAATTTAAAATTATCAT
1 TTATTTAAAAAAACAATACATTCAAATTTAAAATTATCAT
5841172 T
1 T
5841173 CTCTTTTGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (40 bp):
TTATTTAAAAAAACAATACATTCAAATTTAAAATTATCAT
Found at i:5841124 original size:23 final size:23
Alignment explanation
Indices: 5841094--5841164 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 23
5841084 TATTACTGTT
5841094 ATTTAAAAAAACAATACATTCAA
1 ATTTAAAAAAACAATACATTCAA
** *
5841117 ATTT---AAAATTAT-CATT--T
1 ATTTAAAAAAACAATACATTCAA
5841134 ATTTAAAAAAACAATACATTCAA
1 ATTTAAAAAAACAATACATTCAA
5841157 ATTTAAAA
1 ATTTAAAA
5841165 TTATCATTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
17 4 0.11
19 4 0.11
20 12 0.33
21 4 0.11
23 12 0.33
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (23 bp):
ATTTAAAAAAACAATACATTCAA
Found at i:5843875 original size:62 final size:62
Alignment explanation
Indices: 5843742--5843876 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 62
5843732 ACTTCGATCT
* * ** **
5843742 TTTCGATGATGCACTAGGTGCCAGTATGATATAAATAGTGCTGAGCGTTAATTACTTCAGGC
1 TTTCGATGATGCACTAAGTGCAAGTATGATATAAATAGCACTGAGCGCAAATTACTTCAGGC
* * *
5843804 TTTCCGATGATGCATTAAGTGCAAGTATGATAT-GATAGCACTGAGCGCAAATTATTTC-GGAC
1 TTT-CGATGATGCACTAAGTGCAAGTATGATATAAATAGCACTGAGCGCAAATTACTTCAGG-C
5843866 TTTCTGATGAT
1 TTTC-GATGAT
5843877 ACTTTGAGGT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
61 3 0.05
62 32 0.52
63 26 0.43
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (62 bp):
TTTCGATGATGCACTAAGTGCAAGTATGATATAAATAGCACTGAGCGCAAATTACTTCAGGC
Found at i:5844274 original size:22 final size:22
Alignment explanation
Indices: 5844246--5844287 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
5844236 TATAATTTAT
5844246 TTTTTAATTATTAAAA-TAATCA
1 TTTTTAA-TATTAAAACTAATCA
5844268 TTTTTAATATTAAAACTAAT
1 TTTTTAATATTAAAACTAAT
5844288 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTTAATATTAAAACTAATCA
Found at i:5844704 original size:30 final size:30
Alignment explanation
Indices: 5844655--5844720 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
5844645 GTTAGGATAA
* * *
5844655 AAAATTTAAAATTCGAAAAGTTCAA-AATT
1 AAAATTTAAAATTCAAAAAGTGCAATAACT
*
5844684 AAAATTTATCAATTCAAAAAGTGCAATAACT
1 AAAATTTA-AAATTCAAAAAGTGCAATAACT
5844715 AAAATT
1 AAAATT
5844721 AACCAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.26
30 14 0.45
31 9 0.29
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (30 bp):
AAAATTTAAAATTCAAAAAGTGCAATAACT
Found at i:5849727 original size:3 final size:3
Alignment explanation
Indices: 5849708--5849757 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
5849698 TTCTTCTTCT
* * * *
5849708 TCA TCA ACA TCA ACA TCA TCA TCA TCA CCA TCA TCA TCA TCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
5849756 TC
1 TC
5849758 GTTTTCTTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (3 bp):
TCA
Found at i:5849728 original size:15 final size:15
Alignment explanation
Indices: 5849708--5849757 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
5849698 TTCTTCTTCT
* *
5849708 TCATCAACATCAACA
1 TCATCATCATCACCA
5849723 TCATCATCATCACCA
1 TCATCATCATCACCA
5849738 TCATCATCATCACCA
1 TCATCATCATCACCA
5849753 TCATC
1 TCATC
5849758 GTTTTCTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (15 bp):
TCATCATCATCACCA
Found at i:5857694 original size:26 final size:26
Alignment explanation
Indices: 5857665--5857720 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
5857655 ACACATAAGC
5857665 TAATAGCTAAGCTTACGGAATGACCA
1 TAATAGCTAAGCTTACGGAATGACCA
*
5857691 TAATAGCTAAGCTTATGGAATGACCA
1 TAATAGCTAAGCTTACGGAATGACCA
5857717 TAAT
1 TAAT
5857721 CTGATGTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (26 bp):
TAATAGCTAAGCTTACGGAATGACCA
Found at i:5864266 original size:26 final size:24
Alignment explanation
Indices: 5864236--5864284 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
5864226 AAATAAAAAA
*
5864236 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
5864262 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
5864285 AAAATAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:5864378 original size:15 final size:16
Alignment explanation
Indices: 5864348--5864380 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5864338 AAATGGTTAT
5864348 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
5864365 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
5864380 A
1 A
5864381 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:5865238 original size:43 final size:44
Alignment explanation
Indices: 5865175--5865261 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
5865165 ATTCACCAAG
* * *
5865175 CCTTAAACCCCTAAGTAGTAGGGTAACAGG-TTAAATTTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
* *
5865218 CCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAATTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
5865262 TCTCGTCTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
Found at i:5865393 original size:43 final size:44
Alignment explanation
Indices: 5865336--5865419 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
5865326 CGAAGCAGAT
* *
5865336 TGAAGTCACTAGTCTTATCTCCCTGAAGT-GCAATGGAGCAAAC
1 TGAAGTCACAAGTCTCATCTCCCTGAAGTCGCAATGGAGCAAAC
* *
5865379 TGAAGTTACAAGTCTCATCTCCCTGAAGTCGCAGTGGAGCA
1 TGAAGTCACAAGTCTCATCTCCCTGAAGTCGCAATGGAGCA
5865420 GACTAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (44 bp):
TGAAGTCACAAGTCTCATCTCCCTGAAGTCGCAATGGAGCAAAC
Found at i:5865588 original size:88 final size:85
Alignment explanation
Indices: 5865440--5865765 Score: 359
Period size: 88 Copynumber: 3.7 Consensus size: 85
5865430 ATAGACCTTA
* * * *
5865440 AACCCCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGGAAA
1 AACCCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAA
*
5865505 CAGATCAAAGGCAACGAGCTTT
66 CAGATCGAAGG--ACGAGCTTT
* * * *
5865527 AACCCCTTAAGCAGTAGGGTAACAAGCTAAAGTTTATAGATCTTATCGCCCTAAGTAGTAGGGAA
1 AACCCCCTAAGCAGTAGGGTAACAAGCTAAA-TTTACAGATCTTATCACCCTAAGCAGTAGGGAA
*
5865592 ACAGATCGAA-GACGGAGGGTCTT
65 ACAGATCGAAGGAC-GA-GCT-TT
* * *
5865615 AAACCCTTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTATCACCCTAAGCAGTAGGGA
1 AACCCCCTAAGCAGTAGGGTAACAAGCT-AA-ATTTACAGATCTTATCACCCTAAGCAGTAGGGA
* *
5865680 AGCAGATCGAAGATGATGAGCTTT
64 AACAGATCGAAG--GACGAGCTTT
* * * * *
5865704 GACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAAC-CCTCTAAGCAGAAGGG
1 AACCCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATCTTATCACC-CTAAGCAGTAGGG
5865766 TAATAGGCTG
Statistics
Matches: 203, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
85 2 0.01
86 4 0.02
87 56 0.28
88 68 0.33
89 66 0.33
90 3 0.01
91 2 0.01
92 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (85 bp):
AACCCCCTAAGCAGTAGGGTAACAAGCTAAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAA
CAGATCGAAGGACGAGCTTT
Found at i:5866531 original size:42 final size:42
Alignment explanation
Indices: 5866476--5866604 Score: 213
Period size: 42 Copynumber: 3.1 Consensus size: 42
5866466 GAGCAGCTAA
* *
5866476 AAGCCACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
* *
5866518 AAGCTATAGCAGATCTCCTTGAAGTTTCAGTGGAATTAATCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
*
5866560 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATTG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
5866602 AAG
1 AAG
5866605 TCACATGTCT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (42 bp):
AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
Found at i:5866924 original size:12 final size:12
Alignment explanation
Indices: 5866907--5866931 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5866897 ACCCAAAACC
5866907 CTTAGCCCAAAA
1 CTTAGCCCAAAA
5866919 CTTAGCCCAAAA
1 CTTAGCCCAAAA
5866931 C
1 C
5866932 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:5868062 original size:21 final size:20
Alignment explanation
Indices: 5868014--5868053 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
5868004 CATTCTTGTA
5868014 TTATTATT-TTTAGCATATT
1 TTATTATTATTTAGCATATT
5868033 TTATTATTATTTAG-ATATT
1 TTATTATTATTTAGCATATT
5868052 TT
1 TT
5868054 TTTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (20 bp):
TTATTATTATTTAGCATATT
Found at i:5868110 original size:20 final size:22
Alignment explanation
Indices: 5868071--5868111 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5868061 TAATATTACA
*
5868071 TATATATATTTTATAGTTGTTT
1 TATATATATTATATAGTTGTTT
5868093 TATATATATTAT-TA-TTGTT
1 TATATATATTATATAGTTGTT
5868112 CCTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATATATATTATATAGTTGTTT
Found at i:5869360 original size:15 final size:16
Alignment explanation
Indices: 5869340--5869372 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5869330 TATATATTTT
5869340 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
5869355 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
5869372 T
1 T
5869373 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:5869445 original size:21 final size:22
