Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
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: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 26 of 33
Found at i:4499751 original size:29 final size:30
Alignment explanation
Indices: 4499703--4499762 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
4499693 ATCTTCACTT
*
4499703 TTTTTTTTGTTTTTTTTTTTTTTCTTTTTCC
1 TTTTTTTTG-TTTTTGTTTTTTTCTTTTTCC
4499734 TTTTTTTTG-TTTTGTTTTTTTCTTTTTCC
1 TTTTTTTTGTTTTTGTTTTTTTCTTTTTCC
4499763 AATTGCCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 19 0.68
31 9 0.32
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (30 bp):
TTTTTTTTGTTTTTGTTTTTTTCTTTTTCC
Found at i:4510101 original size:2 final size:2
Alignment explanation
Indices: 4510096--4510126 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4510086 ATATATATAT
4510096 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4510127 AGCAATGTTG
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4512127 original size:19 final size:18
Alignment explanation
Indices: 4512089--4512133 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
4512079 TCATATAAGT
4512089 ATAATAAAATTTACAATC
1 ATAATAAAATTTACAATC
* *
4512107 ATAATCAAAATTTATATTC
1 ATAAT-AAAATTTACAATC
4512126 AT-ATAAAA
1 ATAATAAAA
4512134 AGTTATTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 13 0.54
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAAAATTTACAATC
Found at i:4514640 original size:15 final size:15
Alignment explanation
Indices: 4514589--4514640 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
4514579 TAAAAAATTC
*
4514589 ATATATATAATTTAC
1 ATATATATAATTTAT
*
4514604 ATATTATAAAATTTAT
1 ATA-TATATAATTTAT
4514620 -TCATATATAATTTAT
1 AT-ATATATAATTTAT
4514635 ATATAT
1 ATATAT
4514641 TTATAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATAATTTAT
Found at i:4514641 original size:33 final size:34
Alignment explanation
Indices: 4514585--4514649 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
4514575 AATTTAAAAA
4514585 ATTCATATATATAATTTACATA-TTATAAAATTT
1 ATTCATATATATAATTTACATATTTATAAAATTT
* *
4514618 ATTCATATATA-ATTTATATATATTTATAAAAT
1 ATTCATATATATAATT-TACATATTTATAAAAT
4514650 CATAAAGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 3 0.11
33 16 0.57
34 9 0.32
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (34 bp):
ATTCATATATATAATTTACATATTTATAAAATTT
Found at i:4521280 original size:27 final size:29
Alignment explanation
Indices: 4521220--4521280 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
4521210 TTAATTTTTT
* *
4521220 ATATATTTAAAAATAAATATATTATATAT
1 ATATTTTTAAAAATAAATATATTATATAA
* *
4521249 TTATTTTTAAATATAAATA-A-TATATAA
1 ATATTTTTAAAAATAAATATATTATATAA
4521276 ATATT
1 ATATT
4521281 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 10 0.37
28 1 0.04
29 16 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATTTTTAAAAATAAATATATTATATAA
Found at i:4532124 original size:2 final size:2
Alignment explanation
Indices: 4532117--4532154 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4532107 AGAAAGTGTT
4532117 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
4532155 CCTGAAGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4546733 original size:22 final size:22
Alignment explanation
Indices: 4546703--4546746 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4546693 TAATAATTCC
*
4546703 CAAAGAAAAAGGA-CAAAAAAAA
1 CAAA-AAAAAAGACCAAAAAAAA
4546725 CAAAAAAAAAGACCAAAAAAAA
1 CAAAAAAAAAGACCAAAAAAAA
4546747 AGATTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.80, C:0.11, G:0.09, T:0.00
Consensus pattern (22 bp):
CAAAAAAAAAGACCAAAAAAAA
Found at i:4546748 original size:13 final size:12
Alignment explanation
Indices: 4546717--4546749 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
4546707 GAAAAAGGAC
4546717 AAAAAAA-ACAA
1 AAAAAAAGACAA
4546728 AAAAAAAGACCAA
1 AAAAAAAGA-CAA
4546741 AAAAAAAGA
1 AAAAAAAGA
4546750 TTTTAGGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 1 0.05
13 12 0.60
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAGACAA
Found at i:4554020 original size:22 final size:22
Alignment explanation
Indices: 4553995--4554038 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4553985 AAAATATTAT
4553995 TTTTAT-ATTAATATTTATATAA
1 TTTTATAATTAA-ATTTATATAA
*
4554017 TTTTATAATTTAATTTATATAA
1 TTTTATAATTAAATTTATATAA
4554039 AAATATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATAATTAAATTTATATAA
Found at i:4565149 original size:2 final size:2
Alignment explanation
Indices: 4565142--4565173 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4565132 TCTAAGCATA
4565142 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
4565174 TCAGTTATAA
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:4588669 original size:33 final size:33
Alignment explanation
Indices: 4588627--4588692 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
4588617 TCTTAGTTAT
*
4588627 AATGGAATTTAAAAGGAACAGAAAAGAGACCAA
1 AATGGAATTTAAAAGGAACAGAAAAAAGACCAA
4588660 AATGGAATTTAAAAGGAACAGAAAAAAGACCAA
1 AATGGAATTTAAAAGGAACAGAAAAAAGACCAA
4588693 GTTTGATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.59, C:0.09, G:0.20, T:0.12
Consensus pattern (33 bp):
AATGGAATTTAAAAGGAACAGAAAAAAGACCAA
Found at i:4594632 original size:28 final size:26
Alignment explanation
Indices: 4594609--4594677 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 26
4594599 TATAATATAA
4594609 ATTATATATAAATAATAAATTAATAT
1 ATTATATATAAATAATAAATTAATAT
*
4594635 ATTATATAATTAAAAAATAAATTGAATAT
1 ATTATAT-A-TAAATAATAAATT-AATAT
4594664 ATTAATATATAAAT
1 ATT-ATATATAAAT
4594678 TTAATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 7 0.19
27 1 0.03
28 16 0.43
29 9 0.24
30 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (26 bp):
ATTATATATAAATAATAAATTAATAT
Found at i:4594667 original size:21 final size:22
Alignment explanation
Indices: 4594638--4594684 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
4594628 TTAATATATT
4594638 ATATAATTAAAAAATAAATTGA
1 ATATAATTAAAAAATAAATTGA
* * *
4594660 ATAT-ATTAATATATAAATTTA
1 ATATAATTAAAAAATAAATTGA
4594681 ATAT
1 ATAT
4594685 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATAATTAAAAAATAAATTGA
Found at i:4595331 original size:2 final size:2
Alignment explanation
Indices: 4595324--4595348 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4595314 TATTAATAGT
4595324 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4595349 TTCTTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4608938 original size:22 final size:22
Alignment explanation
Indices: 4608907--4608965 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
4608897 TATTAATTTT
4608907 TAAAATAATAAAATAAAATT-CGA
1 TAAAA-AATAAAA-AAAATTCCGA
*
4608930 TAAAAAAT-AAAAAAATTCCGT
1 TAAAAAATAAAAAAAATTCCGA
4608951 TAAACAAATAAAAAA
1 TAAA-AAATAAAAAA
4608966 TAACACGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.19
