Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 46 of 100
Found at i:8473688 original size:14 final size:14
Alignment explanation
Indices: 8473669--8473696 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8473659 ATTTTACATG
8473669 ACATACATTAGCAT
1 ACATACATTAGCAT
8473683 ACATACATTAGCAT
1 ACATACATTAGCAT
8473697 GTTATCATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
ACATACATTAGCAT
Found at i:8474499 original size:4 final size:4
Alignment explanation
Indices: 8474490--8474523 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
8474480 TAACAATTAC
8474490 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
8474524 ATTATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:8474527 original size:3 final size:3
Alignment explanation
Indices: 8474519--8474565 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8474509 ATTTATTTAT
8474519 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8474566 CCTTTTCTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8475014 original size:33 final size:31
Alignment explanation
Indices: 8474940--8475021 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 31
8474930 TTTATAAAAT
*
8474940 AAAAATAATAATTTTATATCAAAATATATGAA
1 AAAAATAA-AATTTTATATAAAAATATATGAA
8474972 AATATAATAAAATTTTATATTAAAAATAATAT-ATA
1 AA-A-AATAAAATTTTATA-TAAAAAT-ATATGA-A
*
8475007 AAAAATAAAAATTTA
1 AAAAATAAAATTTTA
8475022 CATTTCAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
32 2 0.05
33 21 0.49
34 13 0.30
35 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (31 bp):
AAAAATAAAATTTTATATAAAAATATATGAA
Found at i:8475145 original size:26 final size:26
Alignment explanation
Indices: 8475095--8475147 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
8475085 ACAAAAATTT
*
8475095 AATTTAAATTTATATCAAATTTTAAA
1 AATTTAAATTTATATCAAATATTAAA
8475121 AATTTATAATATTATA-C-AATATTAAA
1 AATTTA-AAT-TTATATCAAATATTAAA
8475147 A
1 A
8475148 CACTAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 15 0.62
27 4 0.17
28 5 0.21
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAAATTTATATCAAATATTAAA
Found at i:8475506 original size:15 final size:14
Alignment explanation
Indices: 8475456--8475511 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
8475446 TTAATTTGAC
*
8475456 GTATATTATATTTA
1 GTATATTAAATTTA
*
8475470 G-ATATTAAATATA
1 GTATATTAAATTTA
*
8475483 TTA-ATTAAATTTA
1 GTATATTAAATTTA
8475496 GATATATTAAATTTA
1 G-TATATTAAATTTA
8475511 G
1 G
8475512 GATAAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 19 0.56
14 4 0.12
15 11 0.32
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
GTATATTAAATTTA
Found at i:8475791 original size:641 final size:646
Alignment explanation
Indices: 8474679--8475895 Score: 1690
Period size: 641 Copynumber: 1.9 Consensus size: 646
8474669 ATAAATTTGT
* *
8474679 TTTGAGTTACTAATTTCAGTACTTCACACCTATTTTTTATTTTTTATTGTGAATTTTATTTAAAA
1 TTTGAGCTACTAATTTCAGTACTGCACACCTATTTTTTATTTTTTATTGTGAATTTTATTTAAAA
* *
8474744 ATTGTACAGCAATTTTATTATATTAACAAAAAATAATTTTTTTATTTGAAGTAGATTAAATTTAG
66 ATTATACAGCAATTTTATTAGATTAACAAAAAATAATTTTTTTATTTGAAGTAGATTAAATTTAG
* * *
8474809 ATATTAAATACATAAATTAAATTTGGATACATTGAGTTTAGGATAAAAAATAAACAATTAAAAAA
131 ATATTAAATACATAAATTAAATTTAGATACATTAAATTTAGGATAAAAAATAAACAATTAAAAAA
*
8474874 ATCAAACCATATCAAATCAAACTATATATTTTTATTAATTTTTATATATTTAAATTTTTATAAAA
196 ATCAAACCATATCAAATCAAACTATATATTTTTATTAA-TTTTATACA-TT-AATTTTTATAAAA
8474939 TAAAAATAATAATTTTATATCAAAATATATGAAAATATAATAAAATTTTATATTAAAAATAATAT
258 TAAAAATAATAATTTTATATCAAAATATATGAAAATATAATAAAATTTTATATTAAAAATAATAT
* * *
8475004 ATAAAAAATAAAAATTTACATTTCAAAAATCGATAAACTAAATCGAATTAAATTAATAAAATTTA
323 ATAAAAAATAAAAAATTAAATTTCAAAAATCGATAAACTAAATCGAATTAAACTAATAAAATTTA
*
8475069 ATTTGAATCAAATCATACAAAAATTTAATTTAAATTTATATCAAATTTTAAAAATTTATAATATT
388 ATTTGAATCAAATCA-AC---AA-TTAA--TAAA--TATATCAAAATTTAAAAATTTATAATATT
* * ** *
8475134 ATACAATATTAAAACACTAAATCAAATTTAATTGGAATCATTATTATCTTCAAATAAAAGTGCAA
444 ATACAATATAAAAACACTAAATCAAATTCAATTAAAATCATTATCATCTTCAAATAAAAGTGCAA
* *
8475199 TTATTATGAAAAAATATGTCAACTGCTACTTTAAAATCTAAACAATTAATGTAGTGGTGTAGGAC
509 TTATTATGAAAAAATATGTCAACCGCTACTTTAAAATCTAAACAATTAACGTAGTGGTGTAGGAC
8475264 AATTTACACCTTATTTTTTTGTAACAATTGCTTTATTTATTATTATTTATTAATTAATTTTCTTC
574 AATTTACACCTTATTTTTTTGTAACAATTGCTTTATTTATTATTATTTATTAATTAATTTTCTTC
8475329 TTCTCTCC
639 TTCTCTCC
* *
8475337 TTTGAGCTACTAATTTCAGTACTGCACACCTATTTTTTTTATTTGTTTATTTTGATTTTTATTTA
1 TTTGAGCTACTAATTTCAGTACTGCACACCTA--TTTTTTATTT-TTTATTGTGAATTTTATTTA
* * * ** * * *
8475402 AAAATTATATAGCAATTTTATTAGCTTAGCGTAAAATAATTTTTTTAATTTGACGTATATTATAT
63 AAAATTATACAGCAATTTTATTAGATTAACAAAAAATAATTTTTTT-ATTTGAAGTAGATTAAAT
* * *
8475467 TTAGATATTAAATATATTAATTAAATTTAGATATATTAAATTTAGGAT-AAAAATGAAA-AATTT
127 TTAGATATTAAATACATAAATTAAATTTAGATACATTAAATTTAGGATAAAAAAT-AAACAA--T
*
8475530 TAAAAAAATCAAACCGTATCAAATCAAACTATATATTTTTATTAA-TTT-T-CA-T-ATTTTTAT
189 TAAAAAAATCAAACCATATCAAATCAAACTATATATTTTTATTAATTTTATACATTAATTTTTAT
* * * * * *
8475590 AAAATAAAAATAATAATTTTATATCAAAATATATTAAATTTTATTTAATTTTTATATT-AAAATA
254 AAAATAAAAATAATAATTTTATATCAAAATATATGAAAATATAATAAAATTTTATATTAAAAATA
*
8475654 ATATATAAAAAATTAAAAAAATTAAATTTCAAAAATCGATAAATTAAATCGAATTAAACTAATAA
319 ATATATAAAAAA-T-AAAAAATTAAATTTCAAAAATCGATAAACTAAATCGAATTAAACTAATAA
*
8475719 AATTTAATTT-ATATTAAATC-AC-A-T-A-AAA-ATATCAAAATTTAAAAATTTATAATATTAT
382 AATTTAATTTGA-ATCAAATCAACAATTAATAAATATATCAAAATTTAAAAATTTATAATATTAT
* * * *
8475777 ACAATATAAAAACACTGAATCAAATTCAATTAAAATCGTTATCATCTTCGAATAGAAGTGCAATT
446 ACAATATAAAAACACTAAATCAAATTCAATTAAAATCATTATCATCTTCAAATAAAAGTGCAATT
* * * *
8475842 ATTGTGAAAAGATATGTTAACCGTTACTTTAAAATCTAAACAATTAACGTAGTG
511 ATTATGAAAAAATATGTCAACCGCTACTTTAAAATCTAAACAATTAACGTAGTG
8475896 ATGCAGAATG
Statistics
Matches: 500, Mismatches: 49, Indels: 37
0.85 0.08 0.06
Matches are distributed among these distances:
641 133 0.27
644 3 0.01
647 1 0.00
648 1 0.00
650 1 0.00
654 20 0.04
655 62 0.12
656 63 0.13
657 1 0.00
658 30 0.06
659 1 0.00
660 11 0.02
661 68 0.14
662 60 0.12
663 45 0.09
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (646 bp):
TTTGAGCTACTAATTTCAGTACTGCACACCTATTTTTTATTTTTTATTGTGAATTTTATTTAAAA
ATTATACAGCAATTTTATTAGATTAACAAAAAATAATTTTTTTATTTGAAGTAGATTAAATTTAG
ATATTAAATACATAAATTAAATTTAGATACATTAAATTTAGGATAAAAAATAAACAATTAAAAAA
ATCAAACCATATCAAATCAAACTATATATTTTTATTAATTTTATACATTAATTTTTATAAAATAA
AAATAATAATTTTATATCAAAATATATGAAAATATAATAAAATTTTATATTAAAAATAATATATA
AAAAATAAAAAATTAAATTTCAAAAATCGATAAACTAAATCGAATTAAACTAATAAAATTTAATT
TGAATCAAATCAACAATTAATAAATATATCAAAATTTAAAAATTTATAATATTATACAATATAAA
AACACTAAATCAAATTCAATTAAAATCATTATCATCTTCAAATAAAAGTGCAATTATTATGAAAA
AATATGTCAACCGCTACTTTAAAATCTAAACAATTAACGTAGTGGTGTAGGACAATTTACACCTT
ATTTTTTTGTAACAATTGCTTTATTTATTATTATTTATTAATTAATTTTCTTCTTCTCTCC
Found at i:8477679 original size:8 final size:8
Alignment explanation
Indices: 8477666--8477697 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
8477656 GAGAGAGTTG
8477666 TTCCCTGT
1 TTCCCTGT
8477674 TTCCCTGT
1 TTCCCTGT
8477682 TTCCCTGT
1 TTCCCTGT
8477690 TTCCCTGT
1 TTCCCTGT
8477698 CCCAAGTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.00, C:0.38, G:0.12, T:0.50
Consensus pattern (8 bp):
TTCCCTGT
Found at i:8478731 original size:21 final size:21
Alignment explanation
Indices: 8478706--8478748 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8478696 TGAAATATAG
* *
8478706 ATTTTATTTTTTTAATAAATA
1 ATTTTAATTGTTTAATAAATA
*
8478727 ATTTTAATTGTTTATTAAATA
1 ATTTTAATTGTTTAATAAATA
8478748 A
1 A
8478749 CCTTATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAATTGTTTAATAAATA
Found at i:8478872 original size:16 final size:17
Alignment explanation
Indices: 8478851--8478882 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8478841 TTTATCTTGA
8478851 TTTAAAAAA-TTATGTT
1 TTTAAAAAATTTATGTT
8478867 TTTAAAAAATTTATGT
1 TTTAAAAAATTTATGT
8478883 AAGATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTAAAAAATTTATGTT
Found at i:8478937 original size:30 final size:30
Alignment explanation
Indices: 8478870--8478938 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
8478860 TTATGTTTTT
8478870 AAAAAA-TTTATGTAAGATATTAAAAATTC
1 AAAAAATTTTATGTAAGATATTAAAAATTC
** * * *
8478899 AAGCAATTTTATGTAAGATTTTGAAATTTC
