Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold57
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: 4071704
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82236 characters in sequence are not A, C, G, or T
File 19 of 27
Found at i:2490983 original size:16 final size:15
Alignment explanation
Indices: 2490954--2490998 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
2490944 TTGATCATAA
*
2490954 AATAA-TTAAATTTT
1 AATAATTTAATTTTT
2490968 AATTAATTTAATTTTT
1 AA-TAATTTAATTTTT
*
2490984 TATAATTTAATTTTT
1 AATAATTTAATTTTT
2490999 CTTTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 16 0.59
16 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATAATTTAATTTTT
Found at i:2491081 original size:22 final size:22
Alignment explanation
Indices: 2491055--2491102 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
2491045 AAATTGAGAG
**
2491055 TTTTAAATTTTAATATTTTAAT
1 TTTTAAAAATTAATATTTTAAT
* *
2491077 TTTTAAAAATTATTTTTTTAAT
1 TTTTAAAAATTAATATTTTAAT
2491099 TTTT
1 TTTT
2491103 TTTATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTAAAAATTAATATTTTAAT
Found at i:2491102 original size:9 final size:9
Alignment explanation
Indices: 2491088--2491137 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
2491078 TTTAAAAATT
2491088 ATTTTTTTA
1 ATTTTTTTA
*
2491097 ATTTTTTTT
1 ATTTTTTTA
2491106 ATATTTTTTA
1 AT-TTTTTTA
*
2491116 ATTTTTTTT
1 ATTTTTTTA
*
2491125 ATAATTTTTA
1 AT-TTTTTTA
2491135 ATT
1 ATT
2491138 ATTATTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 18 0.55
10 15 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:2491102 original size:10 final size:10
Alignment explanation
Indices: 2491089--2491147 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
2491079 TTAAAAATTA
2491089 TTTTTTTAAT
1 TTTTTTTAAT
2491099 TTTTTTT-AT
1 TTTTTTTAAT
*
2491108 ATTTTTTAAT
1 TTTTTTTAAT
2491118 TTTTTTT-AT
1 TTTTTTTAAT
**
2491127 AATTTTTAAT
1 TTTTTTTAAT
2491137 TATTATTTTAA
1 T-TT-TTTTAA
2491148 AAATATGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 15 0.38
10 17 0.44
11 1 0.03
12 6 0.15
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:2491114 original size:19 final size:19
Alignment explanation
Indices: 2491086--2491137 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
2491076 TTTTTAAAAA
2491086 TTAT-TTTTTTAATTTTTT
1 TTATATTTTTTAATTTTTT
2491104 TTATATTTTTTAATTTTTT
1 TTATATTTTTTAATTTTTT
*
2491123 TTATAATTTTTAATT
1 TTATATTTTTTAATT
2491138 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 4 0.12
19 28 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATATTTTTTAATTTTTT
Found at i:2491146 original size:31 final size:31
Alignment explanation
Indices: 2491084--2491147 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
2491074 AATTTTTAAA
* *
2491084 AATTATTTTTTTAATTTTTTTTATATTTTTT
1 AATTATTTTTTTAATTTTTATTATATATTTT
2491115 AATT-TTTTTTATAATTTTTAATTAT-TATTTT
1 AATTATTTTTT-TAATTTTT-ATTATATATTTT
2491146 AA
1 AA
2491148 AAATATGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 6 0.21
31 19 0.66
32 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (31 bp):
AATTATTTTTTTAATTTTTATTATATATTTT
Found at i:2496038 original size:2 final size:2
Alignment explanation
Indices: 2496027--2496063 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2496017 AAGGTGATTC
2496027 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2496064 GGGTTGTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:2496179 original size:38 final size:38
Alignment explanation
Indices: 2496116--2496194 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
2496106 ATCTATAAAG
*
2496116 CATGGACACTTCTGGTATGGTAGTGTCCAAGTGTTGGA
1 CATGGACACTTCTAGTATGGTAGTGTCCAAGTGTTGGA
* ***
2496154 CATGGACACTTCTATTATGAG-AGTGTTTTAGTGTTGGA
1 CATGGACACTTCTAGTATG-GTAGTGTCCAAGTGTTGGA
2496192 CAT
1 CAT
2496195 AGACGCAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (38 bp):
CATGGACACTTCTAGTATGGTAGTGTCCAAGTGTTGGA
Found at i:2497960 original size:23 final size:23
Alignment explanation
Indices: 2497930--2497980 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
2497920 ACTTAATAAG
*
2497930 ATGGTGATATGTTACACAGATTT
1 ATGGTGATATGTTACACAAATTT
*
2497953 ATGGTGATGTGTTACACAAATTT
1 ATGGTGATATGTTACACAAATTT
2497976 -TGGTG
1 ATGGTG
2497981 TGAGTGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (23 bp):
ATGGTGATATGTTACACAAATTT
Found at i:2498069 original size:13 final size:13
Alignment explanation
Indices: 2498051--2498077 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2498041 AAAATTATGA
2498051 ATATGAATATTTG
1 ATATGAATATTTG
2498064 ATATGAATATTTG
1 ATATGAATATTTG
2498077 A
1 A
2498078 AGAAAAAAAA
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:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
ATATGAATATTTG
Found at i:2500836 original size:22 final size:22
Alignment explanation
Indices: 2500808--2500863 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2500798 ATACATTAAC
*
2500808 AAACTTATTTATAAATCATTTA
1 AAACTTATTTATAAATAATTTA
* * * *
2500830 AAGCTTAATAATAGATAATTTA
1 AAACTTATTTATAAATAATTTA
2500852 AAACTTATTTAT
1 AAACTTATTTAT
2500864 TATTTGATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (22 bp):
AAACTTATTTATAAATAATTTA
Found at i:2502803 original size:17 final size:16
Alignment explanation
Indices: 2502783--2502821 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2502773 TTTATTTAAT
2502783 TTAATTTTATTATTATA
1 TTAATTTTA-TATTATA
2502800 TTAATATTTATATTATA
1 TTAAT-TTTATATTATA
2502817 -TAATT
1 TTAATT
2502822 AAATATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 4 0.19
17 12 0.57
18 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTTATATTATA
Found at i:2503281 original size:13 final size:12
Alignment explanation
Indices: 2503246--2503290 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
2503236 TTTTATCTCT
2503246 TTTTTAAATTTA
1 TTTTTAAATTTA
*
2503258 TTTTTATATTTA
1 TTTTTAAATTTA
2503270 TTTTATAAATTTA
1 TTTT-TAAATTTA
2503283 TTTTTAAA
1 TTTTTAAA
2503291 ATATATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTTAAATTTA
Found at i:2503292 original size:13 final size:13
Alignment explanation
Indices: 2503245--2503292 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2503235 CTTTTATCTC
*
2503245 TTTTTTAAATTTA
1 TTTTTAAAATTTA
*
2503258 TTTTT-ATATTTA
1 TTTTTAAAATTTA
2503270 -TTTTATAAATTTA
1 TTTTTA-AAATTTA
2503283 TTTTTAAAAT
1 TTTTTAAAAT
2503293 ATATATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 4 0.13
12 6 0.20
13 15 0.50
14 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTAAAATTTA
Found at i:2503324 original size:27 final size:29
Alignment explanation
Indices: 2503291--2503453 Score: 135
Period size: 29 Copynumber: 5.6 Consensus size: 29
2503281 TATTTTTAAA
*
2503291 ATAT-ATATAATTTTAATTACTATTATTT
1 ATATAATATAATTTTAATTATTATTATTT
*
2503319 AATATAATATAATTTTGATATATATTTTATTGTTT
1 -ATATAATATAATTTT-A-AT-TA--TTATTATTT
*
2503354 AATATAATATAATTTTAACTATT-TT-TTT
1 -ATATAATATAATTTTAATTATTATTATTT
**
2503382 AGTATAAATATAATTTTAATTATTATTA-AA
1 A-TAT-AATATAATTTTAATTATTATTATTT
*
2503412 ATA-AATAAAATTTTAATT-TTATTATTT
1 ATATAATATAATTTTAATTATTATTATTT
2503439 A-AT-ATATAATTTTAA
1 ATATAATATAATTTTAA
