Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 150 of 195
Found at i:25229145 original size:22 final size:22
Alignment explanation
Indices: 25229117--25229199 Score: 59
Period size: 27 Copynumber: 3.7 Consensus size: 22
25229107 AGCATATTTA
25229117 TTTTTAATATAAATTATAACTTT
1 TTTTTAATATAAATTATAAC-TT
25229140 TTTTAAAATAATATAAATTATAAC-T
1 TTTT----TAATATAAATTATAACTT
**
25229165 TAATTATATATAAATT-TAA-TT
1 TTTTTA-ATATAAATTATAACTT
25229186 TTTTT-AT-TAAATTA
1 TTTTTAATATAAATTA
25229200 AAATATTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
18 6 0.12
19 2 0.04
21 9 0.18
22 9 0.18
23 4 0.08
25 3 0.06
27 16 0.33
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTAATATAAATTATAACTT
Found at i:25229234 original size:29 final size:28
Alignment explanation
Indices: 25229172--25229238 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
25229162 ACTTAATTAT
*
25229172 ATATAAATTTAATTTTTTTATTAAATTAAA
1 ATATAAA--TAATATTTTTATTAAATTAAA
*
25229202 ATATTAAATAATATTTTTATT-AATATAAT
1 ATA-TAAATAATATTTTTATTAAAT-TAAA
25229231 ATATAAAT
1 ATATAAAT
25229239 CTAAATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 8 0.24
29 18 0.55
30 3 0.09
31 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATATAAATAATATTTTTATTAAATTAAA
Found at i:25229789 original size:24 final size:24
Alignment explanation
Indices: 25229740--25229786 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25229730 AGGATAAGAA
** *
25229740 TTATTTTTTTATTTTTATTTTAAT
1 TTATTTTTTTATTTAAAATTTAAT
25229764 TTATTTTTTTATTATAAAATTTA
1 TTATTTTTTTATT-TAAAATTTA
25229787 TTTCATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTATTTTTTTATTTAAAATTTAAT
Found at i:25230517 original size:26 final size:25
Alignment explanation
Indices: 25230470--25230519 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
25230460 AAAAAAGATT
* *
25230470 AAAAAAAGAAAACAGGAAAAGTGAA
1 AAAAAAAAAAAACAAGAAAAGTGAA
*
25230495 AAAAAAAAAAAAGAAGAATAAGTGA
1 AAAAAAAAAAAACAAGAA-AAGTGA
25230520 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (25 bp):
AAAAAAAAAAAACAAGAAAAGTGAA
Found at i:25230816 original size:16 final size:17
Alignment explanation
Indices: 25230787--25230825 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
25230777 AGTATAAACT
* *
25230787 AAAATATATAAAAATAA
1 AAAATACATAAAAACAA
25230804 AAAATACAT-AAAACAA
1 AAAATACATAAAAACAA
25230820 AAAATA
1 AAAATA
25230826 AAATTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATACATAAAAACAA
Found at i:25230996 original size:3 final size:3
Alignment explanation
Indices: 25230988--25231026 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
25230978 ATGAAAAATT
*
25230988 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25231027 TATTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25231465 original size:25 final size:23
Alignment explanation
Indices: 25231413--25231465 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
25231403 TAATGACACT
*
25231413 TTTTCTTTTTTTCTTTTTGGTATT
1 TTTTCTTTTTTTCTTTTT-GTATA
25231437 TTTTCATTTTTTTCTCGTTTT-TATA
1 TTTTC-TTTTTTTCT--TTTTGTATA
25231462 TTTT
1 TTTT
25231466 ATAAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 5 0.20
25 16 0.64
27 4 0.16
ACGTcount: A:0.08, C:0.09, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTCTTTTTTTCTTTTTGTATA
Found at i:25232026 original size:8 final size:8
Alignment explanation
Indices: 25231995--25232050 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
25231985 TATGAGTTTT
25231995 TTTTTTAA
1 TTTTTTAA
25232003 -TTTTTAA
1 TTTTTTAA
*
25232010 TTTTGTTTAC
1 -TTT-TTTAA
25232020 TTTTTTAA
1 TTTTTTAA
25232028 TTTTTTACAAA
1 TTTTTT---AA
25232039 TTTTTTAA
1 TTTTTTAA
25232047 TTTT
1 TTTT
25232051 AAAAACTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 7 0.17
8 16 0.40
9 5 0.12
10 4 0.10
11 8 0.20
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:25233140 original size:24 final size:23
Alignment explanation
Indices: 25233092--25233156 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
25233082 CTTTTTTTTA
*
25233092 ATTTTTTTAAATATTTAATAAAT
1 ATTTTTTTAAATATTTAAAAAAT
25233115 ATTTTTTTAAA-ATTATAAAAATAT
1 ATTTTTTTAAATATT-TAAAAA-AT
*
25233139 ATATTTTCTTAAAGATTT
1 AT-TTTT-TTAAATATTT
25233157 TATTTTTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 3 0.08
23 16 0.44
24 4 0.11
25 4 0.11
26 6 0.17
27 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTTTTAAATATTTAAAAAAT
Found at i:25234607 original size:22 final size:23
Alignment explanation
Indices: 25234565--25234607 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25234555 CATTTTTTTA
25234565 TTTTTTTTACTTTTTAGAATTTC
1 TTTTTTTTACTTTTTAGAATTTC
25234588 TTTTGTTTTA-TTTTTA-AATT
1 TTTT-TTTTACTTTTTAGAATT
25234608 ATATATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (23 bp):
TTTTTTTTACTTTTTAGAATTTC
Found at i:25235561 original size:26 final size:25
Alignment explanation
Indices: 25235517--25235572 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
25235507 TTCTAATTTC
25235517 TTTTTTTTTTTTTTACTTTTT-ACA
1 TTTTTTTTTTTTTTACTTTTTGACA
* *
25235541 TTTTTTGTTTTTCTTTGCTTTTTGATA
1 TTTTTT-TTTTT-TTTACTTTTTGACA
25235568 TTTTT
1 TTTTT
25235573 AAATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 6 0.22
25 5 0.19
26 9 0.33
27 7 0.26
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.79
Consensus pattern (25 bp):
TTTTTTTTTTTTTTACTTTTTGACA
Found at i:25236557 original size:71 final size:67
Alignment explanation
Indices: 25236419--25236641 Score: 213
Period size: 71 Copynumber: 3.3 Consensus size: 67
25236409 AAGAACCATG
* * * *
25236419 TTTTTTATTTTAAAAACGTAATTTTTTTTAATTTTAGAATTTTAAAAATATAA-TTTCAATATCC
1 TTTTTTATTTTAAAAACAT-ATTTTTTTTAA-ATTAAAATTTTAAAAATA-AACTTTCAACATCC
25236483 ACTAT
63 ACTAT
* * *
25236488 TTTTTTATTTTAAAAACATATTTTTTGTTAAAAATTCATAATTTTAAAAATAAACTTTCAGCATT
1 TTTTTTATTTTAAAAACATATTTTTT-TT--AAATT-AAAATTTTAAAAATAAACTTTCAACATC
*
25236553 CACTAC
62 CACTAT
* * * * * *
25236559 TTTTTTATCTT-AAGA-ATGTTATTTTT--ATTAAAATTTTAAAAATATACTTTTAACATCCACT
1 TTTTTTATTTTAAAAACATATTTTTTTTAAATTAAAATTTTAAAAATAAACTTTCAACATCCACT
25236620 AT
66 AT
*
25236622 ATTTTTATTTTAAAAACATA
1 TTTTTTATTTTAAAAACATA
25236642 ATCCTTTTTC
Statistics
Matches: 126, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
63 37 0.29
64 6 0.05
65 2 0.02
68 9 0.07
69 27 0.21
70 7 0.06
71 38 0.30
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.50
Consensus pattern (67 bp):
TTTTTTATTTTAAAAACATATTTTTTTTAAATTAAAATTTTAAAAATAAACTTTCAACATCCACT
AT
Found at i:25236674 original size:105 final size:105
Alignment explanation
Indices: 25236560--25236748 Score: 288
Period size: 105 Copynumber: 1.8 Consensus size: 105
25236550 ATTCACTACT
* * * * * **
25236560 TTTTTATCTTAAGAATGTTATTTTTATTAAAATTTTAAAAATATACTTTTAACATCCACTATATT
1 TTTTTATCTTAAAAATATGATTTTCATTAAAATTGTAAAAATATAAGTTTAACATCCACTATATT
25236625 TTTATTTTAAAAACATAATCCTTTTTCAACATTTAATATA
66 TTTATTTTAAAAACATAATCCTTTTTCAACATTTAATATA
* * *
25236665 TTTTTATCTTAAAAATATGATTTTCATTAAAATTGTAAAAATATAAGTTTAATATTCACTATGTT
1 TTTTTATCTTAAAAATATGATTTTCATTAAAATTGTAAAAATATAAGTTTAACATCCACTATATT
25236730 TTTATTTTAAAAACATAAT
66 TTTATTTTAAAAACATAAT
25236749 ATTTGTTAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 74 1.00
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (105 bp):
TTTTTATCTTAAAAATATGATTTTCATTAAAATTGTAAAAATATAAGTTTAACATCCACTATATT
TTTATTTTAAAAACATAATCCTTTTTCAACATTTAATATA
Found at i:25236759 original size:18 final size:20
Alignment explanation
Indices: 25236736--25236780 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
25236726 TGTTTTTATT
25236736 TTAAAA-AC-ATAATATTTG
1 TTAAAATACTATAATATTTG
*
25236754 TTAAAATTCTATAATATTTG
1 TTAAAATACTATAATATTTG
25236774 TTAAAAT
1 TTAAAAT
25236781 TCTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 1 0.04
20 17 0.71
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (20 bp):
TTAAAATACTATAATATTTG
Found at i:25236769 original size:20 final size:20
Alignment explanation
Indices: 25236744--25236784 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25236734 TTTTAAAAAC
25236744 ATAATATTTGTTAAAATTCT
1 ATAATATTTGTTAAAATTCT
25236764 ATAATATTTGTTAAAATTCT
1 ATAATATTTGTTAAAATTCT
25236784 A
1 A
25236785 AAATTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
ATAATATTTGTTAAAATTCT
Found at i:25245945 original size:25 final size:27
Alignment explanation
