Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 12 of 295
Found at i:3722493 original size:21 final size:21
Alignment explanation
Indices: 3722469--3722510 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3722459 TTTTATTTGG
3722469 ACTAAATTTATTTTAATTACT
1 ACTAAATTTATTTTAATTACT
3722490 ACTAAATTTATTTTAATTACT
1 ACTAAATTTATTTTAATTACT
3722511 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (21 bp):
ACTAAATTTATTTTAATTACT
Found at i:3722834 original size:7 final size:7
Alignment explanation
Indices: 3722819--3722916 Score: 63
Period size: 7 Copynumber: 13.4 Consensus size: 7
3722809 TTAATTATCA
*
3722819 TTATAGT
1 TTATGGT
3722826 TTATGGT
1 TTATGGT
3722833 TTATGGT
1 TTATGGT
*
3722840 TTAAT-AT
1 TT-ATGGT
*
3722847 ATATGGT
1 TTATGGT
*
3722854 TTAGGGT
1 TTATGGT
3722861 TTATGGT
1 TTATGGT
3722868 TTATGAGT
1 TTATG-GT
3722876 TAACTATGGT
1 T---TATGGT
* *
3722886 TTAAGAT
1 TTATGGT
*
3722893 ATATGGT
1 TTATGGT
*
3722900 TTAGGGT
1 TTATGGT
*
3722907 TTAAGGT
1 TTATGGT
3722914 TTA
1 TTA
3722917 AGAGTTAACT
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
6 2 0.03
7 56 0.80
8 5 0.07
10 3 0.04
11 4 0.06
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:3722888 original size:46 final size:46
Alignment explanation
Indices: 3722834--3722927 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
3722824 GTTTATGGTT
* * *
3722834 TATGGTTTAATATATATGGTTTAGGGTTTATGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
3722880 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
3722926 TA
1 TA
3722928 GTATTTGAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:3723020 original size:7 final size:7
Alignment explanation
Indices: 3723009--3723075 Score: 64
Period size: 7 Copynumber: 9.3 Consensus size: 7
3722999 TTAAGGTGTA
3723009 AGGGTTT
1 AGGGTTT
*
3723016 GGGGTTT
1 AGGGTTT
3723023 AGGGTTT
1 AGGGTTT
3723030 AGGGTTT
1 AGGGTTT
*
3723037 AGTGTTT
1 AGGGTTT
*
3723044 ATGGG-AT
1 A-GGGTTT
*
3723051 AGGAGTTA
1 AGG-GTTT
3723059 AGAGGTTT
1 AG-GGTTT
3723067 AGGGTTT
1 AGGGTTT
3723074 AG
1 AG
3723076 ATTAATTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
6 2 0.04
7 36 0.75
8 9 0.19
9 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:3723022 original size:22 final size:21
Alignment explanation
Indices: 3722992--3723036 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
3722982 GGGGTTATGG
3722992 TTGGAGTTTAAGGTGTAAGGGT
1 TTGGAGTTTAAGGT-TAAGGGT
* * *
3723014 TTGGGGTTTAGGGTTTAGGGT
1 TTGGAGTTTAAGGTTAAGGGT
3723035 TT
1 TT
3723037 AGTGTTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (21 bp):
TTGGAGTTTAAGGTTAAGGGT
Found at i:3723028 original size:14 final size:14
Alignment explanation
Indices: 3722954--3723075 Score: 70
Period size: 14 Copynumber: 8.6 Consensus size: 14
3722944 GATGAATTAT
*
3722954 GGGTTTAGGGATTA
1 GGGTTTAGGGTTTA
* * *
3722968 TGATTTAAGGTTTA
1 GGGTTTAGGGTTTA
* *
3722982 GGGGTTATGG-TT-
1 GGGTTTAGGGTTTA
* *
3722994 GGAGTTTAAGGTGTAA
1 GG-GTTTAGGGT-TTA
*
3723010 GGGTTTGGGGTTTA
1 GGGTTTAGGGTTTA
3723024 GGGTTTAGGGTTTA
1 GGGTTTAGGGTTTA
* *
3723038 GTGTTTATGGG-ATA
1 GGGTTTA-GGGTTTA
*
3723052 GGAGTTAAGAGGTTTA
1 GG-GTTTAG-GGTTTA
3723068 GGGTTTAG
1 GGGTTTAG
3723076 ATTAATTAGT
Statistics
Matches: 79, Mismatches: 21, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
12 2 0.03
13 8 0.10
14 41 0.52
15 22 0.28
16 6 0.08
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.39
Consensus pattern (14 bp):
GGGTTTAGGGTTTA
Found at i:3723043 original size:21 final size:21
Alignment explanation
Indices: 3722954--3723075 Score: 70
Period size: 21 Copynumber: 5.7 Consensus size: 21
3722944 GATGAATTAT
* * *
3722954 GGGTTTAGGGATTATGATTTA
1 GGGTTTAGGGTTTAGGGTTTA
* * *
3722975 AGGTTTAGGGGTTATGG-TT-
1 GGGTTTAGGGTTTAGGGTTTA
* * *
3722994 GGAGTTTAAGGTGTAAGGGTTTG
1 GG-GTTTAGGGT-TTAGGGTTTA
3723017 GGGTTTAGGGTTTAGGGTTTA
1 GGGTTTAGGGTTTAGGGTTTA
* * *
3723038 GTGTTTATGGG-ATAGGAGTTAA
1 GGGTTTA-GGGTTTAGG-GTTTA
3723060 GAGGTTTAGGGTTTAG
1 G-GGTTTAGGGTTTAG
3723076 ATTAATTAGT
Statistics
Matches: 77, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.01
20 9 0.12
21 36 0.47
22 21 0.27
23 10 0.13
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.39
Consensus pattern (21 bp):
GGGTTTAGGGTTTAGGGTTTA
Found at i:3724256 original size:25 final size:25
Alignment explanation
Indices: 3724228--3724291 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
3724218 ATTCAAAACT
3724228 CACCGTTTCAATTG-TTCCTACCACG
1 CACCGTTTCAATTGTTTCC-ACCACG
3724253 CACCGTTTCAATTGTTTCCACCACG
1 CACCGTTTCAATTGTTTCCACCACG
3724278 CACCGTTTCAATTG
1 CACCGTTTCAATTG
3724292 ATTTTACAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 34 0.89
26 4 0.11
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (25 bp):
CACCGTTTCAATTGTTTCCACCACG
Found at i:3729004 original size:43 final size:43
Alignment explanation
Indices: 3728955--3729225 Score: 357
Period size: 43 Copynumber: 6.3 Consensus size: 43
3728945 TTTTATAAAT
* *
3728955 AAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTCCAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
3728998 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
3729041 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
3729084 AAACGCCGCTAAAGACTAGGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
3729127 AAACGCCGCGAAAGACCAGGACCTTTGGCGGCGCTTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCAC
* * * * ** *
3729171 AAATGCCACTATAGA--ATAGACCTTTAGCGGCGTTTTTTACAT
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
*
3729213 AAACGCCGTTAAA
1 AAACGCCGCTAAA
3729226 AATATATCTT
Statistics
Matches: 203, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
42 16 0.08
43 167 0.82
44 20 0.10
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:3729547 original size:43 final size:43
Alignment explanation
Indices: 3729499--3729589 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
3729489 ACATATGCAA
* * *
3729499 GGTAATAAAATATACAATGCATTTTCTTAATC-AAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAG-AAATCTT
*
3729542 GGTAATAAAAGATATAATACATTTACTTAATCAAAGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
3729585 -GTAAT
1 GGTAAT
3729590 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 35 0.81
44 3 0.07
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
Found at i:3733242 original size:6 final size:6
Alignment explanation
Indices: 3733231--3733258 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3733221 TTTATGTAAG
3733231 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
3733259 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:3733367 original size:13 final size:13
Alignment explanation
Indices: 3733349--3733375 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3733339 ATTGTCAATC
3733349 TGTTACATTAATT
1 TGTTACATTAATT
3733362 TGTTACATTAATT
1 TGTTACATTAATT
3733375 T
1 T
3733376 ATTTATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:3733842 original size:21 final size:21
Alignment explanation
Indices: 3733818--3733882 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
3733808 TTAAACATTA
* *
3733818 AATCACTAACTCTTAACCTCT
1 AATCACTAACTCCTAACCCCT
* *
3733839 AATCTCTAACCCCTAACCCCT
1 AATCACTAACTCCTAACCCCT
* *
3733860 AATCCCTAACTACTAACCCCT
1 AATCACTAACTCCTAACCCCT
3733881 AA
1 AA
3733883 ATCTTATTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (21 bp):
AATCACTAACTCCTAACCCCT
Found at i:3733854 original size:7 final size:7
Alignment explanation
Indices: 3733844--3733882 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
3733834 CCTCTAATCT
3733844 CTAACCC
1 CTAACCC
3733851 CTAACCC
1 CTAACCC
*
3733858 CTAATCC
1 CTAACCC
**
3733865 CTAACTA
1 CTAACCC
3733872 CTAACCC
1 CTAACCC
3733879 CTAA
1 CTAA
3733883 ATCTTATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAACCC
Found at i:3734163 original size:40 final size:40
Alignment explanation
Indices: 3734120--3734311 Score: 257
Period size: 40 Copynumber: 4.8 Consensus size: 40
3734110 AATATATTTA
* *
3734120 TTTTTTT-AATTTTAAAATATTTTTTACATACTTTTTTTAAT
1 TTTTTTTAAATTTTAAAATATTTTTAAAATA--TTTTTTAAT
3734161 TTTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTAAT
1 TTTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTAAT
3734201 TTTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTAAT
1 TTTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTAAT
* *
3734241 TTTTTTT-AATTTTAAAATATTTTAAAAATATTTTTAAAAT
1 TTTTTTTAAATTTTAAAATATTTTTAAAATATTTTT-TAAT
* *
3734281 AATTTTTTTAATTTTTTAAA-A-TTTTAAAATA
1 --TTTTTTTAAATTTTAAAATATTTTTAAAATA
3734312 AAAATGGGCC
Statistics
Matches: 139, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
39 27 0.19
40 59 0.42