2503454 CAATTTTTAA
Statistics
Matches: 112, Mismatches: 10, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
26 18 0.16
27 16 0.14
28 6 0.05
29 25 0.22
30 15 0.13
31 1 0.01
32 4 0.04
33 3 0.03
34 1 0.01
35 23 0.21
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (29 bp):
ATATAATATAATTTTAATTATTATTATTT
Found at i:2503343 original size:15 final size:15
Alignment explanation
Indices: 2503290--2503371 Score: 60
Period size: 15 Copynumber: 5.1 Consensus size: 15
2503280 TTATTTTTAA
2503290 AATATATATAATTTT
1 AATATATATAATTTT
*
2503305 AAT-TACTATTA-TTT
1 AATATA-TATAATTTT
2503319 AATATAATATAATTTT
1 AATAT-ATATAATTTT
* *
2503335 GATATATATTTTATTGTTT
1 -A-ATATA-TATAAT-TTT
2503354 AATATAATATAATTTT
1 AATAT-ATATAATTTT
2503370 AA
1 AA
2503372 CTATTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
14 8 0.15
15 12 0.23
16 9 0.17
17 10 0.19
18 10 0.19
19 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (15 bp):
AATATATATAATTTT
Found at i:2503382 original size:35 final size:35
Alignment explanation
Indices: 2503311--2503401 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
2503301 TTTTAATTAC
*
2503311 TATTATTTAATATAATATAATTTTGATATATATTT
1 TATTATTTAATATAATATAATTTTAATATATATTT
* *
2503346 TATTGTTTAATATAATATAATTTTAA-CTAT-TTT
1 TATTATTTAATATAATATAATTTTAATATATATTT
*
2503379 T-TTA-GT-ATA-AATATAATTTTAAT
1 TATTATTTAATATAATATAATTTTAAT
2503402 TATTATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 13 0.26
30 3 0.06
31 1 0.02
32 2 0.04
33 4 0.08
34 3 0.06
35 24 0.48
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (35 bp):
TATTATTTAATATAATATAATTTTAATATATATTT
Found at i:2503388 original size:28 final size:29
Alignment explanation
Indices: 2503351--2503461 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 29
2503341 TATTTTATTG
2503351 TTTAATAT-AATATAATTTTAACTATTTT
1 TTTAATATAAATATAATTTTAACTATTTT
* *
2503379 TTTAGTATAAATATAATTTTAA-T-TATT
1 TTTAATATAAATATAATTTTAACTATTTT
* * *
2503406 ATTAAAATAAATAAAATTTT-A--ATTTT
1 TTTAATATAAATATAATTTTAACTATTTT
* * *
2503432 ATT-ATTTAATATATAATTTTAACAATTTT
1 TTTAATATAA-ATATAATTTTAACTATTTT
2503461 T
1 T
2503462 AATTATACAA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
25 4 0.06
26 16 0.24
27 20 0.30
28 8 0.12
29 18 0.27
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTAATATAAATATAATTTTAACTATTTT
Found at i:2504556 original size:27 final size:27
Alignment explanation
Indices: 2504502--2504557 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2504492 TTTAAAAAAT
* *
2504502 TAATATTTAATTTTATTATTGAATTTA
1 TAATATTTAAATTTATTATTGAAATTA
*
2504529 TAATTTTTAAATTTATTAATT-AAATTA
1 TAATATTTAAATTTATT-ATTGAAATTA
2504556 TA
1 TA
2504558 TCATATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TAATATTTAAATTTATTATTGAAATTA
Found at i:2505092 original size:21 final size:21
Alignment explanation
Indices: 2505068--2505107 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2505058 AAAATTATTT
2505068 TATTATTTTAAAATATTAAAA
1 TATTATTTTAAAATATTAAAA
* *
2505089 TATTATTTTTATATATTAA
1 TATTATTTTAAAATATTAA
2505108 TATTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTTTAAAATATTAAAA
Found at i:2505126 original size:14 final size:16
Alignment explanation
Indices: 2505092--2505126 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2505082 ATTAAAATAT
2505092 TATTTTTATATATTAA
1 TATTTTTATATATTAA
2505108 TATTTTTATA-ATTAA
1 TATTTTTATATATTAA
2505123 -ATTT
1 TATTT
2505127 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTATATATTAA
Found at i:2505742 original size:22 final size:23
Alignment explanation
Indices: 2505686--2505742 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
2505676 AAATTTAAAA
2505686 ATATTTTTAATTTATTTATTATT
1 ATATTTTTAATTTATTTATTATT
* *
2505709 ATAATTTAAATTTATTT-TTATGT
1 ATATTTTTAATTTATTTATTAT-T
2505732 A-ATTTTTAATT
1 ATATTTTTAATT
2505743 AAATTGATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATATTTTTAATTTATTTATTATT
Found at i:2506706 original size:2 final size:2
Alignment explanation
Indices: 2506699--2506730 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2506689 GTAAATCTAA
2506699 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2506731 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2506735 original size:2 final size:2
Alignment explanation
Indices: 2506730--2506758 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2506720 TCTCTCTCTC
2506730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2506759 TTACGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2509101 original size:17 final size:16
Alignment explanation
Indices: 2509056--2509104 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2509046 ATATTAAAGA
*
2509056 ACATGTAGATATAAAT
1 ACATGTAAATATAAAT
* *
2509072 TCAT-TACATATAATAT
1 ACATGTAAATATAA-AT
2509088 ACATGTAAATATAAAT
1 ACATGTAAATATAAAT
2509104 A
1 A
2509105 TTTAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 8 0.30
16 11 0.41
17 8 0.30
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (16 bp):
ACATGTAAATATAAAT
Found at i:2514156 original size:16 final size:16
Alignment explanation
Indices: 2514135--2514166 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2514125 GAATCTCTAG
2514135 CCAATCCCTTCCCCAA
1 CCAATCCCTTCCCCAA
2514151 CCAATCCCTTCCCCAA
1 CCAATCCCTTCCCCAA
2514167 GCATCAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.56, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAATCCCTTCCCCAA
Found at i:2514387 original size:276 final size:276
Alignment explanation
Indices: 2513894--2514429 Score: 1054
Period size: 276 Copynumber: 1.9 Consensus size: 276
2513884 GGTGCTCCAG
2513894 TCAAAAGGATTCCCTGCAATTTGGTTGCGAATTAGATAATACAACCATAAGATTAAAGCAATAAA
1 TCAAAAGGATTCCCTGCAATTTGGTTGCGAATTAGATAATACAACCATAAGATTAAAGCAATAAA
2513959 AGCCTTTTTTAGAAGTGAATGGACCATAAGATACAAATTTCAGCACTCATGATTCACATAAATAA
66 AGCCTTTTTTAGAAGTGAATGGACCATAAGATACAAATTTCAGCACTCATGATTCACATAAATAA
*
2514024 TGACAAGCATTCACTATGGACTAAACAATAGACGAAAAACCCTAAATCACTTGTTAAAATTTTAT
131 TGACAAGCATTCACTATGGACTAAACAATAGACAAAAAACCCTAAATCACTTGTTAAAATTTTAT
2514089 CTCCCCTATAAAGGAAAGCATGAAGAACAGAACCTAGAATCTCTAGCCAATCCCTTCCCCAACCA
196 CTCCCCTATAAAGGAAAGCATGAAGAACAGAACCTAGAATCTCTAGCCAATCCCTTCCCCAACCA
2514154 ATCCCTTCCCCAAGCA
261 ATCCCTTCCCCAAGCA
*
2514170 TCAAAAGGATTCCCTGCAATTTGGTTGCGAATTAGATAATACAACCATAAGATTGAAGCAATAAA
1 TCAAAAGGATTCCCTGCAATTTGGTTGCGAATTAGATAATACAACCATAAGATTAAAGCAATAAA
2514235 AGCCTTTTTTAGAAGTGAATGGACCATAAGATACAAATTTCAGCACTCATGATTCACATAAATAA
66 AGCCTTTTTTAGAAGTGAATGGACCATAAGATACAAATTTCAGCACTCATGATTCACATAAATAA
2514300 TGACAAGCATTCACTATGGACTAAACAATAGACAAAAAACCCTAAATCACTTGTTAAAATTTTAT
131 TGACAAGCATTCACTATGGACTAAACAATAGACAAAAAACCCTAAATCACTTGTTAAAATTTTAT
2514365 CTCCCCTATAAAGGAAAGCATGAAGAACAGAACCTAGAATCTCTAGCCAATCCCTTCCCCAACCA
196 CTCCCCTATAAAGGAAAGCATGAAGAACAGAACCTAGAATCTCTAGCCAATCCCTTCCCCAACCA
2514430 CCTGAGCTAA
Statistics
Matches: 258, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 258 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (276 bp):
TCAAAAGGATTCCCTGCAATTTGGTTGCGAATTAGATAATACAACCATAAGATTAAAGCAATAAA
AGCCTTTTTTAGAAGTGAATGGACCATAAGATACAAATTTCAGCACTCATGATTCACATAAATAA
TGACAAGCATTCACTATGGACTAAACAATAGACAAAAAACCCTAAATCACTTGTTAAAATTTTAT