Alignment explanation
Indices: 5869419--5869477 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
5869409 GTTTTAAGAA
*
5869419 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
5869440 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
5869462 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
5869478 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:5869508 original size:25 final size:26
Alignment explanation
Indices: 5869448--5869496 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
5869438 ATTTGTTTTA
*
5869448 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
5869472 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
5869497 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:5872886 original size:56 final size:56
Alignment explanation
Indices: 5872800--5872910 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
5872790 AGTAACCTGT
5872800 CGTGTTATCCACTAATGTGTCAATATGAGGCAACGAAAAATTATCCTTCGGGCTGC
1 CGTGTTATCCACTAATGTGTCAATATGAGGCAACGAAAAATTATCCTTCGGGCTGC
5872856 CGTGTTATCCACTAATGTGTCAATATGAGGCAACGAAAAATTATCCTTCGGGCTG
1 CGTGTTATCCACTAATGTGTCAATATGAGGCAACGAAAAATTATCCTTCGGGCTG
5872911 GCTTTGTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (56 bp):
CGTGTTATCCACTAATGTGTCAATATGAGGCAACGAAAAATTATCCTTCGGGCTGC
Found at i:5883084 original size:12 final size:12
Alignment explanation
Indices: 5883067--5883091 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5883057 TTGGGTTAGT
5883067 GTTTTGGGCTAA
1 GTTTTGGGCTAA
5883079 GTTTTGGGCTAA
1 GTTTTGGGCTAA
5883091 G
1 G
5883092 GGTTTTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:5883591 original size:14 final size:15
Alignment explanation
Indices: 5883572--5883601 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5883562 TTAAAATAAT
5883572 ATAAAATTAT-ATTA
1 ATAAAATTATAATTA
5883586 ATAAAATTATAATTA
1 ATAAAATTATAATTA
5883601 A
1 A
5883602 AAACAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATTATAATTA
Found at i:5883599 original size:20 final size:20
Alignment explanation
Indices: 5883554--5883600 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
5883544 ATTGTGGAGA
5883554 ATAATTATTTAAAATAATAT
1 ATAATTATTTAAAATAATAT
*
5883574 AAAATTATATTAATAA-AAT-T
1 ATAATTAT-TTAA-AATAATAT
5883594 ATAATTA
1 ATAATTA
5883601 AAAACAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.61
21 7 0.30
22 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATTATTTAAAATAATAT
Found at i:5884044 original size:19 final size:18
Alignment explanation
Indices: 5884018--5884058 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
5884008 ATAAATTATT
5884018 AAAA-ATTAAAAAAAAACA
1 AAAATATTAAAAAAAAA-A
*
5884036 AAAATATTAAAAATAAAA
1 AAAATATTAAAAAAAAAA
5884054 AAAAT
1 AAAAT
5884059 CTAATTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATATTAAAAAAAAAA
Found at i:5886317 original size:15 final size:16
Alignment explanation
Indices: 5886292--5886329 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5886282 TGAATTGGTT
*
5886292 TTTTCTATTTTA-AATA
1 TTTT-TATTTTATAAAA
5886308 TTTTTATTTTATAAAA
1 TTTTTATTTTATAAAA
5886324 TTTTTA
1 TTTTTA
5886330 ATAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATTTTATAAAA
Found at i:5888212 original size:19 final size:19
Alignment explanation
Indices: 5888170--5888209 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
5888160 ATACCAACCC
* *
5888170 AATACAAATATTAAATTTT
1 AATATAAATATTAAAATTT
5888189 AATATAAATGATTAAAATTT
1 AATATAAAT-ATTAAAATTT
5888209 A
1 A
5888210 TATTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (19 bp):
AATATAAATATTAAAATTT
Found at i:5890002 original size:17 final size:17
Alignment explanation
Indices: 5889980--5890013 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5889970 ATGAGCTCTA
5889980 GTTA-TTATTATAGAGTT
1 GTTATTTATTAT-GAGTT
5889997 GTTATTTATTATGAGTT
1 GTTATTTATTATGAGTT
5890014 AATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (17 bp):
GTTATTTATTATGAGTT
Found at i:5890206 original size:15 final size:14
Alignment explanation
Indices: 5890186--5890223 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
5890176 TAATAATTAC
5890186 TTTTAAAATTTCAA
1 TTTTAAAATTTCAA
*
5890200 GTTTTAAAATTTTAA
1 -TTTTAAAATTTCAA
5890215 -TTTAAAATT
1 TTTTAAAATT
5890224 ATTTCTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTAAAATTTCAA
Found at i:5892563 original size:36 final size:36
Alignment explanation
Indices: 5892523--5892594 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
5892513 TGCAGGTCAC
* *
5892523 TTAAAGCTTTTCTTCTTAATTTTTGTTCTCTTTTGG
1 TTAAAGCTTTTCTTCTTAATTTCTATTCTCTTTTGG
5892559 TTAAAGCTTTTCTTCTTAATTTCTATTCTCTTTTGG
1 TTAAAGCTTTTCTTCTTAATTTCTATTCTCTTTTGG
5892595 GTTTCTAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (36 bp):
TTAAAGCTTTTCTTCTTAATTTCTATTCTCTTTTGG
Found at i:5895308 original size:14 final size:13
Alignment explanation
Indices: 5895284--5895330 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
5895274 GTGCCAACAA
5895284 AAAAAATAGAAGGAG
1 AAAAAATAGAA--AG
5895299 AAAAAA-AGAAAG
1 AAAAAATAGAAAG
* *
5895311 AAAAAATAAAAAT
1 AAAAAATAGAAAG
5895324 AAAAAAT
1 AAAAAAT
5895331 CCAAACTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 8 0.28
13 11 0.38
14 4 0.14
15 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (13 bp):
AAAAAATAGAAAG
Found at i:5905115 original size:131 final size:131
Alignment explanation
Indices: 5904881--5905220 Score: 501
Period size: 131 Copynumber: 2.6 Consensus size: 131
5904871 AGTTTTATAA
* *
5904881 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTTGATGTTTGGCAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
*
5904946 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCATTTGGAATTTCA
66 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCATTTAGAATTTCA
*
5905011 T
131 C
* *
5905012 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAACGTTCGATGTTTGGTAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
* * *
5905077 CCCTATCGTGCTGTGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
66 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCATTTAGAATTTCA
5905142 C
131 C
** * * * *
5905143 TCATGT-TTTCTAAATTC--TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCGAGGAATCGTG
1 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
5905204 CCCTA-CTGTGCTGGGTT
66 CCCTATC-GTGCTGGGTT
5905221 TCGATTTTTT
Statistics
Matches: 191, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
126 1 0.01
127 46 0.24
128 6 0.03
130 9 0.05
131 129 0.68
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCATTTAGAATTTCA
C
Found at i:5916974 original size:176 final size:174
Alignment explanation
Indices: 5916568--5917132 Score: 654
Period size: 176 Copynumber: 3.2 Consensus size: 174
5916558 GGTGAATTCA
* * **
5916568 CAGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATCAAAGACGGCAAGCCTTAACCCCTTAAGT
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCC-TAAGT
* * * ** * *
5916633 AGTAGGGTAACAGGTCGAAGATTGTAGATCTTGCCTTCCTAAGCAGTAGTGGAGCAGATCGAAGA
65 AGTAGGGTAACAGGT-GAAGATTGAAGATCTTGTCTCCCTAAGTTGCAGTGGAACAGATCGAAGA
* ** *
5916698 -AGCAAGGCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGATTG
129 CGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAA-ATTG
* * * *** * * * *
5916744 TAGATCTTGTTTCCCT-AAACAGTAGTGGAGCAAATCAAAG-AAGTAAGCCTTAACCACCTAAGT
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACC-CCTAAGT
* * *
5916807 AGTAGGTTAATAGGCTGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAG
65 AGTAGGGTAACAGG-TGAAGATTGAAGATCTTGTCTCCCT-AAGTTGCAGTGGAACAGATCGAAG
*
5916872 ACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCT-AAATTG
128 ACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTG
*
5916918 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGTCTTAACCCCCTAAGT
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAA-CCCCTAAGT
* * *
5916983 GGTAGGGTAACAGGTTGAAGA-TCATAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCAAA
65 AGTAGGGTAACAGG-TGAAGATTGA-AGATCTTGTCTCCCT-AAGTTGCAGTGGAACAGATCGAA
* * *
5917047 GACGGTGAACCTTAACCTCCTAAGCAGTAGGGTAACAGGCTGAAAATTG
127 GACGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT-AAAATTG
* *
5917096 CAGATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATC
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATC
5917133 GAAGCCACAA
Statistics
Matches: 329, Mismatches: 50, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
174 66 0.20
175 65 0.20
176 155 0.47
177 2 0.01
178 41 0.12
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (174 bp):
CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCTAAGTA
GTAGGGTAACAGGTGAAGATTGAAGATCTTGTCTCCCTAAGTTGCAGTGGAACAGATCGAAGACG
GTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTG
Found at i:5917041 original size:89 final size:89
Alignment explanation
Indices: 5916569--5917132 Score: 604
Period size: 87 Copynumber: 6.4 Consensus size: 89
5916559 GTGAATTCAC
* ** *
5916569 AGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATCAAAGACGGCAAGCCTTAACCCCTTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTA
5916634 GTAGGGTAACAGG-TCGAAGATTGT
66 GTAGGGTAACAGGCT-GAAGATTGT
* * ** * * * *
5916658 AGATCTTGCCTTCCT-AAGCAGTAGTGGAGCAGATCGAAG-AAGCAAGGCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTA
*
5916721 GTAGGGTAACAGGCTAAAGATTGT
66 GTAGGGTAACAGGCTGAAGATTGT
* *** * * * * *
5916745 AGATCTTGTTTCCCT-AAACAGTAGTGGAGCAAATCAAAG-AAGTAAGCCTTAACCACCTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTA
* * *
5916808 GTAGGTTAATAGGCTGAAGATTGA
66 GTAGGGTAACAGGCTGAAGATTGT
* * ** **
5916832 AGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAGCCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTA
* *
5916897 GTAGGGTAACAAGCT-AA-ATTGC
66 GTAGGGTAACAGGCTGAAGATTGT
* * *
5916919 AGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGTCTTAACCCCCTAAGTG
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTA
* **
5916984 GTAGGGTAACAGGTTGAAGATCAT
66 GTAGGGTAACAGGCTGAAGATTGT
* ** * * *
5917008 AGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCAAAGACGGTGAA-CCTTAACCTCCTAAGC
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAG-CAAGCCTTAACCCCCTAAGT
* *
5917072 AGTAGGGTAACAGGCTGAAAATTGC
65 AGTAGGGTAACAGGCTGAAGATTGT
* * *
5917097 AGATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATC
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
5917133 GAAGCCACAA
Statistics
Matches: 398, Mismatches: 71, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
87 203 0.51
88 42 0.11
89 151 0.38
90 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (89 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTA
GTAGGGTAACAGGCTGAAGATTGT
Found at i:5919934 original size:129 final size:129
Alignment explanation
Indices: 5919546--5919930 Score: 522
Period size: 129 Copynumber: 3.0 Consensus size: 129
5919536 GAATTTAGAG
* * * * *
5919546 AACATGAGTGAAATTTTAAAGGAATATTCGACTATTTTGAACAAACAGGAAATTGCAACCCAGCA
1 AACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCA
* * * ** * *
5919611 TGATAAGGCACGATTCCCCAAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGCTTTTAA
66 CGATAGGGCACGATT-CCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGA-ATTTTAA
5919676 A
129 A
* * * * *
5919677 GAC-TCGAGTGAAATTCCAAAGGAATCTTCGATTGTTTTGAACAAATGAGAAATCGCAACCCAGC
1 AACAT-GAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGC
* * * *
5919741 ACGATAGGGCACGATTCTCGAATTTCCATACATCGAGTATCGCCTTTGTTTTAAAGAATTTTAAA
65 ACGATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGAATTTTAAA
5919806 AACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCA
1 AACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCA
* *
5919871 CGATAGGGCACGATTCCCGAATTGCCAAACATTGAGTATCGCCTTCG-CTTAAAGAATTTT
66 CGATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGAATTTT
5919931 TAAATGAATA
Statistics
Matches: 220, Mismatches: 32, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
128 12 0.05
129 107 0.49
130 35 0.16
131 66 0.30
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (129 bp):
AACATGAGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCA
CGATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATCGCCTTCGTTTTAAAGAATTTTAAA
Found at i:5921029 original size:18 final size:17
Alignment explanation
Indices: 5921008--5921060 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
5920998 GTATAGGTTT
5921008 AATAATGTATATAAATCA
1 AATAATGTATATAAAT-A
5921026 AATATATGTA-ATAATATA
1 AATA-ATGTATATAA-ATA
*
5921044 AATAA-GTATAAAAATA
1 AATAATGTATATAAATA
5921060 A
1 A
5921061 TTTAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 7 0.23
17 4 0.13
18 13 0.42
19 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (17 bp):
AATAATGTATATAAATA
Found at i:5923791 original size:131 final size:130
Alignment explanation
Indices: 5923557--5923896 Score: 481
Period size: 131 Copynumber: 2.6 Consensus size: 130
5923547 AGTTTTATAA
* *
5923557 TCATGTCTTTAAAAATTCTTTAAAACGAAGGCAATGTTTGATGTTTGGCAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATTCTTTAAAA-GAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
* * *
5923622 CCCTATCGTGTTAGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCA
65 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCA
*
5923687 T
130 C
* *
5923688 TCATGTCTTTAAAAATTCTTTAAAATGAAGGCAACGTTCGATGTTTGGTAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATTCTTTAAAA-GAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
*
5923753 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA
65 CCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCA
5923818 C
130 C
** * * * * *
5923819 TCATGT-TTTCTAAATTC--TAAAACAAGGCAATGTTCAATGTCTAGAAATTCGAGGAATCGTGC
1 TCATGTCTTTAAAAATTCTTTAAAAGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGC
5923881 CCTA-CTGTGCTGGGTT
66 CCTATC-GTGCTGGGTT
5923897 TCGGTTTTTT
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
126 1 0.01
127 47 0.25
128 5 0.03
130 9 0.05
131 128 0.67
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (130 bp):
TCATGTCTTTAAAAATTCTTTAAAAGAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGC
CCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCAC
Found at i:5927097 original size:21 final size:19
Alignment explanation
Indices: 5927068--5927112 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
5927058 TCTTCACCTA
*
5927068 TTTTT-TTTCTTGATTGTTAT
1 TTTTTCTTTCTTAATT-TT-T
5927088 TTTTTCTTTCTTAATTTTT
1 TTTTTCTTTCTTAATTTTT
5927107 TTTTTC
1 TTTTTC
5927113 AATTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 9 0.39
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTCTTAATTTTT
Found at i:5927481 original size:21 final size:20
Alignment explanation
Indices: 5927445--5927490 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
5927435 AGATAATATC
5927445 AAAATTTTTTAATTAT-TTA
1 AAAATTTTTTAATTATCTTA
*
5927464 AAAATTATTTTATGTTATCTTA
1 AAAATT-TTTTA-ATTATCTTA
5927486 AAAAT
1 AAAAT
5927491 AAATTGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 5 0.22
21 4 0.17
22 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAAATTTTTTAATTATCTTA
Found at i:5929051 original size:27 final size:27
Alignment explanation
Indices: 5929021--5929079 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
5929011 CCTTTATTCT
*
5929021 CAATCCAACTAAACACCTCATTTGATC
1 CAATCCAACTAAACACCTCATTTAATC
* *
5929048 CAATGCAATTAAACACCTCATTTAATC
1 CAATCCAACTAAACACCTCATTTAATC
5929075 CAATC
1 CAATC
5929080 TCAATGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.27
Consensus pattern (27 bp):
CAATCCAACTAAACACCTCATTTAATC
Found at i:5933365 original size:9 final size:8
Alignment explanation
Indices: 5933351--5933375 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5933341 AACCCAATTC
5933351 AAAAAAAT
1 AAAAAAAT
5933359 AAAAAAAT
1 AAAAAAAT
5933367 AAAAAAAT
1 AAAAAAAT
5933375 A
1 A
5933376 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:5946950 original size:12 final size:12
Alignment explanation
Indices: 5946894--5946958 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
5946884 TAAATACGTA
*
5946894 ATAATATTAGAAT
1 ATAATAATA-AAT
* *
5946907 AAAATAATATA-
1 ATAATAATAAAT
*
5946918 ATAATATTAGAAT
1 ATAATAATA-AAT
* *
5946931 AAAATAATAAGT
1 ATAATAATAAAT
5946943 ATAATAATAAAT
1 ATAATAATAAAT
5946955 ATAA
1 ATAA
5946959 GGATATATGA
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
11 7 0.18
12 18 0.46
13 14 0.36
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:5946954 original size:19 final size:19
Alignment explanation
Indices: 5946905--5946977 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
5946895 TAATATTAGA
5946905 ATAA-AATAATATAATAA-T
1 ATAATAATAA-ATAATAAGT
* *
5946923 ATTAGAATAAAATAATAAGT
1 ATAATAAT-AAATAATAAGT
*
5946943 ATAATAATAAAT-ATAAGG
1 ATAATAATAAATAATAAGT
5946961 ATATATGAA-AAATAATA
1 ATA-AT-AATAAATAATA
5946978 CTATTTATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.24
19 20 0.44
20 14 0.31
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
ATAATAATAAATAATAAGT
Found at i:5946955 original size:24 final size:26
Alignment explanation
Indices: 5946879--5946948 Score: 101
Period size: 24 Copynumber: 2.8 Consensus size: 26
5946869 ACATATATTT
*
5946879 TAAAATAAATACGTAATAATATTAGAA
1 TAAAAT-AATAAGTAATAATATTAGAA
5946906 TAAAATAAT-A-TAATAATATTAGAA
1 TAAAATAATAAGTAATAATATTAGAA
5946930 TAAAATAATAAGT-ATAATA
1 TAAAATAATAAGTAATAATA
5946949 ATAAATATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 23 0.57
25 7 0.17
26 4 0.10
27 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (26 bp):
TAAAATAATAAGTAATAATATTAGAA
Found at i:5947037 original size:21 final size:21
Alignment explanation
Indices: 5947006--5947065 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
5946996 TGCGTATAAC
* * *
5947006 AAAATACATATATTAATATTA
1 AAAATAAATATAATAATAATA
* * **
5947027 ATAATAAATATACTAGGAATA
1 AAAATAAATATAATAATAATA
5947048 AAAATAAATATAATAATA
1 AAAATAAATATAATAATA
5947066 GTATATATAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (21 bp):
AAAATAAATATAATAATAATA
Found at i:5947418 original size:23 final size:23
