Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 10 of 195
Found at i:2090399 original size:133 final size:133
Alignment explanation
Indices: 2090217--2090489 Score: 528
Period size: 133 Copynumber: 2.1 Consensus size: 133
2090207 TTATTTTGCA
2090217 AAACATTTCCCCACAGAATGCATCAATTAGCATTTTGGTAATTCCCACAGCTTCAGCATCATTTA
1 AAACATTTCCCCACAGAATGCATCAATTAGCATTTTGGTAATTCCCACAGCTTCAGCATCATTTA
2090282 TCTAAAACAATTCTTATGCAAAACTTCTGTAAGAATTAATGCAGCTACAACCAACTAGCTTTCAA
66 TCTAAAACAATTCTTATGCAAAACTTCTGTAAGAATTAATGCAGCTACAACCAACTAGCTTTCAA
2090347 TAT
131 TAT
*
2090350 AAACGTTTCCCCACAGAATGCATCAATTAGCATTTTGGTAATTCCCACAGCTTCAGCATCATTTA
1 AAACATTTCCCCACAGAATGCATCAATTAGCATTTTGGTAATTCCCACAGCTTCAGCATCATTTA
2090415 TCTAAAACAATTCTTATGCAAAACTTCTGTAAGAATTAATGCAGCTACAACCAACTAGCTTTCAA
66 TCTAAAACAATTCTTATGCAAAACTTCTGTAAGAATTAATGCAGCTACAACCAACTAGCTTTCAA
2090480 TAT
131 TAT
*
2090483 AATCATT
1 AAACATT
2090490 GTATAATACA
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 137 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (133 bp):
AAACATTTCCCCACAGAATGCATCAATTAGCATTTTGGTAATTCCCACAGCTTCAGCATCATTTA
TCTAAAACAATTCTTATGCAAAACTTCTGTAAGAATTAATGCAGCTACAACCAACTAGCTTTCAA
TAT
Found at i:2091744 original size:17 final size:18
Alignment explanation
Indices: 2091706--2091797 Score: 71
Period size: 20 Copynumber: 5.0 Consensus size: 18
2091696 CATTTCACTG
*
2091706 TTATTATATATATAATATTT
1 TTATTATTTATAT-ATA-TT
*
2091726 TTATTATTTATTTA-ATT
1 TTATTATTTATATATATT
*
2091743 TTA-TATTTGTATATATT
1 TTATTATTTATATATATT
*
2091760 TTATGATTTATATATTTATT
1 TTATTATTTATATA--TATT
* * *
2091780 TAATTTTTTATTTATATT
1 TTATTATTTATATATATT
2091798 AAAAATAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
16 8 0.14
17 11 0.19
18 13 0.22
19 1 0.02
20 25 0.43
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATATATT
Found at i:2091756 original size:42 final size:42
Alignment explanation
Indices: 2091710--2091815 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
2091700 TCACTGTTAT
*
2091710 TATATATATAATATTTTTATTATTTATTTAATTTTATATTTG
1 TATATATATAATATTTTTATTATTTATTTAATTTTATATTTA
* * * *
2091752 TATATATTTTATGATTTATA-TATTTATTTAATTTTTTATTTA
1 TATATATATAAT-ATTTTTATTATTTATTTAATTTTATATTTA
* *
2091794 TATTAAAAATAATA-TTTTATTA
1 TA-TATATATAATATTTTTATTA
2091816 ATTTTAGATT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.08
42 35 0.69
43 12 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (42 bp):
TATATATATAATATTTTTATTATTTATTTAATTTTATATTTA
Found at i:2091773 original size:16 final size:15
Alignment explanation
Indices: 2091709--2091776 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 15
2091699 TTCACTGTTA
*
2091709 TTATATATATAATATTT
1 TTATATTTAT-ATA-TT
*
2091726 TTATTATTTATTTAATT
1 TTA-TATTTATAT-ATT
2091743 TTATATTTGTATATATT
1 TTATA-TT-TATATATT
2091760 TTATGATTTATATATT
1 TTAT-ATTTATATATT
2091776 T
1 T
2091777 ATTTAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
16 11 0.26
17 20 0.47
18 12 0.28
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATATTTATATATT
Found at i:2091773 original size:18 final size:17
Alignment explanation
Indices: 2091709--2091774 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
2091699 TTCACTGTTA
*
2091709 TTATATATATA-ATATTT
1 TTATATTTATATATA-TT
*
2091726 TTATTATTTATTTA-ATT
1 TTA-TATTTATATATATT
*
2091743 TTATATTTGTATATATT
1 TTATATTTATATATATT
2091760 TTATGATTTATATAT
1 TTAT-ATTTATATAT
2091775 TTATTTAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
16 8 0.20
17 15 0.38
18 16 0.40
19 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATATTTATATATATT
Found at i:2091885 original size:20 final size:22
Alignment explanation
Indices: 2091862--2091908 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2091852 AATTGAATCG
*
2091862 AATAT-AA-AAAATAGTATTTT
1 AATATAAATAAAATAGAATTTT
*
2091882 AATATAAATAAAATTGAATTTT
1 AATATAAATAAAATAGAATTTT
2091904 AATAT
1 AATAT
2091909 TTATTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 2 0.09
22 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATATAAATAAAATAGAATTTT
Found at i:2091933 original size:31 final size:33
Alignment explanation
Indices: 2091876--2091941 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
2091866 TAAAAAATAG
2091876 TATTTTAATATAAATAAAATTGAATTTTAATATT
1 TATTTTAATATAAATAAAATTGAATTTTAA-ATT
*
2091910 TATTTT-ATA-AAATTAAATT-AATTTTAAATT
1 TATTTTAATATAAATAAAATTGAATTTTAAATT
2091940 TA
1 TA
2091942 AAAACCCGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 5 0.16
31 8 0.26
32 9 0.29
33 3 0.10
34 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
TATTTTAATATAAATAAAATTGAATTTTAAATT
Found at i:2092813 original size:20 final size:20
Alignment explanation
Indices: 2092788--2092829 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
2092778 ATTAATTAAT
2092788 TTAAAA-TTATATAAAACTCA
1 TTAAAATTTATATAAAA-TCA
2092808 TTAAAATTTTATATAAAATCA
1 TTAAAA-TTTATATAAAATCA
2092829 T
1 T
2092830 ACTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAAATTTATATAAAATCA
Found at i:2095457 original size:11 final size:11
Alignment explanation
Indices: 2095436--2095477 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
2095426 CAGTTATATT
2095436 TTAATTTATTAA
1 TTAA-TTATTAA
2095448 TTAATTATTAA
1 TTAATTATTAA
*
2095459 GTAATTA-TAA
1 TTAATTATTAA
2095469 TTTAATTAT
1 -TTAATTAT
2095478 GATCTAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 3 0.12
11 19 0.73
12 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TTAATTATTAA
Found at i:2096800 original size:8 final size:8
Alignment explanation
Indices: 2096784--2096820 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
2096774 TTATTTTTTA
2096784 ATATAAAT
1 ATATAAAT
*
2096792 ATTTAAAT
1 ATATAAAT
*
2096800 ATATAATT
1 ATATAAAT
2096808 ATATAAAT
1 ATATAAAT
2096816 ATATA
1 ATATA
2096821 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:2096826 original size:26 final size:24
Alignment explanation
Indices: 2096784--2096835 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
2096774 TTATTTTTTA
* *
2096784 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
2096808 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
2096834 AT
1 AT
2096836 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:2096854 original size:15 final size:13
Alignment explanation
Indices: 2096825--2096851 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2096815 TATATATAAA
2096825 TAAAAAATTATTT
1 TAAAAAATTATTT
2096838 TAAAAAATTATTT
1 TAAAAAATTATTT
2096851 T
1 T
2096852 TTATAATATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAAAATTATTT
Found at i:2098210 original size:20 final size:22
Alignment explanation
Indices: 2098181--2098220 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
2098171 GATAATAATT
2098181 TTAAAAAAT-A-CTAAAAATAC
1 TTAAAAAATAATCTAAAAATAC
*
2098201 TTAAATAATAATCTAAAAAT
1 TTAAAAAATAATCTAAAAAT
2098221 TAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAAAAATAATCTAAAAATAC
Found at i:2098427 original size:13 final size:13
Alignment explanation
Indices: 2098411--2098462 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
2098401 CCCTAAACCA
2098411 AAACCCTAAATTG
1 AAACCCTAAATTG
* *
2098424 AAACTCTAAATCTA
1 AAACCCTAAAT-TG
2098438 AAACCCTAAAATTG
1 AAACCCT-AAATTG
2098452 AAACTCCTAAA
1 AAAC-CCTAAA
2098463 ATCCAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 10 0.31
14 15 0.47
15 7 0.22
ACGTcount: A:0.50, C:0.23, G:0.04, T:0.23
Consensus pattern (13 bp):
AAACCCTAAATTG
Found at i:2098456 original size:28 final size:29
Alignment explanation
Indices: 2098408--2098471 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
2098398 AATCCCTAAA
2098408 CCAAAACCCTAAATTGAAACT-CT-AAAT
1 CCAAAACCCTAAATTGAAACTCCTAAAAT
*
2098435 CTAAAACCCTAAAATTGAAACTCCTAAAAT
1 CCAAAACCCT-AAATTGAAACTCCTAAAAT
2098465 CCAAAAC
1 CCAAAAC
2098472 TCTAGAATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 9 0.28
28 11 0.34
29 2 0.06