CTCCCCTATAAAGGAAAGCATGAAGAACAGAACCTAGAATCTCTAGCCAATCCCTTCCCCAACCA
ATCCCTTCCCCAAGCA
Found at i:2517161 original size:18 final size:17
Alignment explanation
Indices: 2517138--2517187 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
2517128 AAAAAGTGTA
2517138 TTAATTAAATATTTTATG
1 TTAATTAAATATTTTA-G
*
2517156 TTAATTAAATTTTTTAG
1 TTAATTAAATATTTTAG
*
2517173 TTAATAAAATTATTT
1 TTAATTAAA-TATTT
2517188 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTAATTAAATATTTTAG
Found at i:2517175 original size:17 final size:18
Alignment explanation
Indices: 2517138--2517188 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 18
2517128 AAAAAGTGTA
*
2517138 TTAATTAAATATTTTATG
1 TTAATTAAATTTTTTATG
2517156 TTAATTAAATTTTTTA-G
1 TTAATTAAATTTTTTATG
* *
2517173 TTAATAAAATTATTTA
1 TTAATTAAATTTTTTA
2517189 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTAATTAAATTTTTTATG
Found at i:2517925 original size:15 final size:14
Alignment explanation
Indices: 2517885--2517927 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
2517875 TATAATCTCT
*
2517885 TTTATATAAAATTA
1 TTTAAATAAAATTA
*
2517899 TTTAATTAAAATTA
1 TTTAAATAAAATTA
2517913 TTTAAGATAAAATTA
1 TTTAA-ATAAAATTA
2517928 AAAGAAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TTTAAATAAAATTA
Found at i:2523844 original size:17 final size:18
Alignment explanation
Indices: 2523824--2523868 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
2523814 TTTTTACTTA
2523824 ATTTTTAATAATT-ATAT
1 ATTTTTAATAATTAATAT
* *
2523841 ATTTTTATTATTTAATAT
1 ATTTTTAATAATTAATAT
2523859 ATTTTTAATA
1 ATTTTTAATA
2523869 CTTTACTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTAATAATTAATAT
Found at i:2524029 original size:25 final size:25
Alignment explanation
Indices: 2523988--2524052 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
2523978 ATATTTATAT
2523988 TATT-TTTTAATTT-ATTTTAAAAAA
1 TATTATTTT-ATTTAATTTTAAAAAA
* *
2524012 TATTATTTTATTTAATTTTGAATAA
1 TATTATTTTATTTAATTTTAAAAAA
*
2524037 T-TATATATTATTTAAT
1 TAT-TATTTTATTTAAT
2524053 ATATTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 9 0.26
25 26 0.74
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TATTATTTTATTTAATTTTAAAAAA
Found at i:2524063 original size:11 final size:12
Alignment explanation
Indices: 2524039--2524095 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
2524029 TTGAATAATT
2524039 ATATATTATTTA
1 ATATATTATTTA
2524051 ATATATT-TTTA
1 ATATATTATTTA
*
2524062 ATACT-TTACTATA
1 ATA-TATTA-TTTA
*
2524075 ATATA-TATAT-
1 ATATATTATTTA
2524085 ATATATTATTT
1 ATATATTATTT
2524096 CATAGAACGT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 5 0.13
11 16 0.42
12 11 0.29
13 6 0.16
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATTATTTA
Found at i:2526113 original size:27 final size:23
Alignment explanation
Indices: 2526063--2526127 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
2526053 AATTAGTACT
*
2526063 AAATATATTTAAAAATTAATTTA
1 AAATATATTTAAAAATTAAGTTA
2526086 AAATATATTTAATTAAATGATAAGTTA
1 AAATATATTTAA--AAAT--TAAGTTA
*
2526113 AAATA-ATTAAAAAAT
1 AAATATATTTAAAAAT
2526128 AATATATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 12 0.33
24 4 0.11
25 4 0.11
26 5 0.14
27 11 0.31
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
AAATATATTTAAAAATTAAGTTA
Found at i:2526540 original size:34 final size:34
Alignment explanation
Indices: 2526485--2526700 Score: 240
Period size: 34 Copynumber: 6.4 Consensus size: 34
2526475 GCTAACATTC
* *
2526485 TGTTGATTAAAT-GGTGATTTGGTAGTTTATCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * * **
2526518 TATTGATTAAATGGGTGATTTGGTGGTTTGTCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
2526552 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* ** *
2526586 TGTTGATTAAATGAGAAATTTGATAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* *
2526620 TATTGATTAAAT-GGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * *
2526653 TGTTGATTAAAT-AGTAGATTTGGTAGGTTATCAT
1 TGTTGATTAAATGGGT-GATTTGGTAGCTTACCAT
2526687 TGTTGATTAAATGG
1 TGTTGATTAAATGG
2526701 TGGTTTTTAC
Statistics
Matches: 154, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
33 40 0.26
34 114 0.74
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.43
Consensus pattern (34 bp):
TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
Found at i:2526658 original size:67 final size:67
Alignment explanation
Indices: 2526485--2526702 Score: 267
Period size: 67 Copynumber: 3.2 Consensus size: 67
2526475 GCTAACATTC
* * * * * * * *
2526485 TGTTGATTAAATGGTGATTTGGTAGTTTATCATTATTGATTAAATGGGTGATTTGGTGGTTTGTC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGAGAGATTTGGTAGCTTATC
2526550 AT
66 AT
* * * * *
2526552 TGTTGACTAAATGGGAGATTTGGTAGCTTACCATTGTTGATTAAATGAGAAATTTGATAGCTTAC
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGAGAGATTTGGTAGCTTAT
2526617 CAT
65 CAT
* * *
2526620 TATTGATTAAATGGTGATTTGGTGGCTTACCATTGTTGATTAAAT-AGTAGATTTGGTAGGTTAT
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGAG-AGATTTGGTAGCTTAT
2526684 CAT
65 CAT
2526687 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
2526703 GTTTTTACCA
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
66 2 0.02
67 72 0.57
68 53 0.42
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.43
Consensus pattern (67 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGAGAGATTTGGTAGCTTATC
AT
Found at i:2526664 original size:101 final size:101
Alignment explanation
Indices: 2526485--2526700 Score: 299
Period size: 101 Copynumber: 2.1 Consensus size: 101
2526475 GCTAACATTC
** * * * * **
2526485 TGTTGATTAAATGGTGATTTGGTAGTTTATCATTATTGATTAAATGGGTGATTTGGTGGTTTGTC
1 TGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
*
2526550 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
2526586 TGTTGATTAAATGAGAAATTTGATAGCTTACCATTATTGATTAAAT-GGTGATTTGGTGGCTTAC
1 TGTTGATTAAATG-GAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
* * * *
2526650 CATTGTTGATTAAATAGTAGATTTGGTAGGTTATCAT
65 CATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
2526687 TGTTGATTAAATGG
1 TGTTGATTAAATGG
2526701 TGGTTTTTAC
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 1 0.01
101 73 0.72
102 27 0.27
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.43
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
Found at i:2527099 original size:25 final size:25
Alignment explanation
Indices: 2527053--2527103 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
2527043 TGCAGTCTTG
*
2527053 AATACTTATAGTTATAAATATAATA
1 AATACTTATAATTATAAATATAATA
*
2527078 AATA-TTATAATTATTAATTATAATA
1 AATACTTATAATTA-TAAATATAATA
2527103 A
1 A
2527104 TATAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AATACTTATAATTATAAATATAATA
Found at i:2529350 original size:18 final size:19
Alignment explanation
Indices: 2529327--2529363 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2529317 TTGAAAGATG
2529327 AATTTGAAT-AAAAATTAA
1 AATTTGAATAAAAAATTAA
*
2529345 AATTTGTATAAAAAATTAA
1 AATTTGAATAAAAAATTAA
2529364 TTAAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AATTTGAATAAAAAATTAA
Found at i:2529916 original size:48 final size:47