41 16 0.12
42 29 0.21
43 8 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTTTTAAATTTTAAAATATTTTTAAAATATTTTTTAAT
Found at i:3734164 original size:10 final size:10
Alignment explanation
Indices: 3734151--3734253 Score: 66
Period size: 10 Copynumber: 10.3 Consensus size: 10
3734141 TTTTACATAC
3734151 TTTTTTTAAT
1 TTTTTTTAAT
3734161 TTTTTTTAA-
1 TTTTTTTAAT
* **
3734170 ATTTTAAAAT
1 TTTTTTTAAT
**
3734180 ATTTTTAAAAT
1 -TTTTTTTAAT
*
3734191 ATTTTTTAAT
1 TTTTTTTAAT
3734201 TTTTTTTAA-
1 TTTTTTTAAT
* **
3734210 ATTTTAAAAT
1 TTTTTTTAAT
**
3734220 ATTTTTAAAAT
1 -TTTTTTTAAT
*
3734231 ATTTTTTAAT
1 TTTTTTTAAT
3734241 TTTTTTTAAT
1 TTTTTTTAAT
3734251 TTT
1 TTT
3734254 AAAATATTTT
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
9 12 0.16
10 43 0.59
11 18 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:3734165 original size:11 final size:11
Alignment explanation
Indices: 3734151--3734253 Score: 64
Period size: 11 Copynumber: 10.3 Consensus size: 11
3734141 TTTTACATAC
3734151 TTTTTTT-AAT
1 TTTTTTTAAAT
3734161 TTTTTTTAAA-
1 TTTTTTTAAAT
*
3734171 --TTTTAAAAT
1 TTTTTTTAAAT
* *
3734180 ATTTTTAAAAT
1 TTTTTTTAAAT
*
3734191 ATTTTTT-AAT
1 TTTTTTTAAAT
3734201 TTTTTTTAAA-
1 TTTTTTTAAAT
*
3734211 --TTTTAAAAT
1 TTTTTTTAAAT
* *
3734220 ATTTTTAAAAT
1 TTTTTTTAAAT
*
3734231 ATTTTTT-AAT
1 TTTTTTTAAAT
3734241 TTTTTTT-AAT
1 TTTTTTTAAAT
3734251 TTT
1 TTT
3734254 AAAATATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
8 14 0.18
10 31 0.39
11 34 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:3734195 original size:29 final size:28
Alignment explanation
Indices: 3734162--3734230 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
3734152 TTTTTTAATT
3734162 TTTTTTAAATTTTAAAATATTTTTAAAATA
1 TTTTTTAAATTTTAAAA-A-TTTTAAAATA
* **
3734192 TTTTTTAATTTTTTTTAAATTTTAAAATA
1 TTTTTTAA-ATTTTAAAAATTTTAAAATA
*
3734221 TTTTTAAAAT
1 TTTTTTAAAT
3734231 ATTTTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 17 0.52
30 9 0.27
31 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTTAAATTTTAAAAATTTTAAAATA
Found at i:3734275 original size:28 final size:28
Alignment explanation
Indices: 3734222--3734277 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3734212 TTTAAAATAT
** * *
3734222 TTTTAAAATATTTTTTAATTTTTTTTAA
1 TTTTAAAATATTTTAAAAATATTTTTAA
3734250 TTTTAAAATATTTTAAAAATATTTTTAA
1 TTTTAAAATATTTTAAAAATATTTTTAA
3734278 AATAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATATTTTAAAAATATTTTTAA
Found at i:3734305 original size:10 final size:11
Alignment explanation
Indices: 3734171--3734302 Score: 104
Period size: 11 Copynumber: 12.8 Consensus size: 11
3734161 TTTTTTTAAA
3734171 TTTTAAAATAT
1 TTTTAAAATAT
3734182 TTTTAAAATAT
1 TTTTAAAATAT
*
3734193 TTTT-TAAT-T
1 TTTTAAAATAT
**
3734202 TTTTTTAA-A-
1 TTTTAAAATAT
3734211 TTTTAAAATAT
1 TTTTAAAATAT
3734222 TTTTAAAATAT
1 TTTTAAAATAT
*
3734233 TTTT-TAAT-T
1 TTTTAAAATAT
* *
3734242 TTTT---TTAA
1 TTTTAAAATAT
3734250 TTTTAAAATAT
1 TTTTAAAATAT
*
3734261 TTTAAAAATAT
1 TTTTAAAATAT
3734272 TTTTAAAATAAT
1 TTTTAAAAT-AT
**
3734284 TTTTTTAAT-T
1 TTTTAAAATAT
3734294 TTTTAAAAT
1 TTTTAAAAT
3734303 TTTAAAATAA
Statistics
Matches: 98, Mismatches: 14, Indels: 19
0.75 0.11 0.15
Matches are distributed among these distances:
7 1 0.01
8 4 0.04
9 16 0.16
10 18 0.18
11 50 0.51
12 9 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3734713 original size:21 final size:20
Alignment explanation
Indices: 3734691--3734760 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
3734681 AATCTTTAAA
3734691 CCCTAAATCACTAACTCTTAAC
1 CCCT-AATCACTAACTC-TAAC
* * *
3734713 CTCTAATCTCTAACCCCTAAC
1 CCCTAATCACTAA-CTCTAAC
*
3734734 CCCTAATCCCTAACTACTAAC
1 CCCTAATCACTAACT-CTAAC
3734755 CCCTAA
1 CCCTAA
3734761 ATCTTATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 34 0.85
22 5 0.12
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (20 bp):
CCCTAATCACTAACTCTAAC
Found at i:3734732 original size:7 final size:7
Alignment explanation
Indices: 3734722--3734760 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
3734712 CCTCTAATCT
3734722 CTAACCC
1 CTAACCC
3734729 CTAACCC
1 CTAACCC
*
3734736 CTAATCC
1 CTAACCC
**
3734743 CTAACTA
1 CTAACCC
3734750 CTAACCC
1 CTAACCC
3734757 CTAA
1 CTAA
3734761 ATCTTATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAACCC
Found at i:3735001 original size:14 final size:15
Alignment explanation
Indices: 3734982--3735010 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3734972 AACCAGAATT
3734982 CCTAAT-CCATAATC
1 CCTAATCCCATAATC
3734996 CCTAATCCCATAATC
1 CCTAATCCCATAATC
3735011 TATAAACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (15 bp):
CCTAATCCCATAATC
Found at i:3735478 original size:41 final size:41
Alignment explanation
Indices: 3735433--3735552 Score: 197
Period size: 40 Copynumber: 3.0 Consensus size: 41
3735423 TCAAAAACGG
3735433 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
3735474 GCATTAGCGGCGCTTCCTCAAAAACGTCGCTAAAGG-CTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
3735514 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
3735553 CAAAAACCCA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
40 36 0.51
41 35 0.49
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:3735647 original size:39 final size:39
Alignment explanation
Indices: 3735588--3735720 Score: 173
Period size: 39 Copynumber: 3.4 Consensus size: 39
3735578 GGGTTTAGGC
*
3735588 TTTTT-GCGGCGCTTTTCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTTCAAAAAGCGCCGCTAATGCTTGA
3735626 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT-CAAAAAGCGCCGCTAATGCTTGA
** *
3735666 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCA-AAAAGCGCCGCTAATGCTTGA
*
3735706 -TTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
3735721 TTGCCCGAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
38 9 0.11
39 40 0.47
40 36 0.42
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCAAAAAGCGCCGCTAATGCTTGA
Found at i:3746055 original size:13 final size:13
Alignment explanation
Indices: 3746037--3746062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3746027 AGGACTTATG
3746037 ACATATTTTAACC
1 ACATATTTTAACC
3746050 ACATATTTTAACC
1 ACATATTTTAACC
3746063 TTTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATATTTTAACC
Found at i:3749306 original size:26 final size:22
Alignment explanation
Indices: 3749253--3749313 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 22
3749243 ATCATCAATT
3749253 AATATACATATATATAAATATTC
1 AATAT-CATATATATAAATATTC
*
3749276 AATATCATATAGTATAATTCATATC
1 AATATCATATA-TATAAAT-AT-TC
3749301 ACATATCATATAT
1 A-ATATCATATAT
3749314 TAATAATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.18
23 11 0.33
24 2 0.06
25 4 0.12
26 10 0.30
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATCATATATATAAATATTC
Found at i:3758320 original size:18 final size:18
Alignment explanation
Indices: 3758297--3758331 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3758287 GTAAAGGATC
3758297 AGGATCAGCATCAGCCAA
1 AGGATCAGCATCAGCCAA
3758315 AGGATCAGCATCAGCCA
1 AGGATCAGCATCAGCCA
3758332 CAGCTAAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.23, T:0.11
Consensus pattern (18 bp):
AGGATCAGCATCAGCCAA
Found at i:3759893 original size:9 final size:9
Alignment explanation
Indices: 3759830--3759936 Score: 64
Period size: 10 Copynumber: 11.8 Consensus size: 9
3759820 AATAACTTTT
3759830 AAAA-TTAA
1 AAAATTTAA
3759838 AAATATTTATA
1 AAA-ATTTA-A
*
3759849 AAAATTT-C
1 AAAATTTAA
3759857 AAAATTT--
1 AAAATTTAA
* *
3759864 ATATTTTAAA
1 AAAATTT-AA
3759874 AAAATTATAA
1 AAAATT-TAA
3759884 AAAATTT-A
1 AAAATTTAA
3759892 AAAATTCTAA
1 AAAATT-TAA
3759902 AAAATATATAA
1 AAAAT-T-TAA
*
3759913 AAAAGTT-A
1 AAAATTTAA
*
3759921 AAATTTTAA
1 AAAATTTAA
3759930 AAAATTT
1 AAAATTT
3759937 CTAAAATAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
7 5 0.06
8 23 0.29
9 11 0.14
10 26 0.33
11 13 0.17
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAATTTAA
Found at i:3759914 original size:28 final size:27
Alignment explanation
Indices: 3759872--3759935 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
3759862 TTATATTTTA
*
3759872 AAAAAATTATAAAAAATTTAAAAATTCT
1 AAAAAATTATAAAAAAGTT-AAAATTCT
*
3759900 AAAAAATATATAAAAAAGTTAAAATTTT
1 AAAAAAT-TATAAAAAAGTTAAAATTCT
3759928 AAAAAATT
1 AAAAAATT
3759936 TCTAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 21 0.64
29 11 0.33
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAAATTATAAAAAAGTTAAAATTCT
Found at i:3759941 original size:28 final size:29
Alignment explanation
Indices: 3759866--3759942 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