Indices: 25245890--25245951 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
25245880 GGGATTAAAT
* *
25245890 ATTTTGTATTTTAAAATATAAATTATTTA
1 ATTTTTTATTTT-AAATAAAAATTA-TTA
25245919 ATTTTTTATTTT-AATAAAAATTA-TA
1 ATTTTTTATTTTAAATAAAAATTATTA
*
25245944 ATTATTTA
1 ATTTTTTA
25245952 ACTCACTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 9 0.30
27 10 0.33
29 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
ATTTTTTATTTTAAATAAAAATTATTA
Found at i:25246340 original size:61 final size:60
Alignment explanation
Indices: 25246167--25246359 Score: 158
Period size: 61 Copynumber: 3.1 Consensus size: 60
25246157 AAGGCAATTA
* * * * *
25246167 CGTAATTATGGTATAAAGAA-ATTATAGTAATTTTAGTTAATTATGGAAGGAGGGGTATTTT
1 CGTAATTATGATA-AAAGAATATTTTAGTAATTTTAGCTAATTAT-GTAGGAGAGGTATTTT
* * * * * * * * * *
25246228 TGTAAATATAACACAAGAGGTAGTTTAATAATTTT-GACCAATTATGCTAGGAGAGATATTTT
1 CGTAATTATGATAAAAGA-ATATTTTAGTAATTTTAG-CTAATTATG-TAGGAGAGGTATTTT
*
25246290 CGTAATTATGATAAAAGAATATTTTAGTAATTTTAGCTAATTATAGTAGGAAAGGTATTTAT
1 CGTAATTATGATAAAAGAATATTTTAGTAATTTTAGCTAATTAT-GTAGGAGAGGTATTT-T
25246352 -GTAATTAT
1 CGTAATTAT
25246360 AGTATAAGGA
Statistics
Matches: 99, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
60 4 0.04
61 50 0.51
62 45 0.45
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (60 bp):
CGTAATTATGATAAAAGAATATTTTAGTAATTTTAGCTAATTATGTAGGAGAGGTATTTT
Found at i:25246718 original size:128 final size:129
Alignment explanation
Indices: 25246518--25246821 Score: 350
Period size: 128 Copynumber: 2.4 Consensus size: 129
25246508 TTAATACATG
* * * *
25246518 TTAT-TTAACATTTAATAAGTAATTTAATAGGGATATTATAGTAA-ATTTAGAACAAAGTTCTAC
1 TTATGTTAAAATTTAATAAGTAATTTAATAAGG-TATTATAGTAATTTTTAGAACAAAATTCTAC
* * * * ** * *
25246581 ATGTTAAATTTTTATGAAGTAATGGCAAAGGTATTTTAGTAATTTAACATGT-AGTTAATTTTAT
65 AAGTCAAATTTTTATAAAGCAATGGCAAAGAAATTTTAATAATTTAACATATGA-TTAATTTTAT
25246645 A
129 A
* * * *
25246646 TTGTGTTAAAATTTCATATGTAATTTAATAAGGTATTATAGTAATTTTTA-AATAAAATATC-AC
1 TTATGTTAAAATTTAATAAGTAATTTAATAAGGTATTATAGTAATTTTTAGAACAAAAT-TCTAC
* *
25246709 AAGTCAAATTTTTATAAAGCAATGGTAAAGAAATTTTAATAATTTAATATATGATTAATTTTATA
65 AAGTCAAATTTTTATAAAGCAATGGCAAAGAAATTTTAATAATTTAACATATGATTAATTTTATA
*
25246774 TTATGTTAAAATTTAATACA-TAATTTAATAGATGTATTATAGTAATTT
1 TTATGTTAAAATTTAATA-AGTAATTTAATA-AGGTATTATAGTAATTT
25246822 GAAAAAAAAA
Statistics
Matches: 148, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
128 101 0.68
129 47 0.32
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (129 bp):
TTATGTTAAAATTTAATAAGTAATTTAATAAGGTATTATAGTAATTTTTAGAACAAAATTCTACA
AGTCAAATTTTTATAAAGCAATGGCAAAGAAATTTTAATAATTTAACATATGATTAATTTTATA
Found at i:25255602 original size:20 final size:22
Alignment explanation
Indices: 25255564--25255616 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
25255554 ATATTTAAAT
25255564 ATTTATAATATTATGTTTATGA
1 ATTTATAATATTATGTTTATGA
* **
25255586 ATTTA-AAT-TTATTTTTATTT
1 ATTTATAATATTATGTTTATGA
25255606 ATTT-TAATATT
1 ATTTATAATATT
25255617 TTTTATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 16 0.62
21 5 0.19
22 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
ATTTATAATATTATGTTTATGA
Found at i:25260631 original size:2 final size:2
Alignment explanation
Indices: 25260624--25260658 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25260614 AAAGTGATGA
25260624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25260659 GGTAAGGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25260890 original size:2 final size:2
Alignment explanation
Indices: 25260883--25260913 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25260873 GAAGAAGCAT
25260883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25260914 TCATCTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25263844 original size:2 final size:2
Alignment explanation
Indices: 25263831--25263897 Score: 75
Period size: 2 Copynumber: 34.5 Consensus size: 2
25263821 TGTTTTTATG
* * * *
25263831 TA TA TG TA TA TA TA -A AA TA TG TA TA TG TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
25263871 TA TA TA TA TA TA CA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
25263898 CTTAGTTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:25263853 original size:21 final size:21
Alignment explanation
Indices: 25263827--25263882 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
25263817 TCAATGTTTT
25263827 TATGTATATGTATATATAAAA
1 TATGTATATGTATATATAAAA
*
25263848 TATGTATATGTATATATAATA
1 TATGTATATGTATATATAAAA
* *
25263869 TATATATATATATA
1 TATGTATATGTATA
25263883 CATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
TATGTATATGTATATATAAAA
Found at i:25264056 original size:48 final size:48
Alignment explanation
Indices: 25264003--25264106 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
25263993 ATTAATAATT
25264003 TAATTTTGATATTGATATAATATAAATAAAA-TTTGATAACTTTTTATA
1 TAATTTTGATATTGATA-AATATAAATAAAATTTTGATAACTTTTTATA
* * * * *
25264051 TAATTTTGATTTTGATAACTTTTAATAAAATTTTGATAATTTTTTATA
1 TAATTTTGATATTGATAAATATAAATAAAATTTTGATAACTTTTTATA
*
25264099 AAATTTTG
1 TAATTTTG
25264107 GTAACCTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 10 0.20
48 39 0.80
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (48 bp):
TAATTTTGATATTGATAAATATAAATAAAATTTTGATAACTTTTTATA
Found at i:25264064 original size:27 final size:27
Alignment explanation
Indices: 25264034--25264087 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
25264024 ATAAATAAAA
* *
25264034 TTTGATAACTTTTTATATAATTTTGAT
1 TTTGATAACTTTTAATAAAATTTTGAT
25264061 TTTGATAACTTTTAATAAAATTTTGAT
1 TTTGATAACTTTTAATAAAATTTTGAT
25264088 AATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTGATAACTTTTAATAAAATTTTGAT
Found at i:25264083 original size:21 final size:21
Alignment explanation
Indices: 25264059--25264111 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
25264049 TATAATTTTG
25264059 ATTTTGATAACTTTTAATAAA
1 ATTTTGATAACTTTTAATAAA
* *
25264080 ATTTTGATAATTTTTTATAAA
1 ATTTTGATAACTTTTAATAAA
*
25264101 ATTTTGGTAAC
1 ATTTTGATAAC
25264112 CTCTTATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.51
Consensus pattern (21 bp):
ATTTTGATAACTTTTAATAAA
Found at i:25264118 original size:21 final size:21
Alignment explanation
Indices: 25264059--25264118 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
25264049 TATAATTTTG
*
25264059 ATTTTGATAA-CTTTTAATAAA
1 ATTTTGATAACCTCTT-ATAAA
** *
25264080 ATTTTGATAATTTTTTATAAA
1 ATTTTGATAACCTCTTATAAA
*
25264101 ATTTTGGTAACCTCTTAT
1 ATTTTGATAACCTCTTAT
25264119 GTAATTTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (21 bp):
ATTTTGATAACCTCTTATAAA
Found at i:25264458 original size:22 final size:22
Alignment explanation
Indices: 25264433--25264493 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
25264423 ATAATTGATA
** *
25264433 ATTAAGTTATCAATTTTTTACT
1 ATTAAGTTATCAATGATATACT
*
25264455 ATTAAGCTATCAATGATATACT
1 ATTAAGTTATCAATGATATACT
* *
25264477 ATTAATTTATGAATGAT
1 ATTAAGTTATCAATGAT
25264494 TTGCTACTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (22 bp):
ATTAAGTTATCAATGATATACT
Found at i:25264722 original size:44 final size:43
Alignment explanation
Indices: 25264654--25264817 Score: 136
Period size: 44 Copynumber: 3.8 Consensus size: 43
25264644 GATTAACTAG
* * * * *
25264654 TTTATTATTAAACTATCACTGATTTACAATTAAGTAATTAGTAT
1 TTTATTATTACATTATTAGTGATTTACAACTAAGTAATTA-TAT
* * * *
25264698 TTTAATATTACGTTATTAGTGATTTACTA-TAA--AATTATCAA
1 TTTATTATTACATTATTAGTGATTTACAACTAAGTAATTAT-AT
* * * * * *
25264739 TTTATTACTAAATTATTACTTATTTACAACTAAGTTATTAAAAT
1 TTTATTATTACATTATTAGTGATTTACAACTAAGTAATT-ATAT
*
25264783 TTTATTATTACATTATTAGTTATTTACAACTAAGT
1 TTTATTATTACATTATTAGTGATTTACAACTAAGT
25264818 TATCAATTTA
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
40 1 0.01
41 28 0.30
42 3 0.03
43 3 0.03
44 58 0.62
45 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (43 bp):
TTTATTATTACATTATTAGTGATTTACAACTAAGTAATTATAT
Found at i:25264723 original size:22 final size:22
Alignment explanation
Indices: 25264673--25264724 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
25264663 AAACTATCAC
25264673 TGATTTACAATTAAGTAATTAG
1 TGATTTACAATTAAGTAATTAG
* *
25264695 T-ATTTTA-ATATTACGTTATTAG
1 TGA-TTTACA-ATTAAGTAATTAG
25264717 TGATTTAC
1 TGATTTAC
25264725 TATAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
21 2 0.08
22 21 0.88
23 1 0.04