1 AAAAAATTTTATGTAAGATATTAAAAATTC
8478929 AAAAAATTTT
1 AAAAAATTTT
8478939 CATCTTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (30 bp):
AAAAAATTTTATGTAAGATATTAAAAATTC
Found at i:8479850 original size:20 final size:20
Alignment explanation
Indices: 8479802--8479855 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
8479792 CAATAAATCA
8479802 ATATATATAA-TTT--ATAT
1 ATATATATAATTTTAAATAT
8479819 ATAT-TATGAATTTTAAATAT
1 ATATATAT-AATTTTAAATAT
*
8479839 TTATATATAATTTTAAA
1 ATATATATAATTTTAAA
8479856 AAAATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.10
17 6 0.19
18 3 0.10
20 16 0.52
21 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATATATAATTTTAAATAT
Found at i:8479884 original size:24 final size:24
Alignment explanation
Indices: 8479808--8479886 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
8479798 ATCAATATAT
*
8479808 ATAATTTATATATATTATGAATTTTAA
1 ATAATTTATATATATT-T--ATATTAA
**
8479835 AT-ATTTATATATAATTT-TAAAAAA
1 ATAATTTATATAT-ATTTAT-ATTAA
8479859 ATAATTTATATATATTTATATTAA
1 ATAATTTATATATATTTATATTAA
8479883 ATAA
1 ATAA
8479887 ATAAAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
23 1 0.02
24 15 0.35
25 11 0.26
26 11 0.26
27 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATAATTTATATATATTTATATTAA
Found at i:8480128 original size:27 final size:29
Alignment explanation
Indices: 8480092--8480149 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
8480082 ATCATTAATT
8480092 TAATAATTTT-AAACAAAAAT-ATAAAAA
1 TAATAATTTTAAAACAAAAATCATAAAAA
* * *
8480119 TAATATTTTTAAAATAAAAATCATATAAA
1 TAATAATTTTAAAACAAAAATCATAAAAA
8480148 TA
1 TA
8480150 TAGTGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 9 0.35
28 9 0.35
29 8 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (29 bp):
TAATAATTTTAAAACAAAAATCATAAAAA
Found at i:8481960 original size:13 final size:13
Alignment explanation
Indices: 8481942--8481969 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8481932 AACTTTTTCA
8481942 TTAGGAGCTAAAC
1 TTAGGAGCTAAAC
8481955 TTAGGAGCTAAAC
1 TTAGGAGCTAAAC
8481968 TT
1 TT
8481970 GCAAGTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (13 bp):
TTAGGAGCTAAAC
Found at i:8483486 original size:17 final size:16
Alignment explanation
Indices: 8483464--8483498 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8483454 AATAATTTTT
8483464 TTATCTTGATTTAAAAA
1 TTATCTT-ATTTAAAAA
*
8483481 TTATCTTTTTTAAAAA
1 TTATCTTATTTAAAAA
8483497 TT
1 TT
8483499 TATGTAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (16 bp):
TTATCTTATTTAAAAA
Found at i:8483501 original size:17 final size:18
Alignment explanation
Indices: 8483463--8483520 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
8483453 CAATAATTTT
8483463 TTTATCTTGATTTAAAAA
1 TTTATCTTGATTTAAAAA
*
8483481 -TTATCTT-TTTTAAAAA
1 TTTATCTTGATTTAAAAA
* *
8483497 TTTATGTAAGATATTAAAAA
1 TTTATCT-TGAT-TTAAAAA
8483517 TTTA
1 TTTA
8483521 AGCAATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.25
17 12 0.38
19 1 0.03
20 11 0.34
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (18 bp):
TTTATCTTGATTTAAAAA
Found at i:8488230 original size:27 final size:27
Alignment explanation
Indices: 8488190--8488241 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
8488180 AACTTAATAA
* *
8488190 ATTTGACATGTTAATAATATAAAAAAGT
1 ATTTGACATATTAA-AAAATAAAAAAGT
8488218 ATTT-ACATATTAAAAAATAAAAAA
1 ATTTGACATATTAAAAAATAAAAAA
8488242 ATTTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 8 0.36
28 4 0.18
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (27 bp):
ATTTGACATATTAAAAAATAAAAAAGT
Found at i:8498362 original size:16 final size:16
Alignment explanation
Indices: 8498341--8498373 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8498331 AAAATCATCG
8498341 TAAATCATCATTATCA
1 TAAATCATCATTATCA
8498357 TAAATCATCATTATCA
1 TAAATCATCATTATCA
8498373 T
1 T
8498374 TCAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:8501104 original size:27 final size:28
Alignment explanation
Indices: 8501062--8501142 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
8501052 ACAAAATCAT
* * * *
8501062 CACTTGCAAGATTTCAACCAATCTTTTG
1 CACTTGTAAGAATTCAAACAATCATTTG
* *
8501090 CCCTTGTAA-AATTCAAACAATAATTTG
1 CACTTGTAAGAATTCAAACAATCATTTG
*
8501117 CACTTGTAAGATTTCAAACAATCATT
1 CACTTGTAAGAATTCAAACAATCATT
8501143 CTTAACCAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
27 22 0.51
28 21 0.49
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (28 bp):
CACTTGTAAGAATTCAAACAATCATTTG
Found at i:8502768 original size:24 final size:23
Alignment explanation
Indices: 8502720--8502769 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
8502710 CATCATATAG
8502720 ATAATTCAAAACATTCATCAAATC
1 ATAATTCAAAACATT-ATCAAATC
*
8502744 ATAATATCAAAATATT-TCAAGATC
1 ATAAT-TCAAAACATTATCAA-ATC
8502768 AT
1 AT
8502770 CGTTTTGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAATTCAAAACATTATCAAATC
Found at i:8502922 original size:16 final size:16
Alignment explanation
Indices: 8502901--8502933 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8502891 AAAATCATCG
8502901 TAAATCATCATTATCA
1 TAAATCATCATTATCA
8502917 TAAATCATCATTATCA
1 TAAATCATCATTATCA
8502933 T
1 T
8502934 TCAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:8509643 original size:31 final size:31
Alignment explanation
Indices: 8509608--8509669 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
8509598 ATCTCTTTTT
* * * *
8509608 TAGATTATTCAATAAAATTTTGTTACCTTAA
1 TAGATCATCCAATAAAATTTTGCTACATTAA
*
8509639 TAGATCATCCAATGAAATTTTGCTACATTAA
1 TAGATCATCCAATAAAATTTTGCTACATTAA
8509670 AAAAGATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (31 bp):
TAGATCATCCAATAAAATTTTGCTACATTAA
Found at i:8511111 original size:2 final size:2
Alignment explanation
Indices: 8511104--8511139 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8511094 TCATAACTTG
8511104 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
8511140 CGACGAAGAT
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:8512781 original size:15 final size:16
Alignment explanation
Indices: 8512761--8512794 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
8512751 AATAATAATT
8512761 AAAAAAAACAAAAA-A
1 AAAAAAAACAAAAAGA
8512776 AAAAAAAACAAAAAGA
1 AAAAAAAACAAAAAGA
8512792 AAA
1 AAA
8512795 CAGAGCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAGA
Found at i:8512970 original size:2 final size:2
Alignment explanation
Indices: 8512963--8512993 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8512953 AGCGGCCCTT
8512963 TC TC TC 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 TC TC TC T
8512994 GTCACTAGTC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8515551 original size:27 final size:28
Alignment explanation
Indices: 8515509--8515589 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
8515499 ACAAAATCAT
* * * *
8515509 CACTTGCAAGATTTCAACCAATCTTTTG
1 CACTTGTAAGAATTCAAACAATCATTTG
* *
8515537 CCCTTGTAA-AATTCAAACAATAATTTG
1 CACTTGTAAGAATTCAAACAATCATTTG
*
8515564 CACTTGTAAGATTTCAAACAATCATT
1 CACTTGTAAGAATTCAAACAATCATT
8515590 CTAACCAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
27 22 0.51
28 21 0.49
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (28 bp):
CACTTGTAAGAATTCAAACAATCATTTG
Found at i:8517245 original size:24 final size:23
Alignment explanation
Indices: 8517197--8517246 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
8517187 CATCATATAG
8517197 ATAATTCAAAACATTCATCAAATC
1 ATAATTCAAAACATT-ATCAAATC
*
8517221 ATAATATCAAAATATT-TCAAGATC
1 ATAAT-TCAAAACATTATCAA-ATC
8517245 AT
1 AT
8517247 CGTTTTGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAATTCAAAACATTATCAAATC
Found at i:8517396 original size:16 final size:16
Alignment explanation
Indices: 8517375--8517407 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8517365 AAAATCATCG
8517375 TAAATCATCATTATCA
1 TAAATCATCATTATCA
8517391 TAAATCATCATTATCA
1 TAAATCATCATTATCA
8517407 T
1 T
8517408 TCAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:8527255 original size:12 final size:12
Alignment explanation
Indices: 8527238--8527268 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8527228 AATAATAATT
8527238 AAAAAAAACAAA
1 AAAAAAAACAAA