30 10 0.31
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (29 bp):
CCAAAACCCTAAATTGAAACTCCTAAAAT
Found at i:2098536 original size:14 final size:15
Alignment explanation
Indices: 2098374--2098528 Score: 85
Period size: 15 Copynumber: 10.7 Consensus size: 15
2098364 TTATTAAAAT
2098374 TAAAAT-CAAAA-CC
1 TAAAATCCAAAACCC
**
2098387 TAAAATTTTAAAATCCC
1 TAAAA-TCCAAAA-CCC
2098404 T-AAA-CCAAAACCC
1 TAAAATCCAAAACCC
** *
2098417 T-AAAT-TGAAACTC
1 TAAAATCCAAAACCC
*
2098430 T-AAATCTAAAACCC
1 TAAAATCCAAAACCC
**
2098444 TAAAAT-TGAAACTCC
1 TAAAATCCAAAAC-CC
*
2098459 TAAAATCCAAAACTC
1 TAAAATCCAAAACCC
*
2098474 TAGAATCCAAAACCC
1 TAAAATCCAAAACCC
* * *
2098489 TAGAATTC-AAACCT
1 TAAAATCCAAAACCC
* *
2098503 TTAAATTCAAAACCC
1 TAAAATCCAAAACCC
2098518 TAAAATCCAAA
1 TAAAATCCAAA
2098529 TCCCAAAACT
Statistics
Matches: 111, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
13 22 0.20
14 28 0.25
15 51 0.46
16 7 0.06
17 3 0.03
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAAATCCAAAACCC
Found at i:2098555 original size:22 final size:22
Alignment explanation
Indices: 2098517--2098573 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
2098507 ATTCAAAACC
2098517 CTAAAATCC-AAATCCCAAAACTTT
1 CTAAAA-CCTAAA-CCCAAAA-TTT
2098541 C-AAAACCTAAACCCAAAATTT
1 CTAAAACCTAAACCCAAAATTT
*
2098562 CTAAACCCTAAA
1 CTAAAACCTAAA
2098574 ATTAAAACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.13
22 18 0.60
23 7 0.23
24 1 0.03
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
CTAAAACCTAAACCCAAAATTT
Found at i:2098565 original size:15 final size:16
Alignment explanation
Indices: 2098547--2098576 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2098537 CTTTCAAAAC
2098547 CTAAACCC-AAAATTT
1 CTAAACCCTAAAATTT
2098562 CTAAACCCTAAAATT
1 CTAAACCCTAAAATT
2098577 AAAACTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (16 bp):
CTAAACCCTAAAATTT
Found at i:2098588 original size:21 final size:20
Alignment explanation
Indices: 2098564--2098617 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
2098554 CAAAATTTCT
*
2098564 AAACCCTAAAATTAAAACTCC
1 AAACCCTAAAATTAAAAC-CA
*
2098585 AAA-CCTCAAATTTTAAAACCA
1 AAACCCT-AAA-ATTAAAACCA
2098606 AAACCCTAAAAT
1 AAACCCTAAAAT
2098618 CTATAAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
20 4 0.15
21 13 0.48
22 10 0.37
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (20 bp):
AAACCCTAAAATTAAAACCA
Found at i:2098689 original size:15 final size:15
Alignment explanation
Indices: 2098598--2098690 Score: 68
Period size: 14 Copynumber: 6.3 Consensus size: 15
2098588 CCTCAAATTT
2098598 TAAAA-CCAAAACCC
1 TAAAATCCAAAACCC
* *
2098612 TAAAATCTATAAACCT
1 TAAAATCCA-AAACCC
2098628 TAAAAT-CAAAACCC
1 TAAAATCCAAAACCC
* *
2098642 TAAACCTTCC-ATACCC
1 TAAA--ATCCAAAACCC
* *
2098658 TAAAATTC-AAGCCC
1 TAAAATCCAAAACCC
*
2098672 TAAAATCCAAACCCC
1 TAAAATCCAAAACCC
2098687 TAAA
1 TAAA
2098691 GGCAAACTCT
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
14 27 0.44
15 12 0.20
16 21 0.34
17 1 0.02
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.19
Consensus pattern (15 bp):
TAAAATCCAAAACCC
Found at i:2102517 original size:46 final size:46
Alignment explanation
Indices: 2102465--2102558 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
2102455 CTTTCAGAAA
*
2102465 TGAATGAAAACTTCTTTTGACCTGAATTTTTATAAATTGATGCCTG
1 TGAATGAAAACTTCTTTTGACCTAAATTTTTATAAATTGATGCCTG
2102511 TGAATGAAAACTTCTTTTGACCTAAATTTTTATAAATTGATGCCTG
1 TGAATGAAAACTTCTTTTGACCTAAATTTTTATAAATTGATGCCTG
2102557 TG
1 TG
2102559 TCCACTTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (46 bp):
TGAATGAAAACTTCTTTTGACCTAAATTTTTATAAATTGATGCCTG
Found at i:2106856 original size:41 final size:40
Alignment explanation
Indices: 2106811--2106936 Score: 128
Period size: 41 Copynumber: 3.1 Consensus size: 40
2106801 ACATTCGTAG
*
2106811 TTGCATCACTTGCCTATGCATCATTAAAAGGACATTTGCAT
1 TTGCATCACTTGCATATGCATCATTAAAA-GACATTTGCAT
* * ** **
2106852 TTGCATCACTAGCATCTGCATCACAAGAAAGACATTCACAT
1 TTGCATCACTTGCATATGCATCATTA-AAAGACATTTGCAT
* * *
2106893 TTGCATCACTTGCATTTGCA-CTTGTATAAGACATTTGCAT
1 TTGCATCACTTGCATATGCATCAT-TAAAAGACATTTGCAT
2106933 TTGC
1 TTGC
2106937 CCCATAAGAA
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
40 16 0.24
41 49 0.72
42 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (40 bp):
TTGCATCACTTGCATATGCATCATTAAAAGACATTTGCAT
Found at i:2107270 original size:41 final size:42
Alignment explanation
Indices: 2107200--2107279 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
2107190 TTCAAAGCCT
* * *
2107200 CTGTTTAGGAGGAACCATTTTGAATCAAGA-TTTAAAAGCTC
1 CTGTTTAAGAGGAACCATTTTCAAACAAGACTTTAAAAGCTC
*
2107241 CTGTTTAAGAGGAACC-TTCTTCAAACAAGACTTTTAAAG
1 CTGTTTAAGAGGAACCATT-TTCAAACAAGACTTTAAAAG
2107280 TCTCAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.06
41 24 0.73
42 7 0.21
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (42 bp):
CTGTTTAAGAGGAACCATTTTCAAACAAGACTTTAAAAGCTC
Found at i:2107790 original size:109 final size:109
Alignment explanation
Indices: 2107638--2107863 Score: 271
Period size: 109 Copynumber: 2.1 Consensus size: 109
2107628 ACCTCTGGGT
* * *
2107638 ATAATTTTGATTTACAGTGTTGTCTCAAACAATTTTTAA-TTTTTGACTTGCGGTGTTATCTCGA
1 ATAATTTTAATTCACAGTGTTGTCTCAAACAATTTTTAATTTTTTAAC-TGCGGTGTTATCTCGA
*
2107702 TAGATTCTGTAAGACCTCCA-GTCATGATTCCTAA-AACTTTCAGGC
65 TAGATTATGTAAGACCTCCAGGT-ATGATTCCTAAGAACTTT-AGGC
* * * * *
2107747 ATAATTTTAATTCACGGTGTTGTCTCGATCGATTCTTT-ATTTTTTAACTGCGGTGTTGTCTCGA
1 ATAATTTTAATTCACAGTGTTGTCTCAAACAATT-TTTAATTTTTTAACTGCGGTGTTATCTCGA
* * * *
2107811 TCGATTATGTAAGACCTCCAGGTATGATTTCTAAGACCTTTGGGC
65 TAGATTATGTAAGACCTCCAGGTATGATTCCTAAGAACTTTAGGC
2107856 ATAATTTT
1 ATAATTTT
2107864 TAAAATCTTC
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
109 83 0.83
110 17 0.17
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (109 bp):
ATAATTTTAATTCACAGTGTTGTCTCAAACAATTTTTAATTTTTTAACTGCGGTGTTATCTCGAT
AGATTATGTAAGACCTCCAGGTATGATTCCTAAGAACTTTAGGC
Found at i:2107862 original size:22 final size:21
Alignment explanation
Indices: 2107837--2107908 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 21
2107827 TCCAGGTATG
2107837 ATTTCTAAGACCTTTGGGCATA
1 ATTT-TAAGACCTTTGGGCATA
* * *
2107859 ATTTTTAAAATCTTCGGGCATA
1 A-TTTTAAGACCTTTGGGCATA
2107881 ATCTTTAAGACCTTTGGGGCATA
1 AT-TTTAAGACCTTT-GGGCATA
2107904 ATTTT
1 ATTTT
2107909 GATTCACGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
21 1 0.02
22 28 0.68
23 12 0.29
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTTTAAGACCTTTGGGCATA
Found at i:2107904 original size:23 final size:22
Alignment explanation
Indices: 2107842--2107905 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
2107832 GTATGATTTC
*
2107842 TAAGACCTTTGGGCATAATTTT
1 TAAGACCTTTGGGCATAATCTT
* * *
2107864 TAAAATCTTCGGGCATAATCTT
1 TAAGACCTTTGGGCATAATCTT
2107886 TAAGACCTTTGGGGCATAAT
1 TAAGACCTTT-GGGCATAAT
2107906 TTTGATTCAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (22 bp):
TAAGACCTTTGGGCATAATCTT
Found at i:2108092 original size:132 final size:132
Alignment explanation
Indices: 2107955--2108209 Score: 343
Period size: 132 Copynumber: 1.9 Consensus size: 132
2107945 TCCACGTATT
* *
2107955 ATTTTTAAGAGATCTAG-GCATAATCTTTAAGACCTCCCA-GCATAATTTTGATTCGCAGTGTTA
1 ATTTTTAAGACATC-AGAGCATAATCTTTAAGACCT-CCATGCATAATTTTGATTCACAGTGTTA
** * * * *
2108018 TTTTGATTGATTTTTAATTTTTTAAGTTGTGGTATTATCTCGATCGATTCTTTAAGACCTTTGGA
64 TCCTGATTGATTTTTAATTTTTTAACTTGTAGTATTATCTCGATCAATTCTATAAGACCTTTGGA
2108083 CATA
129 CATA
* * * * * *
2108087 ATTTTTATGACCTCCGAGCATAATCTTTAAGGCCTCCATGTATAATTTTGATTCACGGTGTTATC
1 ATTTTTAAGACATCAGAGCATAATCTTTAAGACCTCCATGCATAATTTTGATTCACAGTGTTATC
*
2108152 CTGATTGATTTTTAATTTTTTAACTTGTAGTGTTATCTCGATCAATTCTATAAGACCT
66 CTGATTGATTTTTAATTTTTTAACTTGTAGTATTATCTCGATCAATTCTATAAGACCT
2108210 CCGGGCACAA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
131 4 0.04
132 102 0.96