Alignment explanation
Indices: 2529863--2529961 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 47
2529853 TGATGGGGCA
* *
2529863 AACCATTTGGATGTACAAATAAAATAATAAAAATATATATAAAATAAT
1 AACCATTTGAATGTAAAAATAAAATAATAAAAATATATAT-AAATAAT
*
2529911 AACCATTTGAATGTAAAAATGAAATAATAAAAATATATATAAATAAT
1 AACCATTTGAATGTAAAAATAAAATAATAAAAATATATATAAATAAT
2529958 AACC
1 AACC
2529962 TCACAAGCTG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 11 0.23
48 37 0.77
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (47 bp):
AACCATTTGAATGTAAAAATAAAATAATAAAAATATATATAAATAAT
Found at i:2530566 original size:2 final size:2
Alignment explanation
Indices: 2530559--2530589 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2530549 TATACATGTG
2530559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2530590 GTCGTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2531093 original size:15 final size:15
Alignment explanation
Indices: 2531072--2531109 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
2531062 ATTATAATTT
2531072 TAAATATATTATTTAA
1 TAAATATA-TATTTAA
2531088 -AAATATATATTTAA
1 TAAATATATATTTAA
2531102 TAAATATA
1 TAAATATA
2531110 AATATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATATATATTTAA
Found at i:2532159 original size:26 final size:28
Alignment explanation
Indices: 2532130--2532189 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2532120 AATAAGATTA
2532130 TTTAT-AATAATT-TGC-AACTTATATTG
1 TTTATCAATAATTGT-CAAACTTATATTG
* *
2532156 TTTATCATTAATTGTCAAAGTTATATTG
1 TTTATCAATAATTGTCAAACTTATATTG
2532184 TTTATC
1 TTTATC
2532190 CATTCCGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 7 0.24
28 17 0.59
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (28 bp):
TTTATCAATAATTGTCAAACTTATATTG
Found at i:2533993 original size:25 final size:26
Alignment explanation
Indices: 2533974--2534027 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
2533964 AAAAATATTC
2533974 AAATAATTTTAAAAATAAAAATAATAA
1 AAAT-ATTTTAAAAATAAAAATAATAA
*
2534001 AAATATTTT-AAAATTAAAATAAATAA
1 AAATATTTTAAAAATAAAAAT-AATAA
2534027 A
1 A
2534028 TAAATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 11 0.44
27 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATATTTTAAAAATAAAAATAATAA
Found at i:2534026 original size:4 final size:4
Alignment explanation
Indices: 2534017--2534052 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
2534007 TTTAAAATTA
2534017 AAAT AAAT AAAT AAAT AAAT AATAT AAAT AACAT AA
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AA-AT AA
2534053 TATTAAGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 22 0.73
5 8 0.27
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:2534043 original size:9 final size:9
Alignment explanation
Indices: 2533961--2534052 Score: 52
Period size: 9 Copynumber: 10.6 Consensus size: 9
2533951 ATGGTTTAAT
2533961 TATAAA-AA
1 TATAAATAA
2533969 TATTCAAATAA
1 TA-T-AAATAA
*
2533980 TTTTAAA-AA
1 -TATAAATAA
*
2533989 TAAAAATAA
1 TATAAATAA
* *
2533998 TAAAAATAT
1 TATAAATAA
* *
2534007 TTTAAA-AT
1 TATAAATAA
2534015 TA-AAATAA
1 TATAAATAA
2534023 -ATAAATAA
1 TATAAATAA
2534031 -ATAAATAA
1 TATAAATAA
2534039 TATAAATAA
1 TATAAATAA
*
2534048 CATAA
1 TATAA
2534053 TATTAAGTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.06
8 24 0.36
9 29 0.43
10 6 0.09
11 3 0.04
12 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
TATAAATAA
Found at i:2534463 original size:19 final size:19
Alignment explanation
Indices: 2534441--2534479 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2534431 ATTTAAATTA
2534441 AATATATAAATATAAATAT
1 AATATATAAATATAAATAT
* *
2534460 AATATATATATATAATTAT
1 AATATATAAATATAAATAT
2534479 A
1 A
2534480 TTTAAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATATAAATATAAATAT
Found at i:2538859 original size:21 final size:21
Alignment explanation
Indices: 2538834--2538880 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2538824 AAGAAGAATA
2538834 AATCGCTGATATCTTCAAAAT
1 AATCGCTGATATCTTCAAAAT
2538855 AATCGCTGATATCTTCAAAAT
1 AATCGCTGATATCTTCAAAAT
2538876 AATCG
1 AATCG
2538881 TCCACTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (21 bp):
AATCGCTGATATCTTCAAAAT
Found at i:2541040 original size:16 final size:16
Alignment explanation
Indices: 2541021--2541053 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2541011 TTAAAATTTT
2541021 ATTTATAAA-AAAATTA
1 ATTT-TAAACAAAATTA
2541037 ATTTTAAACAAAATTA
1 ATTTTAAACAAAATTA
2541053 A
1 A
2541054 ATCATTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTAAACAAAATTA
Found at i:2541225 original size:22 final size:21
Alignment explanation
Indices: 2541200--2541240 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2541190 TAATTTTATT
2541200 TTATTAAAAAATTTACATAACG
1 TTATT-AAAAATTTACATAACG
*
2541222 TTATTTAAAATTTACATAA
1 TTATTAAAAATTTACATAA
2541241 AATATTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTAAAAATTTACATAACG
Found at i:2542160 original size:28 final size:28
Alignment explanation
Indices: 2542111--2542185 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 28
2542101 TTTTAATATT
* *
2542111 ATTAAAAATTATTTATT--TTTTAAAAA
1 ATTAAAAATAATATATTAATTTTAAAAA
* * * *
2542137 ATTTATATTAATATATTAATTTTAATAA
1 ATTAAAAATAATATATTAATTTTAAAAA
*
2542165 ATTAAAAATATTATATTAATT
1 ATTAAAAATAATATATTAATT
2542186 ATAATTTATT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 12 0.32
28 25 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTAAAAATAATATATTAATTTTAAAAA
Found at i:2542559 original size:14 final size:14
Alignment explanation
Indices: 2542540--2542592 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
2542530 ATTAATATTT
2542540 TTAAAATATAAAAA
1 TTAAAATATAAAAA
* *
2542554 TTAAAATATTAAAT
1 TTAAAATATAAAAA
2542568 TTAATAATATAAAAA
1 TTAA-AATATAAAAA
*
2542583 TTGAAATATA
1 TTAAAATATA
2542593 TCTTTTACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:2542599 original size:29 final size:27
Alignment explanation
Indices: 2542534--2542599 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
2542524 TTATTTATTA
2542534 ATATTTTTAAAATATAAAAATTAAAAT
1 ATATTTTTAAAATATAAAAATTAAAAT
** *
2542561 ATTAAATTTAATAATATAAAAATTGAAAT
1 A-TATTTTTAA-AATATAAAAATTAAAAT
2542590 ATATCTTTTA
1 ATAT-TTTTA
2542600 CTGTATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 1 0.03
28 9 0.29
29 21 0.68
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
ATATTTTTAAAATATAAAAATTAAAAT
Found at i:2543285 original size:9 final size:9
Alignment explanation
Indices: 2543261--2543295 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2543251 TTTAGCCTTC
*
2543261 TTCTTCTTA
1 TTCTTATTA
*
2543270 TTATTATTA
1 TTCTTATTA
2543279 TTCTTATTA
1 TTCTTATTA
2543288 TTCTTATT
1 TTCTTATT
2543296 TATCATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (9 bp):
TTCTTATTA
Found at i:2544867 original size:2 final size:2
Alignment explanation
Indices: 2544860--2544903 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2544850 GTGGGGGAAC
2544860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2544902 TA
1 TA
2544904 CCTTGACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2545097 original size:16 final size:16
Alignment explanation