3759856 CAAAATTTAT
* *
3759866 ATTTTAAAAAAATTATAAAAAATTTAAAA
1 ATTTTAAAAAATTTATAAAAAAGTTAAAA
* *
3759895 ATTCTAAAAAATATATAAAAAAGTT-AAA
1 ATTTTAAAAAATTTATAAAAAAGTTAAAA
*
3759923 ATTTTAAAAAATTTCTAAAA
1 ATTTTAAAAAATTTATAAAA
3759943 TAATAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 20 0.49
29 21 0.51
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (29 bp):
ATTTTAAAAAATTTATAAAAAAGTTAAAA
Found at i:3776760 original size:6 final size:6
Alignment explanation
Indices: 3776749--3776780 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
3776739 ACTTTAATTT
*
3776749 TTTTTC TTTTTC TTTTTT TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
3776781 CTCCCCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:3776769 original size:18 final size:18
Alignment explanation
Indices: 3776746--3776780 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3776736 TATACTTTAA
3776746 TTTTTTTTCTTTTTCTTT
1 TTTTTTTTCTTTTTCTTT
3776764 TTTTTTTTCTTTTTCTT
1 TTTTTTTTCTTTTTCTT
3776781 CTCCCCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTTTTTCTTTTTCTTT
Found at i:3777859 original size:16 final size:16
Alignment explanation
Indices: 3777816--3777866 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
3777806 ATGTACATAT
*
3777816 AAAAGTATAAAAG-AA
1 AAAAATATAAAAGAAA
* *
3777831 AAAGATAAGAAAAGAAA
1 AAAAAT-ATAAAAGAAA
*
3777848 AAAAATATAAAATAAA
1 AAAAATATAAAAGAAA
3777864 AAA
1 AAA
3777867 TAAAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 4 0.14
16 17 0.61
17 7 0.25
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (16 bp):
AAAAATATAAAAGAAA
Found at i:3777866 original size:23 final size:24
Alignment explanation
Indices: 3777835--3777879 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
3777825 AAAGAAAAAG
3777835 ATAAGAAAAGAAAAAAAATATAAA
1 ATAAGAAAAGAAAAAAAATATAAA
*
3777859 ATAA-AAAATAAAAAAAATATA
1 ATAAGAAAAGAAAAAAAATATA
3777880 CCTTTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (24 bp):
ATAAGAAAAGAAAAAAAATATAAA
Found at i:3778546 original size:12 final size:12
Alignment explanation
Indices: 3778529--3778580 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
3778519 ATAATATTTA
3778529 TATTATTACTAT
1 TATTATTACTAT
*
3778541 TATTATTATTAT
1 TATTATTACTAT
* *
3778553 CATTATTAATA-
1 TATTATTACTAT
3778564 TATT-TATACTAT
1 TATTAT-TACTAT
3778576 TATTA
1 TATTA
3778581 GCATTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.03
11 7 0.22
12 24 0.75
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:3778776 original size:23 final size:24
Alignment explanation
Indices: 3778704--3778786 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 24
3778694 CAATATTGCA
3778704 TTTTATATA-TATTATTATGTATAT
1 TTTTA-ATACTATTATTATGTATAT
* *
3778728 ATTTTAACACTATTAGTTA--TACAT
1 -TTTTAATACTATTA-TTATGTATAT
*
3778752 TTTTTATACTATT-TTATGTATAT
1 TTTTAATACTATTATTATGTATAT
*
3778775 TTCTAATACTAT
1 TTTTAATACTAT
3778787 ATTGTATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.06
23 25 0.53
24 6 0.13
25 10 0.21
26 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTAATACTATTATTATGTATAT
Found at i:3779502 original size:27 final size:25
Alignment explanation
Indices: 3779415--3779502 Score: 63
Period size: 25 Copynumber: 3.4 Consensus size: 25
3779405 TTACAGTTTC
* *
3779415 ATATATTATGT-ATGTATTTCTCAT
1 ATATATTATGTAATATATTTTTCAT
* *
3779439 ATTATTAGTTATATATATATATTTTACAT
1 A-TA-TA-TTATGTA-ATATATTTTTCAT
*
3779468 -TATCTTATGTACATATATTTTTCAT
1 ATATATTATGTA-ATATATTTTTCAT
3779493 ACTATATTAT
1 A-TATATTAT
3779503 ATATCTATCC
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
24 1 0.02
25 20 0.42
26 3 0.06
27 14 0.29
29 10 0.21
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.55
Consensus pattern (25 bp):
ATATATTATGTAATATATTTTTCAT
Found at i:3780975 original size:20 final size:21
Alignment explanation
Indices: 3780952--3781018 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 21
3780942 TATGAAAATA
* *
3780952 ATACTAT-TTATAAAATATAT
1 ATACTATATAATAAAATACAT
3780972 ATAC-ATATAATAAAATACAT
1 ATACTATATAATAAAATACAT
* *
3780992 ATACTA-ATATTAATAATAAAT
1 ATACTATATAATAA-AATACAT
3781013 ATACTA
1 ATACTA
3781019 GGAATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.05
20 25 0.62
21 13 0.32
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
ATACTATATAATAAAATACAT
Found at i:3781030 original size:21 final size:21
Alignment explanation
Indices: 3780983--3781034 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
3780973 TACATATAAT
* * *
3780983 AAAATACATATACTAATATTA
1 AAAATAAATATACTAAGAATA
* *
3781004 ATAATAAATATACTAGGAATA
1 AAAATAAATATACTAAGAATA
3781025 AAAATAAATA
1 AAAATAAATA
3781035 AAATAATAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATAAATATACTAAGAATA
Found at i:3781580 original size:15 final size:16
Alignment explanation
Indices: 3781560--3781593 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3781550 TAATAACAGC
3781560 AATAATAT-ATAAAAT
1 AATAATATGATAAAAT
*
3781575 AATAATATGGTAAAAT
1 AATAATATGATAAAAT
3781591 AAT
1 AAT
3781594 GATAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AATAATATGATAAAAT
Found at i:3781709 original size:12 final size:13
Alignment explanation
Indices: 3781677--3781709 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
3781667 AAAGAAATAG
3781677 TAATAATA-ATAA
1 TAATAATATATAA
3781689 TAATAATATA-AA
1 TAATAATATATAA
3781701 TAATAATAT
1 TAATAATAT
3781710 TGAGATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:3781820 original size:3 final size:3
Alignment explanation
Indices: 3781806--3781863 Score: 107
Period size: 3 Copynumber: 19.0 Consensus size: 3
3781796 AAATATACAC
3781806 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3781852 TAA TAA TAA TAA
1 TAA TAA TAA TAA
3781864 AGAAGAGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3785487 original size:25 final size:25
Alignment explanation
Indices: 3785450--3785507 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
3785440 TTATTTTGGG
* * * *
3785450 ATGTTTCTTTATATTATATTATTTAT
1 ATGTTT-TATATAGTATATCATTTAA
*
3785476 ATGTTTTATATAGTATCTCATTTAA
1 ATGTTTTATATAGTATATCATTTAA
3785501 ATGTTTT
1 ATGTTTT
3785508 TTTATGTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (25 bp):
ATGTTTTATATAGTATATCATTTAA
Found at i:3789595 original size:30 final size:30
Alignment explanation
Indices: 3789537--3789596 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3789527 TTCCCGAGCC
*
3789537 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
* *
3789567 TAGGGGCAAAA-TGGTAATTTTACCAAAGTT
1 TAGGGGCAAAAGT-GTAATTATACAAAAGTT
3789597 CATATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATACAAAAGTT
Found at i:3790075 original size:41 final size:41
Alignment explanation
Indices: 3790018--3790179 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 41
3790008 TGGTTGAACA
3790018 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTGAGATGTAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTGAGATGTAATG
3790059 TCCGAACTCGTTGAGTTGAGT-CGAGTTCGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-TGAGATGTAA-T--G
* * *
3790103 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTT--CTGA--GATG-TAATG
* *
3790151 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
3790180 ACTTATGGGT
Statistics
Matches: 104, Mismatches: 5, Indels: 21
0.80 0.04 0.16
Matches are distributed among these distances:
40 7 0.07
41 31 0.30
42 1 0.01
44 2 0.02
46 47 0.45
47 6 0.06
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (41 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCTGAGATGTAATG
Found at i:3790110 original size:46 final size:43
Alignment explanation
Indices: 3790016--3790133 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 43
3790006 GATGGTTGAA
3790016 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCTGAGATGTAATG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCTGAGATGTAATG
3790059 --TCCGAACTCGTTGAGTTGAGT-CGAGTTCGTGAGATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-TGAGATGTAA-T--G
3790103 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
3790134 ACTTATGGAT
Statistics
Matches: 68, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
40 7 0.10
41 31 0.46
42 1 0.01
44 1 0.01
46 21 0.31
47 7 0.10
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (43 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCTGAGATGTAATG
Found at i:3798051 original size:30 final size:30
Alignment explanation
Indices: 3798017--3798076 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
3798007 CCTTAATACG
* * *
3798017 AACTTTGGCAAAATTACCATTTTTCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* *
3798047 AACTTTTACATAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