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (132 bp):
ATTTTTAAGACATCAGAGCATAATCTTTAAGACCTCCATGCATAATTTTGATTCACAGTGTTATC
CTGATTGATTTTTAATTTTTTAACTTGTAGTATTATCTCGATCAATTCTATAAGACCTTTGGACA
TA
Found at i:2108245 original size:110 final size:108
Alignment explanation
Indices: 2108095--2108425 Score: 378
Period size: 110 Copynumber: 3.0 Consensus size: 108
2108085 TAATTTTTAT
* * *
2108095 GACCTCCGAGCATAATCTTTAAGGCCTCCATGTATAATTTTGATTCACGGTGTTATCCTGATTGA
1 GACCTCCGAGCATAATCTTTAAGGACTTCAGGTATAATTTTGATTCACGGTGTTATCCTGATTGA
*
2108160 TTTTTAATTTTTTAACTTGTAGTGTTATCTCGATCAATTCTATAA
66 TTTTTAATTTTTTGACTTG-AGTGTTATC-CGATCAATTCTATAA
* * ** ** * *
2108205 GACCTCCGGGCACAATCTTTAAGGTTTTCAGGTATAATTTTGATTCATAGTATTATCCCGATTGA
1 GACCTCCGAGCATAATCTTTAAGGACTTCAGGTATAATTTTGATTCACGGTGTTATCCTGATTGA
* * * * * *
2108270 TTTTTAATTTTTTGACTTGCGGTATTATCCTGGT-TATTTTGTAA
66 TTTTTAATTTTTTGACTTG-AGTGTTATCC-GATCAATTCTATAA
* * *
2108314 GACCTTCGAGCATAATCTTTAA-GACCTCTGGGTATAATTTTGATTCACGGTGTTATCCTGATTG
1 GACCTCCGAGCATAATCTTTAAGGACTTC-AGGTATAATTTTGATTCACGGTGTTATCCTGATTG
* *
2108378 ATTTTTAATTTTTTGACTTGCGATGTTATCCCGATCGATTCTATAA
65 ATTTTTAATTTTTTGACTTGAG-TGTTAT-CCGATCAATTCTATAA
2108424 GA
1 GA
2108426 TTTTCAAACA
Statistics
Matches: 181, Mismatches: 35, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
108 4 0.02
109 84 0.46
110 93 0.51
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (108 bp):
GACCTCCGAGCATAATCTTTAAGGACTTCAGGTATAATTTTGATTCACGGTGTTATCCTGATTGA
TTTTTAATTTTTTGACTTGAGTGTTATCCGATCAATTCTATAA
Found at i:2108370 original size:109 final size:109
Alignment explanation
Indices: 2108086--2108413 Score: 385
Period size: 109 Copynumber: 3.0 Consensus size: 109
2108076 CTTTGGACAT
* * *
2108086 AATTTTTATGACCTCCGAGCATAATCTTTAAGGCCTCCATGTATAATTTTGATTCACGGTGTTAT
1 AATTTTTAAGACCTCCGAGCATAATCTTTAA-GCCTCTAGGTATAATTTTGATTCACGGTGTTAT
* **
2108151 CCTGATTGATTTTTAATTTTTTAACTTGTAGTGTTAT-CTCGATC
65 CCTGATTGATTTTTAATTTTTTGACTTGCGGTGTTATCCTCGATC
* * * ** * ** *
2108195 AATTCTATAAGACCTCCGGGCACAATCTTTAAGGTTTTCAGGTATAATTTTGATTCATAGTATTA
1 AATT-TTTAAGACCTCCGAGCATAATCTTTAAGCCTCT-AGGTATAATTTTGATTCACGGTGTTA
* * *
2108260 TCCCGATTGATTTTTAATTTTTTGACTTGCGGTATTATCCT-GGT-
64 TCCTGATTGATTTTTAATTTTTTGACTTGCGGTGTTATCCTCGATC
* * *
2108304 TATTTTGTAAGACCTTCGAGCATAATCTTTAAGACCTCTGGGTATAATTTTGATTCACGGTGTTA
1 AATTTT-TAAGACCTCCGAGCATAATCTTTAAG-CCTCTAGGTATAATTTTGATTCACGGTGTTA
*
2108369 TCCTGATTGATTTTTAATTTTTTGACTTGCGATGTTATCC-CGATC
64 TCCTGATTGATTTTTAATTTTTTGACTTGCGGTGTTATCCTCGATC
2108414 GATTCTATAA
Statistics
Matches: 178, Mismatches: 34, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
108 1 0.01
109 93 0.52
110 82 0.46
111 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (109 bp):
AATTTTTAAGACCTCCGAGCATAATCTTTAAGCCTCTAGGTATAATTTTGATTCACGGTGTTATC
CTGATTGATTTTTAATTTTTTGACTTGCGGTGTTATCCTCGATC
Found at i:2108453 original size:22 final size:22
Alignment explanation
Indices: 2108434--2108508 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
2108424 GATTTTCAAA
* *
2108434 CATGATTTCTAAGACCTTCAGG
1 CATGATTTCTAAGACCTCCAAG
*
2108456 CATGATTCCTAAGACCTCCAAG
1 CATGATTTCTAAGACCTCCAAG
* *
2108478 TATGATTTTTAAGACCTCCAAG
1 CATGATTTCTAAGACCTCCAAG
*
2108500 CATAATTTC
1 CATGATTTC
2108509 GATTCGCAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (22 bp):
CATGATTTCTAAGACCTCCAAG
Found at i:2108927 original size:109 final size:110
Alignment explanation
Indices: 2108684--2108982 Score: 262
Period size: 109 Copynumber: 2.7 Consensus size: 110
2108674 GTATGATTTC
* * * * ** * * * *
2108684 TAAGACCTCCGGGCATAATCTTTAAGACCTCTAGGCATAATTTCAATTTACGGTGTTGTCCCAAA
1 TAAGACCTCCAGGCAAAATCTTTAAGACCTCCAGGCATAATTTCGATTCGCGATATTATCCC-GA
* * * * *
2108749 T-AATTTTTTATTTTTTGACTTGTGGGGTTGTCTCAGTCAATTTTG
65 TCGATTTTTTATTTTTCGACTTGCGGGGTTATCTCAGTCAATTCTG
* ** * * * * * *
2108794 TAAGACCTTCAGGCATGATTTTTAAGATCTCC-GAGCATAATTTTGGTTCGTGATATTATCCCTA
1 TAAGACCTCCAGGCAAAATCTTTAAGACCTCCAG-GCATAATTTCGATTCGCGATATTATCCCGA
* **
2108858 TCGATTTTTTATTTTTCGAC-TGCGGTGTTATCTTGGTCAATTCTG
65 TCGATTTTTTATTTTTCGACTTGCGGGGTTATCTCAGTCAATTCTG
* * * * *
2108903 TAAGACCTCCGGGTAAAATCTTTAAGACCTTCAGGCATAATTTCGATTCGCGGTGTTATCCCGAT
1 TAAGACCTCCAGGCAAAATCTTTAAGACCTCCAGGCATAATTTCGATTCGCGATATTATCCCGAT
*
2108968 TGATTTTTTATTTTT
66 CGATTTTTTATTTTT
2108983 TGATCGATTC
Statistics
Matches: 147, Mismatches: 39, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
109 85 0.58
110 62 0.42
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (110 bp):
TAAGACCTCCAGGCAAAATCTTTAAGACCTCCAGGCATAATTTCGATTCGCGATATTATCCCGAT
CGATTTTTTATTTTTCGACTTGCGGGGTTATCTCAGTCAATTCTG
Found at i:2109020 original size:22 final size:22
Alignment explanation
Indices: 2108995--2109057 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
2108985 ATCGATTCTG
* * * *
2108995 TAAGATCTTCGGGCATGATTTT
1 TAAGACCTTCGGACATAATGTT
2109017 TAAGACCTTCGGACATAATGTT
1 TAAGACCTTCGGACATAATGTT
* *
2109039 TAAGACCTTCAGCCATAAT
1 TAAGACCTTCGGACATAAT
2109058 TTTGATTCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGGACATAATGTT
Found at i:2109232 original size:37 final size:37
Alignment explanation
Indices: 2109176--2109276 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 37
2109166 TAATTTTAAT
* * *
2109176 TCACGATGTTGTCCCGATCGATTTTTTATTTCTTGAC
1 TCACGGTGTTGTCCCGATCGATTTTTTACTTCTCGAC
*
2109213 -CTGCGGTGTTGTCCCGATCGATTTTTTACTTCTCGAC
1 TC-ACGGTGTTGTCCCGATCGATTTTTTACTTCTCGAC
** *
2109250 TCACGGTGTCATCCCGATCGTTTTTTT
1 TCACGGTGTTGTCCCGATCGATTTTTT
2109277 TATCACTTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
36 1 0.02
37 52 0.96
38 1 0.02
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.44
Consensus pattern (37 bp):
TCACGGTGTTGTCCCGATCGATTTTTTACTTCTCGAC
Found at i:2109507 original size:17 final size:18
Alignment explanation
Indices: 2109482--2109526 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
2109472 TTTTGATATT
* *
2109482 ATTATAAAAAT-ATAATA
1 ATTAAAAAAATAAAAATA
2109499 ATTAAAAAAATAAAAATA
1 ATTAAAAAAATAAAAATA
2109517 ATTAAAAAAA
1 ATTAAAAAAA
2109527 AAAGATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTAAAAAAATAAAAATA
Found at i:2110588 original size:18 final size:18
Alignment explanation
Indices: 2110565--2110614 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
2110555 CGTTACAGGT
2110565 ATTTTTTTATTTTTTTAA
1 ATTTTTTTATTTTTTTAA
** *
2110583 ATTTTTGAATTTTTTTAT
1 ATTTTTTTATTTTTTTAA
* *
2110601 ATATTATTATTTTT
1 ATTTTTTTATTTTT
2110615 GTTATTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTTTTTATTTTTTTAA
Found at i:2110767 original size:20 final size:20
Alignment explanation
Indices: 2110720--2110767 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
2110710 AATAAGTAGG
*
2110720 ATAATAAT-TTTAAAAAATA
1 ATAATAATACTTAAAAAATA
* * *
2110739 CTAAAAATACTTAAATAATA
1 ATAATAATACTTAAAAAATA
2110759 ATAATAATA
1 ATAATAATA
2110768 ATAGAATATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAATACTTAAAAAATA
Found at i:2111088 original size:14 final size:14
Alignment explanation
Indices: 2111040--2111122 Score: 73
Period size: 15 Copynumber: 5.9 Consensus size: 14
2111030 CCTAAAATTT
2111040 TAAAATCCCTAAA-C
1 TAAAA-CCCTAAATC
*
2111054 CAAAACCCTAAAT-
1 TAAAACCCTAAATC
*
2111067 TGAAACCCTAAATC
1 TAAAACCCTAAATC
2111081 TAAAACCCTAAAAT-
1 TAAAACCCT-AAATC
*
2111095 TGAAACCCCTAAAATC
1 T-AAAACCCT-AAATC
*
2111111 AAAAACCCTAAA
1 TAAAACCCTAAA
2111123 ATCCAAACCC
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
13 18 0.32
14 16 0.28
15 23 0.40
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.18
Consensus pattern (14 bp):
TAAAACCCTAAATC
Found at i:2111104 original size:15 final size:15
Alignment explanation
Indices: 2111055--2111124 Score: 76
Period size: 15 Copynumber: 4.9 Consensus size: 15
2111045 TCCCTAAACC
2111055 AAAACCCT-AAATTG
1 AAAACCCTAAAATTG
2111069 -AAACCCT-AAATCT-
1 AAAACCCTAAAAT-TG
2111082 AAAACCCTAAAATTG
1 AAAACCCTAAAATTG
* **
2111097 AAACCCCTAAAATCA