Indices: 2545073--2545103 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2545063 ATCAATTGTT
*
2545073 AAATTAATTTAATAAA
1 AAATAAATTTAATAAA
2545089 AAATAAATTTAATAA
1 AAATAAATTTAATAA
2545104 TTTTAAACAC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAAATTTAATAAA
Found at i:2545800 original size:16 final size:17
Alignment explanation
Indices: 2545774--2545805 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2545764 TCAAATTTTA
2545774 ATAATTATTTTTTTATT
1 ATAATTATTTTTTTATT
2545791 ATAA-TATTTTTTTAT
1 ATAATTATTTTTTTAT
2545806 CTAATATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATAATTATTTTTTTATT
Found at i:2546439 original size:9 final size:10
Alignment explanation
Indices: 2546423--2546452 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2546413 TTATAATTTG
2546423 ATTTTTTTTA
1 ATTTTTTTTA
2546433 ATTTTTTTTA
1 ATTTTTTTTA
*
2546443 ATTTTATTTA
1 ATTTTTTTTA
2546453 GATTGTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:2546981 original size:15 final size:15
Alignment explanation
Indices: 2546935--2546983 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2546925 AAAATGCATG
*
2546935 TATTTTATA-GTAAT
1 TATTTTATATATAAT
**
2546949 TACCTTATATATAAT
1 TATTTTATATATAAT
*
2546964 TATTTTATATATTAT
1 TATTTTATATATAAT
2546979 TATTT
1 TATTT
2546984 AAAAAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (15 bp):
TATTTTATATATAAT
Found at i:2547044 original size:32 final size:28
Alignment explanation
Indices: 2546959--2547053 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 28
2546949 TACCTTATAT
* *
2546959 ATAATTATTTTATATATTATTATTTAAAAA
1 ATAATAATTTTATAAATTA-TATTT-AAAA
*
2546989 ATAA-AATTTTATAAATTAAATTTATAAA
1 ATAATAATTTTATAAATTATATTTA-AAA
2547017 ATAATACATCTTTAATAAATTATATTTAAAA
1 ATAATA-AT-TTT-ATAAATTATATTTAAAA
2547048 A-AATAA
1 ATAATAA
2547054 AATATTTGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
27 1 0.02
28 11 0.20
29 14 0.25
30 10 0.18
31 7 0.12
32 13 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAATAATTTTATAAATTATATTTAAAA
Found at i:2550462 original size:32 final size:31
Alignment explanation
Indices: 2550396--2550462 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
2550386 TCGGCTTTAA
* * * *
2550396 AATATTTTATATATATTAATTTTAGTATGCT
1 AATAATTTATATATATAAATTTTAATATACT
*
2550427 AATAATTTATATTATATAAATTTTAATATATT
1 AATAATTTATA-TATATAAATTTTAATATACT
2550459 AATA
1 AATA
2550463 TATTCGTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (31 bp):
AATAATTTATATATATAAATTTTAATATACT
Found at i:2550628 original size:19 final size:20
Alignment explanation
Indices: 2550586--2550628 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
2550576 CAATCTCTTT
* *
2550586 TAAAAAAATAAATTAGTACA
1 TAAATAAATAAATTAATACA
2550606 -AAATAAATAAA-TAATACA
1 TAAATAAATAAATTAATACA
2550624 TAAAT
1 TAAAT
2550629 TATTTTAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAATAAATAAATTAATACA
Found at i:2550754 original size:24 final size:26
Alignment explanation
Indices: 2550711--2550759 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
2550701 GATAAGCATT
**
2550711 TAAATATATTAAAATTTAT-ATAATA
1 TAAATATATTAAAAAATATAATAATA
2550736 TAAAT-TATTAAAAAATATAATAAT
1 TAAATATATTAAAAAATATAATAAT
2550760 TTTCATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAATATATTAAAAAATATAATAATA
Found at i:2551385 original size:20 final size:21
Alignment explanation
Indices: 2551360--2551398 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2551350 AATTTAATTT
2551360 TAAAATTCACT-AAATATTAA
1 TAAAATTCACTCAAATATTAA
*
2551380 TAAAATTTACTCAAATATT
1 TAAAATTCACTCAAATATT
2551399 CTTCACTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTCACTCAAATATTAA
Found at i:2552213 original size:14 final size:15
Alignment explanation
Indices: 2552180--2552236 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
2552170 TATATATTAA
* *
2552180 AATATAATTTTAATAT
1 AATATAA-TTAAATAC
2552196 AATATAA-TAAATAC
1 AATATAATTAAATAC
2552210 AATATAATTAAAT-C
1 AATATAATTAAATAC
*
2552224 AATA-AATTTAATA
1 AATATAATTAAATA
2552237 TTAATATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 7 0.19
14 17 0.47
15 5 0.14
16 7 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATAATTAAATAC
Found at i:2552282 original size:25 final size:25
Alignment explanation
Indices: 2552229--2552293 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
2552219 AAATCAATAA
*
2552229 ATTTAAT-ATTAATATTATATATAT
1 ATTTAATAATTAATATTACATATAT
* * *
2552253 TTTTAATAATTTATATTACATTTAT
1 ATTTAATAATTAATATTACATATAT
2552278 ATTTAAATAATTAATA
1 ATTT-AATAATTAATA
2552294 AAATATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 6 0.18
25 17 0.52
26 10 0.30
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTAATAATTAATATTACATATAT
Found at i:2552393 original size:3 final size:3
Alignment explanation
Indices: 2552385--2552414 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2552375 TCCCTTTTAT
2552385 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2552415 ATCCCAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2553552 original size:2 final size:2
Alignment explanation
Indices: 2553547--2553577 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2553537 TAGAGAGAGA
2553547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2553578 AACTATGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2554883 original size:2 final size:2
Alignment explanation
Indices: 2554876--2554905 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2554866 GATTTGTGAG
2554876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2554906 TTATTGGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2555234 original size:17 final size:18
Alignment explanation
Indices: 2555212--2555247 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2555202 GTTAATATAT
2555212 ATTATAAA-AATAAAAAA
1 ATTATAAATAATAAAAAA
2555229 ATTATAAATTAATAAAAAA
1 ATTATAAA-TAATAAAAAA
2555248 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
ATTATAAATAATAAAAAA
Found at i:2555897 original size:2 final size:2
Alignment explanation
Indices: 2555885--2555927 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2555875 TTTATTAGTT
*
2555885 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2555927 T
1 T
2555928 TAGCTTGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2557703 original size:14 final size:14
Alignment explanation
Indices: 2557684--2557719 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2557674 ATTTTCAATG
*
2557684 TCAATTAAAATCAC
1 TCAATTAAAAACAC
2557698 TCAATTAAAAACAC
1 TCAATTAAAAACAC
2557712 TCAATTAA
1 TCAATTAA
2557720 GCTCGTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (14 bp):
TCAATTAAAAACAC
Found at i:2557939 original size:5 final size:5
Alignment explanation
Indices: 2557929--2557954 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2557919 ACTGTTCTTC
2557929 GAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA G
2557955 GGATGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:2559122 original size:2 final size:2
Alignment explanation
Indices: 2559115--2559147 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2559105 CTCATATCAA
*