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (22 bp):
TGATTTACAATTAAGTAATTAG
Found at i:25264799 original size:85 final size:84
Alignment explanation
Indices: 25264654--25264849 Score: 232
Period size: 85 Copynumber: 2.3 Consensus size: 84
25264644 GATTAACTAG
* * ** *
25264654 TTTATTATTAAACTATCACTGATTTACAATTAAGTAATTAGTATTTTAATATTACGTTATTAGTG
1 TTTATTA-TAAATTATCACTGATTTACAACTAAGTAATTAAAATTTTAATATTACATTATTAGTG
*
25264719 ATTTACTA-TAAAATTATCAA
65 ATTTACAACT-AAATTATCAA
* * * * *
25264739 TTTATTACTAAATTATTACTTATTTACAACTAAGTTATTAAAATTTTATTATTACATTATTAGTT
1 TTTATTA-TAAATTATCACTGATTTACAACTAAGTAATTAAAATTTTAATATTACATTATTAGTG
*
25264804 ATTTACAACTAAGTTATCAA
65 ATTTACAACTAAATTATCAA
*
25264824 TTTATTTATAAATTATCAATGATTTA
1 TTTA-TTATAAATTATCACTGATTTA
25264850 TTATTATGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 89 0.96
86 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (84 bp):
TTTATTATAAATTATCACTGATTTACAACTAAGTAATTAAAATTTTAATATTACATTATTAGTGA
TTTACAACTAAATTATCAA
Found at i:25264820 original size:22 final size:21
Alignment explanation
Indices: 25264745--25264820 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 21
25264735 TCAATTTATT
*
25264745 ACTAAATTATTACTTATTTACA
1 ACTAAGTTATTA-TTATTTACA
** **
25264767 ACTAAGTTATTAAAATTTTATT
1 ACTAAGTTATTATTA-TTTACA
*
25264789 ATTACA-TTATTAGTTATTTACA
1 ACTA-AGTTATTA-TTATTTACA
25264811 ACTAAGTTAT
1 ACTAAGTTAT
25264821 CAATTTATTT
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.47
Consensus pattern (21 bp):
ACTAAGTTATTATTATTTACA
Found at i:25264820 original size:44 final size:44
Alignment explanation
Indices: 25264675--25264817 Score: 141
Period size: 44 Copynumber: 3.3 Consensus size: 44
25264665 ACTATCACTG
* ** * * *
25264675 ATTTACAATTAAGTAATTAGTATTTTAATATTACGTTATTAGTG
1 ATTTACAACTAAGTAATTAAAATTTTATTATTACATTATTAGTT
* * * * *
25264719 ATTTACTA-TAA--AATTATCAA-TTTATTACTAAATTATTACTT
1 ATTTACAACTAAGTAATTA-AAATTTTATTATTACATTATTAGTT
*
25264760 ATTTACAACTAAGTTATTAAAATTTTATTATTACATTATTAGTT
1 ATTTACAACTAAGTAATTAAAATTTTATTATTACATTATTAGTT
25264804 ATTTACAACTAAGT
1 ATTTACAACTAAGT
25264818 TATCAATTTA
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
41 27 0.34
42 4 0.05
43 5 0.06
44 43 0.54
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (44 bp):
ATTTACAACTAAGTAATTAAAATTTTATTATTACATTATTAGTT
Found at i:25264925 original size:22 final size:23
Alignment explanation
Indices: 25264900--25264959 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
25264890 TTTTCTATTT
25264900 AATTTTTAATT-ATTTATCACAA
1 AATTTTTAATTGATTTATCACAA
* * *
25264922 AATTATT-GTTGATTTATCACTA
1 AATTTTTAATTGATTTATCACAA
25264944 AATTATTT-A-TGATTTA
1 AATT-TTTAATTGATTTA
25264960 CCATCAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.52
Consensus pattern (23 bp):
AATTTTTAATTGATTTATCACAA
Found at i:25264968 original size:22 final size:22
Alignment explanation
Indices: 25264911--25264972 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
25264901 ATTTTTAATT
* *
25264911 ATTTATCACAAAATTATTGTTG
1 ATTTACCACTAAATTATTGTTG
*
25264933 ATTTATCACTAAATTATT-TATG
1 ATTTACCACTAAATTATTGT-TG
25264955 ATTTACCA-TCAAATTATT
1 ATTTACCACT-AAATTATT
25264973 ACTATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (22 bp):
ATTTACCACTAAATTATTGTTG
Found at i:25265000 original size:22 final size:21
Alignment explanation
Indices: 25264955--25265074 Score: 89
Period size: 22 Copynumber: 5.6 Consensus size: 21
25264945 ATTATTTATG
* * * *
25264955 ATTTACCATCAAATTATTACT
1 ATTTACTATTAAATTATCATT
**
25264976 ATTTTATATTAAATTATGCATT
1 ATTTACTATTAAATTAT-CATT
*
25264998 ATTTACTATTAAGTTATCATT
1 ATTTACTATTAAATTATCATT
* * *
25265019 GATTAACTGTTATATTATCAATT
1 -ATTTACTATTAAATTATC-ATT
*
25265042 ATTTACTATTAAGTTAT-ACTT
1 ATTTACTATTAAATTATCA-TT
*
25265063 ATTTACTTTTAA
1 ATTTACTATTAA
25265075 GTTTTCAATG
Statistics
Matches: 77, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.01
21 30 0.39
22 43 0.56
23 3 0.04
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTACTATTAAATTATCATT
Found at i:25265155 original size:22 final size:22
Alignment explanation
Indices: 25265130--25265210 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
25265120 ACAAATTTAC
* *
25265130 TATTAAATTATTACTAATGTAT
1 TATTAAGTTATCACTAATGTAT
* *
25265152 TATTAAGTTATCATTAATTTAT
1 TATTAAGTTATCACTAATGTAT
* *
25265174 TATTAAGTTATCAATAGT-TAAT
1 TATTAAGTTATCACTAATGT-AT
*
25265196 TATTAAGTTGTCACT
1 TATTAAGTTATCACT
25265211 TATTTTTTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
21 1 0.02
22 49 0.98
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.49
Consensus pattern (22 bp):
TATTAAGTTATCACTAATGTAT
Found at i:25265167 original size:11 final size:11
Alignment explanation
Indices: 25265153--25265204 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
25265143 CTAATGTATT
25265153 ATTAAGTTATC
1 ATTAAGTTATC
* *
25265164 ATTAATTTATT
1 ATTAAGTTATC
25265175 ATTAAGTTATC
1 ATTAAGTTATC
* *
25265186 AAT-AGTTAATT
1 ATTAAGTT-ATC
25265197 ATTAAGTT
1 ATTAAGTT
25265205 GTCACTTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
10 4 0.12
11 24 0.75
12 4 0.12
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (11 bp):
ATTAAGTTATC
Found at i:25265350 original size:22 final size:22
Alignment explanation
Indices: 25265325--25265372 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
25265315 AGTATTGATC
*
25265325 ACTAAAAAATTATCAATTATTA
1 ACTAAAAAATTATCAATCATTA
** *
25265347 ACTACTAAATTATCAATCATTT
1 ACTAAAAAATTATCAATCATTA
25265369 ACTA
1 ACTA
25265373 TTAAGTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (22 bp):
ACTAAAAAATTATCAATCATTA
Found at i:25265381 original size:22 final size:21
Alignment explanation
Indices: 25265331--25265424 Score: 71
Period size: 22 Copynumber: 4.3 Consensus size: 21
25265321 GATCACTAAA
*
25265331 AAATTATCAATTATTAACTACT
1 AAATTATCAA-TATTTACTACT
*
25265353 AAATTATCAATCATTTACTATT
1 AAATTATCAAT-ATTTACTACT
* * * * *
25265375 AAGTTATTATTAATTTATTATT
1 AAATTATCAAT-ATTTACTACT
* *
25265397 AAATTATCAGTAATTACTACT
1 AAATTATCAATATTTACTACT
*
25265418 AAGTTAT
1 AAATTAT
25265425 ACTAATTACA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
21 14 0.25
22 43 0.75
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (21 bp):
AAATTATCAATATTTACTACT
Found at i:25265486 original size:19 final size:19
Alignment explanation
Indices: 25265448--25265487 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25265438 AAATTTTTAA
*
25265448 TAATTAATTACTACGGTAT
1 TAATTAATTACTACGATAT
* *
25265467 TAATTATTTACTACTATAT
1 TAATTAATTACTACGATAT
25265486 TA
1 TA
25265488 TCACTGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (19 bp):
TAATTAATTACTACGATAT
Found at i:25270696 original size:13 final size:14
Alignment explanation
Indices: 25270678--25270706 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25270668 ATTAAAAATA
25270678 AAAAAATA-TTTTT
1 AAAAAATAGTTTTT
25270691 AAAAAATAGTTTTT
1 AAAAAATAGTTTTT
25270705 AA
1 AA
25270707 GCATAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AAAAAATAGTTTTT
Found at i:25272163 original size:15 final size:15
Alignment explanation
Indices: 25272143--25272173 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25272133 TAGTTTTTAG
25272143 TCTAATAAAAAAAAA
1 TCTAATAAAAAAAAA
*
25272158 TCTAATAATAAAAAA
1 TCTAATAAAAAAAAA
25272173 T
1 T
25272174 TCATTTAAAA
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:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TCTAATAAAAAAAAA
Found at i:25272312 original size:16 final size:16
Alignment explanation
Indices: 25272273--25272323 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
25272263 TTATTTCTGA
* *
25272273 TAAACTTTATTTTTAAT
1 TAAATTTTA-TTTAAAT
*
25272290 TATATTTTATTTAAAT
1 TAAATTTTATTTAAAT
*
25272306 TAAATTTTA-GTAAAT
1 TAAATTTTATTTAAAT
25272321 TAA
1 TAA
25272324 TGAAAATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 8 0.28
16 14 0.48
17 7 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TAAATTTTATTTAAAT
Found at i:25274805 original size:21 final size:21
Alignment explanation
Indices: 25274771--25274823 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
25274761 TTCAATTTTT
* *
25274771 TATTTTATATTATTTTAATATA
1 TATTTAATA-TATTTAAATATA
25274793 TATTTAATATATTTAAATATA
1 TATTTAATATATTTAAATATA
*
25274814 T-TTTGATATA
1 TATTTAATATA
25274824 AAATAAGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 8 0.29
21 12 0.43
