Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 29 of 117
Found at i:7534925 original size:25 final size:25
Alignment explanation
Indices: 7534871--7534922 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
7534861 TAATATTATT
7534871 ATTATTATAATTATGAATGAAAAAA
1 ATTATTATAATTATGAATGAAAAAA
* **
7534896 ATTATTGTAATTAT-AATTTAAAAA
1 ATTATTATAATTATGAATGAAAAAA
7534920 ATT
1 ATT
7534923 TATAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (25 bp):
ATTATTATAATTATGAATGAAAAAA
Found at i:7538231 original size:12 final size:11
Alignment explanation
Indices: 7538204--7538230 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7538194 AAATTTTTAG
7538204 AAAAATCTTCA
1 AAAAATCTTCA
7538215 AAAAATCTTCA
1 AAAAATCTTCA
7538226 AAAAA
1 AAAAA
7538231 AAGTCAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAATCTTCA
Found at i:7543448 original size:51 final size:48
Alignment explanation
Indices: 7543358--7543463 Score: 124
Period size: 51 Copynumber: 2.1 Consensus size: 48
7543348 GGCAAGCTCA
* * *
7543358 GCTCCAAACTTCTCTCTATTCCAACTTTGCTTCTAGATTCAGCAGCGT
1 GCTCCAAACTTCTCCCTATTCCAACTTTGCTTCTAGATTCAACAGCCT
* *
7543406 GCTCCAAACTTCTCCCAGATATTCCAACTTCT-TTTCTTGATTCAACAGCCT
1 GCTCCAAACTTCTCCC---TATTCCAACTT-TGCTTCTAGATTCAACAGCCT
7543457 GCTCCAA
1 GCTCCAA
7543464 TCTCGTATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
48 15 0.31
51 33 0.67
52 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.34
Consensus pattern (48 bp):
GCTCCAAACTTCTCCCTATTCCAACTTTGCTTCTAGATTCAACAGCCT
Found at i:7549250 original size:260 final size:262
Alignment explanation
Indices: 7548786--7549309 Score: 937
Period size: 260 Copynumber: 2.0 Consensus size: 262
7548776 CCTACAATTA
*
7548786 TCACAACTACTCCAAATGCCCATTTAATTTTTATTAGAGTTAATAGACTAGGGGAATGGCTTTAA
1 TCACAACTACTCCAAATGCCCATTTAATTTTTATTAGAGTTAATAGACTAGGGGAATGGCTTCAA
*
7548851 AAATTCGTGGTCGGTAAAGAAGAGGCCAATAGGAAGATGGGTTTCAAATAAAAAACAATTTGATT
66 AAATTCGTGGTCGGTAAAGAAGAGGCCAATAGGAAGATGGGTTTCAAATAAAAAACAATCTGATT
7548916 AATGTCTGAATAAAACCTCGGAGTTTTTTTTTTTTTTTTCTCCTATCAATTCGGTTGCGAAGAGC
131 AATGTCTGAATAAAACCTCGGAGTTTTTTTTTTTTTTTTCTCCTATCAATTCGGTTGCGAAGAGC
7548981 ACTTTGCTGATACTCATTGGATCACTGCAACAGAAAGTCCCAGATGCTTAGGATCCACTTGTTTC
196 ACTTTGCTGATACTCATTGGATCACTGCAACAGAAAGTCCCAGATGCTTAGGATCCACTTGTTTC
7549046 TT
261 TT
*
7549048 TCACAACTACTCCGAATGCCCATTTAATTTTTATTAGAG-TAATAGACTAGGGGAATGGC-TCAA
1 TCACAACTACTCCAAATGCCCATTTAATTTTTATTAGAGTTAATAGACTAGGGGAATGGCTTCAA
* *
7549111 AAATTCGTGGTCGGTAAAGAAGAGGCCAATAGGAAGATGGGTTTCAAATCAAAAACAGTCTGATT
66 AAATTCGTGGTCGGTAAAGAAGAGGCCAATAGGAAGATGGGTTTCAAATAAAAAACAATCTGATT
* * * *
7549176 AATGTCTGAATAAAACCTTGGAGTTTTTTTTTTTTTTTTTCTCTTGTCAATTCGGTTGCGAGGAG
131 AATGTCTGAATAAAACCTCGGAG-TTTTTTTTTTTTTTTTCTCCTATCAATTCGGTTGCGAAGAG
7549241 CAC-TTGCTGATACTCATTGGATCACTGCAACAGAAAGTCCCAGATGCTTAGGATCCACTTGTTT
195 CACTTTGCTGATACTCATTGGATCACTGCAACAGAAAGTCCCAGATGCTTAGGATCCACTTGTTT
7549305 CTT
260 CTT
7549308 TC
1 TC
7549310 CTCTGATACT
Statistics
Matches: 252, Mismatches: 9, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
260 153 0.61
261 61 0.24
262 38 0.15
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (262 bp):
TCACAACTACTCCAAATGCCCATTTAATTTTTATTAGAGTTAATAGACTAGGGGAATGGCTTCAA
AAATTCGTGGTCGGTAAAGAAGAGGCCAATAGGAAGATGGGTTTCAAATAAAAAACAATCTGATT
AATGTCTGAATAAAACCTCGGAGTTTTTTTTTTTTTTTTCTCCTATCAATTCGGTTGCGAAGAGC
ACTTTGCTGATACTCATTGGATCACTGCAACAGAAAGTCCCAGATGCTTAGGATCCACTTGTTTC
TT
Found at i:7549525 original size:2 final size:2
Alignment explanation
Indices: 7549518--7549549 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7549508 AAAGGGGCCA
7549518 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7549550 CATGTGATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7553518 original size:5 final size:5
Alignment explanation
Indices: 7553500--7553544 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
7553490 AAAAATTTAA
* *
7553500 ATTAT ATTAT -TTAT ATTAT TTTAT ATTAT A-T-C ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
7553545 TTAAATTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
3 1 0.03
4 6 0.18
5 26 0.79
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTAT
Found at i:7553527 original size:24 final size:23
Alignment explanation
Indices: 7553495--7553553 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 23
7553485 TTTTAAAAAA
*
7553495 TTTAAATTATATTATTTATATTAT
1 TTTAAATTATATCA-TTATATTAT
*
7553519 TTTATATTATATCATTATATTATAT
1 TTTAAATTATATCATTATA-T-TAT
7553544 TTTAAATTAT
1 TTTAAATTAT
7553554 CATGATCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.17
24 13 0.43
25 12 0.40
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTAAATTATATCATTATATTAT
Found at i:7553554 original size:23 final size:25
Alignment explanation
Indices: 7553495--7553556 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
7553485 TTTTAAAAAA
*
7553495 TTTAAATTAT-ATTATTTATATTAT
1 TTTAAATTATCATTATATATATTAT
*
7553519 TTTATATTATATCATTATAT-TA-TAT
1 TTTA-AAT-TATCATTATATATATTAT
7553544 TTTAAATTATCAT
1 TTTAAATTATCAT
7553557 GATCGAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 9 0.28
26 5 0.16
27 6 0.19
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAAATTATCATTATATATATTAT
Found at i:7554179 original size:9 final size:9
Alignment explanation
Indices: 7554167--7554210 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
7554157 TTTATCAATT
7554167 TTAATTTAA
1 TTAATTTAA
**
7554176 TTAATCAAA
1 TTAATTTAA
7554185 TTAAATTTAA
1 TT-AATTTAA
*
7554195 ATAATTTAA
1 TTAATTTAA
7554204 TTAATTT
1 TTAATTT
7554211 TAAATCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 22 0.79
10 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAATTTAA
Found at i:7554191 original size:19 final size:19
Alignment explanation
Indices: 7554169--7554215 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
7554159 TATCAATTTT
*
7554169 AATTTAATTAATCAAATTA
1 AATTTAAATAATCAAATTA
**
7554188 AATTTAAATAATTTAATTA
1 AATTTAAATAATCAAATTA
*
7554207 ATTTTAAAT
1 AATTTAAAT
7554216 CAAAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTAAATAATCAAATTA
Found at i:7554227 original size:28 final size:25
Alignment explanation
Indices: 7554163--7554229 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 25
7554153 TAATTTTATC
*
7554163 AATTTTAATTTAATTAATCAAATTA
1 AATTTTAATTTAATTAATCAAATAA
*
7554188 AATTTAAATAATTTAATTAATTTTAAATCAA
1 AATTT---TAATTTAATTAA--TCAAAT-AA
7554219 AATTTTAATTT
1 AATTTTAATTT
7554230 TAAAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 5 0.15
28 18 0.53
30 5 0.15
31 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTTTAATTTAATTAATCAAATAA
Found at i:7554598 original size:22 final size:22
Alignment explanation
Indices: 7554555--7554601 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
7554545 ATGTAACTTT
*
7554555 TTATATACTAAAAATTTCAAAA
1 TTATATACTAAAAATATCAAAA
*
7554577 TTATATTACTAAGAATAT-AAAA
1 TTATA-TACTAAAAATATCAAAA
7554599 TTA
1 TTA
7554602 CATCTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (22 bp):
TTATATACTAAAAATATCAAAA
Found at i:7555981 original size:27 final size:26
Alignment explanation
Indices: 7555932--7555991 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
7555922 TATTTGATAC
*
7555932 ATAAAATTATAATAAAATAAAATAAA
1 ATAATATTATAATAAAATAAAATAAA
* * *
7555958 ATAATATTATAAATAATATTAAATTAA
1 ATAATATTAT-AATAAAATAAAATAAA
7555985 ATAATAT
1 ATAATAT
7555992 CATTTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATATTATAATAAAATAAAATAAA
Found at i:7555985 original size:15 final size:15
Alignment explanation
Indices: 7555935--7555991 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
7555925 TTGATACATA
* *
7555935 AAATTATAATAAAATA
1 AAATTA-AATAATATT
*