2559115 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2559148 ACTTAAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2563975 original size:20 final size:19
Alignment explanation
Indices: 2563950--2564027 Score: 64
Period size: 20 Copynumber: 4.4 Consensus size: 19
2563940 AAATAAATAA
2563950 ATAAATA-TTAATATTATTAT
1 ATAAATATTTAA-ATT-TTAT
2563970 ATAAATATTTAAATTTTAT
1 ATAAATATTTAAATTTTAT
2563989 AT-AATA---AAATTTT-T
1 ATAAATATTTAAATTTTAT
**
2564003 AT-TTTA-TTAAATTTTAT
1 ATAAATATTTAAATTTTAT
2564020 ATAAATAT
1 ATAAATAT
2564028 AAAAGATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
14 5 0.10
15 7 0.15
16 7 0.15
17 3 0.06
18 6 0.12
19 6 0.12
20 10 0.21
21 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAAATATTTAAATTTTAT
Found at i:2563991 original size:21 final size:21
Alignment explanation
Indices: 2563949--2564009 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
2563939 TAAATAAATA
*
2563949 AATAAATA-TTAATATTAT-T
1 AATAAATATTTAATTTTATAT
2563968 ATATAAATATTTAAATTTTATAT
1 A-ATAAATATTT-AATTTTATAT
*
2563991 AATAAA-ATTTTTATTTTAT
1 AATAAATA-TTTAATTTTAT
2564010 TAAATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 7 0.20
21 10 0.29
22 15 0.43
23 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATAAATATTTAATTTTATAT
Found at i:2564004 original size:16 final size:15
Alignment explanation
Indices: 2563980--2564023 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
2563970 ATAAATATTT
2563980 AAATTTTATATAATA
1 AAATTTTATATAATA
* * *
2563995 AAATTTTTATTTTATT
1 AAA-TTTTATATAATA
2564011 AAATTTTATATAA
1 AAATTTTATATAA
2564024 ATATAAAAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTTATATAATA
Found at i:2568451 original size:22 final size:22
Alignment explanation
Indices: 2568416--2568457 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2568406 ATTTTTTATT
2568416 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
2568438 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
2568458 AATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:2568954 original size:38 final size:38
Alignment explanation
Indices: 2568911--2568988 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
2568901 TTTTTATACA
* *
2568911 TAGTGAACATTC-TATTGTTAGCTCTAATGT-ATCCATTG
1 TAGTGAACA-TCGTATCGTTAGCTCTAACGTAAT-CATTG
*
2568949 TAGTGAATATCGTATCGTTAGCTCTAACGTAATCATTG
1 TAGTGAACATCGTATCGTTAGCTCTAACGTAATCATTG
2568987 TA
1 TA
2568989 CTCAATATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 2 0.06
38 31 0.89
39 2 0.06
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (38 bp):
TAGTGAACATCGTATCGTTAGCTCTAACGTAATCATTG
Found at i:2573246 original size:18 final size:18
Alignment explanation
Indices: 2573206--2573246 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2573196 GAGCGCAATT
*
2573206 GTGATTGTGATTGTGACC
1 GTGATTGTGATTATGACC
* *
2573224 TTGATTGTGATTATGATC
1 GTGATTGTGATTATGACC
2573242 GTGAT
1 GTGAT
2573247 CGGGATCGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (18 bp):
GTGATTGTGATTATGACC
Found at i:2577348 original size:22 final size:23
Alignment explanation
Indices: 2577314--2577359 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
2577304 TTAAAATGAG
*
2577314 AAAAATATTAAATAGA-TATTTT
1 AAAAATATTAAATAAATTATTTT
2577336 AAAAA-ATTAAAATAAATTATTTT
1 AAAAATATT-AAATAAATTATTTT
2577359 A
1 A
2577360 CGAAATAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 11 0.52
23 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAAATATTAAATAAATTATTTT
Found at i:2578244 original size:5 final size:5
Alignment explanation
Indices: 2578230--2578259 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
2578220 ATGTAATTTT
*
2578230 TTTAA TTTAA ATTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
2578260 ATTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTTAA
Found at i:2578246 original size:10 final size:10
Alignment explanation
Indices: 2578231--2578263 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
2578221 TGTAATTTTT
2578231 TTAATTTAAA
1 TTAATTTAAA
*
2578241 TTAATTTAAT
1 TTAATTTAAA
2578251 TTAATTTAAA
1 TTAATTTAAA
2578261 TTA
1 TTA
2578264 TTATTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TTAATTTAAA
Found at i:2578253 original size:20 final size:19
Alignment explanation
Indices: 2578212--2578272 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
2578202 CTATGTGTCA
*
2578212 AATTATAAATGTAATTTTTTT
1 AATT-TAAAT-TAATTTATTT
2578233 AATTTAAATTAATTTAATTT
1 AATTTAAATTAATTT-ATTT
2578253 AATTTAAATT-A-TTATTT
1 AATTTAAATTAATTTATTT
2578270 AAT
1 AAT
2578273 AATAAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
17 7 0.18
18 2 0.05
19 7 0.18
20 18 0.47
21 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTAAATTAATTTATTT
Found at i:2581273 original size:11 final size:11
Alignment explanation
Indices: 2581254--2581288 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2581244 TACTCACACA
*
2581254 TTTCTAAAAGT
1 TTTCAAAAAGT
2581265 TTTCAAAAAGT
1 TTTCAAAAAGT
*
2581276 TTCCAAAAAGT
1 TTTCAAAAAGT
2581287 TT
1 TT
2581289 CAGGTGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (11 bp):
TTTCAAAAAGT
Found at i:2581289 original size:11 final size:11
Alignment explanation
Indices: 2581259--2581289 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2581249 ACACATTTCT
*
2581259 AAAAGTTTTCA
1 AAAAGTTTCCA
2581270 AAAAGTTTCCA
1 AAAAGTTTCCA
2581281 AAAAGTTTC
1 AAAAGTTTC
2581290 AGGTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (11 bp):
AAAAGTTTCCA
Found at i:2581988 original size:6 final size:6
Alignment explanation
Indices: 2581977--2582008 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2581967 GAATTACAAT
*
2581977 AATAAG AATAAG AATAAG AATAAA AATAAG AA
1 AATAAG AATAAG AATAAG AATAAG AATAAG AA
2582009 AATTAAAAGA
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:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (6 bp):
AATAAG
Found at i:2584004 original size:3 final size:3
Alignment explanation
Indices: 2583996--2584024 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2583986 TGGATTAGAG
2583996 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
2584025 GAGGGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2593169 original size:3 final size:3
Alignment explanation
Indices: 2593161--2593199 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
2593151 CCATGCTGTT
*
2593161 GAA GAA GAA CAA GAA GAA GAA G-A GCAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA
2593200 AAGGAAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2593181 original size:15 final size:15
Alignment explanation
Indices: 2593161--2593199 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
2593151 CCATGCTGTT
2593161 GAAGAAGAACAAGAA
1 GAAGAAGAACAAGAA
*
2593176 GAAGAAGAGCAAGAA
1 GAAGAAGAACAAGAA
2593191 GAAGAAGAA
1 GAAGAAGAA
2593200 AAGGAAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAGAAGAACAAGAA
Found at i:2594026 original size:8 final size:8
Alignment explanation
Indices: 2594013--2594046 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
2594003 ATGAGATGGT
2594013 CCCCTCCC
1 CCCCTCCC
2594021 CCCCTCCCC
1 CCCCT-CCC
*
2594030 CCCCCCCC
1 CCCCTCCC
2594038 CCCCTCCC
1 CCCCTCCC
2594046 C
1 C