21 9 0.28
22 7 0.22
23 10 0.31
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (22 bp):
TAAAAAATAAAAAAAATTCCGA
Found at i:4608966 original size:21 final size:20
Alignment explanation
Indices: 4608907--4608965 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 20
4608897 TATTAATTTT
4608907 TAAAATAATAAAATAAAATTCGA
1 TAAAA-AAT-AAA-AAAATTCGA
*
4608930 TAAAAAATAAAAAAATTCCGT
1 TAAAAAATAAAAAAATT-CGA
4608951 TAAACAAATAAAAAA
1 TAAA-AAATAAAAAA
4608966 TAACACGTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 6 0.18
21 9 0.27
22 13 0.39
23 5 0.15
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (20 bp):
TAAAAAATAAAAAAATTCGA
Found at i:4611139 original size:30 final size:29
Alignment explanation
Indices: 4611100--4611156 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
4611090 GGTTCTTTTG
*
4611100 ACATTGTTGAGGTGCTAATGATTATTCCA
1 ACATTGTTGAGGTGCTAATGATGATTCCA
*
4611129 ACATTAGTTGAGGTGCTTATGATGATTC
1 ACATT-GTTGAGGTGCTAATGATGATTC
4611157 AAGTTGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (29 bp):
ACATTGTTGAGGTGCTAATGATGATTCCA
Found at i:4623119 original size:19 final size:17
Alignment explanation
Indices: 4623095--4623133 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
4623085 TATAATATTT
4623095 TAAAATTAATTATGAAATA
1 TAAAATTAA-TAT-AAATA
4623114 TAAAATTAATATAAATA
1 TAAAATTAATATAAATA
4623131 TAA
1 TAA
4623134 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAAATTAATATAAATA
Found at i:4623659 original size:13 final size:13
Alignment explanation
Indices: 4623641--4623681 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4623631 TTTTTTTAAG
4623641 TATTTATATTCAA
1 TATTTATATTCAA
4623654 TATTTATATT-AA
1 TATTTATATTCAA
*
4623666 -ATATATATTCAGA
1 TATTTATATTCA-A
4623679 TAT
1 TAT
4623682 ATATGAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 11 0.46
14 2 0.08
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTTATATTCAA
Found at i:4627424 original size:6 final size:6
Alignment explanation
Indices: 4627413--4627446 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4627403 ATTTCTTTCA
*
4627413 CACCCC CACCCC CACCCC CACCCC CACCTC CACC
1 CACCCC CACCCC CACCCC CACCCC CACCCC CACC
4627447 ACCTCTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.79, G:0.00, T:0.03
Consensus pattern (6 bp):
CACCCC
Found at i:4634089 original size:17 final size:16
Alignment explanation
Indices: 4634077--4634126 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
4634067 TATTATAATT
4634077 TATAATAATTTATATTA
1 TATAA-AATTTATATTA
*
4634094 TATAAAA-TTA-CTTA
1 TATAAAATTTATATTA
* *
4634108 TTTTAAATTTATATTA
1 TATAAAATTTATATTA
4634124 TAT
1 TAT
4634127 TTATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
14 8 0.31
15 6 0.23
16 7 0.27
17 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATAAAATTTATATTA
Found at i:4634165 original size:29 final size:29
Alignment explanation
Indices: 4634110--4634165 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4634100 ATTACTTATT
* *
4634110 TTAAATTTATATTATATTTATATATATAA
1 TTAAATTTATATTAAAATTATATATATAA
4634139 TTAAATTTATATTCAAAATTATA-ATAT
1 TTAAATTTATATT-AAAATTATATATAT
4634166 TTATTCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAAATTTATATTAAAATTATATATATAA
Found at i:4635021 original size:32 final size:30
Alignment explanation
Indices: 4634985--4635049 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
4634975 GATAAGATGG
* * *
4634985 TATTTAAACATATTTAATATATATTATATTTA
1 TATTTAAA-ATATTTAAAAAATAATA-ATTTA
*
4635017 TATTTAAAATTTTTAAAAAATAATAATTTA
1 TATTTAAAATATTTAAAAAATAATAATTTA
4635047 TAT
1 TAT
4635050 ATTTATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 8 0.28
31 13 0.45
32 8 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTTAAAATATTTAAAAAATAATAATTTA
Found at i:4635072 original size:9 final size:11
Alignment explanation
Indices: 4635047--4635083 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
4635037 TAATAATTTA
4635047 TATATTTATAT
1 TATATTTATAT
*
4635058 TATATTTATTT
1 TATATTTATAT
*
4635069 TATTTTTATAT
1 TATATTTATAT
4635080 TATA
1 TATA
4635084 AATATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATATTTATAT
Found at i:4635218 original size:3 final size:3
Alignment explanation
Indices: 4635210--4635234 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4635200 GAAAAATCTG
4635210 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
4635235 ATTCAATCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:4635894 original size:19 final size:18
Alignment explanation
Indices: 4635872--4635923 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
4635862 TATAATTTAT
4635872 AAAATATATTAAAATAATA
1 AAAATATA-TAAAATAATA
*
4635891 AAAATA-ATAAAAT-TTA
1 AAAATATATAAAATAATA
4635907 AAAAT-TATAATAATAAT
1 AAAATATATAA-AATAAT
4635924 TGAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 11 0.39
17 9 0.32
18 2 0.07
19 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATATAAAATAATA
Found at i:4636537 original size:32 final size:29
Alignment explanation
Indices: 4636492--4636564 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
4636482 TATTACGAAT
*
4636492 TTATATA-ATTTTAATATATTAATAATTTTTA
1 TTATATATATTTTAAT-TA--AATAATTTATA
*
4636523 TTATATATATTTTAATTAATTAATTTATA
1 TTATATATATTTTAATTAAATAATTTATA
4636552 TTATATTATATTT
1 TTATA-TATATTT
4636565 ATATAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 14 0.37
30 7 0.18
31 9 0.24
32 8 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTATATATATTTTAATTAAATAATTTATA
Found at i:4636540 original size:15 final size:15
Alignment explanation
Indices: 4636492--4636564 Score: 55
Period size: 15 Copynumber: 4.8 Consensus size: 15
4636482 TATTACGAAT
4636492 TTATATA-ATTTTAA
1 TTATATATATTTTAA
*
4636506 -TATATTAATAATTTTTA
1 TTATA-T-AT-ATTTTAA
4636523 TTATATATATTTTAA
1 TTATATATATTTTAA
*
4636538 TTA-AT-TAATTTATA
1 TTATATATATTTTA-A
4636552 TTATATTATATTT
1 TTATA-TATATTT
4636565 ATATAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.22
14 7 0.15
15 11 0.24
16 3 0.07
17 11 0.24
18 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATATATTTTAA
Found at i:4636547 original size:29 final size:29
Alignment explanation
Indices: 4636509--4636564 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
4636499 ATTTTAATAT
*
4636509 ATTAATAATTTTTATTATA-TATATTTTA
1 ATTAATAATTTATATTATATTATATTTTA
4636537 ATTAATTAATTTATATTATATTATATTT
1 ATTAA-TAATTTATATTATATTATATTT
4636565 ATATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 13 0.52
30 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTAATAATTTATATTATATTATATTTTA
Found at i:4636571 original size:29 final size:29
Alignment explanation
Indices: 4636489--4636571 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
4636479 GAATATTACG
* * *
4636489 AATTTATATAATTTTA-ATATAT-TAA-T
1 AATTTATATTATATTATATTTATATAATT
*
4636515 AATTTTTATTATA-TATATTT-TAATTAATT