8527250 AAAAAAAACAAA
1 AAAAAAAACAAA
*
8527262 AAGAAAA
1 AAAAAAA
8527269 CAGAGCTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.90, C:0.06, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:8527444 original size:2 final size:2
Alignment explanation
Indices: 8527437--8527467 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8527427 AGCGGCCCTT
*
8527437 TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8527468 GTCACTAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:8527796 original size:23 final size:23
Alignment explanation
Indices: 8527769--8527814 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8527759 TTTGAGATAT
8527769 TATTTAATTAATAAAA-ATATTTA
1 TATTTAATT-ATAAAATATATTTA
*
8527792 TATTTAATTTTAAAATATATTTA
1 TATTTAATTATAAAATATATTTA
8527815 AAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTTAATTATAAAATATATTTA
Found at i:8530056 original size:4 final size:4
Alignment explanation
Indices: 8530049--8530074 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8530039 TTTTTTCATG
8530049 TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TG
8530075 GATGGATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:8530225 original size:2 final size:2
Alignment explanation
Indices: 8530218--8530243 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8530208 GATTCATAGT
8530218 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
8530244 ATTGTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8535886 original size:8 final size:8
Alignment explanation
Indices: 8535873--8535911 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
8535863 CCTCGTAATG
8535873 TTTTCTTC
1 TTTTCTTC
8535881 TTTTCTTC
1 TTTTCTTC
*
8535889 TTTTATTC
1 TTTTCTTC
8535897 TTTTCTTC
1 TTTTCTTC
8535905 TTTTCTT
1 TTTTCTT
8535912 TGTGACTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCTTC
Found at i:8543044 original size:21 final size:20
Alignment explanation
Indices: 8542976--8543046 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 20
8542966 TTATATATTT
* *
8542976 AAATTTTTATAAAATAAAATA
1 AAATTTATATAAAATTAAA-A
**
8542997 ATAATTTTATATTAAAATATATTA
1 A-AA-TTTATA-TAAAAT-TAAAA
8543021 AAATTTATATAAAAATTAAAA
1 AAATTTATAT-AAAATTAAAA
8543042 AAATT
1 AAATT
8543047 AAATTTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 10 0.26
22 13 0.33
23 7 0.18
24 8 0.21
25 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTTATATAAAATTAAAA
Found at i:8543087 original size:20 final size:20
Alignment explanation
Indices: 8543064--8543102 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8543054 AAAAATAAAA
8543064 AAAAGTCAAATT-AAATTAAT
1 AAAA-TCAAATTCAAATTAAT
*
8543084 AAAATTAAATTCAAATTAA
1 AAAATCAAATTCAAATTAA
8543103 ATCACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATCAAATTCAAATTAAT
Found at i:8543122 original size:27 final size:25
Alignment explanation
Indices: 8543069--8543127 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
8543059 TAAAAAAAAG
*
8543069 TCAAATTAAATTAATAAAATTAAAT
1 TCAAATTAAATCAATAAAATTAAAT
**
8543094 TCAAATTAAATCACATAAAAATTCGAT
1 TCAAATTAAATCA-AT-AAAATTAAAT
8543121 TCAAATT
1 TCAAATT
8543128 TATATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.41
26 2 0.07
27 15 0.52
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (25 bp):
TCAAATTAAATCAATAAAATTAAAT
Found at i:8543328 original size:4 final size:4
Alignment explanation
Indices: 8543319--8543348 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
8543309 CAACAATTGC
8543319 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
8543349 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:8543352 original size:3 final size:3
Alignment explanation
Indices: 8543344--8543381 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8543334 ATTTATTTAT
8543344 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8543382 CTTTTTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8543803 original size:33 final size:35
Alignment explanation
Indices: 8543764--8543833 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 35
8543754 TAAAAATAAT
8543764 AATTTTATATCAAAAT-ATAT-TAAAAAATATTAA
1 AATTTTATATCAAAATAATATATAAAAAATATTAA
* *
8543797 AATTTTATATTAAAATAATATATAAAAAATTTTAA
1 AATTTTATATCAAAATAATATATAAAAAATATTAA
8543832 AA
1 AA
8543834 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 15 0.45
34 4 0.12
35 14 0.42
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (35 bp):
AATTTTATATCAAAATAATATATAAAAAATATTAA
Found at i:8543846 original size:36 final size:36
Alignment explanation
Indices: 8543777--8543847 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
8543767 TTTATATCAA
* * *
8543777 AATATATTAAAAAATATTAAAATTTTATATTAAAAT
1 AATATATTAAAAAATATTAAAAATTAAAATTAAAAT
*
8543813 AATATA-TAAAAAATTTTAAAAATTAAAATTTAAAA
1 AATATATTAAAAAATATTAAAAATTAAAA-TTAAAA
8543848 ATCAATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (36 bp):
AATATATTAAAAAATATTAAAAATTAAAATTAAAAT
Found at i:8543941 original size:26 final size:25
Alignment explanation
Indices: 8543912--8543972 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
8543902 TAAAAATTTG
*
8543912 ATTTAAATTTATATCAAATTTTAAAA-
1 ATTTAAATTTATA-C-AATATTAAAAC
8543938 ATTTATAATATTATACAATATTAAAAC
1 ATTTA-AAT-TTATACAATATTAAAAC
8543965 A-TTAAATT
1 ATTTAAATT
8543973 AAATTCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 1 0.03
25 3 0.10
26 17 0.55
27 5 0.16
28 5 0.16
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTTAAATTTATACAATATTAAAAC
Found at i:8544280 original size:13 final size:13
Alignment explanation
Indices: 8544262--8544304 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
8544252 AATTTGACGT
8544262 ATATTATATTTAG
1 ATATTATATTTAG
* * *
8544275 ATATTAAATATAT
1 ATATTATATTTAG
*
8544288 AAATTATATTTAG
1 ATATTATATTTAG
8544301 ATAT
1 ATAT
8544305 ATTAAATTTA
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (13 bp):
ATATTATATTTAG
Found at i:8544738 original size:9 final size:10
Alignment explanation
Indices: 8544724--8544779 Score: 61
Period size: 9 Copynumber: 6.2 Consensus size: 10
8544714 CAACAGTTGC
8544724 TTTATT-TTA
1 TTTATTATTA
8544733 TTTA-T-TTA
1 TTTATTATTA
*
8544741 TTTACTATTA
1 TTTATTATTA
8544751 -TTATTATTA
1 TTTATTATTA
8544760 -TTATTATTA
1 TTTATTATTA
8544769 -TTATTATTA
1 TTTATTATTA
8544778 TT
1 TT
8544780 CCTTTTCTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.19
9 31 0.72
10 4 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTATTA
Found at i:8544754 original size:3 final size:3
Alignment explanation
Indices: 8544746--8544779 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8544736 ATTTATTTAC
8544746 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8544780 CCTTTTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8545458 original size:30 final size:32
Alignment explanation
Indices: 8545424--8545490 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 32
8545414 ATTTTAAACT
*
8545424 AATTAAATTATTAAA-TATTTATTTTCATT-C
1 AATTAAACTATTAAACTATTTATTTTCATTCC
* *
8545454 AATTAAACTCTTAAACGTTTTTATTTTCATTCC
1 AATTAAACTATTAAAC-TATTTATTTTCATTCC
8545487 AATT
1 AATT
8545491 GAGTCATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 13 0.42
32 13 0.42
33 5 0.16
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.51
Consensus pattern (32 bp):
AATTAAACTATTAAACTATTTATTTTCATTCC
Found at i:8546088 original size:16 final size:15
Alignment explanation
Indices: 8546063--8546114 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
8546053 TCGATCATTC
*
8546063 GTATTGGATTAATTT
1 GTATTTGATTAATTT
8546078 AGTATTTGATTAAGTTT
1 -GTATTTGATTAA-TTT
* *
8546095 GAATTTGAATAATTT
1 GTATTTGATTAATTT
*
8546110 TTATT
1 GTATT
8546115 GAAAATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 6 0.20
16 21 0.70
17 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (15 bp):
GTATTTGATTAATTT
Found at i:8546128 original size:12 final size:13
Alignment explanation
Indices: 8546098--8546130 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
8546088 TAAGTTTGAA
8546098 TTTGAATAATTTT
1 TTTGAATAATTTT
8546111 TATTGAA-AATTTT
1 T-TTGAATAATTTT
8546124 TTTGAAT
1 TTTGAAT
8546131 TTATCATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.28
13 8 0.44
14 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (13 bp):