Alignment explanation
Indices: 5947387--5947443 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
5947377 TGTAACTAAT
5947387 AATACTAAAGCTATATAC-ATA-AC
1 AATA-TAAAGC-ATATACGATACAC
*
5947410 ATATATAAAAACATATACGATACAC
1 A-ATAT-AAAGCATATACGATACAC
5947435 AATATAAAG
1 AATATAAAG
5947444 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 11 0.39
24 14 0.50
25 3 0.11
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (23 bp):
AATATAAAGCATATACGATACAC
Found at i:5947877 original size:25 final size:25
Alignment explanation
Indices: 5947795--5947878 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
5947785 AATATAACAT
5947795 CAAAAAATATATATGT-GTA-ATATA
1 CAAAAAATATATA-GTAGTATATATA
5947819 CAAAAACATATATAGTAGTAT-TA-A
1 CAAAAA-ATATATAGTAGTATATATA
*
5947843 GAATATAAATATA-AGATAGTATATATA
1 CAA-A-AAATATATAG-TAGTATATATA
5947870 CAAAAAATA
1 CAAAAAATA
5947879 AGTAATGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
24 13 0.26
25 29 0.58
26 5 0.10
27 3 0.06
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (25 bp):
CAAAAAATATATAGTAGTATATATA
Found at i:5949219 original size:25 final size:25
Alignment explanation
Indices: 5949191--5949239 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
5949181 CTGATTAGGG
5949191 TTAGGGGTAACTGGGCTGTTGGGTT
1 TTAGGGGTAACTGGGCTGTTGGGTT
* * *
5949216 TTAGGGGTTAGTGGGTTGTTGGGT
1 TTAGGGGTAACTGGGCTGTTGGGT
5949240 ATTGTTTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.10, C:0.04, G:0.47, T:0.39
Consensus pattern (25 bp):
TTAGGGGTAACTGGGCTGTTGGGTT
Found at i:5949344 original size:22 final size:21
Alignment explanation
Indices: 5949310--5949358 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
5949300 GGCTGAAGGG
* *
5949310 TTGTTAAATGGGTCAAACGGGT
1 TTGTAAAAGGGGT-AAACGGGT
* *
5949332 TTGTAAAAGGGGTAAATGTGT
1 TTGTAAAAGGGGTAAACGGGT
5949353 TTGTAA
1 TTGTAA
5949359 GGGGTTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.35
Consensus pattern (21 bp):
TTGTAAAAGGGGTAAACGGGT
Found at i:5950509 original size:15 final size:16
Alignment explanation
Indices: 5950473--5950502 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5950463 ACATATCATT
5950473 TATTTCATTATATCAA
1 TATTTCATTATATCAA
5950489 TATTTCA-TATATCA
1 TATTTCATTATATCA
5950503 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:5951750 original size:68 final size:64
Alignment explanation
Indices: 5951561--5951759 Score: 168
Period size: 68 Copynumber: 3.0 Consensus size: 64
5951551 CTAGCCAGTT
* * * * * * * *
5951561 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATTCGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGATG---TGCACATAGCACCACACATGCGACCTAGCTACA
5951626 TA
63 TA
* * * *
5951628 TATCCCGTAGCTCTCTTGTCTACATGGTGTGCACATAGTATCACCCATGCGACCTAGCTACATCA
1 TATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGCACCACACATGCGACCTAGCTACAT-A
* * *
5951693 TAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTA
1 T-A--TCCCGTAGCTCTCTTGT-CTACATGATGTGCACAT-AGCACCACACATGCGACCTAGCTA
5951756 CATA
61 CATA
5951760 CCATCTGTAT
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
64 27 0.24
65 2 0.02
66 1 0.01
67 30 0.27
68 50 0.45
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
TATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGCACCACACATGCGACCTAGCTACATA
Found at i:5955883 original size:26 final size:25
Alignment explanation
Indices: 5955828--5955885 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
5955818 ATATTATTTC
*
5955828 AATATTCTATATAATATTTTGTATA
1 AATATTCTATATAATATTTTATATA
*
5955853 AATATTCTTATATATTATTATTATTATA
1 AATATTC-TATATAATATT-TTA-TATA
*
5955881 TATAT
1 AATAT
5955886 GTTTCGTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.26
26 10 0.37
27 2 0.07
28 8 0.30
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (25 bp):
AATATTCTATATAATATTTTATATA
Found at i:5957849 original size:39 final size:39
Alignment explanation
Indices: 5957795--5957871 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
5957785 AAAGAATTTT
5957795 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACATA
1 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACATA
5957834 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACAT
1 ATATTGACAGAATATAAATTCAGTAAATTAGAAGACAT
5957872 CATTAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (39 bp):
ATATTGACAGAATATAAATTCAGTAAATTAGAAGACATA
Found at i:5960337 original size:51 final size:49
Alignment explanation
Indices: 5960215--5960348 Score: 123
Period size: 51 Copynumber: 2.7 Consensus size: 49
5960205 TAATTTTTTT
* *
5960215 TATTTAGTATTTATCTCTT-ATTAATTTAATTAACTAGAGATAAGATAAT
1 TATTTAATA-TTATCTCTTAATTAATTTAATTAACTAGAGATAAGATAAA
* *
5960264 TATTTAATATTATCAT-TTAATTAATTTAATTTTAA-TCAGTGATAATATAAA
1 TATTTAATATTATC-TCTTAATTAATTTAA--TTAACT-AGAGATAAGATAAA
* *
5960315 T-TTTATTATATATCTCTTAATTATTTTAAATTAA
1 TATTTAATAT-TATCTCTTAATTAATTT-AATTAA
5960349 GTGAAAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
48 7 0.10
49 19 0.27
50 13 0.18
51 30 0.42
52 2 0.03
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (49 bp):
TATTTAATATTATCTCTTAATTAATTTAATTAACTAGAGATAAGATAAA
Found at i:5963217 original size:12 final size:12
Alignment explanation
Indices: 5963200--5963224 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5963190 GGATAGAAGG
5963200 GTCCTAAGTAAA
1 GTCCTAAGTAAA
5963212 GTCCTAAGTAAA
1 GTCCTAAGTAAA
5963224 G
1 G
5963225 CTCCAGCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (12 bp):
GTCCTAAGTAAA
Found at i:5969853 original size:453 final size:452
Alignment explanation
Indices: 5968757--5971024 Score: 3362
Period size: 453 Copynumber: 5.0 Consensus size: 452
5968747 GCTTCGATTG
* * * * *
5968757 AAACTTATAGACTTGTTTTTGAACAATTTATATAGAGAAATCCCATTATGGTTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGGAATTCCATCATGGTTTGATTCCTTCCC
* *
5968822 TAAACTTCAATACTTGTCTGTGAGCTCTAACAATCTTGCAGGAGAGATCCCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
5968887 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
*
5968952 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAACAGGTTGGAAGGGATTCT
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
*
5969017 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTTGAAG
261 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAAG
* * * * * *
5969082 GTAAATAGAAAGCAATTGAATGTTATTTTAATTTGTTGTCTTTCCCCAACTGTAATATTTGATTT
326 GTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTTT
* * * * * *
5969147 ATTTGCTAAGAAAGCTTTAATTATTTTTAATTTTTTTACTAAGTAAAATTTTAAAGTTCAGTTT
391 GTTTGGTAAGAAAGCTTCAA-T-TTTTTCATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
* * *
5969211 AAACTTATAGACTTGTTTTGGAACAATTTCTACAGA-GAATTTTCGTCATGGTTTGATTCCTTCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGGAA-TTCCATCATGGTTTGATTCCTTCC
* * *
5969275 CTAAACTTCAATACTTGTCTTTGAACTCTAACAATCTTGTAGGTGAGATCCCATCCAACATGTTT
65 CTAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTT
*
5969340 GATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGAAAAATTCCATT
130 GATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATT
** *
5969405 GGGTTTATTCAAGTGCAAAGAGTTAGTTTTCATATCCTTGGCTGATAATAGGTTGGAAGGGATTC
195 GGGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTC
** * *
5969470 TACCAAAAGAAATAGGAAACTTGACAATGCTTACAAAACTATATCTCTACAACAACCTGTTCGAA
260 TACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAA
* * * * *
5969535 GGTAAACCGAAAGTAGTTGAATGTTATTTTAATTTGTTTTCTTTCTCCAACGGCAATATCTACTT
325 GGTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTT
* * *
5969600 TGTTTGGTAAGAAAGCTTCAATTTTTATCTTTTTTTTACCAAGTAAAATTTTAAATTTTATTTT
390 TGTTTGGTAAGAAAGCTTCAATTTTT-TCATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
* *
5969664 AAACTTATAGAGTTGTTTTGGAACAATTTCTATAGAGGAATTCCATCATGATTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGGAATTCCATCATGGTTTGATTCCTTCCC
5969729 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
* * * ** *
5969794 ATCGTCTACCTAGATTGCAAGAGCTTTACTTAGAAGGGAACAAGCTCTTTGGCAAAATTCCATTA
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
*
5969859 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTCGAAGGGATTCT
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
*
5969924 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCTACAACAACCTGTTCGAAG
261 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAAG
*
5969989 GTAAACCA-AAAGTAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTT
326 GTAAA-CAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTT
* * *
5970053 TGTTTCGTAAGAAAGCTTCAATTCTTATCTCTTTTTTTTTTTACCAAGTAAAATTTTAAATTTCA
390 TGTTTGGTAAGAAAGCTTCAATT-TT-T-TC---ATTTTTTTACCAAGTAAAATTTTAAAGTTCA
5970118 TTTT
449 TTTT
* *
5970122 AAAC-T-TACACTTGTTTTGGAACAATTTCTATAGA-GAAATCTCATCATGGTTTGATTCCTTCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGGAATTC-CATCATGGTTTGATTCCTTCC
* *
5970184 CTAAACTTCAATACTTGTCTTTAAGCTCTAACAATCTTGCAGGAGAGATCCCATCCAATATGTTT
65 CTAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTT
* * * * *