7555951 AAATAAAATAATATT
1 AAATTAAATAATATT
7555966 --A-TAAATAATATT
1 AAATTAAATAATATT
7555978 AAATTAAATAATAT
1 AAATTAAATAATAT
7555992 CATTTTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
12 10 0.29
13 1 0.03
14 1 0.03
15 17 0.50
16 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTAAATAATATT
Found at i:7556239 original size:15 final size:15
Alignment explanation
Indices: 7556219--7556249 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7556209 GCTATCCTCT
*
7556219 TTTTATAGATATAAA
1 TTTTATAAATATAAA
7556234 TTTTATAAATATAAA
1 TTTTATAAATATAAA
7556249 T
1 T
7556250 CAAACATGAT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTTATAAATATAAA
Found at i:7567027 original size:20 final size:18
Alignment explanation
Indices: 7566993--7567036 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
7566983 TTTATTCTAA
*
7566993 ATTTTTTATTTTAATATAT
1 ATTTTTTAATTTAAT-TAT
7567012 ATTTTATTAATTTAATTAT
1 ATTTT-TTAATTTAATTAT
7567031 ATTTTT
1 ATTTTT
7567037 ACCCTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTTAATTTAATTAT
Found at i:7572629 original size:2 final size:2
Alignment explanation
Indices: 7572622--7572646 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7572612 AATGGAAAGT
7572622 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7572647 GGTTTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7572914 original size:28 final size:27
Alignment explanation
Indices: 7572883--7572971 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 27
7572873 AATTCTGAAT
7572883 TTTTTAATACTTTAAATAAATTTTTATA
1 TTTTTAATACTTTAAATAAATTTTTA-A
* *
7572911 TTTTATTATA-ATTAAATAAATTTTTAA
1 TTTT-TAATACTTTAAATAAATTTTTAA
* * *
7572938 TTTTTAATTTCATCTAAATAAATTCTTAA
1 TTTTTAA-TAC-TTTAAATAAATTTTTAA
7572967 TTTTT
1 TTTTT
7572972 GATTTATAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.04
27 6 0.12
28 19 0.38
29 23 0.46
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTAATACTTTAAATAAATTTTTAA
Found at i:7572991 original size:25 final size:25
Alignment explanation
Indices: 7572925--7573004 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
7572915 ATTATAATTA
* *
7572925 AATAAATTTTTAATTTTTAATTTCATCT
1 AATAAATTATTAATATTTAATTT-A--T
* * *
7572953 AAATAAATTCTTAATTTTTGATTTAT
1 -AATAAATTATTAATATTTAATTTAT
*
7572979 AATAATTTATTAATATTTAATTTAT
1 AATAAATTATTAATATTTAATTTAT
7573004 A
1 A
7573005 TTTAAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 22 0.49
26 1 0.02
28 1 0.02
29 21 0.47
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (25 bp):
AATAAATTATTAATATTTAATTTAT
Found at i:7573908 original size:83 final size:83
Alignment explanation
Indices: 7573748--7573946 Score: 197
Period size: 83 Copynumber: 2.4 Consensus size: 83
7573738 GTTGGTGCTT
* * * ** * * **
7573748 GGTGCTTGAGTGGGTGTTGTGTTGAATTGGGGAAGGCTATGGGTATGCTGGTGAATGGTATAGGT
1 GGTGCTTGAGTGGGTGTTGTGTTGAACTAGGGAAAGCTATGGCCATGCTGGTGAAGGGTACAGAC
* *
7573813 GAGGGTAGAGCCAAGG-TC
66 GAAGGTAAAGCC-AGGATC
* * *
7573831 GGTGCTTGAGTGGGTGTTGTGTTGAACTAGGGAAAGTTGTGGCCATGC-GAGTGAAGGGTACATA
1 GGTGCTTGAGTGGGTGTTGTGTTGAACTAGGGAAAGCTATGGCCATGCTG-GTGAAGGGTACAGA
*
7573895 CGAAGGTAAAGCCAGGATT
65 CGAAGGTAAAGCCAGGATC
* *
7573914 GGTGCTTGAGTGGGTGCTT-TGTTAAACAAGGGA
1 GGTGCTTGAGTGGGTG-TTGTGTTGAACTAGGGA
7573947 GGGCTATGAT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
82 4 0.04
83 90 0.94
84 2 0.02
ACGTcount: A:0.22, C:0.09, G:0.41, T:0.28
Consensus pattern (83 bp):
GGTGCTTGAGTGGGTGTTGTGTTGAACTAGGGAAAGCTATGGCCATGCTGGTGAAGGGTACAGAC
GAAGGTAAAGCCAGGATC
Found at i:7575578 original size:40 final size:40
Alignment explanation
Indices: 7575332--7575578 Score: 190
Period size: 40 Copynumber: 6.2 Consensus size: 40
7575322 CGTTCAAATC
* * ** *
7575332 TTTGCCCGGAGGTCTTGGAAATCATGTAAAAATAAAAGGT
1 TTTGCCCGGAGGTCTTAGAAATCATTTAAAAATTTAAGAT
* * * *
7575372 TTTGCCCGAAGGTCTTTAGAAATCATTCAAAAATTTAAAAG
1 TTTGCCCGGAGGTC-TTAGAAATCATTTAAAAATTTAAGAT
* * * * * *
7575413 TTTACCCGAAGGTCTTAGAGATCATATAAAGATTTAACAT
1 TTTGCCCGGAGGTCTTAGAAATCATTTAAAAATTTAAGAT
** * ** *
7575453 TTTGCCTAGAGGTCTTTGAAATCATGCAAAATTTTTAA-AT
1 TTTGCCCGGAGGTCTTAGAAATCATTTAAAA-ATTTAAGAT
** * ** *
7575493 TTTATCTGGAAATCTTAGAGATCATTTAAAAATTTAAGAT
1 TTTGCCCGGAGGTCTTAGAAATCATTTAAAAATTTAAGAT
* * *
7575533 TTTGCCCGGAGGTCTTGGAGATCATTTAAAGATTTAAGAT
1 TTTGCCCGGAGGTCTTAGAAATCATTTAAAAATTTAAGAT
*
7575573 GTTGCC
1 TTTGCC
7575579 TAGATGTCTT
Statistics
Matches: 160, Mismatches: 44, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
39 5 0.03
40 119 0.74
41 36 0.22
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (40 bp):
TTTGCCCGGAGGTCTTAGAAATCATTTAAAAATTTAAGAT
Found at i:7577804 original size:14 final size:13
Alignment explanation
Indices: 7577785--7577828 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
7577775 TTCTCTTTAT
* *
7577785 TCTTTTCATTTTG
1 TCTTTTTATTTTC
7577798 TCTTTTT-TTTTC
1 TCTTTTTATTTTC
7577810 TCTTTTTTATTTTC
1 TC-TTTTTATTTTC
7577824 TCTTT
1 TCTTT
7577829 CTTTCACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 6 0.22
13 14 0.52
14 7 0.26
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (13 bp):
TCTTTTTATTTTC
Found at i:7577813 original size:12 final size:12
Alignment explanation
Indices: 7577793--7577846 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
7577783 ATTCTTTTCA
*
7577793 TTTTGTCTTTTT
1 TTTTCTCTTTTT
7577805 TTTTCTCTTTTT
1 TTTTCTCTTTTT
*
7577817 TATTT-TCTCTTT
1 T-TTTCTCTTTTT
* *
7577829 CTTTCACTTTTT
1 TTTTCTCTTTTT
7577841 TTTTCT
1 TTTTCT
7577847 TTTCATTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
11 3 0.09
12 27 0.82
13 3 0.09
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:7577850 original size:21 final size:23
Alignment explanation
Indices: 7577813--7577855 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
7577803 TTTTTTCTCT
*
7577813 TTTTTATTTTCTCTTTCTTTCAC
1 TTTTTATTTTCTCTTTCATTCAC
7577836 TTTTT-TTTTCT-TTTCATTCA
1 TTTTTATTTTCTCTTTCATTCA
7577856 AATGGATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTATTTTCTCTTTCATTCAC
Found at i:7602811 original size:6 final size:6
Alignment explanation
Indices: 7602802--7602833 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
7602792 AAAAGCCAAA
*
7602802 GGAGAG GGAGAG GGAGAG GGAGAG GGGGAG GG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GG
7602834 TTGCCATACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:7603353 original size:32 final size:32
Alignment explanation
Indices: 7603316--7603390 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
7603306 TTTTATAATT
* *
7603316 ATAATTAAATATATATTTATATAAT-TAATTA-A
1 ATAATTAAATAT-TATATA-ATAATCAAATTATA
*
7603348 ATAATTAATTATTATATAATAATCAAATTATA
1 ATAATTAAATATTATATAATAATCAAATTATA
*
7603380 ATGATTAAATA
1 ATAATTAAATA
7603391 ATTAATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 5 0.14
31 10 0.28
32 21 0.58
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (32 bp):
ATAATTAAATATTATATAATAATCAAATTATA
Found at i:7603381 original size:25 final size:26
Alignment explanation
Indices: 7603332--7603392 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
7603322 AAATATATAT
* *
7603332 TTATATAATTAATTAAATAATTAATTA
1 TTATATAA-TAATCAAATAATTAATGA
*
7603359 TTATATAATAATCAAATTA-TAATGA
1 TTATATAATAATCAAATAATTAATGA
*
7603384 TTAAATAAT
1 TTATATAAT
7603393 TAATTAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 13 0.43
26 9 0.30
27 8 0.27
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TTATATAATAATCAAATAATTAATGA
Found at i:7611284 original size:7 final size:7
Alignment explanation
Indices: 7611272--7611311 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
7611262 CTAAAATATT
7611272 TTTTTCC
1 TTTTTCC
7611279 TTTTT-C
1 TTTTTCC
7611285 TTTTTCCC
1 TTTTT-CC
7611293 TTTTTCC
1 TTTTTCC