TTTGAATAATTTT
Found at i:8548085 original size:23 final size:23
Alignment explanation
Indices: 8548033--8548085 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
8548023 TTTAAACACT
*
8548033 ATATAAAAATAATAAAAAATATT
1 ATATAAAAATAATAAAAAATATA
* * *
8548056 TTTTAAAAATATTAATAAAA-ATA
1 ATATAAAAATAATAA-AAAATATA
8548079 ATATAAA
1 ATATAAA
8548086 TTTAATGAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATATAAAAATAATAAAAAATATA
Found at i:8549747 original size:31 final size:28
Alignment explanation
Indices: 8549712--8549786 Score: 69
Period size: 31 Copynumber: 2.5 Consensus size: 28
8549702 AACTTCCAAA
* *
8549712 TTTGTCACAGAATTGTAGTTATATCCTGAAT
1 TTTGTCACAGAATT-TAATTATAT--TAAAT
* *
8549743 TTTGTTACTATAATTTAATTATATTAAAT
1 TTTGTCAC-AGAATTTAATTATATTAAAT
*
8549772 TTTGTCACAGTATTT
1 TTTGTCACAGAATTT
8549787 TTATTTTGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
28 5 0.14
29 11 0.31
31 15 0.42
32 5 0.14
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTGTCACAGAATTTAATTATATTAAAT
Found at i:8555992 original size:2 final size:2
Alignment explanation
Indices: 8555985--8556010 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8555975 TTCATAGTTA
8555985 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
8556011 GACATCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8557107 original size:22 final size:22
Alignment explanation
Indices: 8557078--8557123 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8557068 TTAAAATAAA
*
8557078 TTTAAAAACACTTAAAAATATTT
1 TTTAAAAA-TCTTAAAAATATTT
*
8557101 TTTAAAAATTTTAAAAATATTT
1 TTTAAAAATCTTAAAAATATTT
8557123 T
1 T
8557124 AAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAAAAATCTTAAAAATATTT
Found at i:8557130 original size:11 final size:11
Alignment explanation
Indices: 8557089--8557133 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
8557079 TTAAAAACAC
8557089 TTAAAAATATTT
1 TTAAAAATA-TT
*
8557101 TTTAAAA-ATT
1 TTAAAAATATT
8557111 TTAAAAATATT
1 TTAAAAATATT
8557122 TTAAAAATATT
1 TTAAAAATATT
8557133 T
1 T
8557134 CATATTCGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 8 0.27
11 16 0.53
12 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:8559835 original size:18 final size:20
Alignment explanation
Indices: 8559812--8559851 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
8559802 CTAACTTTAG
8559812 TTAATTATAA-TAAA-AAAT
1 TTAATTATAATTAAACAAAT
8559830 TTAATTATAATTAAACAAAT
1 TTAATTATAATTAAACAAAT
8559850 TT
1 TT
8559852 TTATATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTATAATTAAACAAAT
Found at i:8559855 original size:18 final size:17
Alignment explanation
Indices: 8559815--8559856 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
8559805 ACTTTAGTTA
8559815 ATTATAATAAAAAATTT
1 ATTATAATAAAAAATTT
8559832 AATTATAATTAAACAAATTT
1 -ATTATAA-TAAA-AAATTT
8559852 -TTATA
1 ATTATA
8559857 TATTTTACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 12 0.55
19 4 0.18
20 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTATAATAAAAAATTT
Found at i:8562582 original size:44 final size:45
Alignment explanation
Indices: 8562510--8562597 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
8562500 TGTTAACATT
8562510 TATTTGATTATAATTATAACTTTCAAATTAAAAAAAGGG-CAAAC
1 TATTTGATTATAATTATAACTTTCAAATTAAAAAAAGGGTCAAAC
* * * * *
8562554 TATTTGATTGTGATTATAAGTTTTAAATTAAGAAAAGGGTCAAA
1 TATTTGATTATAATTATAACTTTCAAATTAAAAAAAGGGTCAAA
8562598 GGGGCTCTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 34 0.89
45 4 0.11
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (45 bp):
TATTTGATTATAATTATAACTTTCAAATTAAAAAAAGGGTCAAAC
Found at i:8573205 original size:61 final size:61
Alignment explanation
Indices: 8573025--8573427 Score: 515
Period size: 62 Copynumber: 6.7 Consensus size: 61
8573015 CTTGTGCAGC
** * * *
8573025 GAAAATTGATACTTTCAACTTTTTTCTAAAAATA-TTCTTTTG-AAACTTT-AATTT-AGAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCA-AG
* *
8573083 AAAAATTGATACTTTCAACTTTT-CCTCAAAAAT-TGATTTTTTTGAAAA-TTT-ATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCT-AAAAATAT--TTTTTTTGAAAATTTTGATTTTCAAG
*
8573143 GAAAATTGATACTTTCAACTTTTCCCTAAAAGTATTTTTTTTGAAAATTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAAG
* *
8573204 GAAAATTGATACTTTCAACTTCTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTTCTAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAAATTTTGATTTTCAAG
*
8573266 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAAATTTTGATTTTCAAG
* * *
8573328 AAAAATTGATACTTTCAACTTTT-CCTCAAAAATA---TTTTTGGAAACTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTTGATTTTCAAG
* *
8573386 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
8573428 TATTTTTATT
Statistics
Matches: 311, Mismatches: 18, Indels: 29
0.87 0.05 0.08
Matches are distributed among these distances:
57 2 0.01
58 80 0.26
59 14 0.05
60 46 0.15
61 55 0.18
62 114 0.37
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (61 bp):
GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAAG
Found at i:8573350 original size:27 final size:27
Alignment explanation
Indices: 8573320--8573409 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 27
8573310 AAAATTTTGA
8573320 TTTTCAAGAAAAATTGATACTTTCAAC
1 TTTTCAAGAAAAATTGATACTTTCAAC
* * *
8573347 TTTTCCTCAA-AAATATTTTTGGAAACTTT-GA-
1 -TTT--TCAAGAAA-A--ATT-GATACTTTCAAC
8573378 TTTTCAAGAAAAATTGATACTTTCAAC
1 TTTTCAAGAAAAATTGATACTTTCAAC
8573405 TTTTC
1 TTTTC
8573410 CCCAAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 19
0.65 0.08 0.26
Matches are distributed among these distances:
25 7 0.15
26 3 0.06
27 5 0.11
28 8 0.17
29 6 0.13
30 8 0.17
32 3 0.06
33 7 0.15
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTCAAGAAAAATTGATACTTTCAAC
Found at i:8573505 original size:21 final size:19
Alignment explanation
Indices: 8573443--8573519 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 19
8573433 TTATTTAAAG
*
8573443 AAAATAAAATAATAAAAC-
1 AAAATAAAAAAATAAAACA
8573461 AAAATAACAGTGAAAAT-AAA-A
1 AAAATAA-A---AAAATAAAACA
8573482 AAAATAAAGAAAAGTAAAACA
1 AAAATAAA-AAAA-TAAAACA
8573503 AAAATAAAAAAATAAAA
1 AAAATAAAAAAATAAAA
8573520 TAAAGGTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
18 12 0.24
19 7 0.14
20 8 0.16
21 19 0.38
22 4 0.08
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAAATAAAACA
Found at i:8573524 original size:29 final size:31
Alignment explanation
Indices: 8573473--8573530 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
8573463 AATAACAGTG
8573473 AAAATAAAAAAAATAAAGAAAA-GTAAAACA
1 AAAATAAAAAAAATAAAGAAAAGGTAAAACA
8573503 AAAAT-AAAAAAATAAA-ATAAAGGTAAAA
1 AAAATAAAAAAAATAAAGA-AAAGGTAAAA
8573531 AGAATACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 1 0.04
29 14 0.54
30 11 0.42
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (31 bp):
AAAATAAAAAAAATAAAGAAAAGGTAAAACA
Found at i:8573571 original size:13 final size:13
Alignment explanation
Indices: 8573553--8573579 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8573543 AAACCTAATC
8573553 TAATAAATAAAAA
1 TAATAAATAAAAA
8573566 TAATAAATAAAAA
1 TAATAAATAAAAA
8573579 T
1 T
8573580 TCAAAAAAAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAATAAATAAAAA
Found at i:8574026 original size:19 final size:19
Alignment explanation
Indices: 8574002--8574039 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8573992 TGGCCGAAAT
8574002 TTTCGTCGGAAAATGCAAC
1 TTTCGTCGGAAAATGCAAC
*
8574021 TTTCGTCGGAAAATTCAAC
1 TTTCGTCGGAAAATGCAAC
8574040 CAGAATCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (19 bp):
TTTCGTCGGAAAATGCAAC
Found at i:8574095 original size:9 final size:10
Alignment explanation
Indices: 8574072--8574096 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8574062 ATTCCCAGAA
8574072 AAAAATCTCC
1 AAAAATCTCC
8574082 AAAAATCTCC
1 AAAAATCTCC
8574092 AAAAA
1 AAAAA
8574097 ATTTTTGTTA
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:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:8574423 original size:20 final size:19
Alignment explanation
Indices: 8574388--8574433 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
8574378 AGGAGAAAAA
*
8574388 AAAAAGAAATCTGATAAACG
1 AAAAA-AAATCAGATAAACG
*
8574408 AGAAAAAAATCAGATACACG