2594047 TTCTTCCCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.00, C:0.91, G:0.00, T:0.09
Consensus pattern (8 bp):
CCCCTCCC
Found at i:2594033 original size:17 final size:17
Alignment explanation
Indices: 2594013--2594046 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2594003 ATGAGATGGT
*
2594013 CCCCTCCCCCCCTCCCC
1 CCCCCCCCCCCCTCCCC
2594030 CCCCCCCCCCCCTCCCC
1 CCCCCCCCCCCCTCCCC
2594047 TTCTTCCCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.91, G:0.00, T:0.09
Consensus pattern (17 bp):
CCCCCCCCCCCCTCCCC
Found at i:2599734 original size:2 final size:2
Alignment explanation
Indices: 2599727--2599758 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2599717 ACTATAATGA
2599727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2599759 TTGTAGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2599861 original size:14 final size:15
Alignment explanation
Indices: 2599837--2599866 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2599827 TTATATAAAT
2599837 TATTAAATATT-ATA
1 TATTAAATATTGATA
2599851 TATTAAATATTGATA
1 TATTAAATATTGATA
2599866 T
1 T
2599867 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TATTAAATATTGATA
Found at i:2599868 original size:20 final size:18
Alignment explanation
Indices: 2599843--2599896 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
2599833 AAATTATTAA
2599843 ATATTATATATTAAATATT
1 ATATTATATATTAAAT-TT
2599862 GATATTATATTTATTAAATTT
1 -ATATTATA--TATTAAATTT
*
2599883 ATAATATAT-TTAAA
1 ATATTATATATTAAA
2599897 ATTAACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
20 15 0.48
21 2 0.06
22 8 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATATTATATATTAAATTT
Found at i:2600201 original size:6 final size:6
Alignment explanation
Indices: 2600187--2600216 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2600177 TGATCGTGAG
*
2600187 ATTTGA ATTTAA ATTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
2600217 TTAATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:2600644 original size:26 final size:26
Alignment explanation
Indices: 2600615--2600709 Score: 61
Period size: 26 Copynumber: 3.5 Consensus size: 26
2600605 ATTATTAAAC
2600615 AAATATAATATAAATATATATTTTAA
1 AAATATAATATAAATATATATTTTAA
* *
2600641 AAATTATATATTATTAAT-TATTATTAATAA
1 AAA-TATA-A-TATAAATATA-TATT-TTAA
* **
2600671 AAAT-TTATATAAATATAATAAATTAA
1 AAATATAATATAAATAT-ATATTTTAA
*
2600697 AAATA-ATTATAAA
1 AAATATAATATAAA
2600710 ATAATAAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
26 22 0.42
27 8 0.15
28 5 0.10
29 11 0.21
30 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATATAATATAAATATATATTTTAA
Found at i:2600647 original size:55 final size:55
Alignment explanation
Indices: 2600583--2600687 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
2600573 TAAAAAAATA
* * *
2600583 TAAATATTATATAATATTTGA-TATTATTAA-ACAAATATAATATAAATATATATTT
1 TAAAAATTATATAATA-TTAATTATTATTAATAAAAAT-TAATATAAATATATATTT
* *
2600638 TAAAAATTATATATTATTAATTATTATTAATAAAAATTTATATAAATATA
1 TAAAAATTATATAATATTAATTATTATTAATAAAAATTAATATAAATATA
2600688 ATAAATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
54 3 0.07
55 35 0.81
56 5 0.12
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (55 bp):
TAAAAATTATATAATATTAATTATTATTAATAAAAATTAATATAAATATATATTT
Found at i:2600649 original size:29 final size:31
Alignment explanation
Indices: 2600617--2600688 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
2600607 TATTAAACAA
*
2600617 ATATAATATAAA-TATATATT-TTAAAAA-TT
1 ATATAATATAAATTAT-TATTAATAAAAATTT
* *
2600646 ATATATTATTAATTATTATTAATAAAAATTT
1 ATATAATATAAATTATTATTAATAAAAATTT
2600677 ATATAAATATAA
1 ATAT-AATATAA
2600689 TAAATTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
29 14 0.41
30 9 0.26
31 6 0.18
32 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
ATATAATATAAATTATTATTAATAAAAATTT
Found at i:2608381 original size:64 final size:64
Alignment explanation
Indices: 2608280--2608403 Score: 248
Period size: 64 Copynumber: 1.9 Consensus size: 64
2608270 CATCCGACAA
2608280 GATATGTGATGCTACAGTTGAATCTTAATTGGATTAAAGTTTCAGGTTCCTTAAATCTTTACAG
1 GATATGTGATGCTACAGTTGAATCTTAATTGGATTAAAGTTTCAGGTTCCTTAAATCTTTACAG
2608344 GATATGTGATGCTACAGTTGAATCTTAATTGGATTAAAGTTTCAGGTTCCTTAAATCTTT
1 GATATGTGATGCTACAGTTGAATCTTAATTGGATTAAAGTTTCAGGTTCCTTAAATCTTT
2608404 CTTTCAAGGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (64 bp):
GATATGTGATGCTACAGTTGAATCTTAATTGGATTAAAGTTTCAGGTTCCTTAAATCTTTACAG
Found at i:2608708 original size:2 final size:2
Alignment explanation
Indices: 2608701--2608737 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
2608691 TTTAATTTCA
*
2608701 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2608738 GTAACAATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2608932 original size:36 final size:36
Alignment explanation
Indices: 2608854--2608925 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
2608844 TCCTTTTATC
*
2608854 GTTATACTTAGAAATCCTTAGCTTTCATCTTTCGCT
1 GTTATATTTAGAAATCCTTAGCTTTCATCTTTCGCT
2608890 GTTATATTTAGAAATCCTTAGCTTTCATCTTTCGCT
1 GTTATATTTAGAAATCCTTAGCTTTCATCTTTCGCT
2608926 AGTATATGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (36 bp):
GTTATATTTAGAAATCCTTAGCTTTCATCTTTCGCT
Found at i:2610029 original size:54 final size:54
Alignment explanation
Indices: 2609960--2610064 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
2609950 TTAGATCAGA
*
2609960 TAGGATAACCTATTTTATCCATAATGACCTCTAGAAGAATTATCTGTCATCGTT
1 TAGGATAACCTATTTTATCCATAATGACCTCTACAAGAATTATCTGTCATCGTT
*
2610014 TAGGATAATCTATTTTATCCATAATGACCTCTACAAGAATTATCTGTCATC
1 TAGGATAACCTATTTTATCCATAATGACCTCTACAAGAATTATCTGTCATC
2610065 ATCATCTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (54 bp):
TAGGATAACCTATTTTATCCATAATGACCTCTACAAGAATTATCTGTCATCGTT
Found at i:2614808 original size:25 final size:26
Alignment explanation
Indices: 2614758--2614846 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
2614748 AGATCAGTTT
*
2614758 ATTTTATGATTACAT-AATATATATTA
1 ATTTTAT-ATTATATAAATATATATTA
* *
2614784 ATTTTATATTTTATATAT-TATATT-
1 ATTTTATATTATATAAATATATATTA
2614808 ATTTT-TATTATATAAATATATATATA
1 ATTTTATATTATATAAATATATAT-TA
* *
2614834 ATATTATAGTATA
1 ATTTTATATTATA
2614847 AATATTAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
23 10 0.20
24 10 0.20
25 12 0.24
26 13 0.25
27 6 0.12
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (26 bp):
ATTTTATATTATATAAATATATATTA
Found at i:2614841 original size:14 final size:14
Alignment explanation
Indices: 2614774--2614865 Score: 51
Period size: 14 Copynumber: 7.1 Consensus size: 14
2614764 TGATTACATA
*
2614774 ATATATATTAATTTT
1 ATATATA-TAATATT
*
2614789 ATAT-TTTATATATT
1 ATATATATA-ATATT
*
2614803 ATAT-TAT--TTTT
1 ATATATATAATATT
2614814 AT-TATATAA-A-T
1 ATATATATAATATT
2614825 ATATATATAATATT
1 ATATATATAATATT
2614839 ATAGTATA-AATATT
1 ATA-TATATAATATT
*
2614853 A-ATAAATAA-ATT
1 ATATATATAATATT
2614865 A
1 A
2614866 AATTATTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 21
0.70 0.07 0.24
Matches are distributed among these distances:
10 1 0.02
11 11 0.18
12 14 0.23
13 6 0.10
14 22 0.35
15 8 0.13
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
ATATATATAATATT