3798077 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:3805115 original size:47 final size:47
Alignment explanation
Indices: 3805051--3805222 Score: 208
Period size: 47 Copynumber: 3.7 Consensus size: 47
3805041 ATCCATAAGT
*
3805051 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCATATCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
* * *
3805098 GAACTCGAACTCAACTCAACGAGTTCGGATGCCTTGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
* * * *
3805145 GAACTCGGACTCAACTCAACGAGTACGGA---C-ATTTCACATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--AT-CAC
3805192 GAACTCGGACTCAACTCAACGAGTTCGGATG
1 GAACTCGGACTCAACTCAACGAGTTCGGATG
3805223 TTCAACCATC
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
46 1 0.01
47 99 0.93
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
Found at i:3805664 original size:5 final size:5
Alignment explanation
Indices: 3805654--3805691 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
3805644 TTATGTTTTA
3805654 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATATAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT
3805692 AAACTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:3806982 original size:15 final size:15
Alignment explanation
Indices: 3806962--3807018 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
3806952 CGGTGAATTT
3806962 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
3806977 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
3806992 ATTGAATTTATATTG
1 ATTGAATTTATATTG
3807007 ATTGAA-TTATAT
1 ATTGAATTTATAT
3807019 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:3807420 original size:23 final size:23
Alignment explanation
Indices: 3807390--3807476 Score: 101
Period size: 21 Copynumber: 4.0 Consensus size: 23
3807380 GCTTTATCGA
* *
3807390 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
3807413 TCAGGCACCTCATGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
3807434 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
3807456 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
3807477 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 34 0.62
22 2 0.04
23 19 0.35
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:3808948 original size:30 final size:30
Alignment explanation
Indices: 3808914--3808973 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
3808904 CCTTAATACG
*
3808914 AACTTTGGAAAAATTACCATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
* * *
3808944 AACTTTTGCATAATTACAATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
3808974 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCTA
Found at i:3812051 original size:60 final size:60
Alignment explanation
Indices: 3811981--3812098 Score: 209
Period size: 60 Copynumber: 2.0 Consensus size: 60
3811971 TGTTTTAATG
*
3811981 TTGTATTGTAATATTTTAGTCATTGAATCATTAATTATCATTAATGATGTAACAATAAGT
1 TTGTATTGTAATATTTTAATCATTGAATCATTAATTATCATTAATGATGTAACAATAAGT
* *
3812041 TTGTATTGTAATATTTTAATCATTTAATCATTAATTGTCATTAATGATGTAACAATAA
1 TTGTATTGTAATATTTTAATCATTGAATCATTAATTATCATTAATGATGTAACAATAA
3812099 AATTATAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (60 bp):
TTGTATTGTAATATTTTAATCATTGAATCATTAATTATCATTAATGATGTAACAATAAGT
Found at i:3813853 original size:25 final size:24
Alignment explanation
Indices: 3813813--3813866 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
3813803 GGTAAAAAAA
* *
3813813 TTTTATATTTTAAATCAATTTTTTAT
1 TTTTTTATTTTAAATC-A-TTTTGAT
3813839 TTTTTTATTTT-AATCATTTTGAT
1 TTTTTTATTTTAAATCATTTTGAT
3813862 TTTTT
1 TTTTT
3813867 CTATAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 1 0.04
25 4 0.15
26 10 0.38
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTTATTTTAAATCATTTTGAT
Found at i:3819104 original size:49 final size:50
Alignment explanation
Indices: 3819032--3819210 Score: 252
Period size: 52 Copynumber: 3.5 Consensus size: 50
3819022 ACTAGTGACT
*
3819032 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
3819081 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGC-TTGGTCA
* * * * *
3819133 CAAGTGTGGTACTATGTGAAGGCAAATTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTC-A
* *
3819184 CAAGGGTGGTACTATGTGCAGGCCACT
1 CAAGTGTGGTACTATGTGAAGGCCACT
3819211 AGGTATCCGT
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
49 34 0.29
50 4 0.03
51 38 0.33
52 40 0.34
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.27
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
Found at i:3819152 original size:52 final size:51
Alignment explanation
Indices: 3819032--3819210 Score: 256
Period size: 51 Copynumber: 3.5 Consensus size: 51
3819022 ACTAGTGACT
*
3819032 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
3819081 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * * *
3819133 CAAGTGTGGTACTATGTGAAGGCAAATTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
* *
3819184 CAAGGGTGGTACTATGTGCAGGCCACT
1 CAAGTGTGGTACTATGTGAAGGCCACT
3819211 AGGTATCCGT
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 34 0.29
50 2 0.02
51 41 0.35
52 40 0.34
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.27
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:3823891 original size:49 final size:51
Alignment explanation
Indices: 3823803--3823924 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 51
3823793 TGTCACTAGT
* * *
3823803 GACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATTGCTTG
1 GACTACAAGTGTGGTACTATGTGAAGGCAAATTTGAGAAGAAGATAGCTTG
* * * *
3823852 GTC-ACAAGTGTGGTACTATGTGAAGGCAAATTTGTGAAGAAGGTAGCTTT
1 GACTACAAGTGTGGTACTATGTGAAGGCAAATTTGAGAAGAAGATAGCTTG
*
3823902 GACTACAAGGGTGGTACTATGTG
1 GACTACAAGTGTGGTACTATGTG
3823925 CAAGCCACTA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 34 0.56
50 9 0.15
51 18 0.30
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (51 bp):
GACTACAAGTGTGGTACTATGTGAAGGCAAATTTGAGAAGAAGATAGCTTG
Found at i:3826274 original size:3 final size:3
Alignment explanation
Indices: 3826266--3826293 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3826256 AAAGTTCAAG
3826266 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3826294 GAGAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3827732 original size:141 final size:143
Alignment explanation
Indices: 3827500--3827793 Score: 378
Period size: 141 Copynumber: 2.1 Consensus size: 143
3827490 CGACTAGCGT
* * *
3827500 TGGGCGCAAAATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTAAATTATTTGTCAGTTTATCC
1 TGGGCGCAAAATCGTTAGTTTATCCAACTAAAGCTGGGCTCACTAAATTATTCGTCAGTTTATCC
* * * * * *
3827565 GACTAGCATTAGGCGCAACTTTCGTCAGTTTATCTAACTAGTGGT-AG-ACACATTCGTCGGTTT
66 GACCAACACTAGGCGCAACCTCCGTCAGTTTATCTAACTAGTGCTGAGCACACATTCGTCGGTTT
3827628 ATCCGACTAGTAC
131 ATCCGACTAGTAC
* *
3827641 TGGGTGCAAATATTGTTAGTTTATCCAACTAAAGCTGGGCTCACT-AATTATTCGTCAGTTTATC
1 TGGGCGCAAA-ATCGTTAGTTTATCCAACTAAAGCTGGGCTCACTAAATTATTCGTCAGTTTATC
* * * * * * *
3827705 TGACCAACGCTGGGCGCAACCTCCGTCAGTTTATCTGACTAGTGCTGGGCACACATTTGTTGGTT
65 CGACCAACACTAGGCGCAACCTCCGTCAGTTTATCTAACTAGTGCTGAGCACACATTCGTCGGTT
**
3827770 TATCCGACTAGCGC
130 TATCCGACTAGTAC
3827784 TGGGCGCAAA
1 TGGGCGCAAA
3827794 CTCTTTCGCG
Statistics
Matches: 129, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
141 63 0.49
142 32 0.25
143 34 0.26
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (143 bp):
TGGGCGCAAAATCGTTAGTTTATCCAACTAAAGCTGGGCTCACTAAATTATTCGTCAGTTTATCC
GACCAACACTAGGCGCAACCTCCGTCAGTTTATCTAACTAGTGCTGAGCACACATTCGTCGGTTT
ATCCGACTAGTAC
Found at i:3835292 original size:17 final size:17
Alignment explanation
Indices: 3835272--3835306 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3835262 CAAAATTAAA
3835272 TTTTTATAA-ATGCTTAT
1 TTTTTA-AATATGCTTAT
3835289 TTTTTAAATATGCTTAT
1 TTTTTAAATATGCTTAT
3835306 T
1 T
3835307 ATATTATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTAAATATGCTTAT
Found at i:3855298 original size:27 final size:28
Alignment explanation
Indices: 3855247--3855303 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
3855237 AAATTTTAAA
*
3855247 TTAATAATAATAAAATTACACTTTAATT
1 TTAATAATAATAAAATTACAATTTAATT
**
3855275 TTAA-AATAATAAAATTTTAATTTAATT
1 TTAATAATAATAAAATTACAATTTAATT
3855302 TT
1 TT
3855304 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAATAATAATAAAATTACAATTTAATT
Found at i:3855311 original size:30 final size:28
Alignment explanation
Indices: 3855247--3855318 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
3855237 AAATTTTAAA
* *
3855247 TTAATAATAATAAAATTACACTTTAATT
1 TTAAAAATAATAAAATTACAATTTAATT
**
3855275 TT-AAAATAATAAAATTTTAATTTAATTTT
1 TTAAAAATAATAAAATTACAATTTAA--TT
*
3855304 TTAAAAATTATAAAA