5970249 GATCATCTACCTGGACTGCAACAGCTTTACTTGGAAGGGAATAAGCTCTCCAGTAAAATTCCATT
130 GATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATT
** *
5970314 GGGTTTATTCAAGTGCAAAGAGTTAGTGTTCATATCCTTGGCTGATAATAGGTTGGAAGGGATTC
195 GGGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTC
* *
5970379 TACCAAAAGAAATAGGAAACTTGAAAATGCTTAGGAGTCTATATCTCGACAACAACCTGTTCGAA
260 TACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAA
** * *
5970444 GGTAAATGGAAAGCAGTTGGATGTTATTTTAATTTGTTGTCTTTCTCTAACTGCAATATCTGCTT
325 GGTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTT
* *
5970509 TGTTTGGT-ACAAA--TTC--TTTTTT-AATTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
390 TGTTTGGTAAGAAAGCTTCAATTTTTTCATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
** * **
5970566 AAACTTATAGACTTGTTTTGGAACAATTTCTACGGAGAAAGCCCATCATGGTTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGGAATTCCATCATGGTTTGATTCCTTCCC
* * * *
5970631 TAAACTTCAATACTTGTTTTTGAGTTATAACAATCTTGCAGGTGAGATACCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
* * * *
5970696 ATCATCTACCTAGATTGCAACAGCTTTACTTGAAAGGGAACAAGCTTTCCGGTAAAATTCCATTA
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
** * * **
5970761 GGTTTATTCAAGTGCAAAGAGTTAGAGGACATATGCTTCAG-TTCTAATAGGTTGGAAGGGATTC
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTT-GGCTGATAATAGGTTGGAAGGGATTC
* * * *
5970825 TACCAAAAGAAATAGGAAACTTGACAATGCTTAAGACTCTATATCTCGACATCAACCTGTTTGAA
260 TACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAA
* * *
5970890 GGTAAACAGAAAGCAGTTTAATATTATTTTAATTTTTTGTCTTTCTCCAACTGCAATATCTGCTT
325 GGTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTT
* *
5970955 TGTTTGGTAAGAAAGCTTCAA----TTCATTTTTTTACCAAGTAAAAATTTAAAGTTCATTTC
390 TGTTTGGTAAGAAAGCTTCAATTTTTTCATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
5971014 AAACTTATAGA
1 AAACTTATAGA
5971025 TAGAGGTGAT
Statistics
Matches: 1645, Mismatches: 148, Indels: 48
0.89 0.08 0.03
Matches are distributed among these distances:
444 36 0.02
445 1 0.00
446 346 0.21
447 10 0.01
448 44 0.03
449 4 0.00
450 2 0.00
451 2 0.00
452 4 0.00
453 416 0.25
454 376 0.23
455 12 0.01
456 353 0.21
457 1 0.00
458 38 0.02
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (452 bp):
AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGGAATTCCATCATGGTTTGATTCCTTCCC
TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTCGAAG
GTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTTT
GTTTGGTAAGAAAGCTTCAATTTTTTCATTTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
Found at i:5970952 original size:902 final size:907
Alignment explanation
Indices: 5968757--5970987 Score: 3461
Period size: 902 Copynumber: 2.5 Consensus size: 907
5968747 GCTTCGATTG
* * *
5968757 AAACTTATAGACTTGTTTTTGAACAATTTATATAGAGAAATCCCATTATGGTTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGAAATCCCATCATGGTTTGATTCCTTCCC
* *
5968822 TAAACTTCAATACTTGTCTGTGAGCTCTAACAATCTTGCAGGAGAGATCCCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
* * *
5968887 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGCAAAATTCCATTG
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGAAAGGGAACAAGCTTTCCGGCAAAATTCCATTA
*
5968952 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAACAGGTTGGAAGGGATTCT
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
5969017 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTTGAAG
261 ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTTGAAG
* * * * * *
5969082 GTAAATAGAAAGCAATTGAATGTTATTTTAATTTGTTGTCTTTCCCCAACTGTAATATTTGATTT
326 GTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTTT
* * *
5969147 ATTTGCTAAGAAAGCTTTAA---TTATTTTTAATTTTTTTACTAAGTAAAATTTTAAAGTTCAGT
391 GTTTG-TAAGAAAGCTTCAATTCTTATTTTTAATTTTTTTACCAAGTAAAATTTTAAAGTTCAGT
* * * *
5969209 TTAAACTTATAGACTTGTTTTGGAACAATTTCTACAGAGAATTTTCGTCATGGTTTGATTCCTTC
455 TTAAACTTATACACTTGTTTTGGAACAATTTCTACAGAGAAATCTCATCATGGTTTGATTCCTTC
* *
5969274 CCTAAACTTCAATACTTGTCTTTGAACTCTAACAATCTTGTAGGTGAGATCCCATCCAACATGTT
520 CCTAAACTTCAATACTTGTCTTTGAACTCTAACAATCTTGCAGGAGAGATCCCATCCAACATGTT
* *
5969339 TGATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGAAAAATTCCAT
585 TGATCATCTACCTAGACTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCAGAAAAATTCCAT
*
5969404 TGGGTTTATTCAAGTGCAAAGAGTTAGTTTTCATATCCTTGGCTGATAATAGGTTGGAAGGGATT
650 TGGGTTTATTCAAGTGCAAAGAGTTAGTGTTCATATCCTTGGCTGATAATAGGTTGGAAGGGATT
* *
5969469 CTACCAAAAGAAATAGGAAACTTGACAATGCTTACAAAACTATATCTCTACAACAACCTGTTCGA
715 CTACCAAAAGAAATAGGAAACTTGAAAATGCTTACAAAACTATATCTCGACAACAACCTGTTCGA
* *
5969534 AGGTAAACCGAAAGTAGTTGAATGTTATTTTAATTTGTTTTCTTTCTCCAACGGCAATATCTACT
780 AGGTAAACCGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACGGCAATATCTACT
* ** * *
5969599 TTGTTTGGTAAGAAAGCTTCAATTTTTATCTTTTTTTTACCAAGTAAAATTTTAAATTTTATTTT
845 TTGTTTGGTAACAAA-CTTC-ATTTTTATCAATTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
* * * *
5969664 AAACTTATAGAGTTGTTTTGGAACAATTTCTATAGAGGAATTCCATCATGATTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGAAATCCCATCATGGTTTGATTCCTTCCC
5969729 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
* * *
5969794 ATCGTCTACCTAGATTGCAAGAGCTTTACTT-AGAAGGGAACAAGCTCTT-TGGCAAAATTCCAT
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGA-AAGGGAACAAGCT-TTCCGGCAAAATTCCAT
*
5969857 TAGGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTCGAAGGGATT
194 TAGGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATT
* *
5969922 CTACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCTACAACAACCTGTTCGA
259 CTACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTTGA
*
5969987 AGGTAAACCA-AAAGTAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGC
324 AGGTAAA-CAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGC
* *
5970051 TTTGTTTCGTAAGAAAGCTTCAATTCTTATCTCTTT-TTTTTTTTACCAAGTAAAATTTTAAATT
388 TTTGTTT-GTAAGAAAGCTTCAATTCTTAT-T-TTTAATTTTTTTACCAAGTAAAATTTTAAAGT
* *
5970115 TCATTTTAAAC-T-TACACTTGTTTTGGAACAATTTCTATAGAGAAATCTCATCATGGTTTGATT
450 TCAGTTTAAACTTATACACTTGTTTTGGAACAATTTCTACAGAGAAATCTCATCATGGTTTGATT
5970178 CCTTCCCTAAACTTCAATACTTGTCTTT-AAGCTCTAACAATCTTGCAGGAGAGATCCCATCCAA
515 CCTTCCCTAAACTTCAATACTTGTCTTTGAA-CTCTAACAATCTTGCAGGAGAGATCCCATCCAA
* * * *
5970242 TATGTTTGATCATCTACCTGGACTGCAACAGCTTTACTTGGAAGGGAATAAGCTCTCCAGTAAAA
579 CATGTTTGATCATCTACCTAGACTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCAGAAAAA
5970307 TTCCATTGGGTTTATTCAAGTGCAAAGAGTTAGTGTTCATATCCTTGGCTGATAATAGGTTGGAA
644 TTCCATTGGGTTTATTCAAGTGCAAAGAGTTAGTGTTCATATCCTTGGCTGATAATAGGTTGGAA
** **
5970372 GGGATTCTACCAAAAGAAATAGGAAACTTGAAAATGCTTAGGAGTCTATATCTCGACAACAACCT
709 GGGATTCTACCAAAAGAAATAGGAAACTTGAAAATGCTTACAAAACTATATCTCGACAACAACCT
** * * *
5970437 GTTCGAAGGTAAATGGAAAGCAGTTGGATGTTATTTTAATTTGTTGTCTTTCTCTAACTGCAATA
774 GTTCGAAGGTAAACCGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACGGCAATA
*
5970502 TCTGCTTTGTTTGGT-ACAAA-TTC-TTTTT-T-AATTTTTTACCAAGTAAAATTTTAAAGTTCA
839 TCTACTTTGTTTGGTAACAAACTTCATTTTTATCAATTTTTTACCAAGTAAAATTTTAAAGTTCA
5970562 TTTT
904 TTTT
** *
5970566 AAACTTATAGACTTGTTTTGGAACAATTTCTACGGAGAAAGCCCATCATGGTTTGATTCCTTCCC
1 AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGAAATCCCATCATGGTTTGATTCCTTCCC
* * * *
5970631 TAAACTTCAATACTTGTTTTTGAGTTATAACAATCTTGCAGGTGAGATACCATCCAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
*
5970696 ATCATCTACCTAGATTGCAACAGCTTTACTTGAAAGGGAACAAGCTTTCCGGTAAAATTCCATTA
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGAAAGGGAACAAGCTTTCCGGCAAAATTCCATTA
** * * **
5970761 GGTTTATTCAAGTGCAAAGAGTTAGAGGACATATGCTTCAG-TTCTAATAGGTTGGAAGGGATTC
196 GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTT-GGCTGATAATAGGTTGGAAGGGATTC
* * *
5970825 TACCAAAAGAAATAGGAAACTTGACAATGCTTAAGACTCTATATCTCGACATCAACCTGTTTGAA
260 TACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTTGAA
* * *
5970890 GGTAAACAGAAAGCAGTTTAATATTATTTTAATTTTTTGTCTTTCTCCAACTGCAATATCTGCTT
325 GGTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTT
5970955 TGTTTGGTAAGAAAGCTTCAATTCATT-TTTTTA
390 TGTTT-GTAAGAAAGCTTCAATTC-TTATTTTTA
5970988 CCAAGTAAAA
Statistics
Matches: 1211, Mismatches: 97, Indels: 38
0.90 0.07 0.03
Matches are distributed among these distances:
900 3 0.00
901 5 0.00
902 403 0.33
903 5 0.00
904 5 0.00
906 3 0.00
907 375 0.31
908 9 0.01
909 359 0.30
910 5 0.00
911 36 0.03
912 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (907 bp):
AAACTTATAGACTTGTTTTGGAACAATTTCTATAGAGAAATCCCATCATGGTTTGATTCCTTCCC
TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGTGAGATCCCATCCAATATGTTTG
ATCATCTACCTAGATTGCAACAGCTTTACTTGAAAGGGAACAAGCTTTCCGGCAAAATTCCATTA
GGTTTATTCAAGTGCAAAGAGTTAGAATACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCT
ACCAAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCGACAACAACCTGTTTGAAG
GTAAACAGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTTT
GTTTGTAAGAAAGCTTCAATTCTTATTTTTAATTTTTTTACCAAGTAAAATTTTAAAGTTCAGTT
TAAACTTATACACTTGTTTTGGAACAATTTCTACAGAGAAATCTCATCATGGTTTGATTCCTTCC
CTAAACTTCAATACTTGTCTTTGAACTCTAACAATCTTGCAGGAGAGATCCCATCCAACATGTTT
GATCATCTACCTAGACTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCAGAAAAATTCCATT
GGGTTTATTCAAGTGCAAAGAGTTAGTGTTCATATCCTTGGCTGATAATAGGTTGGAAGGGATTC
TACCAAAAGAAATAGGAAACTTGAAAATGCTTACAAAACTATATCTCGACAACAACCTGTTCGAA
GGTAAACCGAAAGCAGTTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACGGCAATATCTACTT
TGTTTGGTAACAAACTTCATTTTTATCAATTTTTTACCAAGTAAAATTTTAAAGTTCATTTT
Found at i:5975123 original size:74 final size:74
Alignment explanation
Indices: 5975035--5975183 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
5975025 CGTGGTTCAA
5975035 TCAATTTATCAAATCAATCTAGTGTGATTCCAACAACACTAACCAAATATAGATATAGATAATAT
1 TCAATTTATCAAATCAATCTAGTGTGATTCCAACAACACTAACCAAATATAGATATAGATAATAT
5975100 TGTGATAAT
66 TGTGATAAT
*
5975109 TCAATTTATCAAATCAATCTAGTTTGATTCCAACAACACTAACCAAATATAGATATAGATAATAT
1 TCAATTTATCAAATCAATCTAGTGTGATTCCAACAACACTAACCAAATATAGATATAGATAATAT
5975174 TGTGATAAT
66 TGTGATAAT
5975183 T
1 T
5975184 AGGAGTAGAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (74 bp):
TCAATTTATCAAATCAATCTAGTGTGATTCCAACAACACTAACCAAATATAGATATAGATAATAT
TGTGATAAT
Found at i:5977046 original size:21 final size:23
Alignment explanation
Indices: 5977001--5977046 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
5976991 TCAATTAGAT
* *
5977001 TTATTTTTATGAATTTTTCATAA
1 TTATTTTTATGAATTTTTAAGAA
5977024 TTATTTTT-T-AATTTTTAAGAA
1 TTATTTTTATGAATTTTTAAGAA
5977045 TT
1 TT
5977047 TCTAATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 1 0.05
23 8 0.38
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
TTATTTTTATGAATTTTTAAGAA
Found at i:5980288 original size:46 final size:46
Alignment explanation
Indices: 5980218--5980339 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
5980208 AATAATATTA
* * *
5980218 TCCAAATGCATAACTAGTAGTACACCACATGATAACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
5980264 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
5980310 TCCAAGTGCATAACTAATATTACACCACAT
1 TCCAAGTGCATAACTAATATTACACCACAT
5980340 TAAAAGTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.24
Consensus pattern (46 bp):
TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
Found at i:5981348 original size:32 final size:32
Alignment explanation
Indices: 5981292--5981352 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
5981282 TGTCAATCAT
5981292 TTCAATATCCAAAAAGCTTAAAACATAATAAA
1 TTCAATATCCAAAAAGCTTAAAACATAATAAA
* *
5981324 TTCAATATCTAACAAA-CTTGAAACATAAT
1 TTCAATATCCAA-AAAGCTTAAAACATAAT
5981353 CAATATCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAAAAAGCTTAAAACATAATAAA
Found at i:5981376 original size:27 final size:27
Alignment explanation
Indices: 5981325--5981378 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
5981315 CATAATAAAT
*
5981325 TCAATATCTAACAAACTTGAAACATAA
1 TCAATATCTAACAAACTTCAAACATAA
5981352 TCAATATCTAACAAA-TTCAAGACATAA
1 TCAATATCTAACAAACTTCAA-ACATAA
5981379 GAATTTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAACTTCAAACATAA
Found at i:5983155 original size:20 final size:20
Alignment explanation
Indices: 5983113--5983170 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
5983103 GCCCATTAAG
*
5983113 CCCCCCCCAAAAAAAACCTAA
1 CCCCCCCCAAAAAAAA-CAAA
5983134 CCCCCCCCAAAAAAGAA-AAA
1 CCCCCCCCAAAAAA-AACAAA
**
5983154 CCTAACCCCAAAAAAAA
1 CC-CCCCCCAAAAAAAA
5983171 AACCAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 6 0.19
21 24 0.75
22 2 0.06
ACGTcount: A:0.53, C:0.41, G:0.02, T:0.03
Consensus pattern (20 bp):
CCCCCCCCAAAAAAAACAAA
Found at i:5983170 original size:25 final size:25
Alignment explanation
Indices: 5983124--5983172 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5983114 CCCCCCCAAA
****
5983124 AAAAACCTAACCCCCCCCAAAAAAG
1 AAAAACCTAACCCCAAAAAAAAAAG
5983149 AAAAACCTAACCCCAAAAAAAAAA
1 AAAAACCTAACCCCAAAAAAAAAA
5983173 CCAAGAAACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.61, C:0.33, G:0.02, T:0.04
Consensus pattern (25 bp):
AAAAACCTAACCCCAAAAAAAAAAG
Found at i:5985657 original size:12 final size:12
Alignment explanation
Indices: 5985640--5985675 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
5985630 ATTCATTTGA
5985640 CATTCATGCATT
1 CATTCATGCATT
5985652 CATTCATGCATT
1 CATTCATGCATT
*
5985664 CATTCATACATT
1 CATTCATGCATT
5985676 GCATATCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:5994114 original size:69 final size:70
Alignment explanation
Indices: 5993940--5994114 Score: 226
Period size: 71 Copynumber: 2.5 Consensus size: 70
5993930 TTTTCAAGGG
* * * *
5993940 AAATCAACTCATATTGCGAGAGATGAGTTGGGCCTCAAGACACGTTGAGGTATTTTTAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
5994005 TTTTCA
66 TTTT-A
* ** * *
5994011 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
5994076 TTTT-
66 TTTTA
** *
5994080 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
5994115 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTTA
Found at i:5994235 original size:72 final size:71
Alignment explanation
Indices: 5994127--5994562 Score: 258
Period size: 72 Copynumber: 6.0 Consensus size: 71
5994117 TAATTTTTAT
** * * *
5994127 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
5994192 TTTTTG
66 TTTCTG
* *
5994198 TATTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCA
1 T-TTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
5994263 ATTTCTG
65 ATTTCTG
* * * * ** * *** *** * ***
5994270 TTTTCAATTT--A--CAT-TGTTCAAGA-ATCAACTCATATTGCGAGAGGTGGGTTGA-ACCTTT
1 TTTTCAATTTCAACTCATAT-TGCGAGAGGTGAGTTGAGCCT-C-AG-GGCACGCTGAGGTATTT
*
5994328 T-AATTTCTACT
62 TCAATTTCT--G
** * * * *
5994339 TTTTCAAAATCAGCTCATATTGCGAGAGGTGGGTTGAGCCTCATGTCACGCTGAGGTATTTTCAA
1 TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
5994404 TTTCTG
66 TTTCTG
* ** * * *
5994410 TCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC-------AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
*
5994475 AATTTCAATTTCTG
58 ATTTTCAATTTCTG
* ** * * * *
5994489 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTC-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
5994554 ATTTCTG
65 ATTTCTG
5994561 TT
1 TT
5994563 CAAAATGAGT
Statistics
Matches: 281, Mismatches: 61, Indels: 45
0.73 0.16 0.12
Matches are distributed among these distances:
66 6 0.02
67 16 0.06
68 6 0.02
69 14 0.05
71 15 0.05
72 141 0.50
73 16 0.06
74 5 0.02
78 4 0.01
79 58 0.21
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTCTG
Found at i:5994443 original size:79 final size:72
Alignment explanation
Indices: 5994339--5994562 Score: 306
Period size: 72 Copynumber: 3.0 Consensus size: 72
5994329 AATTTCTACT
* ** * * * * *
5994339 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGGGTTGAGCCTCATGTCACGCTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
5994403 ATTTCTG
66 ATTTCTG
5994410 TCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
5994475 AATTTCAATTTCTG
59 AATTTCAATTTCTG
5994489 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
5994554 ATTTCTG
66 ATTTCTG
5994561 TT
1 TT
5994563 CAAAATGAGT
Statistics
Matches: 137, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
71 1 0.01
72 73 0.53
78 8 0.06
79 55 0.40
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:5994573 original size:49 final size:49
Alignment explanation
Indices: 5994516--5994611 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
5994506 ATATTGCGAG
*
5994516 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
5994565 AAATGAGTTGAGCCTCAAGACCCGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
5994612 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:5994658 original size:121 final size:121
Alignment explanation
Indices: 5994444--5994683 Score: 401
Period size: 121 Copynumber: 2.0 Consensus size: 121
5994434 ATATTGCGAG
*
5994444 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
5994509 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTAAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
5994565 AAATGAGTTGAGCCTCAAGACCCGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
5994630 TTGCGAGAAATTAGTTGAGCC-AATAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTAA-AGACACGCTGAGGTAATTTCAATTTCTGTT
5994684 TTTTAAAAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
120 1 0.01
121 110 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTAAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:5994723 original size:77 final size:74
Alignment explanation
Indices: 5994565--5994913 Score: 398
Period size: 75 Copynumber: 4.7 Consensus size: 74
5994555 TTTCTGTTCA
* *
5994565 AAATGAGTTGAGCCTCAAGACCCGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
5994628 TATTGCGAG
66 TATTGCGAG
* * * * *
5994637 AAATTAGTTGAGCC-AATAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAAATCAA
1 AAATGAGTTGAGCCTCA-AGACACGCTGAGGTAATTTCAATTTCTG--TTTT-CAAAAAAATCAA
*
5994701 CTCATATTGTGAG
62 CTCATATTGCGAG
* *
5994714 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAAAAATCAACTC
5994779 ATATTGCGAG
65 ATATTGCGAG
** * * *
5994789 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCG
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
*
5994854 TATTGTGAG
66 TATTGCGAG
*** * ** * *
5994863 AGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCCGTTTT
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTAATTTCAATTTCTGTTTT
5994914 TCAATTTCTG
Statistics
Matches: 242, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
71 1 0.00
72 38 0.16
74 48 0.20
75 63 0.26
76 30 0.12
77 61 0.25
78 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (74 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
TATTGCGAG
Found at i:5994759 original size:198 final size:195
Alignment explanation
Indices: 5994371--5994760 Score: 525
Period size: 198 Copynumber: 2.0 Consensus size: 195
5994361 CGAGAGGTGG
* * *
5994371 GTTGAGCCTCATGTCACGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATTCAACTCAT
1 GTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTTTC-----AAAAATTCAACTCAT
* * * *
5994436 ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTC
61 ATTGCGAGAAATGAGTTGAGCCTAAAGACACGCTGAGGTAATTTCAATTTCTGTTTTAAAAAATC
*
5994501 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCAA
126 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCAA
5994566 AATGA
191 AATGA
*
5994571 GTTGAGCCTCAAGACCCGCTGAGGTAATTTCAATTTCTGT-TTTC-AAAATTCAACTCATATTGC
1 GTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAAAAATTCAACTCATATTGC
* * *
5994634 GAGAAATTAGTTGAGCC-AATAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAAAT
66 GAGAAATGAGTTGAGCCTAA-AGACACGCTGAGGTAATTTCAATTTCTG--TTTT---AAAAAAT
* * *
5994698 CAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
125 CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
5994761 TTTCAAAAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
192 1 0.01
193 60 0.36
195 4 0.02
198 64 0.38
199 4 0.02
200 36 0.21
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (195 bp):
GTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAAAAATTCAACTCATATTGC
GAGAAATGAGTTGAGCCTAAAGACACGCTGAGGTAATTTCAATTTCTGTTTTAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCAAAATGA
Found at i:5994816 original size:75 final size:75
Alignment explanation
Indices: 5994565--5994917 Score: 419
Period size: 77 Copynumber: 4.7 Consensus size: 75
5994555 TTTCTGTTCA
* * *
5994565 AAATGAGTTGAGCCTCAAGACCCGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
5994627 ATATTGCGAG
66 ATATTGCGAG
* * * *
5994637 AAATTAGTTGAGCC-AATAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAAAATCAA
1 AAATGAGTTGAGCCTCA-AGACACGCTGAGGTATTTTCAATTTCTG-TTTTT-CAAAAAAATCAA
*
5994701 CTCATATTGTGAG
63 CTCATATTGCGAG
*
5994714 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
5994779 ATATTGCGAG
66 ATATTGCGAG
** * * *
5994789 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* *
5994853 GTATTGTGAG
66 ATATTGCGAG
*** * ** *
5994863 AGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
5994918 TTTCTGCCTT
Statistics
Matches: 245, Mismatches: 26, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
71 1 0.00
72 38 0.16
74 48 0.20
75 63 0.26
76 27 0.11
77 67 0.27
78 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAG
Found at i:5994843 original size:149 final size:150
Alignment explanation
Indices: 5994565--5994917 Score: 439
Period size: 149 Copynumber: 2.4 Consensus size: 150
5994555 TTTCTGTTCA
* * *
5994565 AAATGAGTTGAGCCTCAAGACCCGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* * * *
5994627 ATATTGCGAGAAATTAGTTGAGCCAATAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTAAAA
66 ATATTGCGAGAAATGAGTTGAGCC-ATAGACACGCTGAGGTAATTTCAATTTCTG-TTTGTAAAA
5994692 AAAAATCAACTCATATTGTGAG
129 AAAAATCAACTCATATTGTGAG
*
5994714 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
** *
5994779 ATATTGCGAGAGGTGAGTTGAGCC-TCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGT-CAA
66 ATATTGCGAGAAATGAGTTGAGCCAT-A-GACACGCTGAGGTAATTTCAATTTCTGTTTGTAAAA
*
5994841 AAAAATCAACTCGTATTGTGAG
129 AAAAATCAACTCATATTGTGAG
*** * ** *
5994863 AGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
5994918 TTTCTGCCTT
Statistics
Matches: 177, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
149 80 0.45
150 9 0.05
151 31 0.18
152 57 0.32
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (150 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCATAGACACGCTGAGGTAATTTCAATTTCTGTTTGTAAAAAA
AAATCAACTCATATTGTGAG
Found at i:5995028 original size:230 final size:228
Alignment explanation
Indices: 5994760--5995226 Score: 591
Period size: 230 Copynumber: 2.0 Consensus size: 228
5994750 CAATTTCTGT
* *
5994760 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTA-AT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACACACTGAGGTATAT
* ** *
5994823 TTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACA
66 TTCAATTTATAGTTGTCAAAAAAATCAACTCACATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
** *
5994887 CGCCAAGGTATTTTCAATTTCCGTTTTTCA-ATTTCTGCCTTTCAAAAAAAAATCAACTCATATT
131 CGCCAAGGTATTTTCAAAATCCATTTTTCAGA-TTCTG-CTTTC----AAAAATCAACTCATATT
*
5994951 GCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
190 GCGAGAAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
*
5994990 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CACACACTGAGGTA-T
* * * * * * *
5995055 TTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGATATGTGAGTTGAGCCTCGGGTCA
64 ATTTCAATTTATAGTTGTCAAAAAAATCAACTCACATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
** * * * * *
5995120 CTTGTCGAGGTATTTTCAAAATCTATTTTTCAGATTCTGTTTTCAAAAATCAACTTATATTGCGA
129 CACGCCAAGGTATTTTCAAAATCCATTTTTCAGATTCTGCTTTCAAAAATCAACTCATATTGCGA
* *
5995185 GAAGTGAGTTGAGCCTTGGCTCAGGTGCTGAGCTA
194 GAAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
5995220 TTTTCAA
1 TTTTCAA
5995227 TTTCTATTTT
Statistics
Matches: 204, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
230 105 0.51
232 12 0.06
234 14 0.07
235 72 0.35
236 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (228 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACACACTGAGGTATAT
TTCAATTTATAGTTGTCAAAAAAATCAACTCACATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
CGCCAAGGTATTTTCAAAATCCATTTTTCAGATTCTGCTTTCAAAAATCAACTCATATTGCGAGA
AGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
Found at i:5995049 original size:63 final size:63
Alignment explanation
Indices: 5994932--5995056 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
5994922 TGCCTTTCAA
* * * *
5994932 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTC
*
5994995 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGATCACACACTGAGCTATTTT
5995057 TTCAATTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 3 0.05
63 53 0.95
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (63 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTC
Found at i:5995225 original size:88 final size:88
Alignment explanation
Indices: 5995076--5995237 Score: 209
Period size: 88 Copynumber: 1.8 Consensus size: 88
5995066 TATTTTTCAA
* * * * *
5995076 AAAAATCAACTCACATTGCGATATGTGAGTTGAGCCTCGGGTCACTTGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACGTGTCGAGCTATTTTCAAAA
5995141 TCTATTTTTCAGATTCTGTTTTC
66 TCTATTTTTCAGATTCTGTTTTC
* * * * *
5995164 AAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTGGCTCAGGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACGTGTC-GAGCTATTTTCAAA
*
5995228 TTCTATTTTT
65 ATCTATTTTT
5995238 TTTCAAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
87 1 0.02
88 61 0.98
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACGTGTCGAGCTATTTTCAAAA
TCTATTTTTCAGATTCTGTTTTC
Found at i:5995296 original size:30 final size:30
Alignment explanation
Indices: 5995260--5995319 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
5995250 TCAACTCATA
5995260 TTGCGAGAGGTGAGTTGAG-CTTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTC-TTTTAATTT
*
5995290 TTGCGAGAGTTGAGTTGAGTCTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
5995320 CTATTTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (30 bp):
TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
Found at i:5996182 original size:24 final size:24
Alignment explanation
Indices: 5996147--5996199 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
5996137 AAGCCCCCTC
5996147 AAAAAAAAACCTAA-CCAAAAAAA
1 AAAAAAAAACCTAACCCAAAAAAA
*
5996170 AAAAGAAAAACCTAACCCCAAAAAA
1 AAAA-AAAAACCTAACCCAAAAAAA
5996195 AAAAA
1 AAAAA
5996200 CCAAGAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 11 0.41
25 12 0.44
ACGTcount: A:0.75, C:0.19, G:0.02, T:0.04
Consensus pattern (24 bp):
AAAAAAAAACCTAACCCAAAAAAA
Found at i:5996212 original size:29 final size:26
Alignment explanation
Indices: 5996147--5996215 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
5996137 AAGCCCCCTC
5996147 AAAA-AAAAACCTAAC--CAAAAAAA
1 AAAACAAAAACCTAACCCCAAAAAAA
*
5996170 AAAAGAAAAACCTAACCCCAAAAAAA
1 AAAACAAAAACCTAACCCCAAAAAAA
5996196 AAAACCAAGAAACCCTAACC
1 AAAA-CAA-AAA-CCTAACC
5996216 ACCTAGCCAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 4 0.10