1 AAAACCCTAAAATTG
2111112 AAAACCCTAAAAT
1 AAAACCCTAAAAT
2111125 CCAAACCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 11 0.23
14 9 0.19
15 28 0.58
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAACCCTAAAATTG
Found at i:2111131 original size:44 final size:43
Alignment explanation
Indices: 2111069--2111181 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 43
2111059 CCCTAAATTG
* *
2111069 AAACCCT-AAATCTAAAACCCTAAAATTGAAACCCCTAAAATCAA
1 AAACCCTAAAATC-CAAACCCTAAAATTCAAACCCCTAAAATC-A
* * * *
2111113 AAACCCTAAAATCCAAACCCTTAGAATTCAAATCCTTAAATTCA
1 AAACCCTAAAATCCAAACCC-TAAAATTCAAACCCCTAAAATCA
* *
2111157 AAACCTTAAAATCCAAACCCCAAAA
1 AAACCCTAAAATCCAAACCCTAAAA
2111182 CTTTCAAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 3 0.05
44 33 0.57
45 22 0.38
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.19
Consensus pattern (43 bp):
AAACCCTAAAATCCAAACCCTAAAATTCAAACCCCTAAAATCA
Found at i:2111132 original size:14 final size:14
Alignment explanation
Indices: 2111019--2111181 Score: 100
Period size: 14 Copynumber: 11.4 Consensus size: 14
2111009 TCATTAAAAT
2111019 TAAAATCAAAA-CC
1 TAAAATCAAAACCC
*
2111032 TAAAATTTTAAAATCCC
1 TAAAA--TCAAAA-CCC
*
2111049 T-AAACCAAAACCC
1 TAAAATCAAAACCC
**
2111062 T-AAATTGAAACCC
1 TAAAATCAAAACCC
2111075 T-AAATCTAAAACCC
1 TAAAATC-AAAACCC
* *
2111089 TAAAATTGAAACCCC
1 TAAAA-TCAAAACCC
2111104 TAAAATCAAAAACCC
1 TAAAATC-AAAACCC
*
2111119 TAAAATCCAAACCC
1 TAAAATCAAAACCC
* * *
2111133 TTAGAATTCAAATCCT
1 -TA-AAATCAAAACCC
* *
2111149 TAAATTCAAAACCT
1 TAAAATCAAAACCC
*
2111163 TAAAATCCAAACCC
1 TAAAATCAAAACCC
*
2111177 CAAAA
1 TAAAA
2111182 CTTTCAAAAC
Statistics
Matches: 118, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
13 23 0.19
14 44 0.37
15 36 0.31
16 12 0.10
17 3 0.03
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAAATCAAAACCC
Found at i:2111132 original size:30 final size:29
Alignment explanation
Indices: 2111021--2111124 Score: 110
Period size: 30 Copynumber: 3.7 Consensus size: 29
2111011 ATTAAAATTA
* *
2111021 AAATC-AAAA-CCTAAAATTTTAAAATCCCT
1 AAATCAAAAACCCTAAAA--TTGAAACCCCT
*
2111050 AAA-CCAAAACCCT-AAATTGAAA-CCCT
1 AAATCAAAAACCCTAAAATTGAAACCCCT
*
2111076 AAATCTAAAACCCTAAAATTGAAACCCCT
1 AAATCAAAAACCCTAAAATTGAAACCCCT
2111105 AAAATCAAAAACCCTAAAAT
1 -AAATCAAAAACCCTAAAAT
2111125 CCAAACCCTT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.11
27 14 0.21
28 10 0.15
29 14 0.21
30 21 0.32
ACGTcount: A:0.53, C:0.25, G:0.02, T:0.20
Consensus pattern (29 bp):
AAATCAAAAACCCTAAAATTGAAACCCCT
Found at i:2111144 original size:15 final size:15
Alignment explanation
Indices: 2111083--2111176 Score: 77
Period size: 15 Copynumber: 6.4 Consensus size: 15
2111073 CCTAAATCTA
**
2111083 AAACCC-TAAAATTG
1 AAACCCTTAAAATCC
* *
2111097 AAACCCCTAAAATCAA
1 AAACCCTTAAAATC-C
2111113 AAACCC-TAAAATCC
1 AAACCCTTAAAATCC
* *
2111127 AAACCCTTAGAATTC
1 AAACCCTTAAAATCC
* *
2111142 AAATCCTT-AAATTC
1 AAACCCTTAAAATCC
*
2111156 AAAACCTTAAAATCC
1 AAACCCTTAAAATCC
2111171 AAACCC
1 AAACCC
2111177 CAAAACTTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
14 24 0.36
15 36 0.55
16 6 0.09
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (15 bp):
AAACCCTTAAAATCC
Found at i:2114277 original size:21 final size:19
Alignment explanation
Indices: 2114237--2114273 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2114227 ACAAACGAAT
*
2114237 TGAAGAAAATATTTTTTAA
1 TGAAAAAAATATTTTTTAA
*
2114256 TGAAAAAAATAATTTTTA
1 TGAAAAAAATATTTTTTA
2114274 TAATTATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
TGAAAAAAATATTTTTTAA
Found at i:2114431 original size:21 final size:22
Alignment explanation
Indices: 2114407--2114449 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2114397 GATCAATAAT
2114407 TAAAAAA-TAAATTTAAAATTC
1 TAAAAAATTAAATTTAAAATTC
*
2114428 TAAAAAATTTAATTTAAAATTC
1 TAAAAAATTAAATTTAAAATTC
2114450 CGTACATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAAAATTAAATTTAAAATTC
Found at i:2114926 original size:16 final size:16
Alignment explanation
Indices: 2114907--2114937 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2114897 TTGTTATTAA
2114907 ATTTAAATTTGATTTT
1 ATTTAAATTTGATTTT
*
2114923 ATTTAAATTTTATTT
1 ATTTAAATTTGATTT
2114938 ATAATTTTAT
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:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTAAATTTGATTTT
Found at i:2114932 original size:11 final size:12
Alignment explanation
Indices: 2114918--2114947 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2114908 TTTAAATTTG
2114918 ATTTTATTTA-A
1 ATTTTATTTATA
2114929 ATTTTATTTATA
1 ATTTTATTTATA
2114941 ATTTTAT
1 ATTTTAT
2114948 ATTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTATA
Found at i:2115064 original size:22 final size:22
Alignment explanation
Indices: 2115011--2115056 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
2115001 TTCGAAATTA
2115011 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
2115033 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
2115054 ATA
1 ATA
2115057 TATATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:2115070 original size:18 final size:17
Alignment explanation
Indices: 2115049--2115092 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2115039 TATTATTTTT
*
2115049 AAAATATATATATATTTA
1 AAAATATATAT-TATATA
2115067 AAAATAT-TATTATATA
1 AAAATATATATTATATA
*
2115083 AATATATATA
1 AAAATATATA
2115093 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 5 0.22
18 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATATATTATATA
Found at i:2117466 original size:2 final size:2
Alignment explanation
Indices: 2117459--2117496 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2117449 TTCAATAAGC
2117459 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
2117497 ACCATGGTTA
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:2118477 original size:2 final size:2
Alignment explanation
Indices: 2118470--2118505 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2118460 AGGGGAGAGG
2118470 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
2118506 TTATGAGTGA
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):
AT
Found at i:2119506 original size:20 final size:19
Alignment explanation
Indices: 2119478--2119537 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 19
2119468 TAGAAAAATA
*
2119478 TTTAAAATATTTTATTAATT
1 TTTATAATATTTTA-TAATT
2119498 TTTATAATATAATTTATAATT
1 TTTATAATAT--TTTATAATT
2119519 TATTCATAATATTTATATA
1 T-TT-ATAATATTT-TATA
2119538 TATTGAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 9 0.26
21 8 0.24
22 10 0.29
23 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATAATATTTTATAATT
Found at i:2121894 original size:17 final size:18
Alignment explanation
Indices: 2121866--2121908 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
2121856 CTTATCCACA
2121866 TTATTCATTAAAATAATT
1 TTATTCATTAAAATAATT
*
2121884 TTATT-ATTAAAATGATT
1 TTATTCATTAAAATAATT
2121901 TTA-TCATT
1 TTATTCATT
2121909 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 17 0.74
18 5 0.22
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATTCATTAAAATAATT
Found at i:2123618 original size:6 final size:6
Alignment explanation
Indices: 2123607--2123634 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2123597 AATGTCAAGA
2123607 AATTTT AATTTT AATTTT AATTTT AATT
1 AATTTT AATTTT AATTTT AATTTT AATT
2123635 GTTAGTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:2128586 original size:61 final size:61
Alignment explanation
Indices: 2128521--2128734 Score: 168
Period size: 62 Copynumber: 3.5 Consensus size: 61
2128511 AAATGCCATC
2128521 AATAATCCTCTCTAAAAAATTGAAAGGGATTATTGAAGGTTTTTTTGATAAAAACACCTTT
1 AATAATCCTCTCTAAAAAATTGAAAGGGATTATTGAAGGTTTTTTTGATAAAAACACCTTT
* * * * * * *
2128582 AATAAT-CTCT-TCATCAAAATTTAAAGGGATTATTGAAGGCGTTTTTTGCCT-GAAACGCCTTC
1 AATAATCCTCTCT-A-AAAAATTGAAAGGGATTATTGAAGG-TTTTTTTG-ATAAAAACACCTTT