1 AATTTATATTATATTATATTTAT-A-TAATT
4636544 AATTTATATTATATTATATTTATATAAT
1 AATTTATATTATATTATATTTATATAAT
4636572 AAAATTACAC
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
25 3 0.07
26 13 0.29
28 3 0.07
29 17 0.38
30 8 0.18
31 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
AATTTATATTATATTATATTTATATAATT
Found at i:4638118 original size:5 final size:5
Alignment explanation
Indices: 4638110--4638163 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
4638100 TTTAATTTAT
* ***
4638110 TAAAA TAAAA TAAAA TAATAA TAAAA TAATTA TTTTA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAA-AA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA
4638162 TA
1 TA
4638164 TTATAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 34 0.83
6 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (5 bp):
TAAAA
Found at i:4638134 original size:11 final size:11
Alignment explanation
Indices: 4638110--4638139 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4638100 TTTAATTTAT
4638110 TAAAATAA-AA
1 TAAAATAATAA
4638120 TAAAATAATAA
1 TAAAATAATAA
4638131 TAAAATAAT
1 TAAAATAAT
4638140 TATTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:4638153 original size:21 final size:20
Alignment explanation
Indices: 4638110--4638289 Score: 73
Period size: 22 Copynumber: 8.7 Consensus size: 20
4638100 TTTAATTTAT
**
4638110 TAAAATAAAATAAAATAATAA
1 TAAAATAAAATATTATAA-AA
* *
4638131 TAAAATAATTATTTTATAAAA
1 TAAAATAA-AATATTATAAAA
4638152 TAAAATAAAATATTATAAAA
1 TAAAATAAAATATTATAAAA
* *
4638172 TTTAAATTTAAAATTTTA-AAAA
1 --TAAA-ATAAAATATTATAAAA
** * * *
4638194 TAATTTTATATGTTATTTAAAA
1 TAAAATAAAATATTA--TAAAA
*
4638216 TCAAAAT-AATTATTA-AATAA
1 T-AAAATAAAATATTATAA-AA
* *
4638236 -AAATTAAAATTTTATAAAA
1 TAAAATAAAATATTATAAAA
*
4638255 TAAAATTAAATATATTA-AATAT
1 TAAAA-TAAA-ATATTATAA-AA
*
4638277 TAAATTAAAATAT
1 TAAAATAAAATAT
4638290 CCGAGTTATA
Statistics
Matches: 120, Mismatches: 24, Indels: 31
0.69 0.14 0.18
Matches are distributed among these distances:
18 4 0.03
19 18 0.15
20 24 0.20
21 28 0.23
22 34 0.28
23 12 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
TAAAATAAAATATTATAAAA
Found at i:4644881 original size:37 final size:36
Alignment explanation
Indices: 4644810--4644883 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
4644800 TTGAATGAGG
* *
4644810 TCCAAATAACTCTTCTGAACTCTTAATTGAATAGATT
1 TCCAAATAACTCTTCTAAACTC-TAATTCAATAGATT
*
4644847 TCCAAATAACTCTTCTTAAACTC-AATTTCTATAGATT
1 TCCAAATAACTCTTC-TAAACTCTAA-TTCAATAGATT
4644884 AACCTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.06
37 24 0.75
38 6 0.19
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.39
Consensus pattern (36 bp):
TCCAAATAACTCTTCTAAACTCTAATTCAATAGATT
Found at i:4645378 original size:2 final size:2
Alignment explanation
Indices: 4645371--4645410 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4645361 TTGTGTAGAC
*
4645371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4645411 CAGACTGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4651392 original size:21 final size:19
Alignment explanation
Indices: 4651354--4651396 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4651344 ATTTTATTAA
*
4651354 ATTTAAAAATTTACTTTACT
1 ATTTAAAAATATACTTTA-T
*
4651374 ATTTAAAAATAATATTTTAT
1 ATTTAAAAAT-ATACTTTAT
4651394 ATT
1 ATT
4651397 AATATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAAAATATACTTTAT
Found at i:4658844 original size:2 final size:2
Alignment explanation
Indices: 4658837--4658868 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4658827 CAGATTGAAT
4658837 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4658869 TCAGGTATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4661459 original size:2 final size:2
Alignment explanation
Indices: 4661452--4661476 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4661442 AATTATGCAC
4661452 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
4661477 ACTTTTCCTA
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
Found at i:4661858 original size:19 final size:20
Alignment explanation
Indices: 4661823--4661860 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4661813 TACTACTCTA
*
4661823 AAATAAATAGTAATAATAAT
1 AAATAAAGAGTAATAATAAT
4661843 AAATAAAGAG-AATAATAA
1 AAATAAAGAGTAATAATAA
4661861 GCTGATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AAATAAAGAGTAATAATAAT
Found at i:4668705 original size:18 final size:18
Alignment explanation
Indices: 4668663--4668698 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4668653 AACTTTGTAC
4668663 AAAAA-TATAAATATATA
1 AAAAATTATAAATATATA
4668680 AAAAATTATAAATATATA
1 AAAAATTATAAATATATA
4668698 A
1 A
4668699 TATATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATTATAAATATATA
Found at i:4668723 original size:22 final size:21
Alignment explanation
Indices: 4668669--4668733 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
4668659 GTACAAAAAT
4668669 ATAAATATATAAAAAATTATAA
1 ATAAATATAT-AAAAATTATAA
* **
4668691 ATATATAATATATTAATTATAA
1 ATAAAT-ATATAAAAATTATAA
*
4668713 CATAAATATATACAAA-TATAA
1 -ATAAATATATAAAAATTATAA
4668734 TAAGTGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 5 0.14
22 21 0.60
23 9 0.26
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATATATAAAAATTATAA
Found at i:4668884 original size:2 final size:2
Alignment explanation
Indices: 4668877--4668910 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4668867 TCAAAGTTCT
4668877 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
4668911 AAATAGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4669413 original size:15 final size:16
Alignment explanation
Indices: 4669395--4669432 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
4669385 ATATTCTTGT
4669395 ATAATTTATT-AATTA
1 ATAATTTATTCAATTA
4669410 ATAATTTATTCAATTA
1 ATAATTTATTCAATTA
*
4669426 AAAATTT
1 ATAATTT
4669433 TAAAATGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATTTATTCAATTA
Found at i:4671768 original size:17 final size:18
Alignment explanation
Indices: 4671748--4671788 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4671738 TATATTTTTA
4671748 TTTAAAAAAT-ACATAAT
1 TTTAAAAAATCACATAAT
*
4671765 TTTAAAAAATCAGATAAT
1 TTTAAAAAATCACATAAT
*
4671783 CTTAAA
1 TTTAAA
4671789 CGCTCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (18 bp):
TTTAAAAAATCACATAAT
Found at i:4672706 original size:29 final size:30
Alignment explanation
Indices: 4672669--4672729 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
4672659 TTTAAAAAAT
*
4672669 AATTATTAAAAGTAATATTTTAT-TCTTAA
1 AATTATTAAAAATAATATTTTATATCTTAA
* * *
4672698 AATTTTTAAAAATAATTTTTTATATTTTAA
1 AATTATTAAAAATAATATTTTATATCTTAA
4672728 AA
1 AA
4672730 ATAATTATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTATTAAAAATAATATTTTATATCTTAA
Found at i:4682096 original size:14 final size:16
Alignment explanation