1 TTAAAAATAATAAAA
3855319 ATATGGATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 19 0.53
28 2 0.06
29 4 0.11
30 11 0.31
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAAAATAATAAAATTACAATTTAATT
Found at i:3856122 original size:19 final size:19
Alignment explanation
Indices: 3856098--3856137 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3856088 AATTTCAAGA
3856098 TTAATTATGAGAATGACCT
1 TTAATTATGAGAATGACCT
3856117 TTAATTATGAGAATGACCT
1 TTAATTATGAGAATGACCT
3856136 TT
1 TT
3856138 TTACTACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTAATTATGAGAATGACCT
Found at i:3857885 original size:13 final size:14
Alignment explanation
Indices: 3857869--3857904 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
3857859 CAATCTCATA
3857869 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
3857882 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
3857895 TCTC-ATTTCA
1 TCTCAATTTCA
3857905 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:3857894 original size:18 final size:19
Alignment explanation
Indices: 3857856--3857896 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
3857846 TGGTTCATGT
3857856 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
3857875 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
3857893 TTTC
1 TTTC
3857897 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:3858086 original size:39 final size:40
Alignment explanation
Indices: 3858043--3858154 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
3858033 TCGGATAGTT
* *
3858043 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
* * ** ** * *
3858082 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
*
3858121 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
3858155 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:3858419 original size:18 final size:19
Alignment explanation
Indices: 3858393--3858431 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
3858383 TTTCAATTCA
3858393 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
3858412 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
3858430 AT
1 AT
3858432 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:3859756 original size:5 final size:5
Alignment explanation
Indices: 3859746--3859790 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
3859736 TTACTTATTT
* *
3859746 ATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
3859791 TTTTAACACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:3865705 original size:12 final size:12
Alignment explanation
Indices: 3865684--3865713 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3865674 TAGAAAGCTT
*
3865684 TGGTGGTGGTGG
1 TGGTGATGGTGG
3865696 TGGTGATGGTGG
1 TGGTGATGGTGG
3865708 TGGTGA
1 TGGTGA
3865714 ATTGAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.60, T:0.33
Consensus pattern (12 bp):
TGGTGATGGTGG
Found at i:3865855 original size:17 final size:18
Alignment explanation
Indices: 3865833--3865868 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
3865823 GTTTTTGAAC
*
3865833 GGAGGAGATTAAT-AAAA
1 GGAGGAAATTAATCAAAA
3865850 GGAGGAAATTAATCAAAA
1 GGAGGAAATTAATCAAAA
3865868 G
1 G
3865869 CAGTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.28, T:0.17
Consensus pattern (18 bp):
GGAGGAAATTAATCAAAA
Found at i:3870456 original size:2 final size:2
Alignment explanation
Indices: 3870451--3870476 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3870441 ACAAATGATA
3870451 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3870477 TTGTGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3870700 original size:22 final size:22
Alignment explanation
Indices: 3870685--3870727 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
3870675 TTAATATTTA
3870685 TATTTTTTTTTGTTAATTTGAC
1 TATTTTTTTTTGTTAATTTGAC
*
3870707 TCTTTTTTTTTGTTAGATTTG
1 TATTTTTTTTTGTTA-ATTTG
3870728 GCCCTCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.70
Consensus pattern (22 bp):
TATTTTTTTTTGTTAATTTGAC
Found at i:3870939 original size:13 final size:14
Alignment explanation
Indices: 3870909--3870941 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
3870899 TATACAAATT
3870909 ATAAAAAAAAAGTTC
1 ATAAAAAAAAAG-TC
3870924 ATAAAAAAAAAG-C
1 ATAAAAAAAAAGTC
3870937 ATAAA
1 ATAAA
3870942 GTACATATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
15 12 0.67
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (14 bp):
ATAAAAAAAAAGTC
Found at i:3873350 original size:19 final size:19
Alignment explanation
Indices: 3873326--3873362 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3873316 CGGTTTTTAT
*
3873326 TTTTATTTTTTAAATTCGA
1 TTTTATATTTTAAATTCGA
3873345 TTTTATATTTTAAATTCG
1 TTTTATATTTTAAATTCG
3873363 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATATTTTAAATTCGA
Found at i:3874727 original size:160 final size:159
Alignment explanation
Indices: 3874398--3874745 Score: 534
Period size: 160 Copynumber: 2.2 Consensus size: 159
3874388 CTCAACTTGG
* * * *
3874398 TGCCAATTGATTTTAAGTTGGATGCTTAACATCGTACTTAACGTCCAAGTTGTGTTCTGTTGTTA
1 TGCCAATTAACTTTAAGTTGGATGCTTAACATCGTACTTAACGCCCAAGTTGTGTTCTATTGTTA
* * *
3874463 TTGTCTATTTTCTGACCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCGTGA
66 TTGTCTACTTTCTAACCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCATGA
* * **
3874528 GTATTAATTCGATTTTGTATTATTTGTGA
131 GTATCAATTCGATTTTGTATTATTCGCAA
* *
3874557 TGCCAATTAACTTTAAGTTGGATGCTTAACATCGTATTTAACGCCCAAGTTTTGTTCTATTGTTA
1 TGCCAATTAACTTTAAGTTGGATGCTTAACATCGTACTTAACGCCCAAGTTGTGTTCTATTGTTA
* *
3874622 TTGTCTACTTTCTAACCCAATAACCCTTTCGAGTTTGTTACATTGTAACCTCTTTTGTTTTCATG
66 TTGTCTACTTTCTAA-CCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCATG
3874687 AGTATCAATTCGATTTTGTATTATTCGCAA
130 AGTATCAATTCGATTTTGTATTATTCGCAA
* *
3874717 TGCTAATTAACTTTAAGTTGGGTGCTTAA
1 TGCCAATTAACTTTAAGTTGGATGCTTAA
3874746 AAAATCTCAT
Statistics
Matches: 171, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
159 72 0.42
160 99 0.58
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.45
Consensus pattern (159 bp):
TGCCAATTAACTTTAAGTTGGATGCTTAACATCGTACTTAACGCCCAAGTTGTGTTCTATTGTTA
TTGTCTACTTTCTAACCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCATGA
GTATCAATTCGATTTTGTATTATTCGCAA
Found at i:3884953 original size:34 final size:32
Alignment explanation
Indices: 3884896--3884960 Score: 103
Period size: 34 Copynumber: 2.0 Consensus size: 32
3884886 CACTGGTATA
3884896 AGTATTATTCGAGTGACAATTAAACCAAAATG
1 AGTATTATTCGAGTGACAATTAAACCAAAATG
*
3884928 AGTATTATTTCGAGTGTACAATTAAACTAAAAT
1 AGTATTA-TTCGAGTG-ACAATTAAACCAAAAT
3884961 TAAAATTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 7 0.23
33 8 0.27
34 15 0.50
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (32 bp):
AGTATTATTCGAGTGACAATTAAACCAAAATG
Found at i:3910570 original size:18 final size:18
Alignment explanation
Indices: 3910513--3910570 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
3910503 TTTTCAAACT
3910513 TCAATTATAATTTCATAA
1 TCAATTATAATTTCATAA
* * * *
3910531 TGAATAATGA-TTCAAAA
1 TCAATTATAATTTCATAA
* *
3910548 ACAATTATAATTTCATAT
1 TCAATTATAATTTCATAA
3910566 TCAAT
1 TCAAT
3910571 GGATTCATAA
Statistics
Matches: 28, Mismatches: 11, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (18 bp):
TCAATTATAATTTCATAA
Found at i:3919673 original size:26 final size:26
Alignment explanation
Indices: 3919644--3919751 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
3919634 TTGTACAAAT
3919644 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3919670 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3919696 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
3919722 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3919748 TGAT
1 TGAT
3919752 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:3921267 original size:26 final size:26
Alignment explanation
Indices: 3921238--3921290 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3921228 TTTACAGTTT
3921238 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
3921264 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
3921290 T
1 T
3921291 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:3926634 original size:116 final size:118
Alignment explanation
Indices: 3926475--3926813 Score: 447
Period size: 116 Copynumber: 2.8 Consensus size: 118
3926465 GTTTTTAAAG
3926475 CTAAGCTGCATTAGTTGAAATCAA-CCTGGAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGA
1 CTAAGCTGCATTAGTTGAAATCAACCCT-GAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGA
3926539 TATATTGCTTGAGCACCATTCACTTATTCGTATCAGCCACGGTCG-A-A-TG-ACA
65 TATATTGCTTGAGCACCATT-ACTTATTCGTATCAGCCACGGTCGAATATTGTA-A