7611300 TTTTTCC
1 TTTTTCC
7611307 TTTTT
1 TTTTT
7611312 GATTTTCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.61
8 6 0.19
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCC
Found at i:7616150 original size:24 final size:23
Alignment explanation
Indices: 7616113--7616174 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
7616103 AAATTACCTA
*
7616113 TTATAATTTATATTTTAAAAAAT
1 TTATAATTTATATTATAAAAAAT
*
7616136 TTATAAATTTTTATTATATAAAATAT
1 TTAT-AATTTATATTATA-AAAA-AT
*
7616162 TGATAATTTATAT
1 TTATAATTTATAT
7616175 AGTTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 11 0.34
25 12 0.38
26 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATAATTTATATTATAAAAAAT
Found at i:7616157 original size:26 final size:24
Alignment explanation
Indices: 7616113--7616174 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 24
7616103 AAATTACCTA
7616113 TTAT-AATTTATATTTTAAAAAAT
1 TTATAAATTTATATTTTAAAAAAT
* *
7616136 TTATAAATTTTTATTATATAAAATAT
1 TTATAAATTTATATT-T-TAAAAAAT
*
7616162 TGAT-AATTTATAT
1 TTATAAATTTATAT
7616175 AGTTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 9 0.28
25 9 0.28
26 10 0.31
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATAAATTTATATTTTAAAAAAT
Found at i:7616426 original size:14 final size:14
Alignment explanation
Indices: 7616386--7616427 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
7616376 AAAATTTAGC
* *
7616386 TAAAAAATTTTATT
1 TAAAAAATTTAAAT
*
7616400 TAAAAAA-TAAAAT
1 TAAAAAATTTAAAT
7616413 TAAAAAATTTAAAT
1 TAAAAAATTTAAAT
7616427 T
1 T
7616428 TCGGTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAAAATTTAAAT
Found at i:7619565 original size:15 final size:15
Alignment explanation
Indices: 7619545--7619577 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7619535 CAAACCAAAT
*
7619545 TCATCAGCAAAGTAA
1 TCATCACCAAAGTAA
7619560 TCATCACCAAAGTAA
1 TCATCACCAAAGTAA
7619575 TCA
1 TCA
7619578 GGGGATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.21
Consensus pattern (15 bp):
TCATCACCAAAGTAA
Found at i:7619810 original size:58 final size:59
Alignment explanation
Indices: 7619740--7619850 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 59
7619730 GAACCATCTT
* *
7619740 CTCTATTTAAATAGAAGGGAAGCGTAAT-CCAATCCCAAACGGAATACGACTTGGAAGG
1 CTCTATTTAAATAGAAGAGAAGCATAATCCCAATCCCAAACGGAATACGACTTGGAAGG
* * *
7619798 CTCTATTTAAATATAAGAGAAGCATAATCCCAATTCCAAACGGAATAGGACTT
1 CTCTATTTAAATAGAAGAGAAGCATAATCCCAATCCCAAACGGAATACGACTT
7619851 AGACCCTTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 25 0.53
59 22 0.47
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (59 bp):
CTCTATTTAAATAGAAGAGAAGCATAATCCCAATCCCAAACGGAATACGACTTGGAAGG
Found at i:7620743 original size:20 final size:21
Alignment explanation
Indices: 7620705--7620758 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
7620695 ATCCGAAATT
7620705 AATA-AAAATATTATTTTTTTA
1 AATATAAAATATTA-TTTTTTA
7620726 AATATAAAATATTATTTTTTA
1 AATATAAAATATTATTTTTTA
7620747 AATAT-AAATATT
1 AATATAAAATATT
7620759 TAAAAATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.22
21 16 0.50
22 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATAAAATATTATTTTTTA
Found at i:7634186 original size:18 final size:18
Alignment explanation
Indices: 7634155--7634205 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
7634145 TAAAAATCAT
*
7634155 TCATGCAA-ACATATATAA
1 TCATGCAATA-ATATAGAA
7634173 TCATGCAATAATATAGAA
1 TCATGCAATAATATAGAA
7634191 TGCAATGCAATAATA
1 T-C-ATGCAATAATA
7634206 CCATGCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 16 0.55
19 2 0.07
20 11 0.38
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (18 bp):
TCATGCAATAATATAGAA
Found at i:7634425 original size:24 final size:24
Alignment explanation
Indices: 7634391--7634452 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
7634381 GATATCATTC
7634391 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATTATATCATGCAAT
*
7634414 AACATATAATATCATATCATGCAAT
1 AA-ATATAATATTATATCATGCAAT
*
7634439 AAATATAAAATTAT
1 AAATATAATATTAT
7634453 GCAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 20 0.59
25 12 0.35
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (24 bp):
AAATATAATATTATATCATGCAAT
Found at i:7634684 original size:20 final size:20
Alignment explanation
Indices: 7634651--7634744 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
7634641 TCACACAAAT
* *
7634651 AAATACATTGATAATCATGC
1 AAATAAATTAATAATCATGC
7634671 AAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
*
7634691 AGATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
* * * *
7634711 AAACATATTAATAGTGATGC
1 AAATAAATTAATAATCATGC
*
7634731 AAATATATTAATAA
1 AAATAAATTAATAA
7634745 ATCACACAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:7634721 original size:40 final size:40
Alignment explanation
Indices: 7634651--7634762 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
7634641 TCACACAAAT
* * *
7634651 AAATACATTGATAATCATGCAAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGCAAATATATTAATAATCATGC
* * * *
7634691 AGATAAATTAATAATCATGCAAACATATTAATAGTGATGC
1 AAATAAATTAATAATCATGCAAATATATTAATAATCATGC
* **
7634731 AAATATATTAATAAATCACACAAATATATTAA
1 AAATAAATTAAT-AATCATGCAAATATATTAA
7634763 CCACATAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 43 0.73
41 16 0.27
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (40 bp):
AAATAAATTAATAATCATGCAAATATATTAATAATCATGC
Found at i:7634790 original size:16 final size:16
Alignment explanation
Indices: 7634769--7634813 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
7634759 TTAACCACAT
7634769 AAATAAAATATTAGGC
1 AAATAAAATATTAGGC
* * *
7634785 AAATAAATTATCATGC
1 AAATAAAATATTAGGC
*
7634801 AAATATAATATTA
1 AAATAAAATATTA
7634814 ATCATGCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (16 bp):
AAATAAAATATTAGGC
Found at i:7634819 original size:20 final size:19
Alignment explanation
Indices: 7634783--7634843 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
7634773 AAAATATTAG
7634783 GCAAATA-AA-TT-ATCAT
1 GCAAATATAATTTAATCAT
7634799 GCAAATATAATATTAATCAT
1 GCAAATATAAT-TTAATCAT
*
7634819 GCAAATATAATTTAGTCAT
1 GCAAATATAATTTAATCAT
7634838 GCAAAT
1 GCAAAT
7634844 TCATGCAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
16 7 0.17
17 2 0.05
19 15 0.38
20 16 0.40
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (19 bp):
GCAAATATAATTTAATCAT
Found at i:7636581 original size:22 final size:22
Alignment explanation
Indices: 7636556--7636610 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
7636546 AGAAAAATTG
7636556 AAGCTTGTGAATTCAAAG-TAAC
1 AAGCTTGTGAATTCAAAGCT-AC
*
7636578 AAGCTTGTAAATTCAAAGCTAC
1 AAGCTTGTGAATTCAAAGCTAC
*
7636600 AAGCTTATGAA
1 AAGCTTGTGAA
7636611 ATTGAAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (22 bp):
AAGCTTGTGAATTCAAAGCTAC
Found at i:7637837 original size:73 final size:72
Alignment explanation
Indices: 7637715--7637941 Score: 283
Period size: 72 Copynumber: 3.1 Consensus size: 72
7637705 AATAGCATTA
* * * * * *
7637715 TTTCAATAAATACTATATTTTCTATCTTAGAAATATCGTCTTTATTAAATTTTGAAAAATATTTT
1 TTTCAATAAAAACTATATTTTCTATCTTAGAAATGTCATATTTGTTAAATTTTAAAAAATATTTT
7637780 TTCATAT
66 TTCATAT
*
7637787 TTTCAATAAAAACTATATTGTTTTATCTTAGAAATGTCATATTTGTTAAATTATTAAAAATATAT
1 TTTCAATAAAAACTATATT-TTCTATCTTAGAAATGTCATATTTGTTAAATT-TT-AAAA-A-AT
7637852 ATTTTTTCATAT
61 ATTTTTTCATAT
** * * * * *
7637864 TTTCAACGAAGACTATGTTTTCTATCTTAAAAATGTCATTTTTGTTGAATTTTAAAAAATATTTT
1 TTTCAATAAAAACTATATTTTCTATCTTAGAAATGTCATATTTGTTAAATTTTAAAAAATATTTT
7637929 TTCATAT
66 TTCATAT
7637936 TTTCAA
1 TTTCAA
7637942 CTAAGATTGT
Statistics
Matches: 135, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
72 38 0.28
73 28 0.21
74 6 0.04