Indices: 4682075--4682122 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
4682065 ATGATATTCG
4682075 ATAATTTTTAA-ATTT
1 ATAATTTTTAATATTT
4682090 A-AA-TTTTAATATTT
1 ATAATTTTTAATATTT
**
4682104 ATAATTTTTTTTATTT
1 ATAATTTTTAATATTT
4682120 ATA
1 ATA
4682123 TTCAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 3 0.11
16 12 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTTTAATATTT
Found at i:4683602 original size:21 final size:20
Alignment explanation
Indices: 4683577--4683624 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
4683567 AATTGCGTCA
4683577 AATTTTAGAATCATCAAATTT
1 AATTTTAGAATC-TCAAATTT
* *
4683598 AATTTAGAGAATCTCGAATTT
1 AATTT-TAGAATCTCAAATTT
*
4683619 ACTTTT
1 AATTTT
4683625 TGTCCCTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (20 bp):
AATTTTAGAATCTCAAATTT
Found at i:4688384 original size:2 final size:2
Alignment explanation
Indices: 4688373--4688421 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4688363 TTTCAAACTT
4688373 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4688414 TC TC TC TC
1 TC TC TC TC
4688422 ATTCATGATT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:4696937 original size:2 final size:2
Alignment explanation
Indices: 4696930--4696963 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4696920 TCTAGCTTCC
*
4696930 CT CT CT CT CT CT CT CT CT CT CT CT CT AT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4696964 GTGTCTCAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4698065 original size:37 final size:37
Alignment explanation
Indices: 4698024--4698096 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
4698014 TATTTATTTT
*
4698024 CTTCTTTACGTATGTATTTATATATATATATATATTC
1 CTTCTTTACGTATGTATGTATATATATATATATATTC
* *
4698061 CTTCTTTATGTTTGTATGTATATATATATATATATT
1 CTTCTTTACGTATGTATGTATATATATATATATATT
4698097 GCATCTGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (37 bp):
CTTCTTTACGTATGTATGTATATATATATATATATTC
Found at i:4701854 original size:14 final size:14
Alignment explanation
Indices: 4701819--4701860 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
4701809 TATTTTAATA
*
4701819 TTATATAATTAAAT
1 TTATATAAATAAAT
*
4701833 TTAAATAAATAAAT
1 TTATATAAATAAAT
*
4701847 TTTTATAAATAAAT
1 TTATATAAATAAAT
4701861 AATACGTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTATATAAATAAAT
Found at i:4702160 original size:17 final size:18
Alignment explanation
Indices: 4702138--4702187 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
4702128 TAAACTAATT
4702138 AAAAAAGTAC-AAGAAAA-
1 AAAAAAG-ACAAAGAAAAG
4702155 AAAAAAGACAAAGAAAAG
1 AAAAAAGACAAAGAAAAG
* *
4702173 AAAACAGCCAAAGAA
1 AAAAAAGACAAAGAA
4702188 GAAAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 2 0.07
17 14 0.48
18 13 0.45
ACGTcount: A:0.74, C:0.10, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAAAAGACAAAGAAAAG
Found at i:4702176 original size:18 final size:17
Alignment explanation
Indices: 4702138--4702192 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
4702128 TAAACTAATT
4702138 AAAAAAGTAC-AAGAAAA
1 AAAAAAG-ACAAAGAAAA
4702155 AAAAAAGACAAAGAAAA
1 AAAAAAGACAAAGAAAA
* *
4702172 GAAAACAGCCAAAGAAGAA
1 -AAAAAAGACAAAGAA-AA
4702191 AA
1 AA
4702193 TTAAAGGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 2 0.06
17 14 0.42
18 15 0.45
19 2 0.06
ACGTcount: A:0.75, C:0.09, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAGACAAAGAAAA
Found at i:4702490 original size:20 final size:20
Alignment explanation
Indices: 4702462--4702505 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4702452 TAATTTCACT
4702462 TTTTCTTTTCCCTATTTTT-C
1 TTTTCTTTT-CCTATTTTTGC
* *
4702482 TTTTGTTTTCTTATTTTTGC
1 TTTTCTTTTCCTATTTTTGC
4702502 TTTT
1 TTTT
4702506 TTATAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTCTTTTCCTATTTTTGC
Found at i:4714237 original size:2 final size:2
Alignment explanation
Indices: 4714230--4714259 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4714220 GGAACAAAGT
4714230 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
4714260 GTTAGTTAGA
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):
TA
Found at i:4714449 original size:21 final size:21
Alignment explanation
Indices: 4714416--4714476 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
4714406 ATTTATTATT
*
4714416 TAAA-TATATAAAAATTATTTA
1 TAAATTATA-AAAAATTATATA
* *
4714437 TAAATTATAAAAATTTAAATA
1 TAAATTATAAAAAATTATATA
* *
4714458 AAAATAATTAAAAAATTAT
1 TAAATTA-TAAAAAATTAT
4714477 GTCTGGTAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATTATAAAAAATTATATA
Found at i:4714538 original size:21 final size:23
Alignment explanation
Indices: 4714512--4714554 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
4714502 AATGGAAAGA
4714512 ATAAAA-TAAAAAAA-TATTTTT
1 ATAAAATTAAAAAAATTATTTTT
4714533 ATAAAATTAAAAAAATTATTTT
1 ATAAAATTAAAAAAATTATTTT
4714555 AAATAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAAAATTAAAAAAATTATTTTT
Found at i:4714562 original size:23 final size:21
Alignment explanation
Indices: 4714511--4714562 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
4714501 TAATGGAAAG
*
4714511 AATAAAATAAAAAAATATTTT
1 AATAAATTAAAAAAATATTTT
*
4714532 TATAAAATTAAAAAAATTATTTT
1 AAT-AAATTAAAAAAA-TATTTT
4714555 AAATAAAT
1 -AATAAAT
4714563 AAAGATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 11 0.44
23 10 0.40
24 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAATTAAAAAAATATTTT
Found at i:4714893 original size:3 final size:3
Alignment explanation
Indices: 4714885--4714921 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4714875 TTTCAATTGT
4714885 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
4714922 CTCTCACATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:4715650 original size:17 final size:17
Alignment explanation
Indices: 4715628--4715679 Score: 86
Period size: 17 Copynumber: 3.0 Consensus size: 17
4715618 TCAAATATTC
4715628 AAAAAATAAAAAATAAA
1 AAAAAATAAAAAATAAA
4715645 AAAAAATAAAAAATAAA
1 AAAAAATAAAAAATAAA
*
4715662 AATAAATAAATAAATAAA
1 AAAAAATAAA-AAATAAA
4715680 TAATCGAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 26 0.79
18 7 0.21
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAAAATAAA
Found at i:4715668 original size:4 final size:4
Alignment explanation
Indices: 4715631--4715682 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
4715621 AATATTCAAA
4715631 AAAT AAA- AAAT AAA- AAA- AAAT AAA- AAAT -AA- AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
4715673 AAAT AAAT AA
1 AAAT AAAT AA
4715683 TCGAAGACGA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
3 16 0.37
4 27 0.63
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:4716428 original size:9 final size:9
Alignment explanation
Indices: 4716403--4716432 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
4716393 TGATTTTTTA
4716403 AAAAAAAAT
1 AAAAAAAAT
4716412 AAATAAAAAT
1 AAA-AAAAAT
4716422 AAAAAAAAT