*
3926591 CTAAGCTGCATTAGTTGAAATCAACCCTGAAGAACTTTTCTTTTACATGTTTCTATTCTAGTGAT
1 CTAAGCTGCATTAGTTGAAATCAACCCTGAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGAT
* * * * *
3926656 ATATTGCTTGAGCACCATTTTCTTATTTGTATCATCCATGGTTGAATATTGTTTTTAA
66 ATATTGCTTGAGCACCA-TTACTTATTCGTATCAGCCACGGTCGAATATTG----TAA
* **
3926714 CGATAAGCTGCATTAGTTGAAATCAACCCGGAAAAAAATTTCTTTTACATGTTTCTATTCTAGTG
1 C--TAAGCTGCATTAGTTGAAATCAACCCTGAAAAACTTTTCTTTTACATGTTTCTATTCTAGTG
*
3926779 -TATATTGCTTGAGCACCATTATCTTATTCATATCA
64 ATATATTGCTTGAGCACCATTA-CTTATTCGTATCA
3926814 TCCATGGTTG
Statistics
Matches: 197, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
116 96 0.49
117 6 0.03
118 1 0.01
119 2 0.01
123 4 0.02
124 30 0.15
125 58 0.29
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (118 bp):
CTAAGCTGCATTAGTTGAAATCAACCCTGAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGAT
ATATTGCTTGAGCACCATTACTTATTCGTATCAGCCACGGTCGAATATTGTAA
Found at i:3926904 original size:89 final size:86
Alignment explanation
Indices: 3926744--3926908 Score: 258
Period size: 89 Copynumber: 1.9 Consensus size: 86
3926734 AATCAACCCG
*
3926744 GAAAAAAATTTCTTTTACATGTTTCTATTCTAGTGTATATTGCTTGAGCACCATTATCTTATTCA
1 GAAAAAAATTTCTTTTACATGTTTCTATTCTAGTGTATATTGCTTGAGCACCATTAACTTATTCA
*
3926809 TATCATCCATGGTTGAGTCCC
66 CATCATCCATGGTTGAGTCCC
*
3926830 GAAAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGATCACCATTAACTTAT
1 GAAAAAAA--TTTCTTTTACATGTTTCTATTCTAGTG-TATATTGCTTGAGCACCATTAACTTAT
* *
3926895 TCGCGTCATCCATG
63 TCACATCATCCATG
3926909 ATCAAATCGT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 8 0.11
88 27 0.38
89 36 0.51
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (86 bp):
GAAAAAAATTTCTTTTACATGTTTCTATTCTAGTGTATATTGCTTGAGCACCATTAACTTATTCA
CATCATCCATGGTTGAGTCCC
Found at i:3927022 original size:340 final size:331
Alignment explanation
Indices: 3926504--3927160 Score: 876
Period size: 340 Copynumber: 2.0 Consensus size: 331
3926494 ATCAACCTGG
*
3926504 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTCACTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTAACTTATTCG
* *
3926569 TATCAGCCACGGTCGAATGACACTAAGCTGCATTAGTTGAAATCAACCCTGAAGAACTTTTCTTT
66 TATCAGCAACGGTCGAATGACACTAAGCTGCATTAGTTGAAATCAACCCTGAAAAACTTTTCTTT
* * *
3926634 TACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTTTCTTATTTGTATCATCCATGGTT
131 TACATGTTTCTATTCTAGTGATAGATTGCTTGAGCACCATTATCTTATTCGTATCATCCATGGTT
* *
3926699 GAAT-ATTGTTTTTAACGATAAGCTGCATTAGTTGAAATCAACCCGGA-AAAAAATTTCTTTTAC
196 GAATCA-TGTTTTTAAAGATAAGCTGCATTAATTGAAATCAACCC-GACAAAAAATTTCTTTTAC
*
3926762 ATGTTTCTATTCTAGTG-TATATTGCTTGAGCACCATTATC-TTATTCATATCATCCATGGTTGA
259 ATGTTTCTATTCTAGTGATATATTGCTTGAACACCATTATCTTTATTCATATCATCCATGGTTGA
3926825 GTCCCGAA
324 GTCCCGAA
*
3926833 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGATCACCATTAACTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTAACTTATT--
**** * * * * *
3926898 CGTCATCCATGATCAAATCGTGTTTTTTTATATCTAAGCTGCGTTAGTTGAAATCTA-TCTGGAA
64 CGT-AT-CA-G--C-AA-CG-GTCGAATGACA-CTAAGCTGCATTAGTTGAAATCAACCCT-GAA
* *
3926962 AAACTTTTCTTTTTCATGTTTGTATTCTAGTGATAGATTGCTTGAG-AGCCATTATCTTATTCGT
119 AAACTTTTCTTTTACATGTTTCTATTCTAGTGATAGATTGCTTGAGCA-CCATTATCTTATTCGT
* * * *
3927026 ATCATCCATGGTTGAGTCATGTTTTTAAAGCTAAGCTGCATTAATTGCAATCAACCCGACAAAAC
183 ATCATCCATGGTTGAATCATGTTTTTAAAGATAAGCTGCATTAATTGAAATCAACCCGACAAAAA
* * * *
3927091 TTTTCTTTTATATGTTTCTATTCTAGTGATATATTGCTTGAACACCATTTTCTTTATTCGTATCA
248 ATTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAACACCATTATCTTTATTCATATCA
3927156 TCCAT
313 TCCAT
3927161 AATTGAATCA
Statistics
Matches: 282, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
329 61 0.22
331 3 0.01
332 2 0.01
333 2 0.01
334 1 0.00
336 1 0.00
337 1 0.00
338 2 0.01
339 10 0.04
340 161 0.57
341 22 0.08
342 16 0.06
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (331 bp):
AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTAACTTATTCG
TATCAGCAACGGTCGAATGACACTAAGCTGCATTAGTTGAAATCAACCCTGAAAAACTTTTCTTT
TACATGTTTCTATTCTAGTGATAGATTGCTTGAGCACCATTATCTTATTCGTATCATCCATGGTT
GAATCATGTTTTTAAAGATAAGCTGCATTAATTGAAATCAACCCGACAAAAAATTTCTTTTACAT
GTTTCTATTCTAGTGATATATTGCTTGAACACCATTATCTTTATTCATATCATCCATGGTTGAGT
CCCGAA
Found at i:3927353 original size:127 final size:126
Alignment explanation
Indices: 3926833--3927533 Score: 655
Period size: 127 Copynumber: 5.6 Consensus size: 126
3926823 GAGTCCCGAA
*
3926833 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGATCACCATTAACTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGA-CACCATTATCTTATTCG
** * * * * * *
3926898 CGTCATCCATGATCAAATCGTGTTTTTTTATATCTAAGCTGCGTTAGTTGAAATCT-ATCTGG
65 TATCATCCATGATCAAATCATGTTTTTATATAGCTAAGCTGCATTAGTTGAAAT-TGACCCGG
* * * *
3926960 AAAAACTTTTCTTTTTCATGTTTGTATTCTAGTGATAGATTGCTTGAGAGCCATTATCTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACA-CCATTATCTTATTCG
* ** * * * **
3927025 TATCATCCATGGTTGAGTCATGTTTTTA-A-AGCTAAGCTGCATTAATTGCAATCAACCC-G
65 TATCATCCATGATCAAATCATGTTTTTATATAGCTAAGCTGCATTAGTTGAAATTGACCCGG
* *
3927084 ACAAAACTTTTCTTTTATATGTTTCTATTCTAGTGATATATTGCTTGAACACCATTTTCTTTATT
1 A-AAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTG-ACACCATTATC-TTATT
* ** *
3927149 CGTATCATCCATAATTGAATCATGTTTTTCTATAGCTAAGCTGCATTAGTTGAAATTGACCCGG
63 CGTATCATCCATGATCAAATCATGTTTTTATATAGCTAAGCTGCATTAGTTGAAATTGACCCGG
* *
3927213 AAACACTTTTCTTTTACATGTTTCTATTCTAGTGATGTATTGCTTGAC-CACATTATCTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACAC-CATTATCTTATTCG
* * * * * * *
3927277 TGTCATCTATGGTCAAATCATGTTTTTTATATAGGTAAGCTGCATTGGTTTAAATTGACCCAG
65 TATCATCCATGATCAAATCATG-TTTTTATATAGCTAAGCTGCATTAGTTGAAATTGACCCGG
* * *
3927340 AAATACTTTTCTTTTTACATGTTTCTA---T--TGATATATTGCTTGAGCACCAGTCA-ATTATT
1 AAAAACTTTTC-TTTTACATGTTTCTATTCTAGTGATATATTGCTTGA-CACCA-TTATCTTATT
* * * * * * *
3927399 CATATCATCCATGGT-AGGATCATG-TTCTA-A-AGCTAAGCTGCATTAGTTGAAATCGATCTGG
63 CGTATCATCCATGATCA-AATCATGTTTTTATATAGCTAAGCTGCATTAGTTGAAATTGACCCGG
* * * * * * *
3927460 TAAAGCTTATCTTTTACATGTTCCGATTCCT-GTG--ATATTGCTCGAGCACCAGTATCTTATTC
1 AAAAACTTTTCTTTTACATGTTTCTATT-CTAGTGATATATTGCTTGA-CACCATTATCTTATTC
* *
3927522 ATGTCATCCATG
64 GTATCATCCATG
3927534 GTTGAATAAG
Statistics
Matches: 477, Mismatches: 76, Indels: 47
0.80 0.13 0.08
Matches are distributed among these distances:
119 13 0.03
120 31 0.06
121 2 0.00
122 37 0.08
123 16 0.03
124 30 0.06
125 73 0.15
126 59 0.12
127 132 0.28
128 82 0.17
129 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.42
Consensus pattern (126 bp):
AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACACCATTATCTTATTCGT
ATCATCCATGATCAAATCATGTTTTTATATAGCTAAGCTGCATTAGTTGAAATTGACCCGG
Found at i:3932067 original size:48 final size:48
Alignment explanation
Indices: 3931997--3932092 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
3931987 GCGGGAGGAA
3931997 GGTGGTGGCCAAGCCGTTGATGCTGCCGCATAAAATCAACATTCATCT
1 GGTGGTGGCCAAGCCGTTGATGCTGCCGCATAAAATCAACATTCATCT
* *
3932045 GGTGGTGGCCAAGTCGTTGATGCTGCCGCATAAAATCAGCATTCATCT
1 GGTGGTGGCCAAGCCGTTGATGCTGCCGCATAAAATCAACATTCATCT
3932093 CTGGTATCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (48 bp):
GGTGGTGGCCAAGCCGTTGATGCTGCCGCATAAAATCAACATTCATCT
Found at i:3949984 original size:28 final size:29
Alignment explanation
Indices: 3949953--3950013 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
3949943 ATATTTTAAA
*
3949953 TATTTTTAA-ATTTATATTTATATTACTT
1 TATTTTTAATATTAATATTTATATTACTT
* **
3949981 TA-TTTTAATATTAATATTTTTATTTTTT
1 TATTTTTAATATTAATATTTATATTACTT
3950009 TATTT
1 TATTT
3950014 ATTGAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 6 0.22
28 19 0.70
29 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (29 bp):
TATTTTTAATATTAATATTTATATTACTT
Found at i:3951160 original size:30 final size:30
Alignment explanation
Indices: 3951116--3951175 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
3951106 ACTTAACAAG
3951116 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
3951146 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
3951176 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:3951294 original size:21 final size:22
Alignment explanation
Indices: 3951259--3951299 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3951249 AAATAGAGAG
* *
3951259 AAAACAACAAGAAAATAATATT
1 AAAACAACAACAAAAAAATATT
3951281 AAAA-AACAACAAAAAAATA
1 AAAACAACAACAAAAAAATA
3951300 GGTTTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAACAACAACAAAAAAATATT
Found at i:3953550 original size:61 final size:61
Alignment explanation
Indices: 3953480--3953598 Score: 141
Period size: 61 Copynumber: 2.0 Consensus size: 61
3953470 ATCTAAACAG
* * * * * * *