* * * * * ** * * *
2128644 AATAATCCCCTCATAAAAAA-AGGAGGGGATTATTGAATGCATTTTTTACAAAAAAATACATTT
1 AATAATCCTCTC-TAAAAAATTGAAAGGGATTATTGAA-G-GTTTTTTTGATAAAAACACCTTT
*
2128707 AATAATCCACTCTAAAAAATT-AAAGGGA
1 AATAATCCTCTCTAAAAAATTGAAAGGGA
2128735 ACGCTTTCAA
Statistics
Matches: 114, Mismatches: 28, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
59 1 0.01
60 5 0.04
61 29 0.25
62 46 0.40
63 31 0.27
64 1 0.01
65 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (61 bp):
AATAATCCTCTCTAAAAAATTGAAAGGGATTATTGAAGGTTTTTTTGATAAAAACACCTTT
Found at i:2139285 original size:16 final size:16
Alignment explanation
Indices: 2139264--2139294 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2139254 GTAACAAATC
2139264 ATGCTAGCCTGACTCT
1 ATGCTAGCCTGACTCT
2139280 ATGCTAGCCTGACTC
1 ATGCTAGCCTGACTC
2139295 AAGCAGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCTAGCCTGACTCT
Found at i:2148993 original size:2 final size:2
Alignment explanation
Indices: 2148986--2149017 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2148976 TGGTAATCTA
2148986 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2149018 ACAACATACA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2149126 original size:25 final size:24
Alignment explanation
Indices: 2149065--2149136 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 24
2149055 TATGAACAAC
* *
2149065 TCTTTAAATGACACATAAGATAA-T
1 TCTTTTAAT-ACAAATAAGATAATT
*
2149089 T-TTTTAA-AAAAATAAGATAATT
1 TCTTTTAATACAAATAAGATAATT
2149111 TCTTTTAATTACAAATTAA-ATAATT
1 TCTTTTAA-TACAAA-TAAGATAATT
2149136 T
1 T
2149137 TAAAGTTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 11 0.28
22 2 0.05
23 11 0.28
24 1 0.03
25 11 0.28
26 3 0.08
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (24 bp):
TCTTTTAATACAAATAAGATAATT
Found at i:2149392 original size:15 final size:17
Alignment explanation
Indices: 2149363--2149410 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
2149353 TCAACAATCT
2149363 TCTTGATTT-AAAATTT-
1 TCTT-ATTTAAAAATTTA
2149379 T-TTATTTAAAAATTTA
1 TCTTATTTAAAAATTTA
2149395 TCTT-TTTAAAAATTTA
1 TCTTATTTAAAAATTTA
2149411 CATAAGACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 14 0.48
17 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (17 bp):
TCTTATTTAAAAATTTA
Found at i:2150910 original size:31 final size:32
Alignment explanation
Indices: 2150856--2150928 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
2150846 TGATTTATTA
* *
2150856 TAATAAATACATTTTATTATTATATAATAAAC
1 TAATAAATAAATATTATTATTATATAATAAAC
*
2150888 TAATAAATAAATATT-TTATTATATAATAAAT
1 TAATAAATAAATATTATTATTATATAATAAAC
*
2150919 TAATCAATAA
1 TAATAAATAA
2150929 TACGTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (32 bp):
TAATAAATAAATATTATTATTATATAATAAAC
Found at i:2159796 original size:2 final size:2
Alignment explanation
Indices: 2159789--2159820 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2159779 TTGGTTTCAA
2159789 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
2159821 GTGTGTGTGT
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:2159825 original size:2 final size:2
Alignment explanation
Indices: 2159820--2159861 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2159810 TCTCTCTCTC
* *
2159820 TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TT TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2159862 AGTGCTCTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.02, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2163252 original size:16 final size:17
Alignment explanation
Indices: 2163233--2163275 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
2163223 AATTTAGTTC
*
2163233 TTTAATTTTTA-ATATT
1 TTTAATATTTATATATT
2163249 TTTAATATTTATATATTAT
1 TTTAATATTTATATA-T-T
2163268 TTTAATAT
1 TTTAATAT
2163276 AAACATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 3 0.13
18 1 0.04
19 9 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAATATTTATATATT
Found at i:2163433 original size:13 final size:13
Alignment explanation
Indices: 2163415--2163470 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
2163405 TAAGGAGAAC
2163415 TTAATATATAAAT
1 TTAATATATAAAT
*
2163428 TTAATATCTAAAT
1 TTAATATATAAAT
*
2163441 TT--TATTTAAAT
1 TTAATATATAAAT
* *
2163452 TAAATATA-AAAA
1 TTAATATATAAAT
2163464 TTAATAT
1 TTAATAT
2163471 GAACCGAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
11 9 0.26
12 9 0.26
13 17 0.49
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATATATAAAT
Found at i:2165871 original size:22 final size:22
Alignment explanation
Indices: 2165838--2165897 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
2165828 ATATAAAATT
*
2165838 TTTATTAA-AATTTTTAATCGTA
1 TTTA-TAATAATTTTTAATCATA
* *
2165860 TTTATAATAATTTTTTATTATA
1 TTTATAATAATTTTTAATCATA
* *
2165882 ATTATAATAACTTTTA
1 TTTATAATAATTTTTA
2165898 TTATTATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATAATAATTTTTAATCATA
Found at i:2165911 original size:22 final size:20
Alignment explanation
Indices: 2165858--2165911 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
2165848 TTTTTAATCG
2165858 TATTTATAATAATTTTTTAT
1 TATTTATAATAATTTTTTAT
2165878 TATAATTATAATAACTTTTATTAT
1 TAT--TTATAATAA-TTTT-TTAT
*
2165902 TATTTTTAAT
1 TATTTATAAT
2165912 TTTATCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 3 0.10
22 15 0.52
23 4 0.14
24 7 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTATAATAATTTTTTAT
Found at i:2175312 original size:22 final size:23
Alignment explanation
Indices: 2175284--2175331 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2175274 ATCATGCATT
2175284 AATTTTAAAATAT-AAAAAATAA
1 AATTTTAAAATATAAAAAAATAA
* *
2175306 AATTTTAAATTTTAAAAAAATAA
1 AATTTTAAAATATAAAAAAATAA
2175329 AAT
1 AAT
2175332 ATAATTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AATTTTAAAATATAAAAAAATAA
Found at i:2175313 original size:28 final size:27
Alignment explanation
Indices: 2175284--2175364 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 27
2175274 ATCATGCATT
2175284 AATTTTAAAATATAAAAAATAAAATTTTA
1 AATTTTAAAA-A-AAAAAATAAAATTTTA
*
2175313 AATTTTAAAAAAATAAAATATAATTTTGA
1 AATTTTAAAAAAA-AAAATAAAATTTT-A
*
2175342 GATATTTAAAAAAAATAAATAAA
1 AAT-TTTAAAAAAAA-AAATAAA
2175365 TGGACAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 2 0.04
28 13 0.29
29 14 0.31
30 16 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (27 bp):
AATTTTAAAAAAAAAAATAAAATTTTA
Found at i:2175350 original size:30 final size:29
Alignment explanation
Indices: 2175284--2175364 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
2175274 ATCATGCATT
*
2175284 AATTTTAAAATATAA-AAAATAAAATTTTA
1 AATTTTAAAA-AAAATAAAATAAAATTTTA
*
2175313 AATTTT-AAAAAAATAAAATATAATTTTGA
1 AATTTTAAAAAAAATAAAATAAAATTTT-A
*
2175342 GATATTTAAAAAAAAT-AAATAAA
1 AAT-TTTAAAAAAAATAAAATAAA
2175365 TGGACAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.07
28 15 0.34
29 9 0.20
30 9 0.20
31 8 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AATTTTAAAAAAAATAAAATAAAATTTTA
Found at i:2177231 original size:24 final size:24
Alignment explanation
Indices: 2177181--2177228 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
2177171 TGATATGATA
*
2177181 TAAAATTGATATAAATATAAAATT
1 TAAAAATGATATAAATATAAAATT
*
2177205 TAAAAATGATAT-AATTTAAAATT
1 TAAAAATGATATAAATATAAAATT
2177228 T
1 T
2177229 TAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAAAATGATATAAATATAAAATT
Found at i:2177269 original size:21 final size:22
Alignment explanation
Indices: 2177227--2177272 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2177217 AATTTAAAAT
* **
2177227 TTTAATAAAAATTAAATTTATA
1 TTTAATAAAAATAAAAAATATA
2177249 TTTAAT-AAAATAAAAAATATA
1 TTTAATAAAAATAAAAAATATA
2177270 TTT
1 TTT
2177273 TATATTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAATATA
Found at i:2177274 original size:22 final size:21
Alignment explanation