1 AAAAAAAAT
4716431 AA
1 AA
4716433 TTCGGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:4717794 original size:16 final size:15
Alignment explanation
Indices: 4717770--4717805 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
4717760 AATTAGAATT
4717770 AAAAA-AAAATAATA
1 AAAAATAAAATAATA
4717784 ACAAAATAAAATAATA
1 A-AAAATAAAATAATA
4717800 AAAAAT
1 AAAAAT
4717806 TCTTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 9 0.45
16 10 0.50
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAAATAATA
Found at i:4724591 original size:6 final size:6
Alignment explanation
Indices: 4724560--4724687 Score: 63
Period size: 6 Copynumber: 21.5 Consensus size: 6
4724550 GGAATATGAT
* * * * *
4724560 ATATAA AAATAA AT-TAA ATTTTA ATATAA ATAT-A TTAAAA ATTATTAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA A-TA-TAA
** * *
4724608 TATATTAA A-ATTT ATAAAA ATATAA A-ATAA AT-TAA ATATAA TTAT-A
1 -ATA-TAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
4724654 ATATAA ATAAAA ATATATA A-ATAAA ATATAA ATA
1 ATATAA ATATAA ATATA-A ATAT-AA ATATAA ATA
4724688 CATAAATGCT
Statistics
Matches: 91, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
5 24 0.26
6 50 0.55
7 8 0.09
8 8 0.09
9 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:4724646 original size:36 final size:37
Alignment explanation
Indices: 4724566--4724687 Score: 104
Period size: 39 Copynumber: 3.1 Consensus size: 37
4724556 TGATATATAA
* * * *
4724566 AAATAAATTAAATTTTAATATAAATATATTAA-AAATT
1 AAATATATTAAAATTT-ATAAAAATATATAAATAAATT
4724603 ATTAATATATTAAAATTTATAAAAATATA-AAATAAATT
1 A--AATATATTAAAATTTATAAAAATATATAAATAAATT
**
4724641 AAATATAATTATAATATAAATAAAAATATATAAATAAAATAT
1 AAATAT-ATTA-AA-ATTTATAAAAATATATAAAT-AAAT-T
4724683 AAATA
1 AAATA
4724688 CATAAATGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
36 5 0.07
37 7 0.10
38 18 0.26
39 26 0.37
40 4 0.06
41 4 0.06
42 6 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (37 bp):
AAATATATTAAAATTTATAAAAATATATAAATAAATT
Found at i:4724673 original size:14 final size:13
Alignment explanation
Indices: 4724624--4724683 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
4724614 AAAATTTATA
4724624 AAAATATA-AAAT
1 AAAATATATAAAT
* *
4724636 AAATTAAATATAAT
1 AAAATATATA-AAT
* *
4724650 TATA-ATATAAAT
1 AAAATATATAAAT
4724662 AAAAATATATAAAT
1 -AAAATATATAAAT
4724676 AAAATATA
1 AAAATATA
4724684 AATACATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
12 9 0.25
13 15 0.42
14 12 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:4724681 original size:25 final size:25
Alignment explanation
Indices: 4724624--4724694 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
4724614 AAAATTTATA
*
4724624 AAAATATAAAATAAATTAAATATAATT
1 AAAATAT-AAATAAA-TAAATATAAAT
*
4724651 ATAATATAAATAAA-AATATATAAAT
1 AAAATATAAATAAATAA-ATATAAAT
*
4724676 AAAATATAAATACATAAAT
1 AAAATATAAATAAATAAAT
4724695 GCTCTCGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 2 0.05
25 21 0.55
26 9 0.24
27 6 0.16
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAATATAAATAAATAAATATAAAT
Found at i:4724687 original size:11 final size:11
Alignment explanation
Indices: 4724625--4724687 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
4724615 AAATTTATAA
4724625 AAATATAAA-AT
1 AAATA-AAATAT
*
4724636 AAATTAAATAT
1 AAATAAAATAT
* *
4724647 AATTATAATAT
1 AAATAAAATAT
4724658 AAATAAAAATATAT
1 AAAT--AAA-ATAT
4724672 AAATAAAATAT
1 AAATAAAATAT
4724683 AAATA
1 AAATA
4724688 CATAAATGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
10 3 0.07
11 26 0.62
12 3 0.07
13 2 0.05
14 8 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:4725578 original size:21 final size:23
Alignment explanation
Indices: 4725525--4725580 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
4725515 ATATTTAAAA
4725525 TATAATTTAATATATATAATTTTT
1 TATAATTTAA-ATATATAATTTTT
**
4725549 TATTTTTTAAAT-TATAATTTTT
1 TATAATTTAAATATATAATTTTT
4725571 T-TAATTTAAA
1 TATAATTTAAA
4725581 AAATGGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 7 0.25
22 11 0.39
23 2 0.07
24 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATAATTTAAATATATAATTTTT
Found at i:4726533 original size:129 final size:129
Alignment explanation
Indices: 4726321--4726553 Score: 360
Period size: 129 Copynumber: 1.8 Consensus size: 129
4726311 ACTTACTACA
* * *
4726321 ACAACAAGAATGGCTATGAGAATACTGAGCAGCAAAGTCTAGCTGAAGCCAGGTTCACGGAGAAA
1 ACAACAAGAATGCCTATGAGAATACTGAGCAGCAAAGTCTAGCTGAAGCCAGGTTCACAGAAAAA
4726386 GGATGGAGCACCAAGGAAAACCAGAACAACAACAACTACTACTACTACAACGGTAGAGGTGGGT
66 GGATGGAGCACCAAGGAAAACCAGAACAACAACAACTACTACTACTACAACGGTAGAGGTGGGT
* * * * **
4726450 ACAACAAGAATGCCTATGAGAATACTGAGCAGCAGAA-TTTGGGTGAGGCCATTTTCACAGAAAA
1 ACAACAAGAATGCCTATGAGAATACTGAGCAGCA-AAGTCTAGCTGAAGCCAGGTTCACAGAAAA
*
4726514 AGGATGGAGCACCAAGGAAAACCAGAACAACAACTACTAC
65 AGGATGGAGCACCAAGGAAAACCAGAACAACAACAACTAC
4726554 AATGGCAACA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
129 91 0.98
130 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (129 bp):
ACAACAAGAATGCCTATGAGAATACTGAGCAGCAAAGTCTAGCTGAAGCCAGGTTCACAGAAAAA
GGATGGAGCACCAAGGAAAACCAGAACAACAACAACTACTACTACTACAACGGTAGAGGTGGGT
Found at i:4726773 original size:21 final size:21
Alignment explanation
Indices: 4726747--4726786 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4726737 AGGTACAACC
*
4726747 AGAACCAAGAGGAGTTCGAAG
1 AGAACCAAGACGAGTTCGAAG
4726768 AGAACCAAGACGAGTTCGA
1 AGAACCAAGACGAGTTCGA
4726787 GCCATGAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.30, T:0.10
Consensus pattern (21 bp):
AGAACCAAGACGAGTTCGAAG
Found at i:4727872 original size:20 final size:20
Alignment explanation
Indices: 4727836--4727874 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4727826 AAGGTTGTCC
*
4727836 AAATTAAATTTTAATTATTG
1 AAATTAAAATTTAATTATTG
4727856 AAATTAAAAATTT-ATTATT
1 AAATT-AAAATTTAATTATT
4727875 ATTAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATTAAAATTTAATTATTG
Found at i:4729232 original size:12 final size:12
Alignment explanation
Indices: 4729215--4729242 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4729205 ATTTATATTC
4729215 ATATCATAATTA
1 ATATCATAATTA
4729227 ATATCATAATTA
1 ATATCATAATTA
4729239 ATAT
1 ATAT
4729243 GAATTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATCATAATTA
Found at i:4731526 original size:18 final size:18
Alignment explanation
Indices: 4731493--4731545 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
4731483 GCTATATTTA
*
4731493 TAAATTT-TATAA-TATT
1 TAAATTTATAAAATTATT
4731509 TAAATTTATAAAATTATTT
1 TAAATTTATAAAATTA-TT
*
4731528 TAAA-ATATAAAATTATT
1 TAAATTTATAAAATTATT
4731545 T
1 T
4731546 CACAATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 7 0.22
17 7 0.22
18 12 0.38
19 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTTATAAAATTATT
Found at i:4731781 original size:21 final size:21
Alignment explanation