1 A-AAAAAAATCAGATAAACG
8574428 AAAAAA
1 AAAAAA
8574434 GAGGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 14 0.61
21 4 0.17
ACGTcount: A:0.65, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAAAAAATCAGATAAACG
Found at i:8574473 original size:21 final size:22
Alignment explanation
Indices: 8574448--8574528 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 22
8574438 AAAAAAAAAT
8574448 AGAT-AATTAAAAATAATAATA
1 AGATAAATTAAAAATAATAATA
* * *
8574469 AGATAAATCAAAAATACT-ACA
1 AGATAAATTAAAAATAATAATA
8574490 AGATAAA-TAAAAA-AAGTAATA
1 AGATAAATTAAAAATAA-TAATA
*
8574511 A-ATAAATT-ATAATAATAA
1 AGATAAATTAAAAATAATAA
8574529 ATATATAACT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
19 1 0.02
20 17 0.35
21 19 0.40
22 11 0.23
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (22 bp):
AGATAAATTAAAAATAATAATA
Found at i:8574670 original size:14 final size:14
Alignment explanation
Indices: 8574661--8574701 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
8574651 AGAAAAGAGA
8574661 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
8574675 AAAAAT-AAAAAAT
1 AAAAATAAAAAAAT
*
8574688 ACACAATAAAAAAA
1 A-AAAATAAAAAAA
8574702 CAAATTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 10 0.42
15 6 0.25
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:8583019 original size:26 final size:26
Alignment explanation
Indices: 8582989--8583040 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8582979 TGCGGTACTT
8582989 AAATTTTAAAAATATTTAATATAGTA
1 AAATTTTAAAAATATTTAATATAGTA
8583015 AAATTTTAAAAATATTTAATATAGTA
1 AAATTTTAAAAATATTTAATATAGTA
8583041 TCTAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
AAATTTTAAAAATATTTAATATAGTA
Found at i:8584638 original size:21 final size:21
Alignment explanation
Indices: 8584587--8584627 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8584577 ATATTGATAC
*
8584587 GATTGTT-ACTTTAGTGATGT
1 GATTGTTAATTTTAGTGATGT
8584607 GATTGTTAATTTTA-TGATGT
1 GATTGTTAATTTTAGTGATGT
8584627 G
1 G
8584628 TCATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
GATTGTTAATTTTAGTGATGT
Found at i:8587487 original size:12 final size:12
Alignment explanation
Indices: 8587472--8587497 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8587462 AAATAAATTT
8587472 AATAAATAATAA
1 AATAAATAATAA
8587484 AATAAATAATAA
1 AATAAATAATAA
8587496 AA
1 AA
8587498 AATATCACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:8587493 original size:19 final size:20
Alignment explanation
Indices: 8587446--8587501 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 20
8587436 TAAAATTTAG
8587446 TTAATAAAATAATTAAAAATAAA
1 TTAAT-AAATAA-T-AAAATAAA
8587469 TTTAATAAATAATAAAATAAA
1 -TTAATAAATAATAAAATAAA
*
8587490 -TAATAAAAAATA
1 TTAATAAATAATA
8587502 TCACGTGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 11 0.35
21 8 0.26
22 1 0.03
23 6 0.19
24 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAATAAATAATAAAATAAA
Found at i:8587961 original size:16 final size:14
Alignment explanation
Indices: 8587940--8587989 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
8587930 GTGAATTTTT
8587940 TTTATCAACATAAGAA
1 TTTATCAA-ATAA-AA
8587956 TTTATCTAAATAAAA
1 TTTATC-AAATAAAA
* *
8587971 ATTATAAAATAAAA
1 TTTATCAAATAAAA
8587985 TTTAT
1 TTTAT
8587990 TTGCATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.40
15 6 0.20
16 10 0.33
17 2 0.07
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (14 bp):
TTTATCAAATAAAA
Found at i:8590803 original size:29 final size:29
Alignment explanation
Indices: 8590739--8590804 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
8590729 TGATAGTGAT
**
8590739 AAAGGATGGGTGGTAAGGCATGGTAGTCA
1 AAAGGATGGAAGGTAAGGCATGGTAGTCA
* * *
8590768 GAGGGATGGAAGGT-AGGACATGGTGGTCA
1 AAAGGATGGAAGGTAAGG-CATGGTAGTCA
8590797 AAAGGATG
1 AAAGGATG
8590805 AGGTGTAGGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (29 bp):
AAAGGATGGAAGGTAAGGCATGGTAGTCA
Found at i:8590941 original size:23 final size:23
Alignment explanation
Indices: 8590910--8590962 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
8590900 TTTGTGTAAT
8590910 TTTTTTATATTTCATATTTTATA
1 TTTTTTATATTTCATATTTTATA
*
8590933 TTTTTTATATTTCGTATTTTATA
1 TTTTTTATATTTCATATTTTATA
8590956 TTATTTT
1 TT-TTTT
8590963 GGATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTTTATATTTCATATTTTATA
Found at i:8590943 original size:9 final size:9
Alignment explanation
Indices: 8590877--8590944 Score: 54
Period size: 10 Copynumber: 7.6 Consensus size: 9
8590867 TTTTTATTAT
8590877 TATTTTTATA
1 TATTTTT-TA
8590887 TATTTTTTA
1 TATTTTTTA
8590896 GTATTTTGTGTA
1 -TATTTT-T-TA
8590908 -ATTTTTT-
1 TATTTTTTA
* *
8590915 TATATTTCA
1 TATTTTTTA
8590924 TA--TTTTA
1 TATTTTTTA
8590931 TATTTTTTA
1 TATTTTTTA
8590940 TATTT
1 TATTT
8590945 CGTATTTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 15 0.31
10 18 0.38
11 1 0.02
12 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (9 bp):
TATTTTTTA
Found at i:8602882 original size:18 final size:17
Alignment explanation
Indices: 8602860--8602899 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
8602850 TTTTTTTGTA
*
8602860 TTTTTATATTTTATATT
1 TTTTTATATTATATATT
8602877 TATTTTATATTATATATT
1 T-TTTTATATTATATATT
8602895 TTTTT
1 TTTTT
8602900 CTTTATCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATATTATATATT
Found at i:8602905 original size:16 final size:16
Alignment explanation
Indices: 8602858--8602939 Score: 64
Period size: 15 Copynumber: 5.2 Consensus size: 16
8602848 TGTTTTTTTG
*
8602858 TATTTTTATATTT-TA
1 TATTTTTTTATTTATA
8602873 TATTTATTTTATATTATA
1 TATTT-TTTTAT-TTATA
* *
8602891 TATTTTTTTCTTTATC
1 TATTTTTTTATTTATA
* *
8602907 T-TTTATGTATTTAT-
1 TATTTTTTTATTTATA
*
8602921 TATTTATTTATTTAT-
1 TATTTTTTTATTTATA
8602936 TATT
1 TATT
8602940 ACTATTTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
14 1 0.02
15 31 0.55
16 10 0.18
17 7 0.12
18 7 0.12
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (16 bp):
TATTTTTTTATTTATA
Found at i:8602927 original size:4 final size:4
Alignment explanation
Indices: 8602873--8603073 Score: 71
Period size: 4 Copynumber: 51.2 Consensus size: 4
8602863 TTATATTTTA
* * * * *
8602873 TATT TATTT TATAT TATA TATT TTTT TCTT TATC T-TT TATG TATT TA-T
1 TATT TA-TT TAT-T TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * *
8602921 TATT TATT TATT TA-T TATT ACTATT TATT AATG TATGT T-TT TATC TGTT
1 TATT TATT TATT TATT TATT --TATT TATT TATT TAT-T TATT TATT TATT
* * * * *
8602970 AATA TATT TATA TATT TATT TATC TATT TA-- TATGT TA-T TATT TATC
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TATT TATT
* * * * * * * * *
8603016 T-GT TAAT TA-T TGTT TATC TATT AATT AATA TA-T TATC TCTT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
8603061 TATT TATT TATT T
1 TATT TATT TATT T
8603074 TTCTTTCTTT
Statistics
Matches: 140, Mismatches: 41, Indels: 32
0.66 0.19 0.15
Matches are distributed among these distances:
2 2 0.01
3 18 0.13
4 105 0.75
5 11 0.08
6 4 0.03
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.65
Consensus pattern (4 bp):
TATT
Found at i:8603876 original size:8 final size:8
Alignment explanation
Indices: 8603863--8603994 Score: 61
Period size: 8 Copynumber: 14.6 Consensus size: 8
8603853 AGCCGTTTCC
8603863 ATTTTTTT
1 ATTTTTTT
8603871 ATTTTTTT
1 ATTTTTTT
8603879 ATATTTATTT
1 AT-TTT-TTT
*
8603889 ATTTATTT
1 ATTTTTTT
8603897 ATTTATTAGATT
1 ATTT-TT---TT
8603909 ATATTTGTTT
1 AT-TTT-TTT
*
8603919 AATACTTTTT
1 -AT-TTTTTT
8603929 ATTTTTATT
1 ATTTTT-TT
8603938 -TTTGTTTT
1 ATTT-TTTT
8603946 ATTTTCCTTT
1 ATTTT--TTT
8603956 ATTCTTATTT
1 ATT-TT-TTT
*
8603966 -TCATTTTT
1 AT-TTTTTT
8603974 ATTTTTTT
1 ATTTTTTT
*
8603982 ATTTATTT
1 ATTTTTTT
8603990 ATTTT
1 ATTTT
8603995 ATTTTCTTTA
Statistics
Matches: 98, Mismatches: 9, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
8 45 0.46
9 19 0.19
10 19 0.19
11 7 0.07
12 5 0.05
13 3 0.03
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (8 bp):
ATTTTTTT
Found at i:8603887 original size:14 final size:14
Alignment explanation
Indices: 8603868--8603938 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
8603858 TTTCCATTTT
*
8603868 TTTATTTTTTTATA
1 TTTATTTATTTATA
8603882 TTTATTTA-TT-TA
1 TTTATTTATTTATA
*