Indices: 2177225--2177274 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
2177215 ATAATTTAAA
** *
2177225 ATTTTAATAAAAATTAAATTT
1 ATTTTAATAAAAAAAAAATAT
2177246 ATATTTAATAAAATAAAAAATAT
1 AT-TTTAATAAAA-AAAAAATAT
2177269 ATTTTA
1 ATTTTA
2177275 TATTTTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTTAATAAAAAAAAAATAT
Found at i:2179981 original size:2 final size:2
Alignment explanation
Indices: 2179974--2180007 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2179964 ACGTAAGTTC
2179974 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
2180008 TTGTGCTTTT
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):
AT
Found at i:2192005 original size:14 final size:14
Alignment explanation
Indices: 2191986--2192016 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2191976 ATTTGCATTC
2191986 TTTCTTTCTTTTCT
1 TTTCTTTCTTTTCT
*
2192000 TTTCTTTTTTTTCT
1 TTTCTTTCTTTTCT
2192014 TTT
1 TTT
2192017 GAAATGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTCTTTCTTTTCT
Found at i:2192037 original size:21 final size:20
Alignment explanation
Indices: 2192013--2192055 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2192003 CTTTTTTTTC
*
2192013 TTTTGAAATGTCTTAAAATTT
1 TTTTGAAATATC-TAAAATTT
**
2192034 TTTTTTAATATCTAAAATTT
1 TTTTGAAATATCTAAAATTT
2192054 TT
1 TT
2192056 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTGAAATATCTAAAATTT
Found at i:2198392 original size:20 final size:22
Alignment explanation
Indices: 2198352--2198393 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2198342 AGATATGCAG
*
2198352 TCATTTATTTATTTGATGTAAT
1 TCATTAATTTATTTGATGTAAT
2198374 TCATTAATTT-TTT-ATGTAAT
1 TCATTAATTTATTTGATGTAAT
2198394 ATTTAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
22 9 0.47
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TCATTAATTTATTTGATGTAAT
Found at i:2200637 original size:23 final size:23
Alignment explanation
Indices: 2200611--2200677 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
2200601 ATTGTTTTAT
2200611 TATAATATTATTATATATTATAA
1 TATAATATTATTATATATTATAA
*
2200634 TATAATTAATATTAT-TATTAT--
1 TATAA-TATTATTATATATTATAA
2200655 TATAATATTA-TATGAT-TTATAA
1 TATAATATTATTAT-ATATTATAA
2200677 T
1 T
2200678 TTTCATACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
19 3 0.08
20 8 0.22
21 6 0.16
22 1 0.03
23 11 0.30
24 8 0.22
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
TATAATATTATTATATATTATAA
Found at i:2200674 original size:17 final size:17
Alignment explanation
Indices: 2200640--2200677 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2200630 ATAATATAAT
*
2200640 TAATATTATTATTATTA
1 TAATATTATTATGATTA
2200657 TAATATTA-TATGATTTA
1 TAATATTATTATGA-TTA
2200674 TAAT
1 TAAT
2200678 TTTCATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TAATATTATTATGATTA
Found at i:2202988 original size:13 final size:12
Alignment explanation
Indices: 2202956--2203004 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
2202946 TGATATAATA
* *
2202956 TATTGATTTATG
1 TATTAATTTATC
2202968 TATTAATTTATC
1 TATTAATTTATC
*
2202980 TACTTAATTTAATT
1 TA-TTAATTT-ATC
2202994 TATTAATTTAT
1 TATTAATTTAT
2203005 AAAATTGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 14 0.44
13 14 0.44
14 4 0.12
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTAATTTATC
Found at i:2205999 original size:26 final size:23
Alignment explanation
Indices: 2205968--2206016 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
2205958 TTTATTATTT
*
2205968 TATTTTAACATTATAATATTTAAATA
1 TATTTTAA-ATT-TAA-AGTTAAATA
2205994 TATTTTAAATTTAAAGTTAAATA
1 TATTTTAAATTTAAAGTTAAATA
2206017 AAGATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 3 0.14
25 3 0.14
26 8 0.36
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TATTTTAAATTTAAAGTTAAATA
Found at i:2206301 original size:24 final size:24
Alignment explanation
Indices: 2206266--2206327 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
2206256 GAGATTGAAA
* *
2206266 ATAATTATAAAATTTATTATAATT
1 ATAATTAAAAAAATTATTATAATT
2206290 ATAATTAAAAAAATTATTATAATT
1 ATAATTAAAAAAATTATTATAATT
*
2206314 ATGATTAATAAAAA
1 ATAATTAA-AAAAA
2206328 AATTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATAATTAAAAAAATTATTATAATT
Found at i:2206336 original size:24 final size:24
Alignment explanation
Indices: 2206266--2206336 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
2206256 GAGATTGAAA
* * *
2206266 ATAATTATAAAATTTATTATAATT
1 ATAATTAAAAAAATAATTATAATT
*
2206290 ATAATTAAAAAAATTATTATAATT
1 ATAATTAAAAAAATAATTATAATT
* *
2206314 ATGATTAATAAAAA-AATTTTAAT
1 ATAATTAA-AAAAATAATTATAAT
2206337 ATTTAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 36 0.88
25 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (24 bp):
ATAATTAAAAAAATAATTATAATT
Found at i:2206489 original size:34 final size:34
Alignment explanation
Indices: 2206451--2206518 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
2206441 TTAAACTCTA
* * *
2206451 AATCATTCTTTTTTAAATTTAATGCTTAAAATTT
1 AATCATTCTCTTTTAAATTTAATACTGAAAATTT
2206485 AATCATTCTCTTTTAAATTTAATACTGAAAATTT
1 AATCATTCTCTTTTAAATTTAATACTGAAAATTT
2206519 TTAAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (34 bp):
AATCATTCTCTTTTAAATTTAATACTGAAAATTT
Found at i:2207954 original size:30 final size:30
Alignment explanation
Indices: 2207873--2207941 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
2207863 TTTTTGTATT
* ** **
2207873 TAAATAAATTCTTAATTTTTACTTTATATC
1 TAAATAAATTTTTAAACTTTAAATTATATC
2207903 TAAATAAATTTTTAAACTTTAAATTATATC
1 TAAATAAATTTTTAAACTTTAAATTATATC
2207933 TAAATAAAT
1 TAAATAAAT
2207942 CTTTGTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (30 bp):
TAAATAAATTTTTAAACTTTAAATTATATC
Found at i:2208068 original size:23 final size:25
Alignment explanation
Indices: 2208016--2208071 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
2208006 AATAAATTTT
2208016 ATTTAAATATAATAAATATATAAAA
1 ATTTAAATATAATAAATATATAAAA
*
2208041 ATTTAATTA-AATAAA-ATGAT-AAA
1 ATTTAAATATAATAAATAT-ATAAAA
2208064 ATTTAAAT
1 ATTTAAAT
2208072 TTTTTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.43
24 8 0.29
25 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTTAAATATAATAAATATATAAAA
Found at i:2208072 original size:24 final size:26
Alignment explanation
Indices: 2208016--2208072 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
2208006 AATAAATTTT
2208016 ATTTAAA-TATAATAAATATATAAAA
1 ATTTAAATTATAATAAATATATAAAA
2208041 ATTT-AATTA-AATAAA-ATGAT-AAA
1 ATTTAAATTATAATAAATAT-ATAAAA
2208064 ATTTAAATT
1 ATTTAAATT
2208073 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 9 0.31
24 14 0.48
25 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTTAAATTATAATAAATATATAAAA
Found at i:2213835 original size:19 final size:21
Alignment explanation
Indices: 2213783--2213831 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
2213773 TTTGTTTATA
* *
2213783 AATTTATAAATATATTTATTT
1 AATTTGTAAATAAATTTATTT
2213804 AATGTTTGTAAATAAATTTATTT
1 AA--TTTGTAAATAAATTTATTT
2213827 AATTT
1 AATTT
2213832 AAATGAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.21
23 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (21 bp):
AATTTGTAAATAAATTTATTT
Found at i:2229160 original size:43 final size:45
Alignment explanation
Indices: 2229108--2229191 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
2229098 AAGGATGAAT
*
2229108 ATGTCTTTTT-AATTAAAA-AATAATTAAT-CACTTAAAAAACAAC
1 ATGTCTTTTTGAATTAAAATAATAACT-ATCCACTTAAAAAACAAC
**
2229151 ATGTCTTTTTGTTTTAAAATAATAACTATCCACTTAAAAAA
1 ATGTCTTTTTGAATTAAAATAATAACTATCCACTTAAAAAA
2229192 AACTTAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 10 0.29
44 8 0.23
45 17 0.49
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (45 bp):
ATGTCTTTTTGAATTAAAATAATAACTATCCACTTAAAAAACAAC
Found at i:2230019 original size:18 final size:18
Alignment explanation
Indices: 2229996--2230033 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2229986 ATTGACTCTA