3953480 TCAACAAATTTA-ACCCTCAATATTTACAAAATTTTTCATTTTAGTTCTAATTCTAAAAAAT
1 TCAACAAATTTATA-CCTCAAAATCTACAAAAATTGTCAATTTAGTTCAAACTCTAAAAAAT
* *
3953541 TCAATAAATTTATATCTCAAAATCTACAAAAATTGTCAATTTAGTTCAAACTCTAAAA
1 TCAACAAATTTATACCTCAAAATCTACAAAAATTGTCAATTTAGTTCAAACTCTAAAA
3953599 GTTTTAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
61 47 0.98
62 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.38
Consensus pattern (61 bp):
TCAACAAATTTATACCTCAAAATCTACAAAAATTGTCAATTTAGTTCAAACTCTAAAAAAT
Found at i:3970199 original size:3 final size:3
Alignment explanation
Indices: 3970191--3970231 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3970181 TGGGTTGGTT
3970191 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3970232 TAATTGAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3971657 original size:6 final size:6
Alignment explanation
Indices: 3971646--3971670 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3971636 TTTTGAATAC
3971646 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
3971671 TAAACTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:3976706 original size:29 final size:29
Alignment explanation
Indices: 3976665--3976721 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
3976655 TTTATTTTCT
* *
3976665 TCTCTAAAAATATATCGTATTTTTTAAAA
1 TCTCTAAAAATATATCATATTTATTAAAA
3976694 TCTC-AAATAATATATCATATTTATTAAA
1 TCTCTAAA-AATATATCATATTTATTAAA
3976722 TTTCGATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.44
Consensus pattern (29 bp):
TCTCTAAAAATATATCATATTTATTAAAA
Found at i:3979250 original size:13 final size:14
Alignment explanation
Indices: 3979220--3979252 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3979210 GGTTCAATGA
*
3979220 GAGGAGTTTTGCTT
1 GAGGAGTTTAGCTT
3979234 GAGGAGTTTAG-TT
1 GAGGAGTTTAGCTT
3979247 GAGGAG
1 GAGGAG
3979253 CCTTCGCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.42, T:0.33
Consensus pattern (14 bp):
GAGGAGTTTAGCTT
Found at i:3986619 original size:40 final size:40
Alignment explanation
Indices: 3986552--3986644 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
3986542 ACCATTGGCC
*
3986552 AACCGTTG-TTTTTGCTAATTTATTGCATATAAAATGTTT
1 AACCGTTGATTTTTGCTAATTTATTGCATATAAAATGTTG
* * *
3986591 AACCATTGATTTTTGTTAATTTCA-TGCATATAAATTGTTG
1 AACCGTTGATTTTTGCTAATTT-ATTGCATATAAAATGTTG
*
3986631 AACTGTTGATTTTT
1 AACCGTTGATTTTT
3986645 TAAGTCAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 7 0.15
40 38 0.83
41 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (40 bp):
AACCGTTGATTTTTGCTAATTTATTGCATATAAAATGTTG
Found at i:3989725 original size:30 final size:29
Alignment explanation
Indices: 3989689--3989745 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
3989679 CACGGCCAGG
* *
3989689 CACACGGGCATGTGTCTAGGCCGTGTGAGC
1 CACACGGGCATGTGGC-AGGCCATGTGAGC
3989719 CACACGGGCATGTGGCAGGCCATGTGA
1 CACACGGGCATGTGGCAGGCCATGTGA
3989746 TCAGCCATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.19, C:0.26, G:0.37, T:0.18
Consensus pattern (29 bp):
CACACGGGCATGTGGCAGGCCATGTGAGC
Found at i:3994572 original size:29 final size:30
Alignment explanation
Indices: 3994535--3994593 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
3994525 TATGGTTTAA
**
3994535 TGTGCAATTATATTCATG-AATTTTGATTT
1 TGTGCAATTATATAAATGAAATTTTGATTT
* *
3994564 TGTGGAATTTTATAAATGAAATTTTGATTT
1 TGTGCAATTATATAAATGAAATTTTGATTT
3994594 GATCAAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (30 bp):
TGTGCAATTATATAAATGAAATTTTGATTT
Found at i:3994821 original size:29 final size:30
Alignment explanation
Indices: 3994737--3994821 Score: 73
Period size: 31 Copynumber: 2.8 Consensus size: 30
3994727 GATTAAATCA
* * *
3994737 AAATTAAAGTTTTAAGTATACATTTGAACC
1 AAATTAAAGCTTCAAGTATACAATTGAACC
* * * * *
3994767 ACAAATAAAGCTTCACGTCTATAATTGCACC
1 A-AATTAAAGCTTCAAGTATACAATTGAACC
*
3994798 AAATTAAAG-TTCATGTATACAATT
1 AAATTAAAGCTTCAAGTATACAATT
3994822 ACACATTAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
29 12 0.29
30 8 0.19
31 22 0.52
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (30 bp):
AAATTAAAGCTTCAAGTATACAATTGAACC
Found at i:3998087 original size:13 final size:13
Alignment explanation
Indices: 3998069--3998096 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3998059 TATATCATAA
3998069 ATTATATTATATT
1 ATTATATTATATT
3998082 ATTATATTATATT
1 ATTATATTATATT
3998095 AT
1 AT
3998097 AAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATATTATATT
Found at i:3999134 original size:24 final size:24
Alignment explanation
Indices: 3999107--3999159 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
3999097 GAATTGTGAT
3999107 TATGAG-AA-TGATTTGAATTGAAAA
1 TATGAGAAAGTGA-TTGAATTG-AAA
3999131 TATGAGAAAGTGATTGAATTGAAA
1 TATGAGAAAGTGATTGAATTGAAA
3999155 TATGA
1 TATGA
3999160 AAATTGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 14 0.52
25 10 0.37
26 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (24 bp):
TATGAGAAAGTGATTGAATTGAAA
Found at i:3999334 original size:23 final size:23
Alignment explanation
Indices: 3999308--3999375 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
3999298 CTTAGTGTTG
*
3999308 TTCTGGTGTGTTTGGGTGGATTA
1 TTCTGGTGTGTTTGGGTGGATCA
3999331 TTCTGGTGTGTTTGGGTGGATCA
1 TTCTGGTGTGTTTGGGTGGATCA
*
3999354 TTCTGGTGTGTTTGGTTGGATC
1 TTCTGGTGTGTTTGGGTGGATC
3999376 CATGTATCCG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.07, C:0.07, G:0.38, T:0.47
Consensus pattern (23 bp):
TTCTGGTGTGTTTGGGTGGATCA
Found at i:4002604 original size:17 final size:16
Alignment explanation
Indices: 4002565--4002605 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4002555 TTTTAATATA
* *
4002565 AAATAATAAAGAATAC
1 AAATTATAAACAATAC
4002581 AAATTATAAACAATAC
1 AAATTATAAACAATAC
4002597 ATAATTATA
1 A-AATTATA
4002606 TTTATGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATTATAAACAATAC
Found at i:4016895 original size:17 final size:16
Alignment explanation
Indices: 4016863--4016893 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4016853 TTATTTCATA
4016863 AATATTTCTAAAAAAT
1 AATATTTCTAAAAAAT
*
4016879 AATATTTTTAAAAAA
1 AATATTTCTAAAAAA
4016894 ATTTAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATTTCTAAAAAAT
Found at i:4019208 original size:5 final size:5
Alignment explanation
Indices: 4019198--4019227 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4019188 TTCTCATACA
4019198 CATCC CATCC CATCC CATCC CATCC CATCC
1 CATCC CATCC CATCC CATCC CATCC CATCC
4019228 ACAGCTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
CATCC
Found at i:4032119 original size:23 final size:23
Alignment explanation
Indices: 4032078--4032121 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4032068 TAATAAATTA
4032078 TTTAAAATATTTTATATTAATAT
1 TTTAAAATATTTTATATTAATAT
*
4032101 TTTATAAT-TTTTATAATTAAT
1 TTTAAAATATTTTAT-ATTAAT
4032122 TTTAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAAAATATTTTATATTAATAT
Found at i:4032130 original size:23 final size:22
Alignment explanation
Indices: 4032076--4032126 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
4032066 TGTAATAAAT
4032076 TATTTAA-AATATTTTATATTAA
1 TATTTAATAAT-TTTTATATTAA
*
4032098 TATTTTATAATTTTTATAATTAA
1 TATTTAATAATTTTTAT-ATTAA
4032121 T-TTTAA
1 TATTTAA
4032127 ATAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTAATAATTTTTATATTAA
Found at i:4042251 original size:23 final size:24
Alignment explanation
Indices: 4042196--4042252 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
4042186 ATTTTTAAGT
* *
4042196 AAAAATATTTAAAATTATGATTAA
1 AAAAATATTTTAAATTATAATTAA
**
4042220 GTAAA-ATTTTAAATTA-AATTAA
1 AAAAATATTTTAAATTATAATTAA
4042242 AAAAATATTTT
1 AAAAATATTTT
4042253 TATTGAACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
22 8 0.31
23 15 0.58
24 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAAATATTTTAAATTATAATTAA
Found at i:4049923 original size:3 final size:3
Alignment explanation
Indices: 4049915--4049966 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
4049905 TCTGGAACCT
*
4049915 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4049963 ATA A
1 ATA A
4049967 GGAAAACCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4051848 original size:4 final size:4
Alignment explanation
Indices: 4051839--4051875 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
4051829 TTATTAGCCA
4051839 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
4051876 TTAATGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:4055058 original size:16 final size:16
Alignment explanation
Indices: 4055034--4055081 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
4055024 AATTTATTCT
*
4055034 TTATATTTAATTTTGA