22 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTAATATATTTAAATATA
Found at i:25274822 original size:10 final size:10
Alignment explanation
Indices: 25274771--25274823 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
25274761 TTCAATTTTT
25274771 TATTTT-ATA
1 TATTTTAATA
25274780 TTATTTTAATA
1 -TATTTTAATA
25274791 TATATTTAATA
1 TAT-TTTAATA
*
25274802 TATTTAAATA
1 TATTTTAATA
*
25274812 TATTTTGATA
1 TATTTTAATA
25274822 TA
1 TA
25274824 AAATAAGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 25 0.66
11 13 0.34
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TATTTTAATA
Found at i:25290640 original size:15 final size:15
Alignment explanation
Indices: 25290620--25290650 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25290610 ACACTCCAAT
25290620 TATATCAAAATATGA
1 TATATCAAAATATGA
*
25290635 TATATCTAAATATGA
1 TATATCAAAATATGA
25290650 T
1 T
25290651 TTTTCATATT
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:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
TATATCAAAATATGA
Found at i:25291575 original size:24 final size:24
Alignment explanation
Indices: 25291541--25291591 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
25291531 ATAAGTTATC
25291541 ATTTGTGTTATATTCATTATTTTT
1 ATTTGTGTTATATTCATTATTTTT
* *
25291565 ATTTGTTTTATATTTATTATTTTT
1 ATTTGTGTTATATTCATTATTTTT
25291589 ATT
1 ATT
25291592 AAATCAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.71
Consensus pattern (24 bp):
ATTTGTGTTATATTCATTATTTTT
Found at i:25295630 original size:84 final size:84
Alignment explanation
Indices: 25295537--25295706 Score: 322
Period size: 84 Copynumber: 2.0 Consensus size: 84
25295527 TATTTTATTT
25295537 AATAAGTTTGTTCTCATCACTATTATCACATATATAATAATATTTTTACAAAAAATTATATACTT
1 AATAAGTTTGTTCTCATCACTATTATCACATATATAATAATATTTTTACAAAAAATTATATACTT
*
25295602 AAAGCTAGACACATAAAGC
66 AAAGCTAAACACATAAAGC
*
25295621 AATAAGTTTGTTCTCATCACTATTATCATATATATAATAATATTTTTACAAAAAATTATATACTT
1 AATAAGTTTGTTCTCATCACTATTATCACATATATAATAATATTTTTACAAAAAATTATATACTT
25295686 AAAGCTAAACACATAAAGC
66 AAAGCTAAACACATAAAGC
25295705 AA
1 AA
25295707 AGTTTATTAC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (84 bp):
AATAAGTTTGTTCTCATCACTATTATCACATATATAATAATATTTTTACAAAAAATTATATACTT
AAAGCTAAACACATAAAGC
Found at i:25296237 original size:22 final size:22
Alignment explanation
Indices: 25296206--25296254 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
25296196 AGTAATAATC
* *
25296206 GATAACTTAATAA-TAAATTAGT
1 GATAACTTAA-AAGTAAATGAAT
*
25296228 GATAATTTAAAAGTAAATGAAT
1 GATAACTTAAAAGTAAATGAAT
25296250 GATAA
1 GATAA
25296255 GTTAGTAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (22 bp):
GATAACTTAAAAGTAAATGAAT
Found at i:25296424 original size:22 final size:22
Alignment explanation
Indices: 25296399--25296459 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
25296389 TTAAAAAGTG
* *
25296399 ATAATTTAGTAATTAATTATTA
1 ATAATTTAGTAATAAATTAATA
*
25296421 ATAATTTAGTAATAAATTAATG
1 ATAATTTAGTAATAAATTAATA
* *
25296443 ATAATTTAATAGTAAAT
1 ATAATTTAGTAATAAAT
25296460 CCGTTTCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
ATAATTTAGTAATAAATTAATA
Found at i:25296433 original size:11 final size:11
Alignment explanation
Indices: 25296399--25296450 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
25296389 TTAAAAAGTG
25296399 ATAATTTAGTA
1 ATAATTTAGTA
*
25296410 ATTAA-TTATTA
1 A-TAATTTAGTA
25296421 ATAATTTAGTA
1 ATAATTTAGTA
* * *
25296432 ATAAATTAATG
1 ATAATTTAGTA
25296443 ATAATTTA
1 ATAATTTA
25296451 ATAGTAAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 3 0.09
11 27 0.82
12 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (11 bp):
ATAATTTAGTA
Found at i:25296545 original size:22 final size:22
Alignment explanation
Indices: 25296520--25296611 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
25296510 TAGTAGTAAA
25296520 TAAATCAA-TGATAAATTAATAG
1 TAAAT-AATTGATAAATTAATAG
* * * *
25296542 TAAATAATTGGTAATTTAGTAA
1 TAAATAATTGATAAATTAATAG
* *
25296564 TTAATAATTGA-AAATTTAAAAG
1 TAAATAATTGATAAA-TTAATAG
* *
25296586 TAAATAAAT-ATAACTTAATAG
1 TAAATAATTGATAAATTAATAG
25296607 TAAAT
1 TAAAT
25296612 TATCAATTAT
Statistics
Matches: 53, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
21 16 0.30
22 37 0.70
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (22 bp):
TAAATAATTGATAAATTAATAG
Found at i:25296683 original size:41 final size:42
Alignment explanation
Indices: 25296638--25296740 Score: 95
Period size: 41 Copynumber: 2.4 Consensus size: 42
25296628 ATTAATCAGT
25296638 AATAATTTTATAGTAAATCAT-GTATAATTTA-ATTAAATAA-C
1 AATAATTTTATAGTAAATCATAG-ATAATTTAGA-TAAATAAGC
* * * * *
25296679 AATAACTTTGTAATAAATTATAGATAATTTAGCGATAAATAAGT
1 AATAATTTTATAGTAAATCATAGATAATTTA--GATAAATAAGC
*
25296723 GATAATTTTATAGTAAAT
1 AATAATTTTATAGTAAAT
25296741 AATCGAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
41 25 0.52
42 1 0.02
43 7 0.15
44 15 0.31
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.40
Consensus pattern (42 bp):
AATAATTTTATAGTAAATCATAGATAATTTAGATAAATAAGC
Found at i:25296948 original size:22 final size:22
Alignment explanation
Indices: 25296923--25296970 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
25296913 CAAATTAGTT
* *
25296923 ATAACTTTATAATAAATCATCA
1 ATAACTTGATAATAAATCACCA
* *
25296945 ATAACTTGATAGTAAATTACCA
1 ATAACTTGATAATAAATCACCA
25296967 ATAA
1 ATAA
25296971 TGTAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.33
Consensus pattern (22 bp):
ATAACTTGATAATAAATCACCA
Found at i:25297056 original size:22 final size:22
Alignment explanation
Indices: 25297026--25297077 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
25297016 AATGACAAGT
*
25297026 TATTCATAAATTAGTAAAAAAA
1 TATTGATAAATTAGTAAAAAAA
* **
25297048 TATTGATAATTTAGTAGTAAAA
1 TATTGATAAATTAGTAAAAAAA
*
25297070 CATTGATA
1 TATTGATA
25297078 GTTTAATAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (22 bp):
TATTGATAAATTAGTAAAAAAA
Found at i:25297082 original size:22 final size:21
Alignment explanation
Indices: 25297044--25297125 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 21
25297034 AATTAGTAAA
*
25297044 AAAATATTGATAATTTAGTAGT
1 AAAA-ATTGATAATTTAATAGT
*
25297066 AAAACATTGATAGTTTAATAGT
1 AAAA-ATTGATAATTTAATAGT
* *
25297088 AAATAATTGATAACTTAATTGT
1 AAA-AATTGATAATTTAATAGT
**
25297110 CAATCATTGATAATTT
1 -AAAAATTGATAATTT
25297126 TTTATGCTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 46 0.94
23 3 0.06
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (21 bp):
AAAAATTGATAATTTAATAGT
Found at i:25297286 original size:21 final size:20
Alignment explanation
Indices: 25297261--25297339 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 20
25297251 CTAAACTTGA
25297261 ATAAAATAATAATGTTATTAT
1 ATAAAATAATAAT-TTATTAT
* *
25297282 ATAAAATAAAAATTAAAACTTGA-
1 ATAAAATAATAATT--TA-TT-AT
*
25297305 ATAAAATAATATTATTATTAT
1 ATAAAATAATAAT-TTATTAT
*
25297326 ATAAAATAAAAATT
1 ATAAAATAATAATT
25297340 ATCTCATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
20 3 0.07
21 25 0.56
22 2 0.04
23 13 0.29
24 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (20 bp):
ATAAAATAATAATTTATTAT
Found at i:25297303 original size:44 final size:44
Alignment explanation
Indices: 25297244--25297340 Score: 158
Period size: 44 Copynumber: 2.2 Consensus size: 44
25297234 AAAATTAGTG
* *
25297244 AAAAATTCTAAACTTGAATAAAATAATAATGTTATTATATAAAAT
1 AAAAATT-AAAACTTGAATAAAATAATAATATTATTATATAAAAT
*
25297289 AAAAATTAAAACTTGAATAAAATAATATTATTATTATATAAAAT
1 AAAAATTAAAACTTGAATAAAATAATAATATTATTATATAAAAT
25297333 AAAAATTA
1 AAAAATTA
25297341 TCTCATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 42 0.86
45 7 0.14
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (44 bp):
AAAAATTAAAACTTGAATAAAATAATAATATTATTATATAAAAT
Found at i:25297465 original size:22 final size:21
Alignment explanation
Indices: 25297395--25297491 Score: 77
Period size: 22 Copynumber: 4.5 Consensus size: 21
25297385 TTGTAAATGT
* *
25297395 ATAATTTATTAGTAAATCAATA
1 ATAATTTAATAAT-AATCAATA
** * * *
25297417 ATAGGTTAACAAAAAACAATA
1 ATAATTTAATAATAATCAATA
* * *
25297438 GATAATTTAGTAATTAATTATTA
1 -ATAATTTAATAA-TAATCAATA
25297461 ATAATTTAATAATAATCAATA
1 ATAATTTAATAATAATCAATA
25297482 ATAATTTAAT
1 ATAATTTAAT
25297492 TGTATATCAG
Statistics
Matches: 55, Mismatches: 18, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
21 24 0.44