Found at i:2614852 original size:50 final size:50
Alignment explanation
Indices: 2614756--2614853 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
2614746 TCAGATCAGT
* * * *
2614756 TTATTTTATGATTACATAATATATATTAATTTTATATTTTATATATTATA
1 TTATTTTATGATTACATAATATATATTAATATTATAGTATAAATATTATA
*
2614806 TTATTTT-T-ATTATATAAATATATATATAATATTATAGTATAAATATTA
1 TTATTTTATGATTACAT-AATATATAT-TAATATTATAGTATAAATATTA
2614854 ATAAATAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 6 0.15
49 10 0.24
50 25 0.61
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (50 bp):
TTATTTTATGATTACATAATATATATTAATATTATAGTATAAATATTATA
Found at i:2614915 original size:35 final size:34
Alignment explanation
Indices: 2614845--2614921 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 34
2614835 TATTATAGTA
* * *
2614845 TAAATATTAATAAATAAATTAAATTATTTATATTTT
1 TAAAT-TTAATAAAAAAATTAAATTATATA-AATTT
2614881 TAAATTTAATAAAAAATATTAAATTA-ATAAATTT
1 TAAATTTAATAAAAAA-ATTAAATTATATAAATTT
2614915 TAAATTT
1 TAAATTT
2614922 TAAAAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 11 0.30
35 12 0.32
36 14 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
TAAATTTAATAAAAAAATTAAATTATATAAATTT
Found at i:2614919 original size:22 final size:25
Alignment explanation
Indices: 2614894--2614949 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 25
2614884 ATTTAATAAA
2614894 AAATATTAAATTAATA-A-A-TTTT
1 AAATATTAAATTAATATATATTTTT
*
2614916 AAATTTTAAA--AATATATATTTTT
1 AAATATTAAATTAATATATATTTTT
2614939 AAATA-TAAATT
1 AAATATTAAATT
2614950 GTAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 4 0.15
21 1 0.04
22 14 0.52
23 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATATTAAATTAATATATATTTTT
Found at i:2614924 original size:35 final size:36
Alignment explanation
Indices: 2614845--2614924 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 36
2614835 TATTATAGTA
* * * *
2614845 TAAATATTAATAAATAAATTAAATTATTTATATTTT
1 TAAATTTTAATAAAAAAATTAAATTATATATAATTT
2614881 TAAA-TTTAATAAAAAATATTAAATTA-ATA-AATTT
1 TAAATTTTAATAAAAAA-ATTAAATTATATATAATTT
2614915 TAAATTTTAA
1 TAAATTTTAA
2614925 AAATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 8 0.21
35 17 0.45
36 13 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
TAAATTTTAATAAAAAAATTAAATTATATATAATTT
Found at i:2615883 original size:21 final size:24
Alignment explanation
Indices: 2615847--2615911 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 24
2615837 TAACTTAACT
* * *
2615847 TAAATTATTATTTATATAAATA-A
1 TAAAATATTAATTATAAAAATATA
2615870 -AAAAT-TTAATTATAAAAATATA
1 TAAAATATTAATTATAAAAATATA
2615892 TAAAATATTAA-TA-AAAAATA
1 TAAAATATTAATTATAAAAATA
2615912 ATATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 13 0.36
22 12 0.33
23 7 0.19
24 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATATTAATTATAAAAATATA
Found at i:2615914 original size:25 final size:24
Alignment explanation
Indices: 2615862--2615915 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
2615852 TATTATTTAT
2615862 ATAA-ATAAAAAATTTAATTATAAAA
1 ATAATATAAAAAATTTAA-TA-AAAA
*
2615887 AT-ATATAAAATA-TTAATAAAAA
1 ATAATATAAAAAATTTAATAAAAA
2615909 ATAATAT
1 ATAATAT
2615916 TTTTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 6 0.23
23 6 0.23
24 5 0.19
25 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAATATAAAAAATTTAATAAAAA
Found at i:2615915 original size:23 final size:24
Alignment explanation
Indices: 2615865--2615915 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
2615855 TATTTATATA
*
2615865 AATAAAAAATTTAATTATAAAAAT
1 AATATAAAATTTAATTATAAAAAT
2615889 -ATATAAAATATTAA-TA-AAAAAT
1 AATATAAAAT-TTAATTATAAAAAT
2615911 AATAT
1 AATAT
2615916 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AATATAAAATTTAATTATAAAAAT
Found at i:2616165 original size:18 final size:18
Alignment explanation
Indices: 2616144--2616189 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
2616134 AAAATATTAT
*
2616144 ATAAATATATTATGTTTA
1 ATAAATATATTATATTTA
*
2616162 ATAAATATAATATATTTA
1 ATAAATATATTATATTTA
2616180 A-AAATA-ATTA
1 ATAAATATATTA
2616190 ATATGACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 5 0.20
18 17 0.68
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAAATATATTATATTTA
Found at i:2616622 original size:15 final size:15
Alignment explanation
Indices: 2616592--2616625 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2616582 AATATAATTT
**
2616592 ATATTTATTATTTAA
1 ATATTTATTAAATAA
2616607 ATATTTATTAAATAA
1 ATATTTATTAAATAA
2616622 ATAT
1 ATAT
2616626 ACTTACTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTATTAAATAA
Found at i:2616715 original size:24 final size:23
Alignment explanation
Indices: 2616688--2616764 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 23
2616678 TTTATCGGTG
2616688 TAAAATAATTAAAATTAAATTAAT
1 TAAAATAATTAAAATT-AATTAAT
* *
2616712 TAAAATAATTTTAACTTAATTAACAAT
1 TAAAATAA-TTAAAATTAATT---AAT
2616739 TAAAATAAATATAAAATTAATTAAT
1 TAAAAT-AAT-TAAAATTAATTAAT
2616764 T
1 T
2616765 TATAATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
24 12 0.28
25 10 0.23
27 10 0.23
28 11 0.26
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAATAATTAAAATTAATTAAT
Found at i:2616725 original size:15 final size:15
Alignment explanation
Indices: 2616688--2616717 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2616678 TTTATCGGTG
*
2616688 TAAAATAATTAAAAT
1 TAAATTAATTAAAAT
2616703 TAAATTAATTAAAAT
1 TAAATTAATTAAAAT
2616718 AATTTTAACT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATTAATTAAAAT
Found at i:2636990 original size:20 final size:19
Alignment explanation
Indices: 2636952--2636990 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2636942 AAAAAAAATA
* *
2636952 ATTTTTTTATATTTTTATT
1 ATTTTTTTATAATTATATT
2636971 ATTTTTATTATAATTATATT
1 ATTTTT-TTATAATTATATT
2636991 TAAAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTTATAATTATATT
Found at i:2637014 original size:20 final size:20
Alignment explanation
Indices: 2636976--2637014 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2636966 TTATTATTTT
*
2636976 TATTATAATTATATTTAAAA
1 TATTATAATTATATATAAAA
2636996 TATTATATATT-TATATAAA
1 TATTATA-ATTATATATAAA
2637015 TTTTTTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATAATTATATATAAAA
Found at i:2637089 original size:29 final size:28
Alignment explanation
Indices: 2636997--2637089 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
2636987 TATTTAAAAT
2636997 ATTATATATTTATATAAATT-TTTTATGTTA
1 ATTATATATTTATAT--ATTATTTTAT-TTA
* * * *
2637027 ATAATTTATTT-TATATAAATTTTAATATA
1 ATTATATATTTATATAT-TATTTT-ATTTA
*
2637056 TTTATATATTTATATATTATTTTATTTA
1 ATTATATATTTATATATTATTTTATTTA
2637084 AGTTAT
1 A-TTAT
2637090 TTTTTATCTA
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 26 0.54
30 16 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTATATATTTATATATTATTTTATTTA
Found at i:2637804 original size:2 final size:2
Alignment explanation
Indices: 2637797--2637821 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2637787 ATATAAATTC
2637797 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2637822 ATTAAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.