75 5 0.04
76 29 0.21
77 29 0.21
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (72 bp):
TTTCAATAAAAACTATATTTTCTATCTTAGAAATGTCATATTTGTTAAATTTTAAAAAATATTTT
TTCATAT
Found at i:7641661 original size:29 final size:30
Alignment explanation
Indices: 7641579--7641656 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
7641569 TCTGAATTTT
* * *
7641579 TTATTTTTAATCATTTAAATCTTTAAATAC
1 TTATTTTTACTCAATTAAACCTTTAAATAC
*
7641609 TTATTTTTACTCAATTAAACCTTTAAATAT
1 TTATTTTTACTCAATTAAACCTTTAAATAC
7641639 TTATTTTTA-TCAAATTAA
1 TTATTTTTACTC-AATTAA
7641657 GCTTTCAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 2 0.05
30 41 0.95
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (30 bp):
TTATTTTTACTCAATTAAACCTTTAAATAC
Found at i:7642796 original size:9 final size:9
Alignment explanation
Indices: 7642784--7642820 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
7642774 TTTTTTTTTC
7642784 GGGGGG-GG
1 GGGGGGAGG
7642792 GGGGGG-GG
1 GGGGGGAGG
7642800 GGGGGGAGG
1 GGGGGGAGG
*
7642809 GAGGGGAGG
1 GGGGGGAGG
7642818 GGG
1 GGG
7642821 CTACAATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 14 0.54
9 12 0.46
ACGTcount: A:0.08, C:0.00, G:0.92, T:0.00
Consensus pattern (9 bp):
GGGGGGAGG
Found at i:7648088 original size:2 final size:2
Alignment explanation
Indices: 7648081--7648114 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7648071 TGTTCTGCCA
7648081 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
7648115 TTGCTTATGG
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:7667815 original size:3 final size:3
Alignment explanation
Indices: 7667807--7667841 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7667797 GTATCCTTTA
*
7667807 ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7667842 ATGTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7671523 original size:2 final size:2
Alignment explanation
Indices: 7671516--7671549 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7671506 TGAAACATAA
* *
7671516 AT AT AT AT AT AT AT AT AT AT AA AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7671550 CAATGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7677517 original size:15 final size:15
Alignment explanation
Indices: 7677497--7677528 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7677487 TTTTCTTTGA
7677497 AAACAAACGTGAATG
1 AAACAAACGTGAATG
7677512 AAACAAACGTGAATG
1 AAACAAACGTGAATG
7677527 AA
1 AA
7677529 GACTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.19, T:0.12
Consensus pattern (15 bp):
AAACAAACGTGAATG
Found at i:7679537 original size:2 final size:2
Alignment explanation
Indices: 7679530--7679569 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7679520 TAATCCTTTA
7679530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7679570 GCCTAGTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7680261 original size:30 final size:30
Alignment explanation
Indices: 7680210--7680267 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
7680200 GAGTAAATTG
7680210 ATAAAAAAATAATAATAATAAA-TTATACA
1 ATAAAAAAATAATAATAATAAAGTTATACA
* *
7680239 ATAAAAATATATATATTAATAAAGTTATA
1 ATAAAAAAATA-ATAATAATAAAGTTATA
7680268 ATGGTAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 10 0.40
31 5 0.20
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAAAAAAATAATAATAATAAAGTTATACA
Found at i:7683803 original size:22 final size:21
Alignment explanation
Indices: 7683756--7683805 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
7683746 AATTTTGTTA
* *
7683756 TAAATTAGTGATAATTTAGAC
1 TAAATTAGTAACAATTTAGAC
* *
7683777 AAAATTAGTAACAACTTTATAC
1 TAAATTAGTAACAA-TTTAGAC
7683799 TAAATTA
1 TAAATTA
7683806 ATGATAACTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (21 bp):
TAAATTAGTAACAATTTAGAC
Found at i:7683814 original size:22 final size:22
Alignment explanation
Indices: 7683778--7683891 Score: 88
Period size: 22 Copynumber: 5.2 Consensus size: 22
7683768 AATTTAGACA
* * *
7683778 AAATTAGTAACAACTTTATACT
1 AAATTAATAATAACTTTATAGT
* * *
7683800 AAATTAATGATAACTGTATAAT
1 AAATTAATAATAACTTTATAGT
* * *
7683822 AAATT-ATGGATAACTTAATTGT
1 AAATTAAT-AATAACTTTATAGT
* *
7683844 AAAGTAATAATAACTTAATAGT
1 AAATTAATAATAACTTTATAGT
*
7683866 AAATAAATAATAA-TTTAGTAGT
1 AAATTAATAATAACTTTA-TAGT
7683888 AAAT
1 AAAT
7683892 AATTAATTAA
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
21 5 0.07
22 67 0.91
23 2 0.03
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
AAATTAATAATAACTTTATAGT
Found at i:7683892 original size:22 final size:22
Alignment explanation
Indices: 7683831--7683898 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
7683821 TAAATTATGG
*
7683831 ATAACTTAATTGTAAAGT-AATA
1 ATAACTTAATAGTAAA-TAAATA
7683853 ATAACTTAATAGTAAATAAATA
1 ATAACTTAATAGTAAATAAATA
* * *
7683875 ATAATTTAGTAGTAAATAATTA
1 ATAACTTAATAGTAAATAAATA
7683897 AT
1 AT
7683899 TAAATAGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 1 0.02
22 40 0.98
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAAATA
Found at i:7683906 original size:22 final size:22
Alignment explanation
Indices: 7683849--7683925 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
7683839 ATTGTAAAGT
*
7683849 AATAATAACT-TAATAGTAAATA
1 AATAATAA-TATAGTAGTAAATA
*
7683871 AATAATAATTTAGTAGTAAATA
1 AATAATAATATAGTAGTAAATA
* *
7683893 ATTAATTAA-ATAGT-GTATGATA
1 AATAA-TAATATAGTAGTA-AATA
7683915 ACATAATAATA
1 A-ATAATAATA
7683926 AATACATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
21 4 0.09
22 34 0.76
23 7 0.16
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (22 bp):
AATAATAATATAGTAGTAAATA
Found at i:7683950 original size:22 final size:22
Alignment explanation
Indices: 7683912--7683960 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
7683902 ATAGTGTATG
7683912 ATAACATAATAATAAAT-ACATA
1 ATAACATAATAATAAATAACA-A
*
7683934 ATAACATAGTAGA-AAATAACAA
1 ATAACATAATA-ATAAATAACAA
7683956 ATAAC
1 ATAAC
7683961 TTAACAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.22
Consensus pattern (22 bp):
ATAACATAATAATAAATAACAA
Found at i:7684044 original size:22 final size:22
Alignment explanation
Indices: 7684007--7684127 Score: 136
Period size: 22 Copynumber: 5.5 Consensus size: 22
7683997 TAACACATAT
7684007 TAGTAAATTAAA-GATAACTTAA
1 TAGTAAA-TAAATGATAACTTAA
** *
7684029 TAAAAAATAAATGATAACTTAG
1 TAGTAAATAAATGATAACTTAA
* * * *
7684051 TAGTTAATTATTGATAACTTAG
1 TAGTAAATAAATGATAACTTAA
* *
7684073 TAATAAATCAATGATAACTTAA
1 TAGTAAATAAATGATAACTTAA
*
7684095 TAGTAAATTAATGATAACTTAA
1 TAGTAAATAAATGATAACTTAA
7684117 TAGTAAATAAA
1 TAGTAAATAAA
7684128 ATTCAGTTTA
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 4 0.05
22 78 0.95
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (22 bp):
TAGTAAATAAATGATAACTTAA
Found at i:7684067 original size:44 final size:44
Alignment explanation
Indices: 7684007--7684127 Score: 170
Period size: 44 Copynumber: 2.8 Consensus size: 44
7683997 TAACACATAT
* * *
7684007 TAGTAAATTAAAGATAACTTAATAAAAAATAAATGATAACTTAG
1 TAGTAAATTAATGATAACTTAATAATAAATAAATGATAACTTAA
* * * *
7684051 TAGTTAATTATTGATAACTTAGTAATAAATCAATGATAACTTAA
1 TAGTAAATTAATGATAACTTAATAATAAATAAATGATAACTTAA
*
7684095 TAGTAAATTAATGATAACTTAATAGTAAATAAA
1 TAGTAAATTAATGATAACTTAATAATAAATAAA
7684128 ATTCAGTTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (44 bp):
TAGTAAATTAATGATAACTTAATAATAAATAAATGATAACTTAA
Found at i:7684513 original size:6 final size:7
Alignment explanation
Indices: 7684492--7684520 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
7684482 ACTAAGTAGT
7684492 AATTAAA
1 AATTAAA
7684499 AATTAAA
1 AATTAAA
7684506 AATTAAA
1 AATTAAA
7684513 AATTAAA
1 AATTAAA
7684520 A
1 A
7684521 GTAAATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATTAAA
Found at i:7684536 original size:21 final size:22
Alignment explanation
Indices: 7684512--7684570 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
7684502 TAAAAATTAA
*
7684512 AAATTAAAAGTAAATCAAT-A-T
1 AAATTAATAGT-AATCAATCAGT
7684533 AAATTAATAGTAATC-ATCAGT
1 AAATTAATAGTAATCAATCAGT
7684554 AAATTAATAGTTAATCA
1 AAATTAATAG-TAATCA
7684571 GTAATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 21 0.64
22 5 0.15
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (22 bp):
AAATTAATAGTAATCAATCAGT
Found at i:7684541 original size:10 final size:11
Alignment explanation
Indices: 7684512--7684613 Score: 50
Period size: 11 Copynumber: 9.1 Consensus size: 11
7684502 TAAAAATTAA
*
7684512 AAATTAAAAGT
1 AAATTAATAGT
*
7684523 AAATCAATA-T
1 AAATTAATAGT
7684533 AAATTAATAGT
1 AAATTAATAGT
*
7684544 -AA-TCATCAGT
1 AAATTAAT-AGT
7684554 AAATTAATAGT
1 AAATTAATAGT
* * * *
7684565 TAATCAGTAAT
1 AAATTAATAGT
*
7684576 AATTTAATATAGT
1 AAATT-A-ATAGT
7684589 AAATTAA-AGAT
1 AAATTAATAG-T
7684600 ATAACTTAATAGT
1 A-AA-TTAATAGT
7684613 A
1 A
7684614 TATCAATTAT
Statistics
Matches: 66, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
9 3 0.05
10 16 0.24
11 25 0.38
12 7 0.11
13 13 0.20
14 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (11 bp):
AAATTAATAGT
Found at i:7684582 original size:22 final size:21
Alignment explanation
Indices: 7684531--7684584 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
7684521 GTAAATCAAT
7684531 ATAAATTAATAGTAATCATCA
1 ATAAATTAATAGTAATCATCA
*
7684552 GTAAATTAATAGTTAATCAGT-A
1 ATAAATTAATAG-TAATCA-TCA
*
7684574 ATAATTTAATA
1 ATAAATTAATA
7684585 TAGTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.39
22 16 0.57
23 1 0.04
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (21 bp):
ATAAATTAATAGTAATCATCA
Found at i:7684703 original size:22 final size:22
Alignment explanation
Indices: 7684678--7684736 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
7684668 AACTTAATAA
*
7684678 TAAATCAATTATAACATAGTTG
1 TAAATCAATAATAACATAGTTG
7684700 TAAATGC-ATAATAACATAGTTG
1 TAAAT-CAATAATAACATAGTTG
* *
7684722 TAAATTAATGATAAC
1 TAAATCAATAATAAC
7684737 TTCATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.34
Consensus pattern (22 bp):
TAAATCAATAATAACATAGTTG
Found at i:7685004 original size:22 final size:22
Alignment explanation
Indices: 7684979--7685278 Score: 162
Period size: 22 Copynumber: 13.5 Consensus size: 22
7684969 AATCGTATAA
*
7684979 TAGTAAATCATTAATAATTTAG
1 TAGTAAATCATTAATAACTTAG
* * *
7685001 TAGTAAATTATTGATAACTTAT
1 TAGTAAATCATTAATAACTTAG
* * * *
7685023 TACTAAATCACTAATAACATAA
1 TAGTAAATCATTAATAACTTAG
* * *
7685045 TAGTAAAACATTGATAACTTAA
1 TAGTAAATCATTAATAACTTAG
* * * *
7685067 TTGTAAATCAATGATAATTTAG
1 TAGTAAATCATTAATAACTTAG
* * *
7685089 TTA-TAAATCAATAATAATTTAA
1 -TAGTAAATCATTAATAACTTAG
* *
7685111 TTGTAAATTAGTTAATTATTAACTTTA-
1 TAGTAAATCA-TT-A--A-TAAC-TTAG
*
7685138 TAGTAAATCAGTAATAACATTA-
1 TAGTAAATCATTAATAAC-TTAG
* * * *
7685160 TAATAAATTACTAATAACTTAA
1 TAGTAAATCATTAATAACTTAG
* * *
7685182 TAGTAAATTATCAATAACTAAG
1 TAGTAAATCATTAATAACTTAG
* *
7685204 TAATAAATCATTTATAACTTAG
1 TAGTAAATCATTAATAACTTAG
*
7685226 TAGTAAATCATCT-ATACCTTAG
1 TAGTAAATCAT-TAATAACTTAG
* *
7685248 T-GATAAATCA-TGATAATTTAG
1 TAG-TAAATCATTAATAACTTAG
*
7685269 TAATAAATCA
1 TAGTAAATCA
7685279 ATGATAAGAT
Statistics
Matches: 216, Mismatches: 49, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.00
21 20 0.09
22 173 0.80
23 4 0.02
24 1 0.00
25 1 0.00
26 2 0.01
27 11 0.05
28 3 0.01
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (22 bp):
TAGTAAATCATTAATAACTTAG
Found at i:7685045 original size:66 final size:65
Alignment explanation
Indices: 7684975--7685235 Score: 209
Period size: 66 Copynumber: 3.9 Consensus size: 65
7684965 GTATAATCGT
* *
7684975 ATAATAGTAAATCATTAATAATTTAGTAGTAAATTATTGATAACTTATTACTAAATCACTAATAA
1 ATAATAGTAAATCATTAATAACTTAGTAGTAAATCATTGATAACTTATTA-TAAATCACTAATAA
7685040 C
65 C
* * * * * * *
7685041 ATAATAGTAAAACATTGATAACTTAATTGTAAATCAATGATAATTTAGTTATAAATCAATAATAA
1 ATAATAGTAAATCATTAATAACTTAGTAGTAAATCATTGATAACTTA-TTATAAATCACTAATAA
*
7685106 T
65 C
* * * * * * *
7685107 TTAATTGTAAATTAGTTAATTATTAACTTTA-TAGTAAATCAGTAATAACATTATAATAAATTAC
1 ATAATAGTAAATCA-TT-A--A-TAAC-TTAGTAGTAAATCATTGATAAC-TTATTATAAATCAC
7685171 TAATAAC
59 TAATAAC
* * * * * * *
7685178 TTAATAGTAAATTATCAATAACTAAGTAATAAATCATTTATAACTTAGTAGTAAATCA
1 ATAATAGTAAATCATTAATAACTTAGTAGTAAATCATTGATAACTTATTA-TAAATCA
7685236 TCTATACCTT
Statistics
Matches: 153, Mismatches: 32, Indels: 20
0.75 0.16 0.10
Matches are distributed among these distances:
65 6 0.04
66 87 0.57
67 6 0.04
69 1 0.01
70 2 0.01
71 45 0.29
72 6 0.04
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.38
Consensus pattern (65 bp):
ATAATAGTAAATCATTAATAACTTAGTAGTAAATCATTGATAACTTATTATAAATCACTAATAAC
Found at i:7685556 original size:52 final size:52
Alignment explanation
Indices: 7685492--7685592 Score: 202
Period size: 52 Copynumber: 1.9 Consensus size: 52
7685482 AAAATTACCA
7685492 AATATATTGTAATTAATTGATAAAATTAATAGTAAACCATAAATAACTTGGT
1 AATATATTGTAATTAATTGATAAAATTAATAGTAAACCATAAATAACTTGGT
7685544 AATATATTGTAATTAATTGATAAAATTAATAGTAAACCATAAATAACTT
1 AATATATTGTAATTAATTGATAAAATTAATAGTAAACCATAAATAACTT
7685593 AGTAGTAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.37
Consensus pattern (52 bp):
AATATATTGTAATTAATTGATAAAATTAATAGTAAACCATAAATAACTTGGT
Found at i:7685633 original size:22 final size:22
Alignment explanation
Indices: 7685585--7685637 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
7685575 GTAAACCATA
*
7685585 AATAACTTAGTAGTAATTCAAT
1 AATAACTTAGTAGTAAATCAAT
*
7685607 AATAATTTAGTAGTAAAT-AATT
1 AATAACTTAGTAGTAAATCAA-T
*
7685629 GATAACTTA
1 AATAACTTA
7685638 ATAGCTAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (22 bp):
AATAACTTAGTAGTAAATCAAT
Found at i:7685752 original size:22 final size:22
Alignment explanation
Indices: 7685689--7685758 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
7685679 AGTAAATGCA
* *
7685689 TAATAATATAATAGTAAGTCAC
1 TAATAATATAGTAATAAGTCAC
* * *
7685711 T-A-AATTTAGCAATAAATCAC
1 TAATAATATAGTAATAAGTCAC
*
7685731 TAATAATGTAGTAATAAGTCAC
1 TAATAATATAGTAATAAGTCAC
*
7685753 TTATAA
1 TAATAA
7685759 CTTAGTTATA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
20 14 0.38
21 2 0.05
22 21 0.57
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (22 bp):
TAATAATATAGTAATAAGTCAC
Found at i:7685764 original size:22 final size:21
Alignment explanation
Indices: 7685703--7685769 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
7685693 AATATAATAG
*
7685703 TAAGTCAC-TA-AATTTAGCAA
1 TAAGTCACTTATAA-TTAGTAA
* *
7685723 TAAATCACTAATAATGTAGTAA
1 TAAGTCACTTATAAT-TAGTAA
*
7685745 TAAGTCACTTATAACTTAGTTA
1 TAAGTCACTTATAA-TTAGTAA
7685767 TAA
1 TAA
7685770 ATTAATCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.19
21 2 0.05
22 27 0.73
23 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (21 bp):
TAAGTCACTTATAATTAGTAA
Found at i:7685811 original size:22 final size:22
Alignment explanation
Indices: 7685786--7685875 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 22
7685776 CATAATTTTG
* *
7685786 TAGTAAATCATCGATAACTTCA
1 TAGTAAATCATCTATAACTTAA
* *
7685808 TAGTAAATTAGT-TATAACTTTA
1 TAGTAAATCA-TCTATAACTTAA
* * *
7685830 TAATAAATTATCAATAACTTAA
1 TAGTAAATCATCTATAACTTAA
* *
7685852 TACTAAATCATTTATAACTTAA
1 TAGTAAATCATCTATAACTTAA
7685874 TA
1 TA
7685876 ATTAATAACT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 1 0.02
22 54 0.96
23 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
TAGTAAATCATCTATAACTTAA
Found at i:7685815 original size:44 final size:44
Alignment explanation
Indices: 7685767--7685877 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