Indices: 4731728--4731784 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
4731718 TATGCATTTA
4731728 GATAACATATTTAAATATTTAAAT
1 GATAA-ATATTT-AA-ATTTAAAT
*
4731752 -ATATA-ATTTAAATTTAAAT
1 GATAAATATTTAAATTTAAAT
4731771 GATAAATATTTAAA
1 GATAAATATTTAAA
4731785 AATTAATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 8 0.28
20 6 0.21
21 11 0.38
22 1 0.03
23 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
GATAAATATTTAAATTTAAAT
Found at i:4732638 original size:20 final size:20
Alignment explanation
Indices: 4732604--4732648 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4732594 GGTTAAATTT
* *
4732604 TTTAATTTTTAAAATTATAA
1 TTTAATTTTTAAAATAAAAA
4732624 TTTAATATTTT-AAATAAAAA
1 TTTAAT-TTTTAAAATAAAAA
4732644 TTTAA
1 TTTAA
4732649 AATAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAATTTTTAAAATAAAAA
Found at i:4732706 original size:36 final size:35
Alignment explanation
Indices: 4732620--4732708 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 35
4732610 TTTTAAAATT
*
4732620 ATAATTTAATATTTTAAATAAAAATTTAAAATAAA
1 ATAATTTTATATTTTAAATAAAAATTTAAAATAAA
* * * *
4732655 AT-TTTTTGTAATTTAAA-AATTAAATTTTAAATAAA
1 ATAATTTTATATTTTAAATAA--AAATTTAAAATAAA
4732690 ATAATTTTATATTTTAAAT
1 ATAATTTTATATTTTAAAT
4732709 TTTTATTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
33 2 0.05
34 11 0.26
35 17 0.40
36 12 0.29
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (35 bp):
ATAATTTTATATTTTAAATAAAAATTTAAAATAAA
Found at i:4732756 original size:14 final size:12
Alignment explanation
Indices: 4732712--4732750 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
4732702 TTTAAATTTT
4732712 TATTATTTTAATATA
1 TATT-TTTT-ATA-A
4732727 TATTTTTTATAA
1 TATTTTTTATAA
4732739 TATTTTTTATAA
1 TATTTTTTATAA
4732751 AATATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 13 0.54
13 3 0.12
14 4 0.17
15 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTTTTTATAA
Found at i:4740617 original size:10 final size:10
Alignment explanation
Indices: 4740602--4740626 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4740592 GTTTATGTAT
4740602 GATGTAGTAC
1 GATGTAGTAC
4740612 GATGTAGTAC
1 GATGTAGTAC
4740622 GATGT
1 GATGT
4740627 TGTTCTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (10 bp):
GATGTAGTAC
Found at i:4742585 original size:26 final size:26
Alignment explanation
Indices: 4742549--4742599 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
4742539 TTCCGTGGAT
4742549 ATTTTCATGATGGAGTCTTATACTGA
1 ATTTTCATGATGGAGTCTTATACTGA
4742575 ATTTTCATGATGGAGTCTTATACTG
1 ATTTTCATGATGGAGTCTTATACTG
4742600 CATCAACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (26 bp):
ATTTTCATGATGGAGTCTTATACTGA
Found at i:4746050 original size:2 final size:2
Alignment explanation
Indices: 4746043--4746072 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4746033 CTTTAAACCA
4746043 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
4746073 CTGTAGCTTG
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:4748638 original size:12 final size:12
Alignment explanation
Indices: 4748605--4748638 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4748595 AAACTATGCA
4748605 ATTATAAAAAAT
1 ATTATAAAAAAT
*
4748617 -TTATGAAAAAT
1 ATTATAAAAAAT
4748628 ATTATAAAAAA
1 ATTATAAAAAA
4748639 AAAAAAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (12 bp):
ATTATAAAAAAT
Found at i:4750219 original size:5 final size:5
Alignment explanation
Indices: 4750211--4750235 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4750201 TTTTTATCTA
4750211 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
4750236 TCAAAGCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:4752275 original size:20 final size:22
Alignment explanation
Indices: 4752250--4752296 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
4752240 AGCCCTTAAA
4752250 AAAAACCGA-AGATAG-AAA-AT
1 AAAAACCGATA-ATAGTAAACAT
4752270 AAAAACCGATAATAGTAAACAT
1 AAAAACCGATAATAGTAAACAT
4752292 AAAAA
1 AAAAA
4752297 ATATATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.54
21 4 0.17
22 7 0.29
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAACCGATAATAGTAAACAT
Found at i:4754999 original size:6 final size:6
Alignment explanation
Indices: 4754990--4755023 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4754980 TCAAAGGCAA
*
4754990 TATTGC TATTGC TATTGC TATTCC TATTGC TATT
1 TATTGC TATTGC TATTGC TATTGC TATTGC TATT
4755024 TGCCCATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (6 bp):
TATTGC
Found at i:4756186 original size:16 final size:16
Alignment explanation
Indices: 4756140--4756190 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4756130 GGGTCTACAC
4756140 TTTCTTTCCCCCTT-TT
1 TTTCTTT-CCCCTTCTT
* * * *
4756156 TTTATTGCTCTTTCTT
1 TTTCTTTCCCCTTCTT
4756172 TTTCTTTCCCCTTCTT
1 TTTCTTTCCCCTTCTT
4756188 TTT
1 TTT
4756191 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTCTTTCCCCTTCTT
Found at i:4757402 original size:3 final size:3
Alignment explanation
Indices: 4757394--4757422 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4757384 TTACCGATAT
4757394 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4757423 TTAGCCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4757871 original size:25 final size:27
Alignment explanation
Indices: 4757825--4757879 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
4757815 AAAAATATAT
* *
4757825 TAATAATTTTTAATGATATAATAAAGA
1 TAATAATTTTTAATAATATAATAAAAA
*
4757852 TAAT-ATTTTTAA-AATTTAATAAAAA
1 TAATAATTTTTAATAATATAATAAAAA
4757877 TAA
1 TAA
4757880 CAGTTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.52
26 8 0.32
27 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
TAATAATTTTTAATAATATAATAAAAA
Found at i:4769925 original size:2 final size:2
Alignment explanation
Indices: 4769918--4769950 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4769908 ACACAGAGCA
4769918 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4769951 AGGTGAGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4771365 original size:3 final size:3
Alignment explanation
Indices: 4771357--4771393 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
4771347 AAGATCATTG
*
4771357 ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4771394 GCTTGTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4775566 original size:2 final size:2
Alignment explanation
Indices: 4775559--4775593 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4775549 TGATATTGTT
*
4775559 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4775594 TATTCAAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4781748 original size:24 final size:24
Alignment explanation
Indices: 4781716--4781761 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4781706 TTTTGGGTTT
* *
4781716 GTTGTGAAAACTAACAAGGAGAGA
1 GTTGAGAAAACAAACAAGGAGAGA
*
4781740 GTTGAGAAAACAAATAAGGAGA
1 GTTGAGAAAACAAACAAGGAGA