22 26 0.47
23 5 0.09
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (21 bp):
ATAATTTAATAATAATCAATA
Found at i:25297473 original size:11 final size:11
Alignment explanation
Indices: 25297434--25297491 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
25297424 AACAAAAAAC
25297434 AATAGATAATTT
1 AATA-ATAATTT
*
25297446 AGTAATTAA-TT
1 AATAA-TAATTT
*
25297457 ATTAATAATTT
1 AATAATAATTT
*
25297468 AATAATAA-TC
1 AATAATAATTT
25297478 AATAATAATTT
1 AATAATAATTT
25297489 AAT
1 AAT
25297492 TGTATATCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 12 0.32
11 20 0.53
12 6 0.16
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (11 bp):
AATAATAATTT
Found at i:25297555 original size:22 final size:22
Alignment explanation
Indices: 25297529--25297698 Score: 93
Period size: 22 Copynumber: 7.7 Consensus size: 22
25297519 TTAACTGATG
25297529 AACTTAATAGTAAATTATAAAT
1 AACTTAATAGTAAATTATAAAT
*
25297551 AACTTAATAGTAAATTA-ATGAT
1 AACTTAATAGTAAATTATA-AAT
* * * *
25297573 AATTTAGTAGTTAATTATTCAA-
1 AACTTAATAGTAAATTA-TAAAT
* *
25297595 AACTTAA-AGGTAAATCA-ATAT
1 AACTTAATA-GTAAATTATAAAT
25297616 AACTTAATAGT-AATTAATCATCAAT
1 AACTTAATAGTAAATT-AT-A--AAT
* * *
25297641 AATTTAATAGTTAATTA-ATTAT
1 AACTTAATAGTAAATTATA-AAT
* * *
25297663 AACTTAATAATAAATCATGAAT
1 AACTTAATAGTAAATTATAAAT
*
25297685 AATTTAATA-TAAAT
1 AACTTAATAGTAAAT
25297699 AAGTGATATC
Statistics
Matches: 111, Mismatches: 24, Indels: 27
0.69 0.15 0.17
Matches are distributed among these distances:
20 4 0.04
21 17 0.15
22 70 0.63
23 3 0.03
25 13 0.12
26 4 0.04
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (22 bp):
AACTTAATAGTAAATTATAAAT
Found at i:25297958 original size:22 final size:22
Alignment explanation
Indices: 25297933--25298176 Score: 186
Period size: 22 Copynumber: 11.2 Consensus size: 22
25297923 TTAACCATTT
* *
25297933 ATAATTTTATAATAAATTATTG
1 ATAATTTAATAATAAATTATTA
* * *
25297955 ATAAATTAATAGTAAATAATT-
1 ATAATTTAATAATAAATTATTA
* * *
25297976 ATAATTTTATAACAAATTATCA
1 ATAATTTAATAATAAATTATTA
* * * *
25297998 ATAACTTAATAACAAATCATCA
1 ATAATTTAATAATAAATTATTA
* * *
25298020 ACAATTTAATAATAAATTCTTC
1 ATAATTTAATAATAAATTATTA
* * *
25298042 ATAAATTAATAATAAATCAATA
1 ATAATTTAATAATAAATTATTA
* *
25298064 CTAATTTAGTAATAAATTA-TA
1 ATAATTTAATAATAAATTATTA
*
25298085 ATAATTTAATAATATATTATTA
1 ATAATTTAATAATAAATTATTA
* * *
25298107 AAAACTTAATAATAAATCATTA
1 ATAATTTAATAATAAATTATTA
* * * *
25298129 ATAATATAAAAATAAATTAATG
1 ATAATTTAATAATAAATTATTA
* * * *
25298151 ATAACTTAATTATCAATCATTA
1 ATAATTTAATAATAAATTATTA
25298173 ATAA
1 ATAA
25298177 ATTTTTTAAT
Statistics
Matches: 168, Mismatches: 52, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
21 33 0.20
22 135 0.80
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAATAAATTATTA
Found at i:25298048 original size:87 final size:87
Alignment explanation
Indices: 25297935--25298145 Score: 223
Period size: 87 Copynumber: 2.4 Consensus size: 87
25297925 AACCATTTAT
* * *
25297935 AATTTTATAATAAATTATTGATAAATTAATAGTAAAT-AATTA-TAATTTTA-TAACAAATTATC
1 AATTTAATAATAAATTATTCATAAATTAATAATAAATCAA-TACTAA-TTTAGTAACAAATTAT-
*
25297997 AATAACTTAATAACAAATCATCAAC
63 AATAACTTAATAACAAATCATCAAA
* *
25298022 AATTTAATAATAAATTCTTCATAAATTAATAATAAATCAATACTAATTTAGTAATAAATTATAAT
1 AATTTAATAATAAATTATTCATAAATTAATAATAAATCAATACTAATTTAGTAACAAATTATAAT
* * * * *
25298087 AATTTAATAATATATTATTAAA
66 AACTTAATAACAAATCATCAAA
* * * *
25298109 AACTTAATAATAAATCATTAAT-AATATAAAAATAAAT
1 AATTTAATAATAAATTATTCATAAAT-TAATAATAAAT
25298146 TAATGATAAC
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
86 3 0.03
87 86 0.83
88 15 0.14
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.38
Consensus pattern (87 bp):
AATTTAATAATAAATTATTCATAAATTAATAATAAATCAATACTAATTTAGTAACAAATTATAAT
AACTTAATAACAAATCATCAAA
Found at i:25298051 original size:44 final size:42
Alignment explanation
Indices: 25297935--25298123 Score: 137
Period size: 43 Copynumber: 4.4 Consensus size: 42
25297925 AACCATTTAT
* * * * * *
25297935 AATTTTATAATAAATTATTGATAAATTAATAGTAAATAATTAT
1 AATTTAATAATAAATT-TTCATAAATTAATAATAAATCATAAC
* * * * *
25297978 AATTTTATAACAAATTATCAATAACTTAATAACAAATCATCAAC
1 AATTTAATAATAAATTTTC-ATAAATTAATAATAAATCAT-AAC
25298022 AATTTAATAATAAATTCTTCATAAATTAATAATAAATCA-ATAC
1 AATTTAATAATAAATT-TTCATAAATTAATAATAAATCATA-AC
* * * * * * *
25298065 TAATTTAGTAATAAATTATAATAATTTAATAATATATTATTAAA
1 -AATTTAATAATAAATTTTCATAAATTAATAATAAATCA-TAAC
*
25298109 AACTTAATAATAAAT
1 AATTTAATAATAAAT
25298124 CATTAATAAT
Statistics
Matches: 116, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.02
43 63 0.54
44 48 0.41
45 3 0.03
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (42 bp):
AATTTAATAATAAATTTTCATAAATTAATAATAAATCATAAC
Found at i:25298143 original size:65 final size:65
Alignment explanation
Indices: 25298022--25298147 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 65
25298012 AATCATCAAC
* * * * **
25298022 AATTTAATAATAAATTCTTCATAAATTAATAATAAATCAATACTAATTTAGTAATAAATTATAAT
1 AATTTAATAATAAATTATTCAAAAATTAATAATAAATCAATAATAATATAAAAATAAATTATAAT
* *
25298087 AATTTAATAATATATTATT-AAAAACTTAATAATAAATCATTAATAATATAAAAATAAATTA
1 AATTTAATAATAAATTATTCAAAAA-TTAATAATAAATCAATAATAATATAAAAATAAATTA
25298148 ATGATAACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 4 0.08
65 48 0.92
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.39
Consensus pattern (65 bp):
AATTTAATAATAAATTATTCAAAAATTAATAATAAATCAATAATAATATAAAAATAAATTATAAT
Found at i:25298160 original size:109 final size:109
Alignment explanation
Indices: 25297967--25298169 Score: 244
Period size: 109 Copynumber: 1.9 Consensus size: 109
25297957 AAATTAATAG
* * * * *
25297967 TAAATAATTATAATTTTATAACAAATTATCAATAACTTAATAACAAATCATCAACAATTTAATAA
1 TAAATAATAATAATTTAATAACAAATTATCAAAAACTTAATAACAAATCATCAACAATATAAAAA
**
25298032 TAAATTCTTCATAAATTAATAATAAATCAATACTAATTTAGTAA
66 TAAATTAATCATAAATTAATAATAAATCAATACTAATTTAGTAA
* * * * * * *
25298076 TAAATTATAATAATTTAATAATATATTATTAAAAACTTAATAATAAATCATTAATAATATAAAAA
1 TAAATAATAATAATTTAATAACAAATTATCAAAAACTTAATAACAAATCATCAACAATATAAAAA
* * * *
25298141 TAAATTAATGATAACTTAATTATCAATCA
66 TAAATTAATCATAAATTAATAATAAATCA
25298170 TTAATAAATT
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
109 76 1.00
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (109 bp):
TAAATAATAATAATTTAATAACAAATTATCAAAAACTTAATAACAAATCATCAACAATATAAAAA
TAAATTAATCATAAATTAATAATAAATCAATACTAATTTAGTAA
Found at i:25298285 original size:16 final size:18
Alignment explanation
Indices: 25298254--25298303 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
25298244 TTAAATTTAA
25298254 ATAA-AATAATATTATTTT
1 ATAATAATAA-ATTATTTT
25298272 AT-ATAA-AAATTATTTT
1 ATAATAATAAATTATTTT
*
25298288 GTAATAATAAATTATT
1 ATAATAATAAATTATT
25298304 AGACTAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.32
17 7 0.25
18 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATAATAATAAATTATTTT
Found at i:25298338 original size:10 final size:11
Alignment explanation
Indices: 25298322--25298354 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25298312 GTCAAAAGTA
25298322 ATCAAAATTTT
1 ATCAAAATTTT
*
25298333 AT-AAAATATT
1 ATCAAAATTTT
25298343 ATCAAAATTTT
1 ATCAAAATTTT
25298354 A
1 A
25298355 ATCATATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (11 bp):
ATCAAAATTTT
Found at i:25302457 original size:32 final size:32
Alignment explanation
Indices: 25302420--25302483 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
25302410 TTGTGTCACA
25302420 TTAAATCAAATGCGTTTATTTATAGTTTTTTT
1 TTAAATCAAATGCGTTTATTTATAGTTTTTTT
*
25302452 TTAAATCAAATGCTTTTATTTATAGTTTTTTT
1 TTAAATCAAATGCGTTTATTTATAGTTTTTTT
25302484 AAAATTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (32 bp):
TTAAATCAAATGCGTTTATTTATAGTTTTTTT
Found at i:25303379 original size:32 final size:35
Alignment explanation
Indices: 25303326--25303389 Score: 98
Period size: 32 Copynumber: 1.9 Consensus size: 35
25303316 ATATTTTTTA
25303326 AATTTTATTTTGTTATAGTAATTTAAAATGTAGTT
1 AATTTTATTTTGTTATAGTAATTTAAAATGTAGTT
*
25303361 AATTTT-TTTTG-TA-AGTAATTTAATATGTA
1 AATTTTATTTTGTTATAGTAATTTAAAATGTA
25303390 ATTTAATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 2 0.07
34 5 0.18
35 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (35 bp):
AATTTTATTTTGTTATAGTAATTTAAAATGTAGTT
Found at i:25303594 original size:129 final size:127
Alignment explanation