8603894 TTTATTTA-TTAGA
1 TTTATTTATTTATA
*
8603907 TTATATTTGTTTAATA
1 TT-TATTTATTT-ATA
* *
8603923 CTT-TTTATTTTTA
1 TTTATTTATTTATA
8603936 TTT
1 TTT
8603939 TTGTTTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
12 12 0.27
13 9 0.20
14 18 0.40
15 3 0.07
16 3 0.07
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTATTTATTTATA
Found at i:8603889 original size:4 final size:4
Alignment explanation
Indices: 8603863--8603903 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
8603853 AGCCGTTTCC
* *
8603863 ATTT TTTT ATTT -TTT -TAT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
8603904 AGATTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 5 0.16
4 27 0.84
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
ATTT
Found at i:8603935 original size:6 final size:6
Alignment explanation
Indices: 8603924--8603989 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
8603914 TGTTTAATAC
* * * *
8603924 TTTTTA TTTTTA TTTTTG TTTTATT TTCCTTTA TTCTTA TTTTCA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TT--TTTA TTTTTA TTTTTA TTTTTA
8603975 TTTTT- TTATTTA TTT
1 TTTTTA TT-TTTA TTT
8603990 ATTTTATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 2 0.04
6 36 0.75
7 5 0.10
8 3 0.06
9 2 0.04
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:8603957 original size:21 final size:22
Alignment explanation
Indices: 8603932--8603972 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8603922 ACTTTTTATT
* *
8603932 TTTATTTTTGTTTT-ATTTTCC
1 TTTATTCTTATTTTCATTTTCC
8603953 TTTATTCTTATTTTCATTTT
1 TTTATTCTTATTTTCATTTT
8603973 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTATTCTTATTTTCATTTTCC
Found at i:8603972 original size:27 final size:24
Alignment explanation
Indices: 8603926--8604004 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 24
8603916 TTTAATACTT
*
8603926 TTTATTTTTATTTTTGTTTTATTTTCC
1 TTTA-TTTTA-TTTTATTTTATTTT-C
8603953 TTTATTCTTATTTTCATTTTTATTTT-
1 TTTATT-TTATTTT-A-TTTTATTTTC
8603979 TTTA-TTTA-TTTATTTTATTTTC
1 TTTATTTTATTTTATTTTATTTTC
8604001 TTTA
1 TTTA
8604005 AATAAAATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
21 9 0.19
22 5 0.11
23 3 0.06
24 3 0.06
25 1 0.02
26 10 0.21
27 7 0.15
28 9 0.19
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.77
Consensus pattern (24 bp):
TTTATTTTATTTTATTTTATTTTC
Found at i:8603997 original size:33 final size:32
Alignment explanation
Indices: 8603925--8604000 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
8603915 GTTTAATACT
* * *
8603925 TTTTATTTTTATTTTTGTTTTATTTTCCTTTA
1 TTTTATTTTCATTTTTATTTTATTTTCATTTA
* *
8603957 TTCTTATTTTCATTTTTATTTTTTTATTTATTTA
1 TT-TTATTTTCATTTTTATTTTATT-TTCATTTA
8603991 TTTTATTTTC
1 TTTTATTTTC
8604001 TTTAAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 27 0.73
34 8 0.22
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (32 bp):
TTTTATTTTCATTTTTATTTTATTTTCATTTA
Found at i:8603999 original size:18 final size:18
Alignment explanation
Indices: 8603863--8604004 Score: 61
Period size: 18 Copynumber: 8.1 Consensus size: 18
8603853 AGCCGTTTCC
*
8603863 ATTT-TTTTATTTTTTTAT
1 ATTTATTTTATTTTATT-T
8603881 ATTTA-TTTA-TTTATTT
1 ATTTATTTTATTTTATTT
** *
8603897 ATTTATTAGATTATATTT
1 ATTTATTTTATTTTATTT
* **
8603915 GTTTAATACT-TTTTA-TT
1 ATTT-ATTTTATTTTATTT
*
8603932 -TTTATTTTTGTTTTATTTT
1 ATTTA-TTTTATTTTA-TTT
*
8603951 CCTTTATTCTTATTTTCA-TT
1 -ATTTATT-TTATTTT-ATTT
8603971 -TTTA-TTT-TTTTATTT
1 ATTTATTTTATTTTATTT
*
8603986 ATTTATTTTATTTTCTTT
1 ATTTATTTTATTTTATTT
8604004 A
1 A
8604005 AATAAAATTC
Statistics
Matches: 95, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
14 1 0.01
15 7 0.07
16 17 0.18
17 18 0.19
18 33 0.35
19 4 0.04
20 4 0.04
21 10 0.11
22 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTATTTTATTTTATTT
Found at i:8604159 original size:119 final size:116
Alignment explanation
Indices: 8604024--8604476 Score: 498
Period size: 119 Copynumber: 3.8 Consensus size: 116
8604014 CAAAAAATAT
* * ** * * *
8604024 ATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGTTTT
1 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAA--TATT
* * *
8604089 TTTGAAGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAGTTTTCAAAAAA
64 TTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAA-TTTTCAAAAAA
* *
8604143 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC-AAAAAATATTT
1 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-TTTCAAAAAAATATTT
* *
8604207 TTG-AGAAAAAGTTGAAAGTATCAATTTTTTTCAAAAAAATAAATTCTCAAACAAA
65 TTGAAG-AAAAGTTGAAAGTATCAATTTTTCTC--AAAAATAAATTTTCAAA-AAA
* * * *
8604262 GGTTTTTTTGAGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATT
1 -ATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATT
* * * * * * *
8604327 TTTGGAGAAAAGTTGAAAGCATTAATTGTCCTTAAAAATAAATTTTCAATAAAGTT
64 TTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTCAA-AAA--A
* * *
8604383 TTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTCAAAAAAATATTTT
1 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATTTT
*
8604448 T-AGGGAAAAGTTGAAAGTATCAATTTTTC
66 TGA-AGAAAAGTTGAAAGTATCAATTTTTC
8604477 CTACACAAAA
Statistics
Matches: 286, Mismatches: 35, Indels: 26
0.82 0.10 0.07
Matches are distributed among these distances:
116 2 0.01
117 31 0.11
118 7 0.02
119 149 0.52
120 25 0.09
121 70 0.24
122 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (116 bp):
ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATTTT
TGAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTCAAAAAA
Found at i:8604427 original size:240 final size:238
Alignment explanation
Indices: 8604027--8604475 Score: 609
Period size: 240 Copynumber: 1.9 Consensus size: 238
8604017 AAAATATATA
* * * *
8604027 TTTTTGAGGAAAAGTTGAAAGAATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGTTTTTTT
1 TTTTTGAGGAAAAGTTGAAAGAATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAA-GTATTTTT
* * * * * * *
8604092 GAAGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAGTTTTCAAAAAAATATTTTTGGGGAA
65 GAAGAAAAGTTGAAAGCATTAATTGTCCTCAAAAATAAAGTTTTCAAAAAAATATTTTTGAGAAA
8604157 AAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC-AAAAAATATTTTT-GAGAAAAAGTT
130 AAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-TTTCAAAAAAATATTTTTAG-GAAAAAGTT
8604220 GAAAGTATCAATTTTTTTCAAAAAAATAAATTCTCAAACAAAGGTT
193 GAAAGTATCAATTTTTTTCAAAAAAATAAATTCTCAAACAAAGGTT
* * * *
8604266 TTTTTGAGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAA-TATTTTT
1 TTTTTGAGG-AAAAGTTGAAAGAATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAAGTATTTTT
* * ** *
8604330 GGAGAAAAGTTGAAAGCATTAATTGTCCTTAAAAATAAA-TTTTCAATAAAGTTTTTTTTTTGAG
65 GAAGAAAAGTTGAAAGCATTAATTGTCCTCAAAAATAAAGTTTTCAA-AAA--AATATTTTTGAG
* *
8604394 AAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTCAAAAAAATATTTTTAGGGAAAAGT
127 AAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATTTTTAGGAAAAAGT
8604459 TGAAAGTATCAATTTTT
192 TGAAAGTATCAATTTTT
8604476 CCTACACAAA
Statistics
Matches: 182, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
237 7 0.04
238 41 0.23
239 13 0.07
240 120 0.66
241 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (238 bp):
TTTTTGAGGAAAAGTTGAAAGAATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAAGTATTTTTG
AAGAAAAGTTGAAAGCATTAATTGTCCTCAAAAATAAAGTTTTCAAAAAAATATTTTTGAGAAAA
AGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCAAAAAAATATTTTTAGGAAAAAGTTGAA
AGTATCAATTTTTTTCAAAAAAATAAATTCTCAAACAAAGGTT
Found at i:8610863 original size:3 final size:3
Alignment explanation
Indices: 8610857--8610882 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8610847 AAAAAAAATA
8610857 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8610883 AAAATGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8611548 original size:10 final size:9
Alignment explanation
Indices: 8611507--8611556 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 9
8611497 TGGATTATTA
8611507 TTAATAATT
1 TTAATAATT
8611516 TTAATATATT
1 TTAATA-ATT
8611526 TTAATAA--
1 TTAATAATT
*
8611533 TAAATAATTT
1 TTAATAA-TT
8611543 TTAAT-ATT
1 TTAATAATT
8611551 TTAATA
1 TTAATA
8611557 GTTATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
7 6 0.18
8 7 0.21
9 8 0.24
10 13 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTAATAATT
Found at i:8613284 original size:16 final size:15
Alignment explanation
Indices: 8613260--8613322 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
8613250 GATTTTTTTT
*
8613260 AGGACTTTGGATTTCA
1 AGGATTTTGGATTT-A
*
8613276 AGGATTTTGGATTTTGG
1 AGGATTTTGGA-TTT-A
* *
8613293 GGGGTTTTGGATTTA
1 AGGATTTTGGATTTA
8613308 ATGGATTTTGGATTT
1 A-GGATTTTGGATTT
8613323 TTAGGGGTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 25 0.68
17 12 0.32
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (15 bp):
AGGATTTTGGATTTA
Found at i:8613303 original size:33 final size:33
Alignment explanation
Indices: 8613265--8613333 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
8613255 TTTTTAGGAC
*
8613265 TTTGGATTTCAA-GGATTTTGGATTTTGGGGGGT
1 TTTGGATTT-AATGGATTTTGGATTTTGAGGGGT
*
8613298 TTTGGATTTAATGGATTTTGGATTTTTAGGGGT
1 TTTGGATTTAATGGATTTTGGATTTTGAGGGGT
8613331 TTT
1 TTT
8613334 AGAAACCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.16, C:0.01, G:0.32, T:0.51
Consensus pattern (33 bp):
TTTGGATTTAATGGATTTTGGATTTTGAGGGGT
Found at i:8613850 original size:38 final size:37
Alignment explanation
Indices: 8613808--8613902 Score: 118
Period size: 38 Copynumber: 2.5 Consensus size: 37
8613798 AACGCTAGTC
* * *
8613808 CGAGCGGTCTGACCGGTTCGGCGGTTGGATAGGCGGTT
1 CGAGCGATCTGACCGGTTCGGCGATCGGATAGGCGG-T
* *
8613846 CGAGCTATCTGACCGGTTCGGCGATCGGATCGGCGGT
1 CGAGCGATCTGACCGGTTCGGCGATCGGATAGGCGGT
*
8613883 CGGGGCGATCTGACCGGTTC
1 C-GAGCGATCTGACCGGTTC
8613903 AGTCCGATCC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
37 2 0.04
38 47 0.96
ACGTcount: A:0.12, C:0.25, G:0.41, T:0.22
Consensus pattern (37 bp):
CGAGCGATCTGACCGGTTCGGCGATCGGATAGGCGGT
Found at i:8614672 original size:22 final size:22
Alignment explanation
Indices: 8614646--8614688 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8614636 GGGGAATCTA
8614646 GGTGGCTGTAGGGTAGTTGGTT
1 GGTGGCTGTAGGGTAGTTGGTT
* *
8614668 GGTGGTTGTAGGGTGGTTGGT
1 GGTGGCTGTAGGGTAGTTGGT
8614689 CAGGAGGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.02, G:0.53, T:0.37
Consensus pattern (22 bp):
GGTGGCTGTAGGGTAGTTGGTT
Found at i:8614781 original size:11 final size:11
Alignment explanation
Indices: 8614765--8614798 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
8614755 TGTCTTATTC
8614765 TTGTTTTTTTT
1 TTGTTTTTTTT
8614776 TTGTTTTGTTTT
1 TTGTTTT-TTTT
8614788 TTGTTTGTTTT
1 TTGTTT-TTTT
8614799 GTTAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 13 0.62
13 1 0.05
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:8614786 original size:16 final size:16
Alignment explanation
Indices: 8614765--8614801 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8614755 TGTCTTATTC
*
8614765 TTGTTTTTTTTTTGTT
1 TTGTTTTTTGTTTGTT
8614781 TTGTTTTTTGTTTGTT
1 TTGTTTTTTGTTTGTT
8614797 TTGTT
1 TTGTT
8614802 AAAATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTGTTTTTTGTTTGTT
Found at i:8615499 original size:21 final size:21
Alignment explanation
Indices: 8615469--8615533 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 21
8615459 TTATTTTTAA
8615469 ATATAAATATAAAATTAAAAT
1 ATATAAATATAAAATTAAAAT
* *
8615490 ATATATATATAGTATAATTATATAT
1 ATATA-A-ATA-TAAAATTA-AAAT
8615515 ATATTAAATATAAAATTAA
1 ATA-TAAATATAAAATTAA
8615534 CAAATAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
21 5 0.14
22 2 0.06
23 10 0.28
24 10 0.28
25 7 0.19
26 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATAAATATAAAATTAAAAT
Found at i:8615526 original size:15 final size:17
Alignment explanation
Indices: 8615490--8615526 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8615480 AAATTAAAAT
8615490 ATATATATATAGTATAA
1 ATATATATATAGTATAA
*
8615507 TTATATATATA-T-TAA
1 ATATATATATAGTATAA
8615522 ATATA
1 ATATA
8615527 AAATTAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.39
16 1 0.06
17 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATATATATATAGTATAA
Found at i:8618766 original size:14 final size:14
Alignment explanation
Indices: 8618743--8618796 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
8618733 TCCAATTTTG
8618743 TTTT-TATTTTGTA
1 TTTTATATTTTGTA
*
8618756 TTTTATATTTTTTA
1 TTTTATATTTTGTA
*
8618770 TTGTTTTTATTTTGTA
1 -T-TTTATATTTTGTA
8618786 TTTTATATTTT
1 TTTTATATTTT
8618797 TTTCCTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 4 0.12
14 17 0.50
15 2 0.06
16 11 0.32
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (14 bp):
TTTTATATTTTGTA
Found at i:8618774 original size:30 final size:30
Alignment explanation
Indices: 8618740--8618798 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
8618730 AAGTCCAATT
8618740 TTGTTTTTATTTTGTATTTTATATTTTTTA
1 TTGTTTTTATTTTGTATTTTATATTTTTTA
8618770 TTGTTTTTATTTTGTATTTTATATTTTTT
1 TTGTTTTTATTTTGTATTTTATATTTTTT
8618799 TCCTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (30 bp):
TTGTTTTTATTTTGTATTTTATATTTTTTA
Found at i:8618799 original size:23 final size:23
Alignment explanation
Indices: 8618749--8618799 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
8618739 TTTGTTTTTA
* *
8618749 TTTTGTATTTTATATTTTTTATT
1 TTTTTTATTTTATATTTTATATT
* *
8618772 GTTTTTATTTTGTATTTTATATT
1 TTTTTTATTTTATATTTTATATT
8618795 TTTTT
1 TTTTT
8618800 CCTTTGTATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTTTATTTTATATTTTATATT
Found at i:8618805 original size:22 final size:23
Alignment explanation
Indices: 8618761--8618813 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
8618751 TTGTATTTTA
* *
8618761 TATTTTTTATTGTTTTTATTTTG
1 TATTTTATATTGTTTTTACTTTG
*
8618784 TATTTTATATT-TTTTTCCTTTG
1 TATTTTATATTGTTTTTACTTTG
*
8618806 TATCTTAT
1 TATTTTAT
8618814 GTATTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (23 bp):
TATTTTATATTGTTTTTACTTTG
Found at i:8618821 original size:30 final size:30
Alignment explanation
Indices: 8618747--8618832 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 30
8618737 ATTTTGTTTT
** *
8618747 TATTTTGTATTTTATATTTTTTATTGTTTT
1 TATTTTGTATTTTATATTTTTTATCCTTTG
8618777 TATTTTGTATTTTATATTTTTT-TCCTTTG
1 TATTTTGTATTTTATATTTTTTATCCTTTG
8618806 TATCTTATGTA-TTTATTATTTATTTAT
1 TAT-TT-TGTATTTTA-TATTT-TTTAT
8618833 TTATTATTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
29 7 0.15
30 28 0.58
31 9 0.19
32 3 0.06
33 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (30 bp):
TATTTTGTATTTTATATTTTTTATCCTTTG
Found at i:8618827 original size:7 final size:7
Alignment explanation
Indices: 8618810--8618851 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
8618800 CCTTTGTATC
8618810 TTATGTAT
1 TTAT-TAT
8618818 TTATTAT
1 TTATTAT
8618825 TTATTTAT
1 TTA-TTAT
8618833 TTATTA-
1 TTATTAT
*
8618839 TTACTAT
1 TTATTAT
8618846 TTATTA
1 TTATTA
8618852 ATATATGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.17
7 14 0.47
8 11 0.37
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
TTATTAT
Found at i:8618833 original size:15 final size:15
Alignment explanation
Indices: 8618810--8618850 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
8618800 CCTTTGTATC
*
8618810 TTATGTATTTATTAT
1 TTATTTATTTATTAT
8618825 TTATTTATTTATTAT
1 TTATTTATTTATTAT
8618840 TACTATTTATT
1 T--TATTTATT
8618851 AATATATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.65
17 8 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTTATTTATTAT
Found at i:8618920 original size:16 final size:16
Alignment explanation
Indices: 8618907--8618938 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8618897 AATATTTATA
*
8618907 TATATTTTTATTTAGT
1 TATATATTTATTTAGT
8618923 TATATATTTATTTAGT
1 TATATATTTATTTAGT
8618939 CATTTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
TATATATTTATTTAGT
Found at i:8618936 original size:20 final size:19
Alignment explanation
Indices: 8618902--8618950 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
8618892 CTGTTAATAT
8618902 TTATATATATTTTTATTTAG
1 TTATATAT-TTTTTATTTAG
* * *
8618922 TTATATATTTATTTAGTCAT
1 TTATATATTT-TTTATTTAG
8618942 TTATATATT
1 TTATATATT
8618951 ATAATTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTATATATTTTTTATTTAG
Found at i:8618979 original size:21 final size:21
Alignment explanation
Indices: 8618922--8619017 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 21
8618912 TTTTATTTAG