4781762 TGAATGAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.28, T:0.15
Consensus pattern (24 bp):
GTTGAGAAAACAAACAAGGAGAGA
Found at i:4782148 original size:20 final size:20
Alignment explanation
Indices: 4782111--4782149 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4782101 TGTTTACATA
4782111 TTAAAAATAAAAATAATTAT
1 TTAAAAATAAAAATAATTAT
*
4782131 TTAAATATATAAAA-AATTA
1 TTAAAAATA-AAAATAATTA
4782150 AATATACGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAATAAAAATAATTAT
Found at i:4783704 original size:5 final size:5
Alignment explanation
Indices: 4783696--4783722 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4783686 AAAAAATTAA
4783696 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
4783723 TCAAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4785281 original size:1 final size:1
Alignment explanation
Indices: 4785275--4785299 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4785265 CAGATCTGAG
4785275 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4785300 CAAGTTGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4787283 original size:2 final size:2
Alignment explanation
Indices: 4787276--4787300 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4787266 AGCATGAATT
4787276 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4787301 GTCAAGATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4789063 original size:2 final size:2
Alignment explanation
Indices: 4789051--4789088 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4789041 ATCAATCATC
*
4789051 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4789089 TCTTAATCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4793520 original size:2 final size:2
Alignment explanation
Indices: 4793513--4793564 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4793503 AAGTTTGAGC
4793513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4793555 AT AT AT AT AT
1 AT AT AT AT AT
4793565 TTGTGTGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4797696 original size:2 final size:2
Alignment explanation
Indices: 4797689--4797718 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4797679 TTTGAATTGA
4797689 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
4797719 TATGCCACCT
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:4798028 original size:10 final size:11
Alignment explanation
Indices: 4797960--4798030 Score: 56
Period size: 11 Copynumber: 6.3 Consensus size: 11
4797950 ATTTTTAAAA
4797960 TAAAAATAATT
1 TAAAAATAATT
4797971 TAATAAATTAATTT
1 TAA-AAA-TAA-TT
* *
4797985 TAAAATTAATA
1 TAAAAATAATT
* *
4797996 TATAATTAAATT
1 TAAAAAT-AATT
4798008 T-AAAATAATT
1 TAAAAATAATT
4798018 TAAAAAT-ATT
1 TAAAAATAATT
4798028 TAA
1 TAA
4798031 TATATACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
10 11 0.22
11 18 0.37
12 10 0.20
13 5 0.10
14 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAAATAATT
Found at i:4798459 original size:2 final size:2
Alignment explanation
Indices: 4798452--4798487 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4798442 GCAATCTCTT
4798452 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
4798488 ATGATGTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4800146 original size:12 final size:12
Alignment explanation
Indices: 4800131--4800168 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
4800121 ACTTAGAGCC
*
4800131 TGATTGAGAGGT
1 TGATTGAAAGGT
4800143 TGATTGAAAGGT
1 TGATTGAAAGGT
*
4800155 TGACTGAAAGGT
1 TGATTGAAAGGT
4800167 TG
1 TG
4800169 CGGTTGGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.32
Consensus pattern (12 bp):
TGATTGAAAGGT
Found at i:4802359 original size:23 final size:23
Alignment explanation
Indices: 4802324--4802372 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
4802314 TTTTTTTTAA
4802324 TTTTTATGGAATAAAAATATAAT
1 TTTTTATGGAATAAAAATATAAT
** *
4802347 TTTTTATTTAATATAAATATAAT
1 TTTTTATGGAATAAAAATATAAT
4802370 TTT
1 TTT
4802373 AATAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTTTATGGAATAAAAATATAAT
Found at i:4802497 original size:21 final size:21
Alignment explanation
Indices: 4802469--4802512 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 21
4802459 ATTTAATATA
4802469 AATTTTATTA-T-TAAT-TTT
1 AATTTTATTATTATAATATTT
4802487 AATTTTATTATTATAATATTT
1 AATTTTATTATTATAATATTT
4802508 AATTT
1 AATTT
4802513 CACCACATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.43
19 1 0.04
20 4 0.17
21 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
AATTTTATTATTATAATATTT
Found at i:4803051 original size:29 final size:29
Alignment explanation
Indices: 4803018--4803075 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
4803008 TTGAATAATT
4803018 ATTTAAAAATGTTATAAAATAAA-ATTTAA
1 ATTT-AAAATGTTATAAAATAAATATTTAA
** *
4803047 ATTTATTATTTTATAAAATAAATATTTAA
1 ATTTAAAATGTTATAAAATAAATATTTAA
4803076 TAAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTAAAATGTTATAAAATAAATATTTAA
Found at i:4803072 original size:16 final size:16
Alignment explanation
Indices: 4803053--4803086 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4803043 TTAAATTTAT
*
4803053 TATTTTATAAAATAAA
1 TATTTAATAAAATAAA
*
4803069 TATTTAATAAATTAAA
1 TATTTAATAAAATAAA
4803085 TA
1 TA
4803087 AATATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTTAATAAAATAAA
Found at i:4803082 original size:28 final size:28
Alignment explanation
Indices: 4803029--4803082 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4803019 TTTAAAAATG
**
4803029 TTATAAAATAAAATTTAAATTTATTATT
1 TTATAAAATAAAATTTAAATAAATTATT
4803057 TTATAAAATAAATATTT-AATAAATTA
1 TTATAAAATAAA-ATTTAAATAAATTA
4803083 AATAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
TTATAAAATAAAATTTAAATAAATTATT
Found at i:4805654 original size:105 final size:105
Alignment explanation
Indices: 4805472--4805661 Score: 271
Period size: 105 Copynumber: 1.8 Consensus size: 105
4805462 TAAGATCCAC
* * *
4805472 TTATGACTGTGGACCAATTATTTGGGCCTCAGCTCAACTTAGGAATTCTTTCGAGATCAAACCTT
1 TTATGACTGTGGACCAATTATTTGGGCCCCAGCTCAACTCAGGAATTCGTTCGAGATCAAACCTT
4805537 GAACCAACCCACATTGCTTAAAAACTATGTGATCCACCTT
66 GAACCAACCCACATTGCTTAAAAACTATGTGATCCACCTT
*
4805577 TTATGACTGTGGACC-ATTATTTTGTGCCCCAGCTCAACTCA-GAACTTCGTT-GAAGATC-AAC
1 TTATGACTGTGGACCAATTA-TTTGGGCCCCAGCTCAACTCAGGAA-TTCGTTCG-AGATCAAAC
*
4805638 ACTTGAACCGACCCACATTGCTTA
63 -CTTGAACCAACCCACATTGCTTA
4805662 TGAACGATGT
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
104 11 0.14
105 65 0.86
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (105 bp):
TTATGACTGTGGACCAATTATTTGGGCCCCAGCTCAACTCAGGAATTCGTTCGAGATCAAACCTT
GAACCAACCCACATTGCTTAAAAACTATGTGATCCACCTT
Found at i:4814069 original size:132 final size:133
Alignment explanation
Indices: 4813861--4814114 Score: 438
Period size: 132 Copynumber: 1.9 Consensus size: 133
4813851 TAGGTAAGGC
4813861 GTTAAATCTCTCTTTGGTTTTTTTTTTTTTTTTAATTCTTTAATGGCGGTCTCTTAAACTCTTCT