Indices: 25303377--25303654 Score: 344
Period size: 129 Copynumber: 2.2 Consensus size: 127
25303367 TTTTGTAAGT
* *
25303377 AATTTAATATGTAATTTAATAGAGTTATTATAGTAATTTATATAAAATGTCACATGTGAAATTTC
1 AATTTAATATGTAATTTAATAGAGTTATTATAGTAATTTAAATAAAATGTCACATGTCAAATTTC
* * * *
25303442 TATGAAGCAATGGTTAGGGTATTTTAATAATTTAATAAATAATTAATTTTGTATTATATTAA
66 TATAAAGCAATGGATAGGGTATTTTAATAATTTAATAAATAATTAATATTATATTATATTAA
* ***
25303504 AATTTAATATGTAATTTAATAGGAG-TATTATATTAAATTTTAAATAAAATGTTGTATGTCAAAT
1 AATTTAATATGTAATTTAATA-GAGTTATTATAGT-AA-TTTAAATAAAATGTCACATGTCAAAT
* * ** * * *
25303568 TTCTATAAAGCAAT-GATAGGATTATTTTAGTAATTTAATATGTATTTAATATTATGTTATGTTA
63 TTCTATAAAGCAATGGATAGG-GTATTTTAATAATTTAATAAATAATTAATATTATATTATATTA
25303632 A
127 A
25303633 AATTTAATATGTAATTTTAATA
1 AATTTAATATGTAA-TTTAATA
25303655 ACGTCACTTG
Statistics
Matches: 129, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
127 29 0.22
128 10 0.08
129 83 0.64
130 7 0.05
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (127 bp):
AATTTAATATGTAATTTAATAGAGTTATTATAGTAATTTAAATAAAATGTCACATGTCAAATTTC
TATAAAGCAATGGATAGGGTATTTTAATAATTTAATAAATAATTAATATTATATTATATTAA
Found at i:25305042 original size:17 final size:17
Alignment explanation
Indices: 25305018--25305056 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
25305008 CCATTTATTT
*
25305018 ATATATAATATCATTATAA
1 ATATAAAATAT-A-TATAA
25305037 ATATAAAATATATATAA
1 ATATAAAATATATATAA
25305054 ATA
1 ATA
25305057 ACCATCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
19 10 0.53
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATAAAATATATATAA
Found at i:25307145 original size:3 final size:3
Alignment explanation
Indices: 25307137--25307176 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
25307127 ACGACTGATC
25307137 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25307177 TTGGGTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25317238 original size:34 final size:34
Alignment explanation
Indices: 25317190--25317269 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
25317180 ATAAAAAAAG
25317190 ATTAGA-GGT-ACTAAAATTCAAAATTTAAATTT
1 ATTAGATGGTAACTAAAATTCAAAATTTAAATTT
25317222 ATTAGATGGTAACTAAAATTCAAAATTTAAATTT
1 ATTAGATGGTAACTAAAATTCAAAATTTAAATTT
*
25317256 ATTAGATGGGAACT
1 ATTAGATGGTAACT
25317270 CTTAAAAGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 6 0.13
33 3 0.07
34 36 0.80
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (34 bp):
ATTAGATGGTAACTAAAATTCAAAATTTAAATTT
Found at i:25319607 original size:32 final size:32
Alignment explanation
Indices: 25319549--25319609 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
25319539 ATTGATTCTT
* *
25319549 AAATTTTTATTTTAATGGGTTAAATTTATCTC
1 AAATTTTAATTTTAATGGATTAAATTTATCTC
*
25319581 AAATTTTAATTTTAGTGAGATT-AATTTAT
1 AAATTTTAATTTTAATG-GATTAAATTTAT
25319610 GATTTATCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 22 0.88
33 3 0.12
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (32 bp):
AAATTTTAATTTTAATGGATTAAATTTATCTC
Found at i:25321240 original size:5 final size:5
Alignment explanation
Indices: 25321230--25321330 Score: 50
Period size: 5 Copynumber: 20.4 Consensus size: 5
25321220 AATAAAAATC
* * * * *
25321230 AATAA AATAA AAT-A CATAA AAT-A AACAA AAT-T AGTAA AATAA AAT-G
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* * * *
25321276 CATAA AATAA TAA-AA ATTGAA AATAA AATAA AATTTAA ATTAA ATTAA
1 AATAA AATAA -AATAA AAT-AA AATAA AATAA AA--TAA AATAA AATAA
25321324 AATAA AA
1 AATAA AA
25321331 AATAACATGC
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
4 11 0.15
5 50 0.70
6 6 0.08
7 4 0.06
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (5 bp):
AATAA
Found at i:25321251 original size:23 final size:23
Alignment explanation
Indices: 25321216--25321260 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25321206 GTTCCTTAAT
* *
25321216 AAATAATAAAAATCAATAAAATA
1 AAATAATAAAAATAAACAAAATA
25321239 AAATACAT-AAAATAAACAAAAT
1 AAATA-ATAAAAATAAACAAAAT
25321261 TAGTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATAATAAAAATAAACAAAATA
Found at i:25321293 original size:32 final size:32
Alignment explanation
Indices: 25321216--25321305 Score: 123
Period size: 32 Copynumber: 2.9 Consensus size: 32
25321206 GTTCCTTAAT
* *
25321216 AAATAATAAAAATCAATAAAATAAAATACATA
1 AAATAATAAAAATTAGTAAAATAAAATACATA
*
25321248 AAATAA-ACAAAATTAGTAAAATAAAATGCATA
1 AAATAATA-AAAATTAGTAAAATAAAATACATA
25321280 AAATAATAAAAATT-G-AAAATAAAATA
1 AAATAATAAAAATTAGTAAAATAAAATA
25321306 AAATTTAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.19
31 2 0.04
32 39 0.75
33 1 0.02
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.22
Consensus pattern (32 bp):
AAATAATAAAAATTAGTAAAATAAAATACATA
Found at i:25321308 original size:17 final size:17
Alignment explanation
Indices: 25321279--25321326 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
25321269 TAAAATGCAT
*
25321279 AAAATAATA-AAAATTG
1 AAAATAAAATAAAATTG
*
25321295 AAAATAAAATAAAATTT
1 AAAATAAAATAAAATTG
* *
25321312 AAATTAAATTAAAAT
1 AAAATAAAATAAAAT
25321327 AAAAAATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATAAAATAAAATTG
Found at i:25322076 original size:3 final size:3
Alignment explanation
Indices: 25322051--25322140 Score: 106
Period size: 3 Copynumber: 32.3 Consensus size: 3
25322041 AAGGAAAGAA
*
25322051 AAT AA- AAT AA- AAT AAT GAT AAT AAT -AT AACT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
25322093 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25322137 AAT A
1 AAT A
25322141 CAATATACTA
Statistics
Matches: 76, Mismatches: 2, Indels: 18
0.79 0.02 0.19
Matches are distributed among these distances:
2 15 0.20
3 60 0.79
4 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25322139 original size:5 final size:5
Alignment explanation
Indices: 25322071--25322284 Score: 116
Period size: 5 Copynumber: 41.2 Consensus size: 5
25322061 AATAATGATA
25322071 ATAAT ATAACT AT-A- ATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
1 ATAAT ATAA-T ATAAT ATAAT -ATAAT -ATAAT -ATAAT -ATAAT -ATAAT
* * *
25322120 ATAAT ATAAT ATAAT ATAAT ACAAT ATACT A-CA- ATAAT ATACTAT ACTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT A-TAAT
* ** * * *
25322171 ATACT ATACTAT ATAAT ATGCT ACACT ATAAT AATAAT TTAAT ATAAT
1 ATAAT ATA--AT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT
* * * * * *
25322219 ATAAT ATAAT AATGAT ATACT AAAAT AAAAT AAAAT ATAAT ATAAC A-AAT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
25322269 A-AAA ATAAT AATAAT A
1 ATAAT ATAAT -ATAAT A
25322285 ACGAAAATAA
Statistics
Matches: 168, Mismatches: 26, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
3 3 0.02
4 8 0.05
5 99 0.59
6 49 0.29
7 7 0.04
8 2 0.01
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:25322222 original size:18 final size:18
Alignment explanation
Indices: 25322051--25322284 Score: 126
Period size: 18 Copynumber: 12.4 Consensus size: 18
25322041 AAGGAAAGAA
* *
25322051 AATAAAATAAAATAATGAT
1 AATAATATAATATAAT-AT
25322070 AATAATATAACTAT-A-AT
1 AATAATATAA-TATAATAT
25322087 AATAATAATAATAATAATAAT
1 AATAAT-ATAAT-ATAAT-AT
25322108 AATAATAATAATATAATAT
1 AATAAT-ATAATATAATAT
*
25322127 AATATAATATAATACAATAT
1 -A-ATAATATAATATAATAT
* *
25322147 ACTACA-ATAATATACTAT
1 AATA-ATATAATATAATAT
* *
25322165 ACTAATATACTATACTATAT
1 AATAATATAATATA--ATAT
*
25322185 AAT-ATGCTACACTATAATAAT
1 AATAAT-ATA-A-TATAAT-AT
25322206 AATTTAATATAATATAATAT
1 AA--TAATATAATATAATAT
*
25322226 AATAATGAT-ATACTAAAAT
1 AATAAT-ATAATA-TAATAT
*
25322245 AA-AATAAAATATAATAT
1 AATAATATAATATAATAT
*
25322262 AACAA-ATAA-A-AATAAT
1 AATAATATAATATAAT-AT
25322278 AATAATA
1 AATAATA
25322285 ACGAAAATAA
Statistics
Matches: 173, Mismatches: 17, Indels: 52
0.71 0.07 0.21
Matches are distributed among these distances:
15 3 0.02
16 7 0.04
17 22 0.13
18 44 0.25
19 26 0.15
20 32 0.18
21 29 0.17
22 5 0.03
23 3 0.02
24 2 0.01
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (18 bp):
AATAATATAATATAATAT
Found at i:25322245 original size:26 final size:26
Alignment explanation
Indices: 25322051--25322284 Score: 140
Period size: 26 Copynumber: 9.0 Consensus size: 26
25322041 AAGGAAAGAA
*
25322051 AATAAAATAAAATAATGATAATAATAT
1 AATAAAATAAAAT-ATAATAATAATAT
* *
25322078 AACTATAATAATA-ATAATAATAATAAT
1 AA-TAAAATAAAATATAATAATAAT-AT
25322105 AATAATAATAATAATATAAT-ATAATAT
1 AATAA-AATAA-AATATAATAATAATAT