2229996 GTCATT-AAATTTTAATTT
1 GTCATTGAAA-TTTAATTT
2230014 GTCATTGAAATTTAATTT
1 GTCATTGAAATTTAATTT
2230032 GT
1 GT
2230034 TTTAATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (18 bp):
GTCATTGAAATTTAATTT
Found at i:2230579 original size:15 final size:15
Alignment explanation
Indices: 2230559--2230589 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2230549 TATTGAAACA
*
2230559 AATTAAAATTTAATG
1 AATTAAAATTCAATG
2230574 AATTAAAATTCAATG
1 AATTAAAATTCAATG
2230589 A
1 A
2230590 CTCCAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (15 bp):
AATTAAAATTCAATG
Found at i:2239919 original size:16 final size:18
Alignment explanation
Indices: 2239900--2239932 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2239890 ATATATTTCA
2239900 TTATTAA-TATT-TAATT
1 TTATTAACTATTATAATT
2239916 TTATTAACTATTATAAT
1 TTATTAACTATTATAAT
2239933 AATTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTAACTATTATAATT
Found at i:2239933 original size:25 final size:27
Alignment explanation
Indices: 2239899--2239955 Score: 82
Period size: 25 Copynumber: 2.1 Consensus size: 27
2239889 TATATATTTC
*
2239899 ATTATTAATATTTAATTTTATTA-ACT
1 ATTATTAATAATTAATTTTATTACACT
2239925 ATTA-TAATAATTAATTTTATTATCACT
1 ATTATTAATAATTAATTTTATTA-CACT
2239952 ATTA
1 ATTA
2239956 CTTTTAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 17 0.61
26 4 0.14
27 7 0.25
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTATTAATAATTAATTTTATTACACT
Found at i:2243938 original size:37 final size:37
Alignment explanation
Indices: 2243897--2243972 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
2243887 CAGACCTTTT
*
2243897 AAACTTAAATCAAGATTAGATCCAGTAGGCAATGATC
1 AAACTTAAATCAAGATTAGATCCAGTAGCCAATGATC
2243934 AAACTTAAATCAAGATTAGATCCAGTAGCCAATGATC
1 AAACTTAAATCAAGATTAGATCCAGTAGCCAATGATC
2243971 AA
1 AA
2243973 GTGTGGCAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (37 bp):
AAACTTAAATCAAGATTAGATCCAGTAGCCAATGATC
Found at i:2247025 original size:29 final size:29
Alignment explanation
Indices: 2246981--2247085 Score: 112
Period size: 28 Copynumber: 3.7 Consensus size: 29
2246971 TTGGGCTAAA
* *
2246981 ATATTTAAAT-TATTTTAAATTATTTTATT
1 ATATTTAAATAAATTTT-TATTATTTTATT
2247010 -T-TTTAAATAAATTTTTA-TATTTTATT
1 ATATTTAAATAAATTTTTATTATTTTATT
* *
2247036 ATATTAAAATAAGTTTTTATT-TTTTATTT
1 ATATTTAAATAAATTTTTATTATTTTA-TT
*
2247065 ATATTTAAATAAATTCTTATT
1 ATATTTAAATAAATTTTTATT
2247086 TCAAATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.14
27 9 0.14
28 25 0.39
29 21 0.33
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (29 bp):
ATATTTAAATAAATTTTTATTATTTTATT
Found at i:2247112 original size:18 final size:17
Alignment explanation
Indices: 2247091--2247134 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2247081 TTATTTCAAA
2247091 TAAAATATTAATTTATAT
1 TAAAA-ATTAATTTATAT
*
2247109 TAAAAATTTATTTATA-
1 TAAAAATTAATTTATAT
*
2247125 TACAAATTAA
1 TAAAAATTAA
2247135 AGATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAATTAATTTATAT
Found at i:2247218 original size:30 final size:29
Alignment explanation
Indices: 2247111--2247218 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 29
2247101 ATTTATATTA
** *
2247111 AAAATTTATTT-ATATACAAATTAAAGATT
1 AAAATTTATTTGA-ATGTAAATTAAAAATT
* *
2247140 AAAAATTTATTTGAATATAAATTAAAAGTT
1 -AAAATTTATTTGAATGTAAATTAAAAATT
* *
2247170 AAAATTTATTCAGGATGTAAATTAAAAATT
1 AAAATTTATT-TGAATGTAAATTAAAAATT
2247200 AAAAGTTTATTTGAATGTA
1 AAAA-TTTATTTGAATGTA
2247219 GTAAAACTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
29 10 0.15
30 49 0.74
31 7 0.11
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (29 bp):
AAAATTTATTTGAATGTAAATTAAAAATT
Found at i:2252540 original size:46 final size:46
Alignment explanation
Indices: 2252488--2252578 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
2252478 AAGCCTCATA
* *
2252488 AATCTATTCAAATAAGATGAAAGACAAACTAAATCAAAGGAAACAT
1 AATCTATTCAAATAAGATCAAAGACAAACTAAATCAAAGCAAACAT
2252534 AATCTATTCAAATAAGATCAAAGACAAACTAAATCAAAGCAAACA
1 AATCTATTCAAATAAGATCAAAGACAAACTAAATCAAAGCAAACA
2252579 ATCAATTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19
Consensus pattern (46 bp):
AATCTATTCAAATAAGATCAAAGACAAACTAAATCAAAGCAAACAT
Found at i:2254094 original size:25 final size:26
Alignment explanation
Indices: 2254073--2254142 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
2254063 TCAAATTTTG
* *
2254073 AATTAATTAAAAATATTTAATTATTT
1 AATTAATTAAAAATATTCAATTATTC
*
2254099 ATTTAATATAAAAAT-TTCAATTATTC
1 AATTAAT-TAAAAATATTCAATTATTC
2254125 AA-TATATTAAAAATATTC
1 AATTA-ATTAAAAATATTC
2254143 TCTATTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 9 0.24
26 21 0.57
27 7 0.19
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
AATTAATTAAAAATATTCAATTATTC
Found at i:2254687 original size:21 final size:21
Alignment explanation
Indices: 2254663--2254711 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2254653 CTTTCTTGTT
*
2254663 TAATGTTTTATA-ATATTATAA
1 TAAT-TTTTATATAAATTATAA
*
2254684 TAATTTTTATATAAATTATTA
1 TAATTTTTATATAAATTATAA
2254705 TAATTTT
1 TAATTTT
2254712 ATTGAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TAATTTTTATATAAATTATAA
Found at i:2264773 original size:6 final size:6
Alignment explanation
Indices: 2264762--2264796 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
2264752 TTTTTAAAAA
2264762 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAA
2264797 AGAAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATAAAT
Found at i:2266487 original size:20 final size:19
Alignment explanation
Indices: 2266458--2266495 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2266448 ATATATATAT
*
2266458 ATAATAATTATAAAATTAA
1 ATAATAATTAAAAAATTAA
2266477 ATAATTAATTAAAAAATTA
1 ATAA-TAATTAAAAAATTA
2266496 TTTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATAATTAAAAAATTAA
Found at i:2272710 original size:12 final size:12
Alignment explanation
Indices: 2272692--2272721 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2272682 TTTTTAAGTG
2272692 ATTTAATAAAAA
1 ATTTAATAAAAA
*
2272704 TTTTAATAAAAA
1 ATTTAATAAAAA
2272716 ATTTAA
1 ATTTAA
2272722 ACTAATAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:2272850 original size:13 final size:14
Alignment explanation
Indices: 2272832--2272864 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2272822 TAAAAATATA
*
2272832 TAAAAATTTTTA-T
1 TAAAAATATTTATT
2272845 TAAAAATATTTATT
1 TAAAAATATTTATT
2272859 TAAAAA
1 TAAAAA
2272865 GTATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAAATATTTATT
Found at i:2272946 original size:6 final size:6
Alignment explanation
Indices: 2272937--2272969 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
2272927 AATTTATCAA
2272937 TTTTAT TTTTAT TTTTAT TTTTAT TTTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TT
2272970 AATCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:2273812 original size:24 final size:23
Alignment explanation
Indices: 2273782--2273837 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
2273772 TTTATTTATA
2273782 ATTTTTTTAAAATTTTAAATCAT
1 ATTTTTTTAAAATTTTAAATCAT
* * * *
2273805 GTTATTTTTATATTTTTTAATCAT
1 ATT-TTTTTAAAATTTTAAATCAT
2273829 ATTTTTTTA
1 ATTTTTTTA
2273838 TTATATTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTTTTAAAATTTTAAATCAT
Found at i:2281281 original size:18 final size:17
Alignment explanation
Indices: 2281254--2281292 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2281244 ACATATTATA
* *
2281254 TAAAATAATAATTTAAAT
1 TAAAAAAATAAATT-AAT
2281272 TAAAAAAATAAATTAAT
1 TAAAAAAATAAATTAAT
2281289 TAAA
1 TAAA
2281293 GCTTGTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAAATAAATTAAT
Found at i:2281839 original size:2 final size:2
Alignment explanation
Indices: 2281834--2281858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2281824 CCTCTCTATA