24 11 0.28
26 12 0.31
27 2 0.05
28 3 0.08
29 7 0.18
ACGTcount: A:0.68, C:0.25, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAACAAAAACCTAACCCCAAAAAAA
Found at i:5998287 original size:22 final size:22
Alignment explanation
Indices: 5998262--5998305 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5998252 TTACAATATC
5998262 AATATTTTGAAAACTCAATTAA
1 AATATTTTGAAAACTCAATTAA
5998284 AATATTTTGAAAACTCAATTAA
1 AATATTTTGAAAACTCAATTAA
5998306 CTTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (22 bp):
AATATTTTGAAAACTCAATTAA
Found at i:6002788 original size:26 final size:27
Alignment explanation
Indices: 6002758--6002823 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
6002748 TATAGAATAA
*
6002758 AAATAAAAAATATAATAAATGT-TATG
1 AAATAAAAAATATAATAAATGTATAGG
* * **
6002784 TAATAAAATATATTTTAAATGTATAGG
1 AAATAAAAAATATAATAAATGTATAGG
*
6002811 AAATAAGAAATAT
1 AAATAAAAAATAT
6002824 GATAGTATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATAAAAAATATAATAAATGTATAGG
Found at i:6002891 original size:21 final size:21
Alignment explanation
Indices: 6002866--6002924 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
6002856 AATAATTAAC
6002866 AAATATATAATACAAGTAAAA
1 AAATATATAATACAAGTAAAA
* *
6002887 AAATATAATAATA-ATGCAAAA
1 AAATAT-ATAATACAAGTAAAA
6002908 AAATA-AT-ATACAA-TAAA
1 AAATATATAATACAAGTAAA
6002925 TAACAATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 6 0.19
19 3 0.09
21 17 0.53
22 6 0.19
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (21 bp):
AAATATATAATACAAGTAAAA
Found at i:6008748 original size:21 final size:22
Alignment explanation
Indices: 6008721--6008777 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
6008711 ATATATTAAA
6008721 TTATTATTATTATTTATTATAG
1 TTATTATTATTATTTATTATAG
* *
6008743 TT-TTA-TATTTAATTATTATTG
1 TTATTATTA-TTATTTATTATAG
*
6008764 TTATTGTTATTATT
1 TTATTATTATTATT
6008778 ATTTAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 8 0.29
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTTATTATAG
Found at i:6009409 original size:23 final size:21
Alignment explanation
Indices: 6009362--6009402 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
6009352 TTTGGTTAAA
6009362 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
6009384 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
6009403 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:6009780 original size:15 final size:15
Alignment explanation
Indices: 6009732--6009781 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
6009722 TTTATCAAAT
6009732 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * * *
6009747 TCATTTTGATTTAAT
1 TTATATTGATTGAAA
6009762 TTATATTGATTGAAA
1 TTATATTGATTGAAA
6009777 TTATA
1 TTATA
6009782 ATATATATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:6009796 original size:13 final size:13
Alignment explanation
Indices: 6009778--6009802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6009768 TGATTGAAAT
6009778 TATAATATATATA
1 TATAATATATATA
6009791 TATAATATATAT
1 TATAATATATAT
6009803 GATTTATGTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATATATATA
Found at i:6010449 original size:18 final size:19
Alignment explanation
Indices: 6010426--6010466 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6010416 AATGAAATGA
6010426 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
6010444 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
6010463 GAAA
1 GAAA
6010467 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:6010464 original size:13 final size:13
Alignment explanation
Indices: 6010414--6010453 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
6010404 TTGAGCTATT
6010414 AGAA-TGAAA-TG
1 AGAATTGAAATTG
6010425 AGAAATTG-AATTG
1 AG-AATTGAAATTG
6010438 AGAATTGAAATTG
1 AGAATTGAAATTG
6010451 AGA
1 AGA
6010454 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:6015297 original size:51 final size:52
Alignment explanation
Indices: 6015221--6015343 Score: 178
Period size: 51 Copynumber: 2.4 Consensus size: 52
6015211 TCCCAAACTT
* * * *
6015221 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
6015272 ACTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
6015323 GCTTCATATTTCATCCGGATA
1 ACTTCATATTTCATCCGGATA
6015344 ACTTAGGTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 64 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (52 bp):
ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:6016230 original size:16 final size:16
Alignment explanation
Indices: 6016192--6016241 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6016182 TCTATAATTC
*
6016192 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
6016209 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
6016225 ATATAATAATTTAATA
1 ATATAATAATTAAATA
6016241 A
1 A
6016242 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:6017948 original size:5 final size:5
Alignment explanation
Indices: 6017935--6017965 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6017925 CATCTTCCAA
*
6017935 CTGAG CTGAT CTGAT CTGAT CTGAT CTGAT C
1 CTGAT CTGAT CTGAT CTGAT CTGAT CTGAT C
6017966 AAACATTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (5 bp):
CTGAT
Found at i:6022986 original size:51 final size:52
Alignment explanation
Indices: 6022910--6023032 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 52
6022900 TCCCAAACTT
* * * *
6022910 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAAA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAAA
* *
6022961 ACTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAAA
*
6023012 GCTTCATATTTCATCCGGATA
1 ACTTCATATTTCATCCGGATA
6023033 ACTTAGTTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (52 bp):
ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAAA
Found at i:6024113 original size:14 final size:14
Alignment explanation
Indices: 6024096--6024124 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6024086 CACTTAATTA
6024096 AAGCCTAATTAAAC
1 AAGCCTAATTAAAC
6024110 AAGCCTAATTAAAC
1 AAGCCTAATTAAAC
6024124 A
1 A
6024125 CGTTATTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAGCCTAATTAAAC
Found at i:6035220 original size:5 final size:5
Alignment explanation
Indices: 6035172--6035241 Score: 52
Period size: 5 Copynumber: 12.8 Consensus size: 5
6035162 AATCTTTAAT
6035172 TTTTAA TTTTAA TTTTA -TTTA TTATTA TTATTTA TTTCTTA TTTTA TTTTA
1 TTTT-A TTTT-A TTTTA TTTTA TT-TTA -T-TTTA -TT-TTA TTTTA TTTTA
* *
6035223 TTTCA TTTTG TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
6035242 TAATTATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
4 4 0.07
5 25 0.45
6 16 0.29
7 9 0.16
8 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:6035226 original size:17 final size:17
Alignment explanation
Indices: 6035177--6035240 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
6035167 TTAATTTTTA
*
6035177 ATTTTAATTTTATTTATT
1 ATTTT-ATTTTATTTCTT
6035195 ATTATTA-TTTATTTCTT
1 ATT-TTATTTTATTTCTT
6035212 ATTTTATTTTATTTC--
1 ATTTTATTTTATTTCTT
*
6035227 ATTTTGTTTTATTT
1 ATTTTATTTTATTT
6035241 TTAATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
15 13 0.31
16 3 0.07
17 20 0.48
18 4 0.10
19 2 0.05
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTATTTCTT
Found at i:6036238 original size:96 final size:94
Alignment explanation
Indices: 6036055--6036229 Score: 221
Period size: 96 Copynumber: 1.9 Consensus size: 94
6036045 GAATGCGTTG
* * * *
6036055 GGCTGAGTAACCAGGGTTTGGTGCTTGGTTGTCAGCACTCTTCGCGTCAAAAGGTTCCACATGTT
1 GGCTGAGTAACCAGGGTTTGGTGCTTGGCTATCAGCACTCTTCGCGTCAAAAGGTTCAACA-GTA
** *
6036120 CTTAGGAAAAATAAAAATAAAAAGTATGTTA
65 AATA-GAAAAATAAAAAAAAAAAGTATGTTA
*
6036151 GGCTGAGTAACC-GGAGTTTGGTGCTTGGCTATCATCACTCTTCGCGTCAAAAGGTTCAACA-TA
1 GGCTGAGTAACCAGG-GTTTGGTGCTTGGCTATCAGCACTCTTCGCGTCAAAAGGTTCAACAGTA
6036214 AATA-AATAAATAAAAA
65 AATAGAA-AAATAAAAA
6036230 GAGAAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
92 2 0.03
93 9 0.13
94 3 0.04
95 2 0.03
96 54 0.77
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (94 bp):
GGCTGAGTAACCAGGGTTTGGTGCTTGGCTATCAGCACTCTTCGCGTCAAAAGGTTCAACAGTAA
ATAGAAAAATAAAAAAAAAAAGTATGTTA
Found at i:6036832 original size:15 final size:15
Alignment explanation
Indices: 6036812--6036841 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6036802 CATTTTATTT
*
6036812 ATATTAGGATAATTA
1 ATATTAAGATAATTA
6036827 ATATTAAGATAATTA
1 ATATTAAGATAATTA
6036842 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:6039088 original size:16 final size:15
Alignment explanation
Indices: 6039044--6039095 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 15
6039034 ATATTGACTA
6039044 TTTTTTAT-ATTATT
1 TTTTTTATAATTATT
6039058 TATTTTTAATAAATTATT
1 T-TTTTT-AT-AATTATT
6039076 CTTTTTTATAATTACTT
1 -TTTTTTATAATTA-TT
6039093 TTT
1 TTT
6039096 AATTTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.03
15 5 0.16
16 10 0.31
17 4 0.12
18 11 0.34
19 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTATAATTATT
Done.