* * *
25322132 AATATAATACAATATACTACAATAATAT
1 AATAAAATAAAATATA--ATAATAATAT
* * * * *
25322160 ACTATACTAATATACT-ATACT-ATAT
1 AATAAAATAAAATA-TAATAATAATAT
*** * * *
25322185 AATATGCTACACTATAATAATAATTT
1 AATAAAATAAAATATAATAATAATAT
* * *
25322211 AATATAATATAATATAATAATGATAT
1 AATAAAATAAAATATAATAATAATAT
* *
25322237 ACTAAAATAAAATAAAAT-ATAATAT
1 AATAAAATAAAATATAATAATAATAT
*
25322262 AA-CAAATAAAA-ATAATAATAATA
1 AATAAAATAAAATATAATAATAATA
25322285 ACGAAAATAA
Statistics
Matches: 160, Mismatches: 35, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
23 4 0.03
24 15 0.09
25 30 0.19
26 56 0.35
27 18 0.11
28 31 0.19
29 6 0.04
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (26 bp):
AATAAAATAAAATATAATAATAATAT
Found at i:25322251 original size:24 final size:23
Alignment explanation
Indices: 25322053--25322294 Score: 76
Period size: 23 Copynumber: 10.3 Consensus size: 23
25322043 GGAAAGAAAA
* *
25322053 TAAAATAAAATAATGATA-ATAA
1 TAAAATAAAATAATAATATATAC
* * *
25322075 TATAACTATAATAATAATA-ATAA
1 TA-AAATAAAATAATAATATATAC
25322098 TAATAATAATAATAATAATA-ATA-
1 TAA-AATAA-AATAATAATATATAC
* *
25322121 TAATATAATATAAT-ATA-ATAC
1 TAAAATAAAATAATAATATATAC
*
25322142 -AATATACTACAATAAT-ATACTATAC
1 TAA-A-A-TAAAATAATAATA-TATAC
* ** * *
25322167 TAATATACTATACTATATAATATGC
1 TAAAATAAAATAATA-AT-ATATAC
* * * *
25322192 TACACTATAATAATAATTTAATA-
1 TAAAATAAAATAATAATAT-ATAC
* *
25322215 TAATATAATATAATAATGATATAC
1 TAAAATAAAATAATAAT-ATATAC
25322239 TAAAATAAAATAA-AATATAATA-
1 TAAAATAAAATAATAATAT-ATAC
25322261 TAACAAATAAAAATAATAATA-ATAAC
1 T-A-AAAT-AAAATAATAATATAT-AC
*
25322287 GAAAATAA
1 TAAAATAA
25322295 TAACAGTAAT
Statistics
Matches: 166, Mismatches: 31, Indels: 45
0.69 0.13 0.19
Matches are distributed among these distances:
20 8 0.05
21 5 0.03
22 11 0.07
23 67 0.40
24 40 0.24
25 28 0.17
26 7 0.04
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAAATAAAATAATAATATATAC
Found at i:25322297 original size:3 final size:3
Alignment explanation
Indices: 25322198--25322285 Score: 52
Period size: 3 Copynumber: 32.3 Consensus size: 3
25322188 ATGCTACACT
* * *
25322198 ATA ATA ATA AT- TTA AT- ATA AT- ATA AT- ATA ATA ATG AT- ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
25322241 A-A ATA A-A ATA A-A AT- ATA AT- ATA ACAA ATA AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
25322282 ATA A
1 ATA A
25322286 CGAAAATAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
2 19 0.29
3 44 0.68
4 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25322309 original size:18 final size:18
Alignment explanation
Indices: 25322266--25322310 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
25322256 TAATATAACA
*
25322266 AATAAAAATAATAATAAT
1 AATAAAAATAATAACAAT
** *
25322284 AACGAAAATAATAACAGT
1 AATAAAAATAATAACAAT
25322302 AATAAAAAT
1 AATAAAAAT
25322311 TGATTCGATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (18 bp):
AATAAAAATAATAACAAT
Found at i:25322620 original size:55 final size:55
Alignment explanation
Indices: 25322424--25322622 Score: 191
Period size: 55 Copynumber: 3.6 Consensus size: 55
25322414 TACAAGTCAA
* * **
25322424 GAAAATGATCTAGACTGAGCTAAGATCGAATGATTGGGATTGAACCGCAAGTTTG
1 GAAAATGATCTAGACTGAGCCAAGATCGAATGACTGGGATTGAACCATAAGTTTG
* ** * * * * **
25322479 AAAAATGATCTAGACTGAATCAAGATCGAACGATTAGGACTGAACCATAAGTAAG
1 GAAAATGATCTAGACTGAGCCAAGATCGAATGACTGGGATTGAACCATAAGTTTG
* * * * * *
25322534 GAAAATGATTTGGATTGAGCCAAGATGGAGTGACTGGGATTAAACCATAAGTTTG
1 GAAAATGATCTAGACTGAGCCAAGATCGAATGACTGGGATTGAACCATAAGTTTG
* * * *
25322589 GAAAATGATTTGGATTGAGCCAAGATCGAGTGAC
1 GAAAATGATCTAGACTGAGCCAAGATCGAATGAC
25322623 CAAAATTGAA
Statistics
Matches: 117, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 117 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (55 bp):
GAAAATGATCTAGACTGAGCCAAGATCGAATGACTGGGATTGAACCATAAGTTTG
Found at i:25322635 original size:55 final size:55
Alignment explanation
Indices: 25322521--25322699 Score: 189
Period size: 55 Copynumber: 3.3 Consensus size: 55
25322511 ATTAGGACTG
** * ***
25322521 AACCATAAGTAAGGAAAATGATTTGGATTGAGCCAAGATGGAGTGACTGGGATTA
1 AACCATAAGTCTGGAAAATGATTTGGATTGAGCCAAGATCGAGTGACCAAGATTA
* * *
25322576 AACCATAAGTTTGGAAAATGATTTGGATTGAGCCAAGATCGAGTGACCAAAATTG
1 AACCATAAGTCTGGAAAATGATTTGGATTGAGCCAAGATCGAGTGACCAAGATTA
* * * * * * * * *
25322631 AACCACAAATCT-AAAAATGATCTGGACTAAGCCAAAATTGAGTGATCAAGATTA
1 AACCATAAGTCTGGAAAATGATTTGGATTGAGCCAAGATCGAGTGACCAAGATTA
25322685 AACCATAAGTCTGGA
1 AACCATAAGTCTGGA
25322700 TAAACAATTG
Statistics
Matches: 100, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 43 0.43
55 57 0.57
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (55 bp):
AACCATAAGTCTGGAAAATGATTTGGATTGAGCCAAGATCGAGTGACCAAGATTA
Found at i:25323581 original size:61 final size:61
Alignment explanation
Indices: 25323497--25323635 Score: 190
Period size: 61 Copynumber: 2.3 Consensus size: 61
25323487 CATGAGTTAG
* * * *
25323497 AAAGATGATCTAGACTAAATTGAGTTCAAAACAAGTGATTGGGATTGAACCATGAGTCAAA
1 AAAGATGATCTAGACTAAATTGAGATCAAAACAAGTGACTGAGATTGAACCATAAGTCAAA
* * *
25323558 AAAGATGATCTAGACTGAATTGAGATCAAAACAAGTGACTGAGATTGAACTATAAGTTAAA
1 AAAGATGATCTAGACTAAATTGAGATCAAAACAAGTGACTGAGATTGAACCATAAGTCAAA
* *
25323619 AAA-ATGATTTGGACTAA
1 AAAGATGATCTAGACTAA
25323636 GCTAAGATCG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 11 0.16
61 57 0.84
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (61 bp):
AAAGATGATCTAGACTAAATTGAGATCAAAACAAGTGACTGAGATTGAACCATAAGTCAAA
Found at i:25323650 original size:60 final size:60
Alignment explanation
Indices: 25323497--25323659 Score: 159
Period size: 61 Copynumber: 2.7 Consensus size: 60
25323487 CATGAGTTAG
* * * * * *
25323497 AAAGATGATCTAGACTAAATTGAGTTCAAAACAAGTGATTGGGATTGAACCATGAGTCAAA
1 AAAGATGATCTAGACTGAACTAAGATCAAAACAAGTGA-TGAGATTGAACCATAAGTCAAA
* * * *
25323558 AAAGATGATCTAGACTGAATTGAGATCAAAACAAGTGACTGAGATTGAACTATAAGTTAAA
1 AAAGATGATCTAGACTGAACTAAGATCAAAACAAGTGA-TGAGATTGAACCATAAGTCAAA
* * * *
25323619 AAA-ATGATTTGGACT-AAGCTAAGATCGAAACAAATGATGAG
1 AAAGATGATCTAGACTGAA-CTAAGATCAAAACAAGTGATGAG
25323660 TGATAATGCA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
59 6 0.07
60 25 0.28
61 57 0.65
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (60 bp):
AAAGATGATCTAGACTGAACTAAGATCAAAACAAGTGATGAGATTGAACCATAAGTCAAA
Found at i:25324411 original size:11 final size:10
Alignment explanation
Indices: 25324395--25324428 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
25324385 TAAGTCTTCC
25324395 TTTTTTTCTCT
1 TTTTTTTCT-T
25324406 TTTTTTTCTT
1 TTTTTTTCTT
25324416 TTTTTTTCTT
1 TTTTTTTCTT
25324426 TTT
1 TTT
25324429 CACTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:25324449 original size:27 final size:27
Alignment explanation
Indices: 25324397--25324449 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
25324387 AGTCTTCCTT
* * *
25324397 TTTTTCTCTTTTTTTTCTTTTTTTTTC
1 TTTTTCACTTTTTTTTCTGTTATTTTC
25324424 TTTTTCACTTTTTTGTT-TGTTATTTT
1 TTTTTCACTTTTTT-TTCTGTTATTTT
25324450 TGTTTGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.81
Consensus pattern (27 bp):
TTTTTCACTTTTTTTTCTGTTATTTTC
Found at i:25327754 original size:16 final size:16
Alignment explanation
Indices: 25327735--25327765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25327725 ATTAAAATTA
*
25327735 TTTTATGGTAAATATT
1 TTTTATGATAAATATT
25327751 TTTTATGATAAATAT
1 TTTTATGATAAATAT
25327766 AATGATGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TTTTATGATAAATATT
Found at i:25329238 original size:14 final size:14
Alignment explanation
Indices: 25329219--25329269 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
25329209 CAAAAGTCAG
25329219 TAAAATAAAATACA
1 TAAAATAAAATACA
*
25329233 TAAAATAAAAAATCAA
1 TAAAATAAAATA-C-A
* *
25329249 TAAACTAAAAT-GA
1 TAAAATAAAATACA
25329262 TAAAATAA
1 TAAAATAA
25329270 TAAAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 8 0.27
14 11 0.37
15 1 0.03
16 10 0.33
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAAATAAAATACA
Found at i:25329251 original size:16 final size:16
Alignment explanation
Indices: 25329198--25329258 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 16
25329188 AATAAGTTAC
25329198 TCAAT-AAATAACAAAA
1 TCAATAAAATAA-AAAA
* *
25329214 GTCAGTAAAATAAAATA
1 -TCAATAAAATAAAAAA
25329231 -C-ATAAAATAAAAAA
1 TCAATAAAATAAAAAA
*
25329245 TCAATAAACTAAAA
1 TCAATAAAATAAAA