1 GTTAAATCTCTCTTTGG-TTTTTTTTTTTTTTTAATTCTTTAATGGCGGTCTCTTAAACTCTTCT
* * *
4813926 TCTATGGTAATTGTGTTGTGATATTTGGATTACATGCAATTTGGTCTTAAGTTCTCTATTAAGTG
65 TCTACGGTAATTATGTTGTGATATTTGGATTACATGCAATTTGGTCGTAAGTTCTCTATTAAGTG
4813991 AGGA
130 AGGA
* *
4813995 GTTAAATCTCTCTTTGG-TTTTTTTTTTTTTTAATTTTTTAATGGCGGTCTCTTATACTCTTCTT
1 GTTAAATCTCTCTTTGGTTTTTTTTTTTTTTTAATTCTTTAATGGCGGTCTCTTAAACTCTTCTT
*
4814059 CTACGGTAATTATGTTGTGATCTTTGGATTACATGCAATTTGGTCGTAAGTTCTCT
66 CTACGGTAATTATGTTGTGATATTTGGATTACATGCAATTTGGTCGTAAGTTCTCT
4814115 TCTGAACTTG
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
132 97 0.85
134 17 0.15
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.52
Consensus pattern (133 bp):
GTTAAATCTCTCTTTGGTTTTTTTTTTTTTTTAATTCTTTAATGGCGGTCTCTTAAACTCTTCTT
CTACGGTAATTATGTTGTGATATTTGGATTACATGCAATTTGGTCGTAAGTTCTCTATTAAGTGA
GGA
Found at i:4817816 original size:13 final size:13
Alignment explanation
Indices: 4817798--4817824 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4817788 AAAAAGTCAG
4817798 GGAACTTGTTGAT
1 GGAACTTGTTGAT
4817811 GGAACTTGTTGAT
1 GGAACTTGTTGAT
4817824 G
1 G
4817825 AGTTACAGAA
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:0.22, C:0.07, G:0.33, T:0.37
Consensus pattern (13 bp):
GGAACTTGTTGAT
Found at i:4825148 original size:2 final size:2
Alignment explanation
Indices: 4825137--4825166 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4825127 TTATATATAA
*
4825137 AC AC AG AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4825167 TAATACTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4825532 original size:17 final size:17
Alignment explanation
Indices: 4825503--4825546 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
4825493 TTACAACAAC
4825503 AGCATAAAAAAAAAAAA
1 AGCATAAAAAAAAAAAA
4825520 AGCA-AAAAGAAAAAAAA
1 AGCATAAAA-AAAAAAAA
4825537 A-C-TAAAAAAA
1 AGCATAAAAAAA
4825547 TACATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 9 0.36
17 13 0.52
ACGTcount: A:0.82, C:0.07, G:0.07, T:0.05
Consensus pattern (17 bp):
AGCATAAAAAAAAAAAA
Found at i:4826761 original size:22 final size:23
Alignment explanation
Indices: 4826717--4826768 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
4826707 TCGGATTTTT
* *
4826717 ATTATATTTATTAATATTTTATA
1 ATTATATTTATAAATATTATATA
4826740 ATTATATTTA-AAATATTATATA
1 ATTATATTTATAAATATTATATA
*
4826762 TTTATAT
1 ATTATAT
4826769 AAATTTTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATATTTATAAATATTATATA
Found at i:4826818 original size:11 final size:12
Alignment explanation
Indices: 4826711--4826866 Score: 88
Period size: 13 Copynumber: 12.3 Consensus size: 12
4826701 AGGGCTTCGG
4826711 ATTTT-TATTAT
1 ATTTTATATTAT
*
4826722 A-TTTAT-TAAT
1 ATTTTATATTAT
4826732 ATTTTATAATTAT
1 ATTTTAT-ATTAT
*
4826745 ATTTAAAATATTAT
1 ATTT--TATATTAT
*
4826759 ATATTTATA-TAA
1 AT-TTTATATTAT
*
4826771 ATTTTAGTTGTTAAT
1 ATTTTA--TATT-AT
*
4826786 AATTTATATTAAT
1 ATTTTATATT-AT
4826799 ATATTTATATTAT
1 AT-TTTATATTAT
4826812 -TTTTATATTAT
1 ATTTTATATTAT
* *
4826823 ATTATATTTTAATT
1 ATTTTATATT-A-T
4826837 ATTTTTATATTAT
1 A-TTTTATATTAT
*
4826850 ATAATTATATTAT
1 AT-TTTATATTAT
4826863 ATTT
1 ATTT
4826867 AAAATTATTA
Statistics
Matches: 112, Mismatches: 16, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
10 7 0.06
11 21 0.19
12 14 0.12
13 34 0.30
14 19 0.17
15 17 0.15
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:4826822 original size:5 final size:5
Alignment explanation
Indices: 4826789--4826865 Score: 63
Period size: 5 Copynumber: 15.4 Consensus size: 5
4826779 TGTTAATAAT
* *
4826789 TTATA TTA-A -TATA TTTATA TTATTT TTATA TTATA TTATA TTTTAA
1 TTATA TTATA TTATA -TTATA TTA-TA TTATA TTATA TTATA TTAT-A
*
4826835 TTATTT TTATA TTATA -TA-A TTATA TTATA TT
1 TTA-TA TTATA TTATA TTATA TTATA TTATA TT
4826866 TAAAATTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.10
5 34 0.59
6 14 0.24
7 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTATA
Found at i:4826837 original size:27 final size:30
Alignment explanation
Indices: 4826789--4826865 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 30
4826779 TGTTAATAAT
4826789 TTATATTAATATATTTATATTATTTTTATA
1 TTATATTAATATATTTATATTATTTTTATA
4826819 TTATATT-ATAT-TTTA-ATTATTTTTATA
1 TTATATTAATATATTTATATTATTTTTATA
4826846 TTATA-TAAT-TATATTATATT
1 TTATATTAATATAT-TTATATT
4826866 TAAAATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
26 2 0.05
27 20 0.47
28 7 0.16
29 7 0.16
30 7 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TTATATTAATATATTTATATTATTTTTATA
Found at i:4836629 original size:18 final size:18
Alignment explanation
Indices: 4836588--4836632 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4836578 ATGTGTATAT
*
4836588 ATATATATATATACACAC
1 ATATATACATATACACAC
* * *
4836606 ACATATACATATACTCGC
1 ATATATACATATACACAC
4836624 ATATATACA
1 ATATATACA
4836633 AGACATGACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (18 bp):
ATATATACATATACACAC
Found at i:4837377 original size:167 final size:163
Alignment explanation
Indices: 4837095--4837518 Score: 606
Period size: 167 Copynumber: 2.6 Consensus size: 163
4837085 ATTTGAAGGG
*
4837095 AAAAAAAAGAAACTTGGGAATTGGCCGGAATACATCACAGTTCATAGCAATAGATCTGGTTGCCA
1 AAAAAAAAAAAACTTGGGAATTGGCCGGAATACATCACAGTTCATAGCAATAGATCTGGTTGCCA
* * * *
4837160 AGCAGCATTATTTCATGATATATAGTAAATTTAATTTAATCCTTGCTTAACTAGTTTTCTTTTTG
66 AGCAGCATTATTTCATGATATATAGTAAATGTAATTTAATCCTAGCTTAACTAGTTTGCTTCTTG
*
4837225 CCTATATATGAGAGTTAATTTGAAGGGTAACATG-AAA
131 -C-ATA-AAG-GAGTTAATTTGAA-GGTAACATGAAAA
*
4837262 AAAAAAAAAAAACTTGGGAATTGGCCGGAATACATCAGAGTTCATAGCAATAGATCTGGTTGCCA
1 AAAAAAAAAAAACTTGGGAATTGGCCGGAATACATCACAGTTCATAGCAATAGATCTGGTTGCCA
*
4837327 AGCAGCATTATTTCATGATATATAGTAAATGTAGTTTAATCCTAGCTTAACTAGTTTGCTTCTTG
66 AGCAGCATTATTTCATGATATATAGTAAATGTAATTTAATCCTAGCTTAACTAGTTTGCTTCTTG
*
4837392 CATAAAGGAGTTAATTTGAAGGTAATATGAAAAA
131 CATAAAGGAGTTAATTTGAAGGTAACATG-AAAA
* * *
4837426 AAAAAAAAAAAACTTGGGAATTGGCCAG-A-ACATCACAATTCATATATAACAATAGATCTGGTT
1 AAAAAAAAAAAACTTGGGAATTGGCCGGAATACATCACAGTTC----ATAGCAATAGATCTGGTT
*
4837489 GCCAAGCAGCTTTATTTCATG-T-TATAGTAA
62 GCCAAGCAGCATTATTTCATGATATATAGTAA
4837519 TTACCAAGCG
Statistics
Matches: 237, Mismatches: 14, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
162 18 0.08
163 14 0.06
164 40 0.17
165 4 0.02
166 38 0.16
167 123 0.52
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (163 bp):
AAAAAAAAAAAACTTGGGAATTGGCCGGAATACATCACAGTTCATAGCAATAGATCTGGTTGCCA
AGCAGCATTATTTCATGATATATAGTAAATGTAATTTAATCCTAGCTTAACTAGTTTGCTTCTTG
CATAAAGGAGTTAATTTGAAGGTAACATGAAAA
Found at i:4838362 original size:2 final size:2
Alignment explanation
Indices: 4838357--4838385 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4838347 ATATATATAT
4838357 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4838386 TAAACAAACC
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Done.