1 TTATTTTTAATTTTGA
4055050 TTATTTTTAATATTGTGA
1 TTATTTTTAAT-TT-TGA
4055068 -T-TTTTTAATTTTGA
1 TTATTTTTAATTTTGA
4055082 AATTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 3 0.10
15 2 0.07
16 18 0.62
17 3 0.10
18 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (16 bp):
TTATTTTTAATTTTGA
Found at i:4057199 original size:177 final size:177
Alignment explanation
Indices: 4056674--4057189 Score: 739
Period size: 177 Copynumber: 2.9 Consensus size: 177
4056664 GTATTATATG
* * * * *
4056674 AGCCTTAACCCCCTGAGTAGTAGGGTAACAGGCTAAAAATTGCAGATCTTGTCTCCATGTGTCGG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCGG
* * *
4056739 CTATGGAGCAGATCAAAAATAGCGATTCTTATCTCCATGTATCGACTATGGAGCAGATTTAAGCC
66 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTAAGCC
* * * * *
4056804 ATCGGCCTTATCTCTCTGAGATAACAAGAGAGCAGGTTAAAGATACG
131 ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
4056851 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAATTGCAGATCTTATCTCCATGTATCGG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCGG
* *
4056916 TTATGGAGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTATCGACTATGAAGCAGATTTAAGC
66 CTATGGAGCAGATCAG-AAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTAAGC
* *
4056980 CACCGGCCTTATCTCTTTGAGGTAGCAACAGAGCAGGTTGAAGATACA
130 CACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* * * *
4057028 AGCCTTAACCCCCTAAGCAGTAGGGTAGCGGGCTGAAAATTACAGATCTTATCTCCATGTA-CTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATC-G
** * *
4057092 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGTTATGGAGTAGATTTTAGC
65 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTAAGC
** *
4057157 CACCAACCCTATCTCTCTGAGGTAGCAAGAGAG
130 CACCGGCCTTATCTCTCTGAGGTAGCAAGAGAG
4057190 TGAGTTGAAG
Statistics
Matches: 302, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
176 1 0.00
177 300 0.99
178 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (177 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTGCAGATCTTATCTCCATGTATCGG
CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTAAGCC
ACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
Found at i:4062089 original size:13 final size:13
Alignment explanation
Indices: 4062045--4062092 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4062035 AATAAATAAA
4062045 AAATATTAAATTGTT
1 AAATATTAAA-T-TT
*
4062060 AAATATTAAATTA
1 AAATATTAAATTT
**
4062073 AAATATTAGTTTT
1 AAATATTAAATTT
4062086 AAATATT
1 AAATATT
4062093 TAAAAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.62
14 1 0.03
15 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (13 bp):
AAATATTAAATTT
Found at i:4063269 original size:14 final size:14
Alignment explanation
Indices: 4063250--4063287 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
4063240 CTAGAAGCAA
*
4063250 AGAAAATAAGAAA-G
1 AGAAAA-AAAAAAGG
4063264 AGAAAAAAAAAAGG
1 AGAAAAAAAAAAGG
4063278 AGAAAAAAAA
1 AGAAAAAAAA
4063288 GTAAAGGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
AGAAAAAAAAAAGG
Found at i:4063293 original size:17 final size:16
Alignment explanation
Indices: 4063252--4063319 Score: 61
Period size: 17 Copynumber: 4.4 Consensus size: 16
4063242 AGAAGCAAAG
*
4063252 AAAATAAGAAA-GAG-
1 AAAAAAAGAAAGGAGA
4063266 AAAAAAA-AAAGGAGA
1 AAAAAAAGAAAGGAGA
*
4063281 AAAAAAAGTAAAGGAGG
1 AAAAAAAG-AAAGGAGA
** *
4063298 AAGGAAAGAAATGAGA
1 AAAAAAAGAAAGGAGA
4063314 AAAAAA
1 AAAAAA
4063320 TAAGAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
13 3 0.07
14 9 0.21
15 7 0.17
16 10 0.24
17 13 0.31
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (16 bp):
AAAAAAAGAAAGGAGA
Found at i:4063524 original size:19 final size:20
Alignment explanation
Indices: 4063496--4063555 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
4063486 GAACATGAAG
4063496 AACCTCGAACTCAAACCC-A
1 AACCTCGAACTCAAACCCTA
* *
4063515 AACCTTGAACCCAAAACCCTA
1 AACCTCGAACTC-AAACCCTA
*
4063536 AA-CTCAAACTCAAA-CCTA
1 AACCTCGAACTCAAACCCTA
4063554 AA
1 AA
4063556 ACCCTAAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.18
19 13 0.38
20 12 0.35
21 3 0.09
ACGTcount: A:0.47, C:0.37, G:0.03, T:0.13
Consensus pattern (20 bp):
AACCTCGAACTCAAACCCTA
Found at i:4069797 original size:23 final size:22
Alignment explanation
Indices: 4069693--4069801 Score: 127
Period size: 21 Copynumber: 5.1 Consensus size: 22
4069683 TACCTGATCA
* *
4069693 GAATACGACACATAA-GTGACT
1 GAATACGACACACAAGGTGCCT
*
4069714 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
*
4069735 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
4069756 G-ATACGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
4069777 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
4069800 GA
1 GA
4069802 TCAGTATAGC
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
20 10 0.13
21 48 0.62
22 1 0.01
23 19 0.24
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.14
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:4070025 original size:25 final size:23
Alignment explanation
Indices: 4069992--4070054 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
4069982 AAATGTCCAA
4069992 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
4070015 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
4070038 CCAAAACACACCAGTAT
1 CCAAAACACACCAGTAT
4070055 CATAACATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (23 bp):
CCAAAACACACCAGTATAATCCT
Found at i:4075230 original size:73 final size:72
Alignment explanation
Indices: 4075036--4075266 Score: 320
Period size: 73 Copynumber: 3.2 Consensus size: 72
4075026 TTGATGTTTT
* * **
4075036 ATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGT
*
4075101 ATTTTCA
66 ATTTTAA
* *
4075108 ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGA
1 ATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGA
* *
4075173 AGTAATTTAA
63 GGTATTTTAA
*
4075183 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCACTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG
4075248 TATTTTCAA
65 TATTTT-AA
4075257 A-TTCTGTTTT
1 ATTTCTGTTTT
4075267 TCAATTTATG
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
72 7 0.05
73 66 0.47
74 5 0.04
75 62 0.44
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGT
ATTTTAA
Found at i:4075269 original size:14 final size:14
Alignment explanation
Indices: 4075250--4075285 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4075240 CACTGAGGTA
*
4075250 TTTTCAAATTCTGT
1 TTTTCAAATTATGT
*
4075264 TTTTCAATTTATGT
1 TTTTCAAATTATGT
4075278 TTTTCAAA
1 TTTTCAAA
4075286 AATCAATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTATGT
Found at i:4075334 original size:87 final size:87
Alignment explanation
Indices: 4075182--4075357 Score: 244
Period size: 87 Copynumber: 2.0 Consensus size: 87
4075172 AAGTAATTTA
* * *
4075182 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCACTGAG
1 AATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAG
* *
4075247 GTATTTTCAAATTCTGTTTTTC
66 GTATTTTCAAATTCTATCTTTC
* * * * **
4075269 AATTTATGTTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCTTCAAGACACGTTGAG
1 AATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAG
*
4075334 GTATTTTCAATTTCTATCTTTC
66 GTATTTTCAAATTCTATCTTTC
4075356 AA
1 AA
4075358 AAAAATCAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (87 bp):
AATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAG
GTATTTTCAAATTCTATCTTTC
Found at i:4075381 original size:162 final size:160
Alignment explanation
Indices: 4075123--4075432 Score: 415
Period size: 162 Copynumber: 1.9 Consensus size: 160
4075113 TATCTTTCAA
*
4075123 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAAGTAATTTAAATTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAAGTAATTTAAATTTC
* * * *
4075188 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCACTGAGGTATTT
66 TATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGATAATT
*
4075253 TCAAATTCTGTTTTTCAATTTATGTTTTTC
131 TCAAATTCTGTTTGTCAATTTATGTTTTTC
* * * * ** * * *
4075283 AAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCTTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAAGTAATTTAAATTTC
* **
4075348 TATCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACATGCTGAGATA
66 TAT-TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGATA
*
4075412 ATTTCAACTTCTGTTTGTCAA
128 ATTTCAAATTCTGTTTGTCAA
4075433 AAATCAACTC
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
160 59 0.46
161 2 0.02
162 67 0.52
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (160 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAAGTAATTTAAATTTC
TATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGATAATT
TCAAATTCTGTTTGTCAATTTATGTTTTTC
Done.