7685757 AACTTAGTTA
* * * * * *
7685767 TAAATTAATCATAATTTTGTAGTAAATCATCGATAACTTCATAG
1 TAAATTAATCATAACTTTATAATAAATCATCAATAACTTAATAC
* * *
7685811 TAAATTAGTTATAACTTTATAATAAATTATCAATAACTTAATAC
1 TAAATTAATCATAACTTTATAATAAATCATCAATAACTTAATAC
* * * *
7685855 TAAATCATTTATAACTTAATAAT
1 TAAATTAATCATAACTTTATAAT
7685878 TAATAACTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.41
Consensus pattern (44 bp):
TAAATTAATCATAACTTTATAATAAATCATCAATAACTTAATAC
Found at i:7685885 original size:15 final size:15
Alignment explanation
Indices: 7685842--7685892 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
7685832 ATAAATTATC
*
7685842 AATAACTTAAT-ACTA
1 AATAA-TTAATAACTT
* *
7685857 AATCATTTATAACTT
1 AATAATTAATAACTT
7685872 AATAATTAATAACTT
1 AATAATTAATAACTT
7685887 AATAAT
1 AATAAT
7685893 AAACCACTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAATTAATAACTT
Found at i:7685885 original size:37 final size:37
Alignment explanation
Indices: 7685842--7685914 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
7685832 ATAAATTATC
* * * * *
7685842 AATAACTTAATACTAAATCATTTATAACTTAATAATT
1 AATAACTTAATAATAAACCACTGATAACATAATAATT
7685879 AATAACTTAATAATAAACCACTGATAACATAATAAT
1 AATAACTTAATAATAAACCACTGATAACATAATAAT
7685915 AAATCAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.34
Consensus pattern (37 bp):
AATAACTTAATAATAAACCACTGATAACATAATAATT
Found at i:7685933 original size:22 final size:22
Alignment explanation
Indices: 7685878--7685933 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7685868 ACTTAATAAT
7685878 TAATAACTTAATAATAAACCAC
1 TAATAACTTAATAATAAACCAC
* * * *
7685900 TGATAACATAATAATAAATCAG
1 TAATAACTTAATAATAAACCAC
*
7685922 TAATGACTTAAT
1 TAATAACTTAAT
7685934 TGTTAATTCA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.30
Consensus pattern (22 bp):
TAATAACTTAATAATAAACCAC
Found at i:7686221 original size:22 final size:22
Alignment explanation
Indices: 7686179--7686221 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7686169 TCTAAATAAC
* * *
7686179 TTAATAGTAAATTATTCATATT
1 TTAATAATAAATTAGTAATATT
7686201 TTAATAATAAATTAGTAATAT
1 TTAATAATAAATTAGTAATAT
7686222 AACTTAACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
TTAATAATAAATTAGTAATATT
Found at i:7688070 original size:2 final size:2
Alignment explanation
Indices: 7688063--7688099 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7688053 AACTAAAACT
7688063 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
7688100 TCCTCTCCGG
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:7699725 original size:16 final size:18
Alignment explanation
Indices: 7699700--7699732 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7699690 AAAGATGAAA
7699700 AAAAATAA-GGATTAGAG
1 AAAAATAAGGGATTAGAG
7699717 AAAAA-AAGGGATTAGA
1 AAAAATAAGGGATTAGA
7699733 AGAAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (18 bp):
AAAAATAAGGGATTAGAG
Found at i:7701554 original size:24 final size:25
Alignment explanation
Indices: 7701522--7701572 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
7701512 AAAAGTTTAT
*
7701522 ATTTGATACATTATTAGTGTAT-AG
1 ATTTGATACATTATCAGTGTATCAG
*
7701546 ATTTTATACATTATCAGTGTATCAG
1 ATTTGATACATTATCAGTGTATCAG
7701571 AT
1 AT
7701573 GATGATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTTGATACATTATCAGTGTATCAG
Found at i:7703744 original size:39 final size:39
Alignment explanation
Indices: 7703659--7703746 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 39
7703649 ATTAGGTAGG
* ** **
7703659 GAGGGATTGGGTGTGGTGGGGTATTGGGGGGAAGGTGGG
1 GAGGGATTGGGTGTGGTGGGATATTGGAAGGAAGGTGAA
* *
7703698 GAAGGATTGGGTGTGGTGGGATGTTGGAAGGAAGGTGAA
1 GAGGGATTGGGTGTGGTGGGATATTGGAAGGAAGGTGAA
7703737 GAGGGATTGG
1 GAGGGATTGG
7703747 ATTGGGGTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.19, C:0.00, G:0.58, T:0.23
Consensus pattern (39 bp):
GAGGGATTGGGTGTGGTGGGATATTGGAAGGAAGGTGAA
Found at i:7704276 original size:25 final size:27
Alignment explanation
Indices: 7704246--7704295 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
7704236 TAAAAAATAA
*
7704246 AAAATATAGGTTT-AAAAA-TTTTATT
1 AAAATATAAGTTTGAAAAACTTTTATT
7704271 AAAATATAAGTTTGAAAAACTTTTA
1 AAAATATAAGTTTGAAAAACTTTTA
7704296 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 5 0.23
27 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (27 bp):
AAAATATAAGTTTGAAAAACTTTTATT
Found at i:7708231 original size:18 final size:18
Alignment explanation
Indices: 7708208--7708262 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
7708198 CTCATGGTTA
7708208 TCCACCTCAAATGTATCTTTC
1 TCCACCTCAAATGTATC---C
* * *
7708229 ACCTCCTCAAATATATCC
1 TCCACCTCAAATGTATCC
7708247 TCCACCTCAAATGTAT
1 TCCACCTCAAATGTAT
7708263 TAGTTACCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 14 0.50
21 14 0.50
ACGTcount: A:0.29, C:0.35, G:0.04, T:0.33
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:7708238 original size:21 final size:21
Alignment explanation
Indices: 7708212--7708254 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7708202 TGGTTATCCA
* * *
7708212 CCTCAAATGTATCTTTCACCT
1 CCTCAAATATATCCTCCACCT
7708233 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
7708254 C
1 C
7708255 AAATGTATTA
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:0.26, C:0.40, G:0.02, T:0.33
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:7708309 original size:18 final size:18
Alignment explanation
Indices: 7708233--7708314 Score: 64
Period size: 18 Copynumber: 4.7 Consensus size: 18
7708223 TCTTTCACCT
* *
7708233 CCTCAAATATATCCTCCA
1 CCTCAAATGTATCCTCTA
**
7708251 CCTCAAATGTATTAGT-TA
1 CCTCAAATGTA-TCCTCTA
* *
7708269 CCACAAATGTATCATCT-
1 CCTCAAATGTATCCTCTA
*
7708286 --TCAAATATATCCTCTA
1 CCTCAAATGTATCCTCTA
7708302 CCTCAAATGTATC
1 CCTCAAATGTATC
7708315 AAGAACAAAG
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
15 12 0.25
17 2 0.04
18 32 0.67
19 2 0.04
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (18 bp):
CCTCAAATGTATCCTCTA
Found at i:7708709 original size:6 final size:6
Alignment explanation
Indices: 7708698--7708728 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
7708688 ATAAGAGTTT
7708698 TTATAA TTATAA TTATAA TTATAA TTATAA T
1 TTATAA TTATAA TTATAA TTATAA TTATAA T
7708729 ATTTTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:7712147 original size:34 final size:34
Alignment explanation
Indices: 7712109--7712179 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
7712099 TTATTGTATT
7712109 TTGGATCAAATCCCTAAACTTCTTGTCTGATTTG
1 TTGGATCAAATCCCTAAACTTCTTGTCTGATTTG
7712143 TTGGATCAAATCCCTAAACTTCTTGTCTGATTTG
1 TTGGATCAAATCCCTAAACTTCTTGTCTGATTTG
7712177 TTG
1 TTG
7712180 CTACCGCCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (34 bp):
TTGGATCAAATCCCTAAACTTCTTGTCTGATTTG
Found at i:7713090 original size:35 final size:35
Alignment explanation
Indices: 7713050--7713124 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
7713040 ACCGTTAAAT
** *
7713050 GTTAAAATGTAGTAGTGCTTTCTATTATAAATGCC
1 GTTAAAATGTAGTAGCACTTTCTATTATAAAAGCC
* *
7713085 GTT-AAATTTAGTGGCACTTTCTATTATAAAAGCC
1 GTTAAAATGTAGTAGCACTTTCTATTATAAAAGCC
*
7713119 ATTAAA
1 GTTAAA
7713125 TTTAGTGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
34 28 0.85
35 5 0.15
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.39
Consensus pattern (35 bp):
GTTAAAATGTAGTAGCACTTTCTATTATAAAAGCC
Found at i:7713106 original size:34 final size:34
Alignment explanation
Indices: 7713067--7713132 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
7713057 TGTAGTAGTG
* *
7713067 CTTTCTATTATAAATGCCGTTAAATTTAGTGGCA
1 CTTTCTATTATAAAAGCCATTAAATTTAGTGGCA
7713101 CTTTCTATTATAAAAGCCATTAAATTTAGTGG
1 CTTTCTATTATAAAAGCCATTAAATTTAGTGG