8618922 TTATATATTTATTTAGTC-ATT-
1 TTATAT-TTTATTTA-TCTATTA
*
8618943 TATATATTATAATTTATCTATTA
1 T-TATATT-TTATTTATCTATTA
8618966 TTATGATTTT-TTTATCT-TGTA
1 TTAT-ATTTTATTTATCTAT-TA
* *
8618987 ATATTTTTTATTTATCTTATTA
1 TTATATTTTATTTATC-TATTA
*
8619009 TTATTTTTT
1 TTATATTTT
8619018 TCTTCTAATT
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
20 5 0.08
21 22 0.36
22 29 0.48
23 5 0.08
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (21 bp):
TTATATTTTATTTATCTATTA
Found at i:8619920 original size:9 final size:9
Alignment explanation
Indices: 8619906--8620040 Score: 76
Period size: 9 Copynumber: 14.3 Consensus size: 9
8619896 CGCTCCAGGT
*
8619906 TTTTTTTTC
1 TTTTTTTTA
*
8619915 TTTTTTTTG
1 TTTTTTTTA
8619924 TTTCTTTTTA
1 TTT-TTTTTA
*
8619934 TTATTTTTA
1 TTTTTTTTA
*
8619943 -TTTTTTTG
1 TTTTTTTTA
*
8619951 TTTTCTTTA
1 TTTTTTTTA
8619960 TTTATTTATTA
1 TTT-TTT-TTA
* *
8619971 -TTATATTA
1 TTTTTTTTA
** *
8619979 GGGTTGTTTA
1 -TTTTTTTTA
*
8619989 ATTTTTTTA
1 TTTTTTTTA
8619998 TTTATTTTTA
1 TTT-TTTTTA
*
8620008 TTTTATTTA
1 TTTTTTTTA
8620017 TTTTTATTTTA
1 -TTTT-TTTTA
8620028 TTTTTATTTA
1 TTTTT-TTTA
8620038 TTT
1 TTT
8620041 CATTTATTTC
Statistics
Matches: 96, Mismatches: 20, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
8 9 0.09
9 41 0.43
10 39 0.41
11 7 0.07
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:8619927 original size:13 final size:13
Alignment explanation
Indices: 8619905--8619958 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
8619895 CCGCTCCAGG
8619905 TTTTTT-TTTCTT
1 TTTTTTGTTTCTT
8619917 TTTTTTGTTTCTT
1 TTTTTTGTTTCTT
* * *
8619930 TTTATTATTTTTAT
1 TTTTTTGTTTCT-T
8619944 TTTTTTGTTTTCTT
1 TTTTTTG-TTTCTT
8619958 T
1 T
8619959 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 6 0.18
13 15 0.45
14 8 0.24
15 4 0.12
ACGTcount: A:0.06, C:0.06, G:0.04, T:0.85
Consensus pattern (13 bp):
TTTTTTGTTTCTT
Found at i:8619940 original size:27 final size:27
Alignment explanation
Indices: 8619916--8620049 Score: 87
Period size: 27 Copynumber: 4.9 Consensus size: 27
8619906 TTTTTTTTCT
*
8619916 TTTTTTTG-TTTCTTTTTATTATTTTTA
1 TTTTTTTGTTTTCTTTAT-TTATTTTTA
8619943 TTTTTTTGTTTTCTTTATTTATTTATTA
1 TTTTTTTGTTTTCTTTATTTATTT-TTA
* * ** * *
8619971 TTATATTAGGGTTGTTTAATT-TTTTTA
1 TT-TTTTTGTTTTCTTTATTTATTTTTA
* *
8619998 TTTATTT-TTAT-TTTATTTATTTTTA
1 TTTTTTTGTTTTCTTTATTTATTTTTA
* *
8620023 TTTTATTTTTATTTATTTCATTTATTT
1 TTTT-TTTGT-TTTCTTT-ATTTATTT
8620050 CATTTTCTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
24 6 0.07
25 10 0.12
26 7 0.08
27 20 0.24
28 18 0.21
29 15 0.18
30 8 0.10
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (27 bp):
TTTTTTTGTTTTCTTTATTTATTTTTA
Found at i:8619941 original size:23 final size:23
Alignment explanation
Indices: 8619915--8619962 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
8619905 TTTTTTTTTC
*
8619915 TTTTT-TTTGTTTCTTTT-TATTA
1 TTTTTATTTTTTTCTTTTCT-TTA
*
8619937 TTTTTATTTTTTTGTTTTCTTTA
1 TTTTTATTTTTTTCTTTTCTTTA
8619960 TTT
1 TTT
8619963 ATTTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 16 0.73
24 1 0.05
ACGTcount: A:0.08, C:0.04, G:0.04, T:0.83
Consensus pattern (23 bp):
TTTTTATTTTTTTCTTTTCTTTA
Found at i:8619949 original size:28 final size:28
Alignment explanation
Indices: 8619909--8620055 Score: 86
Period size: 28 Copynumber: 5.1 Consensus size: 28
8619899 TCCAGGTTTT
* *
8619909 TTTTTCTTTTTTTTG-TTTCTTTTTATTA
1 TTTTTATTTTTTTTGTTTTCTTTAT-TTA
8619937 TTTTTA-TTTTTTTGTTTTCTTTATTTA
1 TTTTTATTTTTTTTGTTTTCTTTATTTA
* * * ** * *
8619964 TTTATTATTATATTAGGGTTGTTTAATT-
1 TTT-TTATTTTTTTTGTTTTCTTTATTTA
* * *
8619992 TTTTTATTTATTTTTATTTTATTTATTTT
1 TTTTTATTT-TTTTTGTTTTCTTTATTTA
*
8620021 TATTTTATTTTTATTT-ATTTCATTTATTTCA
1 T-TTTTATTTTT-TTTGTTTTC-TTTATTT-A
8620052 TTTT
1 TTTT
8620056 CTTTAAATAA
Statistics
Matches: 90, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
27 19 0.21
28 30 0.33
29 19 0.21
30 21 0.23
31 1 0.01
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.76
Consensus pattern (28 bp):
TTTTTATTTTTTTTGTTTTCTTTATTTA
Found at i:8620013 original size:5 final size:5
Alignment explanation
Indices: 8619993--8620055 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
8619983 TGTTTAATTT
8619993 TTTTA -TTTA TTTTTA TTTTA -TTTA TTTTTA TTTTA TTTT- TATTTA
1 TTTTA TTTTA -TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA T-TTTA
* *
8620038 TTTCA -TTTA TTTCA TTTT
1 TTTTA TTTTA TTTTA TTTT
8620056 CTTTAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
4 12 0.26
5 26 0.55
6 9 0.19
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:8620013 original size:15 final size:15
Alignment explanation
Indices: 8619993--8620049 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
8619983 TGTTTAATTT
8619993 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
8620008 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
8620023 TTTTATTT-TTATTTA
1 TTTTATTTATT-TTTA
*
8620038 TTTCATTTATTT
1 TTTTATTTATTT
8620050 CATTTTCTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
14 2 0.05
15 35 0.90
16 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:8620024 original size:21 final size:21
Alignment explanation
Indices: 8619994--8620040 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
8619984 GTTTAATTTT
*
8619994 TTTATTTAT-TTTTA-TTTTA
1 TTTATTTTTATTTTATTTTTA
8620013 TTTATTTTTATTTTATTTTTA
1 TTTATTTTTATTTTATTTTTA
8620034 TTTATTT
1 TTTATTT
8620041 CATTTATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.32
20 5 0.20
21 12 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTATTTTTATTTTATTTTTA
Found at i:8620047 original size:9 final size:9
Alignment explanation
Indices: 8619930--8620054 Score: 69
Period size: 9 Copynumber: 13.3 Consensus size: 9
8619920 TTTGTTTCTT
8619930 TTTATTATT-
1 TTTATT-TTA
8619939 TTTATTTT-
1 TTTATTTTA
* *
8619947 TTTGTTTTC
1 TTTATTTTA
8619956 TTTA-TTTA
1 TTTATTTTA
8619964 TTTATTATTA
1 TTTATT-TTA
** *
8619974 TATTAGGGTTG
1 T-TTA-TTTTA
8619985 TTTAATTTT-
1 TTT-ATTTTA
*
8619994 TTTATTTATT
1 TTTATTT-TA
8620004 TTTATTTTA
1 TTTATTTTA
8620013 TTTATTTTTA
1 TTTA-TTTTA
8620023 TTTTATTTTTA
1 -TTTA-TTTTA
*
8620034 TTTATTTCA
1 TTTATTTTA
*
8620043 TTTATTTCA
1 TTTATTTTA
8620052 TTT
1 TTT
8620055 TCTTTAAATA
Statistics
Matches: 96, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
8 20 0.21
9 35 0.36
10 24 0.25
11 17 0.18
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:8620165 original size:62 final size:58
Alignment explanation
Indices: 8620082--8620244 Score: 184
Period size: 62 Copynumber: 2.7 Consensus size: 58
8620072 AAAAAAACAA
* * *
8620082 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCC
1 AAAAAAAT-TTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATTT-C
* * *
8620141 AAAAAGATTTTTTTTTTTAGGAAAAGTTGAAAATATCAATTTTTCTCAAAATTAAAAATTTC
1 AAAAA-A---ATTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATTTC
* *
8620203 AAAAAAATATTTTTAGGGAAAAGTCGAAAGTATCAATTTTTC
1 AAAAAAATTTTTTTA-GGAAAAGTTGAAAGTATCAATTTTTC
8620245 CTTGTACAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
58 7 0.08
59 29 0.33
60 1 0.01
61 1 0.01
62 43 0.49
63 7 0.08
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (58 bp):
AAAAAAATTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATTTC
Found at i:8624175 original size:31 final size:29
Alignment explanation
Indices: 8624130--8624194 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
8624120 AACAATGGAT
* * *
8624130 AAAAAATGAGAAAAAAAAAGAAGATGATGAA
1 AAAAAATAAAAAAAAAAAAGAA-A-GAAGAA
*
8624161 AAAAAATAAAAAAAAGAAAGAAAGAAGAA
1 AAAAAATAAAAAAAAAAAAGAAAGAAGAA
8624190 AAAAA
1 AAAAA
8624195 TGAGAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.33
30 1 0.03
31 19 0.63
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (29 bp):
AAAAAATAAAAAAAAAAAAGAAAGAAGAA
Found at i:8624191 original size:28 final size:28
Alignment explanation
Indices: 8624160--8624213 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8624150 AAGATGATGA
*
8624160 AAAAAAATAAAAAAAAGAAAGAAAGAAG
1 AAAAAAATAAAAAAAAGAAAAAAAGAAG
* * *
8624188 AAAAAAATGAGAAAATGAAAAAAAGA
1 AAAAAAATAAAAAAAAGAAAAAAAGA
8624214 GATTCAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (28 bp):
AAAAAAATAAAAAAAAGAAAAAAAGAAG
Done.