2281834 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2281859 GTATTCGTCA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2282664 original size:13 final size:13
Alignment explanation
Indices: 2282648--2282672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2282638 TTTTGTTATC
2282648 TTTTTTATTTTTA
1 TTTTTTATTTTTA
2282661 TTTTTTATTTTT
1 TTTTTTATTTTT
2282673 CTGGGTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:2287259 original size:9 final size:9
Alignment explanation
Indices: 2287245--2287269 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2287235 CCTATCCAAT
2287245 TTTTTTTTG
1 TTTTTTTTG
2287254 TTTTTTTTG
1 TTTTTTTTG
2287263 TTTTTTT
1 TTTTTTT
2287270 ATAGAATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2287828 original size:2 final size:2
Alignment explanation
Indices: 2287823--2287850 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2287813 AATACAAAAA
2287823 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
2287851 TAAAACTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2289328 original size:27 final size:27
Alignment explanation
Indices: 2289267--2289366 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 27
2289257 AGTTACTCAA
2289267 TAAAA-AT-AAATAAATAAT-AAAAAT
1 TAAAATATAAAATAAATAATAAAAAAT
* * *
2289291 CAGTAAGATAAAATAAATAATAAAAAAT
1 TA-AAATATAAAATAAATAATAAAAAAT
*
2289319 TAAAATATAAAAT--A-AATCAAAAAT
1 TAAAATATAAAATAAATAATAAAAAAT
* *
2289343 TAAAAT-TAAAA-AAAAAAAAAAAAA
1 TAAAATATAAAATAAATAATAAAAAA
2289367 CATTTGATTG
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
23 5 0.08
24 17 0.28
25 10 0.16
26 2 0.03
27 20 0.33
28 7 0.11
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (27 bp):
TAAAATATAAAATAAATAATAAAAAAT
Found at i:2289345 original size:24 final size:22
Alignment explanation
Indices: 2289305--2289363 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
2289295 AAGATAAAAT
2289305 AAATAATAAAAAATTAAAATATA
1 AAATAATAAAAAATTAAAAT-TA
*
2289328 AAATAAATCAAAAATTAAAATTA
1 AAAT-AATAAAAAATTAAAATTA
* *
2289351 AAAAAAAAAAAAA
1 AAATAATAAAAAA
2289364 AAACATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 7 0.23
23 9 0.29
24 15 0.48
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (22 bp):
AAATAATAAAAAATTAAAATTA
Found at i:2289365 original size:24 final size:24
Alignment explanation
Indices: 2289298--2289364 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 24
2289288 AATCAGTAAG
2289298 ATAAAATAAATAATAAAAAATTAAAAT
1 ATAAAA-AAA-AA-AAAAAATTAAAAT
* **
2289325 ATAAAATAAATCAAAAATTAAAAT
1 ATAAAAAAAAAAAAAAATTAAAAT
2289349 -TAAAAAAAAAAAAAAA
1 ATAAAAAAAAAAAAAAA
2289365 AACATTTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 13 0.38
24 12 0.35
25 1 0.03
26 2 0.06
27 6 0.18
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (24 bp):
ATAAAAAAAAAAAAAAATTAAAAT
Found at i:2290180 original size:5 final size:5
Alignment explanation
Indices: 2290170--2290275 Score: 72
Period size: 5 Copynumber: 20.2 Consensus size: 5
2290160 AAAGAAAATA
* * *
2290170 ATAAT ATAAT ATACT ATACT ATAAT AATAAT AATAA- A-AAT AATAAC
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT -ATAAT ATAAT -ATAAT
** * *
2290216 ATAAT ATAAT ATAAT ATAAT CGCACT ATAAT ATAAT ATACT ATACTAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATA--AT
2290264 AGTAAT ATAAT A
1 A-TAAT ATAAT A
2290276 CTAGTAACAA
Statistics
Matches: 81, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 57 0.70
6 17 0.21
7 2 0.02
8 2 0.02
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:2290197 original size:23 final size:23
Alignment explanation
Indices: 2290167--2290275 Score: 89
Period size: 23 Copynumber: 4.6 Consensus size: 23
2290157 AAGAAAGAAA
*
2290167 ATAATAATATAATATACTATACT
1 ATAATAATATAATATAATATACT
* *
2290190 ATAATAATAATAATA-AAAATAAT
1 ATAATAAT-ATAATATAATATACT
*
2290213 A-ACATAATATAATATAATATAATCGC
1 ATA-ATAATATAATATAATAT-A-C-T
*
2290239 ACT-ATAATATAATATACTATACT
1 A-TAATAATATAATATAATATACT
*
2290262 ATAGTAATATAATA
1 ATAATAATATAATA
2290276 CTAGTAACAA
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
22 8 0.12
23 34 0.50
24 8 0.12
25 1 0.01
26 17 0.25
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (23 bp):
ATAATAATATAATATAATATACT
Found at i:2295353 original size:2 final size:2
Alignment explanation
Indices: 2295346--2295382 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2295336 CCTCTTCCTT
2295346 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2295383 GTATGTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2298252 original size:16 final size:16
Alignment explanation
Indices: 2298231--2298292 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
2298221 AATACATCTA
*
2298231 TTTATAATTAATTAAG
1 TTTATAAATAATTAAG
*
2298247 TTTATAAATAATATAAA
1 TTTATAAATAAT-TAAG
2298264 TTTATAAATAATTAAG
1 TTTATAAATAATTAAG
2298280 TTTATAAA-AATTA
1 TTTATAAATAATTA
2298293 TATTATACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
15 5 0.12
16 22 0.52
17 15 0.36
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTATAAATAATTAAG
Found at i:2307657 original size:35 final size:35
Alignment explanation
Indices: 2307612--2307681 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
2307602 CAAAATTAGC
2307612 AGTAGTATTTTACATCCCAGGAGAAAAAAAGCACT
1 AGTAGTATTTTACATCCCAGGAGAAAAAAAGCACT
*
2307647 AGTAGTATTTTACATCCCAGGAGAAAACAAGCACT
1 AGTAGTATTTTACATCCCAGGAGAAAAAAAGCACT
2307682 GCAAGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (35 bp):
AGTAGTATTTTACATCCCAGGAGAAAAAAAGCACT
Found at i:2307906 original size:36 final size:35
Alignment explanation
Indices: 2307776--2307906 Score: 127
Period size: 35 Copynumber: 3.7 Consensus size: 35
2307766 AATTAAAATT
* * ** * *
2307776 AGTAGTAGTTTACATTCTGGGAGAACACAAACACA
1 AGTAGTATTTTACATCCTAAGAGAACATAAGCACA
* * *
2307811 AGTAGTATTTTACATTCTAGGAGAACATAAGCACT
1 AGTAGTATTTTACATCCTAAGAGAACATAAGCACA
* * * *
2307846 AGTAGTATTTTACATCCCATGAGAATATATGGCACA
1 AGTAGTATTTTACATCCTAAGAGAACATA-AGCACA
*
2307882 AGTAATATTTTACATCCTAAGAGAA
1 AGTAGTATTTTACATCCTAAGAGAA
2307907 AAAGGGAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 55 0.68
36 26 0.32
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (35 bp):
AGTAGTATTTTACATCCTAAGAGAACATAAGCACA
Found at i:2308349 original size:147 final size:143
Alignment explanation
Indices: 2308072--2308361 Score: 332
Period size: 147 Copynumber: 2.0 Consensus size: 143
2308062 ATGACGTTGG
* * *
2308072 CCTGTCATGGTTGGTGTCAGAGTCAACCCCAAACTCAAGCTCAGACTGGGTTCAGTCTTGGAGCA
1 CCTGTCATGGTTGGTGTCAGAGCCAAACCCAAACTCAAGCTCAGACTGGCTTCAGTCTTGGAGCA
* *
2308137 TGCTATATCTTGAAAAGTACAGTGGAAGGTTGGTGTATGCTCCTTGTCAACGCTGGAGCTAGTTG
66 TGCTATATCTTGAAAAGTACAGTGG-AGGTTGGTATATGCTCATTGTCAACGCTGGAGCTAGTTG
2308202 CAGCAGTCGTTCCC
130 CAGCAGTCGTTCCC
* * *
2308216 CCTGTCATGGTTGGTTTCAGAGCCAAATCCAAACTCAAGCTCAGACTAGGCCTTACTGTCTTGTG
1 CCTGTCATGGTTGGTGTCAGAGCCAAACCCAAACTCAAGCTCAGACT-GG-CTT-CAGTCTTG-G
* *** * * * * *
2308281 -GCATGCTATATCTTGAGAAGTGTTGTCCGG-GGTTGGTATTTGTTCATTGTGAATGCTGGAGGT
62 AGCATGCTATATCTTGAAAAGTACAGT--GGAGGTTGGTATATGCTCATTGTCAACGCTGGAGCT
* *
2308344 TGTTGCAGCAGTGGTTCC
125 AGTTGCAGCAGTCGTTCC
2308362 ACCTTGGTCA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
144 43 0.36
145 2 0.02
146 2 0.02
147 71 0.59
148 1 0.01
149 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (143 bp):
CCTGTCATGGTTGGTGTCAGAGCCAAACCCAAACTCAAGCTCAGACTGGCTTCAGTCTTGGAGCA
TGCTATATCTTGAAAAGTACAGTGGAGGTTGGTATATGCTCATTGTCAACGCTGGAGCTAGTTGC
AGCAGTCGTTCCC
Found at i:2309968 original size:8 final size:7
Alignment explanation
Indices: 2309941--2309979 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
2309931 TTTTTTAATT
2309941 TTTAAAA
1 TTTAAAA
2309948 TTTAAAA
1 TTTAAAA
2309955 TTTAAAA
1 TTTAAAA
*
2309962 TTTTAAA
1 TTTAAAA
2309969 TCTT-AAA
1 T-TTAAAA
2309976 TTTA
1 TTTA
2309980 TTTATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 2 0.07
7 25 0.86
8 2 0.07
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (7 bp):
TTTAAAA
Done.