7713133 TATTTTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (34 bp):
CTTTCTATTATAAAAGCCATTAAATTTAGTGGCA
Found at i:7727323 original size:12 final size:12
Alignment explanation
Indices: 7727294--7727333 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 12
7727284 TTATAAAATT
7727294 TTAAAATTT-AA
1 TTAAAATTTAAA
*
7727305 TTCAAATTTAAA
1 TTAAAATTTAAA
7727317 TTAAAATTTTAAA
1 TTAAAA-TTTAAA
7727330 TTAA
1 TTAA
7727334 TTCAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 8 0.32
12 7 0.28
13 10 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAAAATTTAAA
Found at i:7727428 original size:21 final size:24
Alignment explanation
Indices: 7727388--7727446 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 24
7727378 TTTTAACTTT
*
7727388 TAAAATTTTTATATATTATTTTAA
1 TAAAATTTTTATATATTATTTAAA
7727412 TAAAA-TTTTA-ATA-TATTTAAA
1 TAAAATTTTTATATATTATTTAAA
*
7727433 T-AAATTTATATATA
1 TAAAATTTTTATATA
7727447 AAATAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 3 0.10
21 12 0.39
22 6 0.19
23 5 0.16
24 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAAATTTTTATATATTATTTAAA
Found at i:7727445 original size:20 final size:21
Alignment explanation
Indices: 7727395--7727446 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
7727385 TTTTAAAATT
*
7727395 TTTATATATTATTTTAATAAAA
1 TTTATATA-TATTTAAATAAAA
7727417 TTT-TAATATATTTAAAT-AAA
1 TTTAT-ATATATTTAAATAAAA
7727437 TTTATATATA
1 TTTATATATA
7727447 AAATAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTATATATATTTAAATAAAA
Found at i:7727505 original size:19 final size:19
Alignment explanation
Indices: 7727465--7727507 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7727455 ATTTTTATTT
* *
7727465 TATAAAAATTTTAAATATA
1 TATAAAAATTATAAATACA
7727484 TATAAAAATTAATAAA-ACA
1 TATAAAAATT-ATAAATACA
7727503 TATAA
1 TATAA
7727508 TTTAATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAAAATTATAAATACA
Found at i:7732276 original size:15 final size:16
Alignment explanation
Indices: 7732250--7732279 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7732240 ACGATAATTT
7732250 AATATAAAATATATAC
1 AATATAAAATATATAC
7732266 AATAT-AAATATATA
1 AATATAAAATATATA
7732280 AATTATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAAAATATATAC
Found at i:7738776 original size:3 final size:3
Alignment explanation
Indices: 7738768--7738802 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7738758 TTAAAAAATT
7738768 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7738803 TTGTATACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7738866 original size:17 final size:17
Alignment explanation
Indices: 7738833--7738874 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7738823 TCCACAATCA
*
7738833 AAATAAATAGTATAAAAT
1 AAATAAA-AGCATAAAAT
7738851 AAATAAAAGCATAAAAT
1 AAATAAAAGCATAAAAT
7738868 AAA-AAAA
1 AAATAAAA
7738875 AATTACCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAAAGCATAAAAT
Found at i:7740012 original size:24 final size:24
Alignment explanation
Indices: 7739985--7740030 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7739975 TTATCAAAGT
* * *
7739985 TTGTTGGGTGACCGTGGGTTTTGA
1 TTGTTAGGTGACAGTGGATTTTGA
7740009 TTGTTAGGTGACAGTGGATTTT
1 TTGTTAGGTGACAGTGGATTTT
7740031 AGTTATTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.07, G:0.37, T:0.43
Consensus pattern (24 bp):
TTGTTAGGTGACAGTGGATTTTGA
Found at i:7740599 original size:37 final size:34
Alignment explanation
Indices: 7740550--7740661 Score: 97
Period size: 37 Copynumber: 3.2 Consensus size: 34
7740540 AGATAAATGG
7740550 AATATAAA-ATAAAGATAAAACAACAAAACAAAAAA
1 AATA-AAAGATAAAGATAAAACAA-AAAACAAAAAA
* *
7740585 AATCACAAATATAAAGATAAATACAAAAAATAAAATAA
1 AAT-A-AAAGATAAAGATAAA-ACAAAAAACAAAA-AA
*
7740623 AATAAAAGATAAA-A-AATAACAATAAAAC-TAAAA
1 AATAAAAGATAAAGATAA-AACAA-AAAACAAAAAA
7740656 AATAAA
1 AATAAA
7740662 TATAAAATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
33 8 0.12
34 8 0.12
35 9 0.14
36 12 0.18
37 20 0.30
38 9 0.14
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (34 bp):
AATAAAAGATAAAGATAAAACAAAAAACAAAAAA
Found at i:7740619 original size:6 final size:6
Alignment explanation
Indices: 7740610--7740668 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
7740600 GATAAATACA
* *
7740610 AAAAAT -AAAAT -AAAAT AAAAGAT AAAAAAT AACAAT AAAACT AAAAAAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT -AAAAAT AAAAAT AAAAAT -AAAAAT
*
7740659 AAATAT AAAA
1 AAAAAT AAAA
7740669 TTTGGCGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 10 0.23
6 20 0.47
7 9 0.21
8 4 0.09
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:7740647 original size:30 final size:28
Alignment explanation
Indices: 7740553--7740655 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 28
7740543 TAAATGGAAT
* *
7740553 ATAAAATAAAGATAAAACA-ACAAAACAAA
1 ATAAAATAAA-ATAAAAGATA-AAAAAAAA
7740582 A-AAAATCACAAATATAAAGATAAATACAAAAA
1 ATAAAAT-A-AAATA-AAAGATAAA-A-AAAAA
7740614 ATAAAATAAAATAAAAGATAAAAAATAACA
1 ATAAAATAAAATAAAAGATAAAAAA-AA-A
7740644 ATAAAACTAAAA
1 ATAAAA-TAAAA
7740656 AATAAATATA
Statistics
Matches: 62, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
28 7 0.11
29 8 0.13
30 24 0.39
31 12 0.19
32 6 0.10
33 5 0.08
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.15
Consensus pattern (28 bp):
ATAAAATAAAATAAAAGATAAAAAAAAA
Found at i:7740648 original size:20 final size:18
Alignment explanation
Indices: 7740603--7740668 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 18
7740593 ATATAAAGAT
7740603 AAATACAAAA-AATAAAATA
1 AAATA-AAAATAA-AAAATA
7740622 AAATAAAAGATAAAAAATA
1 AAATAAAA-ATAAAAAATA
*
7740641 ACAATAAAACTAAAAAATA
1 A-AATAAAAATAAAAAATA
7740660 AATATAAAA
1 AA-ATAAAA
7740669 TTTGGCGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
18 4 0.10
19 29 0.69
20 9 0.21
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATAAAAATAAAAAATA
Found at i:7741157 original size:32 final size:33
Alignment explanation
Indices: 7741116--7741190 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 33
7741106 AAGTAAAAAA
* * *
7741116 AAAAAAATGATATGACTTAGACTTAG-CCAAGT
1 AAAAAAATGATATAACTCAAACTTAGTCCAAGT
*
7741148 AAAAAAATGATATAACTCAAACTTAGTCGAAGT
1 AAAAAAATGATATAACTCAAACTTAGTCCAAGT
*
7741181 AAAAATATGA
1 AAAAAAATGA
7741191 GAGTGATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 23 0.62
33 14 0.38
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (33 bp):
AAAAAAATGATATAACTCAAACTTAGTCCAAGT
Found at i:7741572 original size:22 final size:22
Alignment explanation
Indices: 7741530--7741572 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7741520 GGGGTTTTGA
*
7741530 AGATTATGCTTGGAAGTCTTAT
1 AGATTATGCTTGGAAGCCTTAT
* *
7741552 AGATTTTGCTTGGAGGCCTTA
1 AGATTATGCTTGGAAGCCTTA
7741573 CAAATCCTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.40
Consensus pattern (22 bp):
AGATTATGCTTGGAAGCCTTAT
Found at i:7745306 original size:17 final size:17
Alignment explanation
Indices: 7745274--7745317 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
7745264 ACAAGGTGGA
7745274 AAAT-AAATAA-AATGT
1 AAATAAAATAATAATGT
7745289 AAATAAAATAATAATGT
1 AAATAAAATAATAATGT
*
7745306 AAACAAAATAAT
1 AAATAAAATAAT
7745318 CTTTAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 16 0.62
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (17 bp):
AAATAAAATAATAATGT
Found at i:7750869 original size:20 final size:20
Alignment explanation
Indices: 7750825--7750876 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
7750815 ATAAGTGTAG
* *
7750825 AAATAAAAATAAAAGATACA
1 AAATAAAAATAAAAAATAAA
* *
7750845 TAATAACAATAAAAAATAAA
1 AAATAAAAATAAAAAATAAA
*
7750865 AAATAAATATAA
1 AAATAAAAATAA
7750877 GATTTGGCAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAAAAAATAAA
Found at i:7751503 original size:2 final size:2
Alignment explanation
Indices: 7751453--7751484 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7751443 ACATACAATC
7751453 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
7751485 TCCAAAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7752861 original size:15 final size:14
Alignment explanation
Indices: 7752841--7752886 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
7752831 TAAATAGTAT
7752841 TAAAAAATCATAAAA
1 TAAAAAAT-ATAAAA
*
7752856 TAAAAAATATACAA
1 TAAAAAATATAAAA
7752870 TAAAAAA-AT-AAA
1 TAAAAAATATAAAA
7752882 TAAAA
1 TAAAA
7752887 TTTTGTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 7 0.24
13 2 0.07
14 12 0.41
15 8 0.28
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAAAAATATAAAA
Found at i:7753320 original size:24 final size:22
Alignment explanation
Indices: 7753265--7753323 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
7753255 TTTTTCTTTC
7753265 TTTTTTT-TTTTTAATTATGTA
1 TTTTTTTATTTTTAATTATGTA
* *
7753286 TTGTTATTATTTTTAGTTAATGTA
1 TT-TTTTTATTTTTAATT-ATGTA
7753310 TTTTTTCTATTTTT
1 TTTTTT-TATTTTT
7753324 GTTGATAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.06
22 4 0.13
23 11 0.35
24 14 0.45
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTTTTATTTTTAATTATGTA
Found at i:7754770 original size:17 final size:17
Alignment explanation
Indices: 7754736--7754786 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
7754726 GTAATTAATA
*
7754736 AAAATTTAA-AATATAAT
1 AAAATATAATAATA-AAT
* * *
7754753 AATATTTAATATTAAAT
1 AAAATATAATAATAAAT
7754770 AAAATATAATAATAAAT
1 AAAATATAATAATAAAT
7754787 TTGAGTTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATATAATAATAAAT
Found at i:7756570 original size:14 final size:16
Alignment explanation
Indices: 7756537--7756584 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 16
7756527 TTCTTAATAA
*
7756537 TTTAAATATATGACAT
1 TTTAAATATATGAAAT
7756553 TTTAAAT-T-TGAAAT
1 TTTAAATATATGAAAT
7756567 TTTAAA-ATAT-AAAT
1 TTTAAATATATGAAAT
7756581 TTTA
1 TTTA
7756585 TTTTTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 20 0.69
15 2 0.07
16 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (16 bp):
TTTAAATATATGAAAT
Found at i:7757245 original size:15 final size:16
Alignment explanation
Indices: 7757224--7757265 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
7757214 TTTATTTGAA
7757224 ATTAATTTTTTATAAT
1 ATTAATTTTTTATAAT
7757240 -TTAATTCTTTTATAAT
1 ATTAATT-TTTTATAAT
7757256 ATT-ATTTTTT
1 ATTAATTTTTT
7757266 TTGGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.42
16 12 0.50
17 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTAATTTTTTATAAT
Found at i:7757874 original size:27 final size:27
Alignment explanation
Indices: 7757812--7757875 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 27
7757802 ATTTTTTTTC
*
7757812 AAATATTATTA-TATATTTTGAACTTTT
1 AAATA-TATTATTATATTTTGAACTCTT
*
7757839 TAAT-T-TTATTATATTTTGATA-TCTT
1 AAATATATTATTATATTTTGA-ACTCTT
7757864 AAATATATTATT
1 AAATATATTATT
7757876 TATAATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
24 3 0.10
25 17 0.57
26 2 0.07
27 8 0.27
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (27 bp):
AAATATATTATTATATTTTGAACTCTT
Found at i:7769101 original size:16 final size:16
Alignment explanation
Indices: 7769073--7769105 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7769063 TTAATTAAAA
7769073 TTTTAATTCATATTAT
1 TTTTAATTCATATTAT
7769089 TTTTATATT-ATATTAT
1 TTTTA-ATTCATATTAT
7769105 T
1 T
7769106 GTATTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAATTCATATTAT
Found at i:7771211 original size:2 final size:2
Alignment explanation
Indices: 7771204--7771235 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7771194 TGTATCCAGC
7771204 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7771236 TAATTGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7775691 original size:19 final size:20
Alignment explanation
Indices: 7775667--7775705 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7775657 CAACCCGCTT
*
7775667 CTTCC-TTTCTTTAAAAAAA
1 CTTCCTTTTCTCTAAAAAAA
7775686 CTTCCTTTTCTCTAAAAAAA
1 CTTCCTTTTCTCTAAAAAAA
7775706 GCAAAAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTCCTTTTCTCTAAAAAAA
Found at i:7777162 original size:15 final size:14
Alignment explanation
Indices: 7777142--7777188 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
7777132 TTAAAATAAC
7777142 AAATAAATAAACAAA
1 AAATAAATAAA-AAA
*
7777157 AAATAAATAAAATA
1 AAATAAATAAAAAA
7777171 AAATAAAATAAATAAA
1 AAAT-AAATAAA-AAA
7777187 AA
1 AA
7777189 CTTGTGATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 18 0.64
16 4 0.14
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATAAATAAAAAA
Found at i:7777170 original size:9 final size:9
Alignment explanation
Indices: 7777156--7777187 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
7777146 AAATAAACAA
7777156 AAAATAAAT
1 AAAATAAAT
7777165 AAAATAAAAT
1 AAAAT-AAAT
7777175 AAAATAAAT
1 AAAATAAAT
7777184 AAAA
1 AAAA
7777188 ACTTGTGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:7777187 original size:19 final size:20
Alignment explanation
Indices: 7777142--7777187 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
7777132 TTAAAATAAC
7777142 AAAT-AAATAAACAAAAAAT
1 AAATAAAATAAACAAAAAAT
*
7777161 AAATAAAATAAA-ATAAAAT
1 AAATAAAATAAACAAAAAAT
7777180 AAATAAAA
1 AAATAAAA
7777188 ACTTGTGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAATAAACAAAAAAT
Found at i:7777623 original size:29 final size:29
Alignment explanation
Indices: 7777564--7777623 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
7777554 TAGAAAATCT
* * * **
7777564 AAAAATTCAACCTAATCTTAAAAATTCAA
1 AAAAATTCAACCAAAGCCTAAAAATAAAA
*
7777593 AAAAATTCAACCAAAGCCTAGAAATAAAA
1 AAAAATTCAACCAAAGCCTAAAAATAAAA
7777622 AA
1 AA
7777624 TCCTAAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.60, C:0.17, G:0.03, T:0.20
Consensus pattern (29 bp):
AAAAATTCAACCAAAGCCTAAAAATAAAA
Found at i:7779292 original size:15 final size:15
Alignment explanation
Indices: 7779272--7779304 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7779262 TTAAAAAAAT
7779272 ATTTTTATTAATTCA
1 ATTTTTATTAATTCA
*
7779287 ATTTTTATTAATTTA
1 ATTTTTATTAATTCA
7779302 ATT
1 ATT
7779305 AATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTTATTAATTCA
Found at i:7781682 original size:15 final size:16
Alignment explanation
Indices: 7781650--7781682 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7781640 AACCTATGAA
7781650 CAAAATACTTGAAGTTC
1 CAAAATACTT-AAGTTC
7781667 CAAAATACTT-AGTTC
1 CAAAATACTTAAGTTC
7781682 C
1 C
7781683 CTGAGTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (16 bp):
CAAAATACTTAAGTTC
Found at i:7786067 original size:30 final size:30
Alignment explanation
Indices: 7785992--7786067 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
7785982 TTATACAATC
* * * *
7785992 CAAATAAACTTTTAAACTTTAATTTATATT
1 CAAATAAACTCTTAACCTTCAATTCATATT
7786022 CAAATAAA-TCTTTAACCTTCAATTCATATT
1 CAAATAAACTC-TTAACCTTCAATTCATATT
*
7786052 TAAATAAACTCTTAAC
1 CAAATAAACTCTTAAC
7786068 ATAAATCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 36 0.92
31 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (30 bp):
CAAATAAACTCTTAACCTTCAATTCATATT
Found at i:7788298 original size:15 final size:16
Alignment explanation
Indices: 7788266--7788298 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7788256 AACCTATGAA
7788266 CAAAATACTTGAAGTTC
1 CAAAATACTT-AAGTTC
7788283 CAAAATACTT-AGTTC
1 CAAAATACTTAAGTTC
7788298 C
1 C
7788299 CTGAGTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (16 bp):
CAAAATACTTAAGTTC
Done.