25329259 TGATAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 11 0.31
15 2 0.06
16 10 0.28
17 7 0.19
18 6 0.17
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (16 bp):
TCAATAAAATAAAAAA
Found at i:25329257 original size:21 final size:21
Alignment explanation
Indices: 25329220--25329293 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
25329210 AAAAGTCAGT
25329220 AAAATAA-AATACATAAAAT-AA
1 AAAATAATAA-AC-TAAAATGAA
*
25329241 AAAATCAATAAACTAAAATGAT
1 AAAAT-AATAAACTAAAATGAA
25329263 AAAATAATAAA--AAAATTGAA
1 AAAATAATAAACTAAAA-TGAA
25329283 AATAA-AATAAA
1 AA-AATAATAAA
25329294 AACCAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.09
20 11 0.24
21 19 0.41
22 10 0.22
23 2 0.04
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAATAATAAACTAAAATGAA
Found at i:25329264 original size:29 final size:32
Alignment explanation
Indices: 25329203--25329274 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 32
25329193 GTTACTCAAT
*
25329203 AAATAACAAAAGTCAGTAAAATAAAATACATA
1 AAATAACAAAAGTCAATAAAATAAAATACATA
* *
25329235 AAATAA-AAAA-TCAATAAACTAAAAT-GATA
1 AAATAACAAAAGTCAATAAAATAAAATACATA
*
25329264 AAATAATAAAA
1 AAATAACAAAA
25329275 AAATTGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 9 0.25
30 17 0.47
31 4 0.11
32 6 0.17
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.19
Consensus pattern (32 bp):
AAATAACAAAAGTCAATAAAATAAAATACATA
Found at i:25329682 original size:10 final size:11
Alignment explanation
Indices: 25329660--25329684 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25329650 ATCCCATAAA
25329660 TTTTTAGATTT
1 TTTTTAGATTT
25329671 TTTTTAGATTT
1 TTTTTAGATTT
25329682 TTT
1 TTT
25329685 CATATCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTAGATTT
Found at i:25330107 original size:5 final size:5
Alignment explanation
Indices: 25330101--25330357 Score: 189
Period size: 5 Copynumber: 49.2 Consensus size: 5
25330091 AAGAAAGGAA
* *
25330101 ATAAA ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAG
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
25330152 ATAAT GTAAT ATAAT ACAAT ATACT A-CA- ATAAT ATACTAT ACTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT A-TAAT
* ** * *
25330198 ATATT ATACTAT ACTAAT ATGCT ACACT ATAAT AATAAT AATAAT AATAAT
1 ATAAT ATA--AT A-TAAT ATAAT ATAAT ATAAT -ATAAT -ATAAT -ATAAT
* *
25330249 AATAAT ATAAT AATAAT AATAAT GTAAT ATAAT ATAAT ATAAT ACAAT
1 -ATAAT ATAAT -ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
** * * *
25330297 ATAAT AATAAT ATGCT ATAAT AAAAT ATAAT ATAAT ATAAC A-AAT A-AAA
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
25330346 ATAAT ACTAAT A
1 ATAAT A-TAAT A
25330358 ACGAAAATAA
Statistics
Matches: 205, Mismatches: 33, Indels: 27
0.77 0.12 0.10
Matches are distributed among these distances:
3 1 0.00
4 7 0.03
5 133 0.65
6 55 0.27
7 5 0.02
8 4 0.02
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:25330369 original size:3 final size:3
Alignment explanation
Indices: 25330226--25330358 Score: 103
Period size: 3 Copynumber: 48.3 Consensus size: 3
25330216 ATGCTACACT
25330226 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
25330272 GTA AT- ATA AT- ATA AT- ATA AT- ACA AT- ATA ATA ATA AT- ATG CT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
25330313 ATA ATA A-A AT- ATA AT- ATA AT- ATA ACAA ATA AAA ATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
25330355 ATA A
1 ATA A
25330359 CGAAAATAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 28
0.72 0.08 0.19
Matches are distributed among these distances:
2 23 0.22
3 79 0.76
4 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25330383 original size:18 final size:18
Alignment explanation
Indices: 25330226--25330343 Score: 61
Period size: 17 Copynumber: 6.6 Consensus size: 18
25330216 ATGCTACACT
* *
25330226 ATAATAATAATAATAATA
1 ATAAAAATAATACTAATA
*
25330244 ATAATAATAATA-TAATA
1 ATAAAAATAATACTAATA
* *
25330261 ATAATAATAAT-GTAATATA
1 ATAAAAATAATACT-A-ATA
*
25330280 ATATAATATAATAC-AAT-
1 ATA-AAAATAATACTAATA
*
25330297 ATAATAATAATATGCT-ATA
1 ATAAAAATAATA--CTAATA
25330316 ATAAAATATAATA-TAAT-
1 ATAAAA-ATAATACTAATA
25330333 ATAACAAATAA
1 ATAA-AAATAA
25330344 AAATAATACT
Statistics
Matches: 82, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
16 7 0.09
17 29 0.35
18 22 0.27
19 12 0.15
20 12 0.15
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAAAAATAATACTAATA
Found at i:25330446 original size:19 final size:20
Alignment explanation
Indices: 25330422--25330459 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25330412 GTGTCTACAA
25330422 AGTCAAT-GCCACATTAGCT
1 AGTCAATGGCCACATTAGCT
*
25330441 AGTCAATGGTCACATTAGC
1 AGTCAATGGCCACATTAGC
25330460 ATTTTTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
AGTCAATGGCCACATTAGCT
Found at i:25332042 original size:17 final size:17
Alignment explanation
Indices: 25332000--25332047 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
25331990 GAATTGACAA
25332000 AATTATGAAAATTATGG
1 AATTATGAAAATTATGG
* *
25332017 AATTGTGAAAATTGT-G
1 AATTATGAAAATTATGG
25332033 AATTTATG-AAATTAT
1 AA-TTATGAAAATTAT
25332048 TGTGGTACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (17 bp):
AATTATGAAAATTATGG
Found at i:25332123 original size:19 final size:19
Alignment explanation
Indices: 25332099--25332136 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25332089 AGATTGTGTA
*
25332099 ATTGT-GAATATTTGAAATT
1 ATTGTGGAA-ATTGGAAATT
25332118 ATTGTGGAAATTGGAAATT
1 ATTGTGGAAATTGGAAATT
25332137 TGTTGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (19 bp):
ATTGTGGAAATTGGAAATT
Found at i:25332155 original size:72 final size:72
Alignment explanation
Indices: 25332011--25332164 Score: 179
Period size: 72 Copynumber: 2.1 Consensus size: 72
25332001 ATTATGAAAA
* * * *
25332011 TTATGGAATTGTGAAAATTGTGAATTTATGAAATTATTGTGGTACTTATAAAAGTGTGAACTTTT
1 TTATGGAATTGTGAAAATTGTGAATTTATGAAATTATTGTGGAAATTAGAAAAGTGTGAACTTTA
*
25332076 GTGGAAT
66 GTAGAAT
* * **
25332083 TTATGGAGATTGTG-TAATTGTGAATATT-TGAAATTATTGTGGAAATTGGAAATTTGTTGAA-T
1 TTATGGA-ATTGTGAAAATTGTGAAT-TTATGAAATTATTGTGGAAATTAGAAAAGTG-TGAACT
25332145 TTAGTAGAAT
63 TTAGTAGAAT
25332155 TTATGGAATT
1 TTATGGAATT
25332165 TTAAGAATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
71 3 0.04
72 55 0.79
73 12 0.17
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (72 bp):
TTATGGAATTGTGAAAATTGTGAATTTATGAAATTATTGTGGAAATTAGAAAAGTGTGAACTTTA
GTAGAAT
Found at i:25335837 original size:93 final size:94
Alignment explanation
Indices: 25335666--25335874 Score: 251
Period size: 93 Copynumber: 2.2 Consensus size: 94
25335656 TTATTATTAT
* * * * *
25335666 TTTTTTACAAAAAAAATTATTAAGTTCTCCAATAGTTTTGTAGTACTTAATTTGAGATTTAAATC
1 TTTTTTA-AAAAAAAATTATTAAGTCCTCCAACAGTTCTGTAGTACTTAATTTAAAATTTAAATC
** * * * *
25335731 TTTCAATTGTTTGATATGATTGAAAATTTA
65 TTTCAATAATTTGATAAGATTAAAAAATAA
*
25335761 -TTTTTAAAAAAAAATTATTAAGTCCTCCAACAGTTCTGTAAG-ACTTAATTTAAAATTTAAATT
1 TTTTTTAAAAAAAAATTATTAAGTCCTCCAACAGTTCTGT-AGTACTTAATTTAAAATTTAAATC
*
25335824 TTTTAATAATTTGATAAGATTAAAAAATAA
65 TTTCAATAATTTGATAAGATTAAAAAATAA
* *
25335854 TTTTTTAATAAAAATTTATTA
1 TTTTTTAAAAAAAAATTATTA
25335875 TGAATTTTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 71 0.73
94 26 0.27
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (94 bp):
TTTTTTAAAAAAAAATTATTAAGTCCTCCAACAGTTCTGTAGTACTTAATTTAAAATTTAAATCT
TTCAATAATTTGATAAGATTAAAAAATAA
Found at i:25336695 original size:18 final size:18
Alignment explanation
Indices: 25336655--25336722 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
25336645 ACTCATAATA
*
25336655 AAAACTAAAATTAAAAAACC
1 AAAATTAAAATT--AAAACC
* *
25336675 AAAATCAAAATTAAAAGC
1 AAAATTAAAATTAAAACC
* *
25336693 AAAATTAAAACTAAAATC
1 AAAATTAAAATTAAAACC
25336711 AAAATTAAAATT
1 AAAATTAAAATT
25336723 TTCGAGCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 31 0.76
20 10 0.24
ACGTcount: A:0.68, C:0.10, G:0.01, T:0.21
Consensus pattern (18 bp):
AAAATTAAAATTAAAACC
Found at i:25336722 original size:6 final size:6
Alignment explanation
Indices: 25336675--25336722 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
25336665 TTAAAAAACC
* ** * *
25336675 AAAATC AAAATT AAAAGC AAAATT AAAACT AAAATC AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
25336723 TTCGAGCTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAATT
Found at i:25341103 original size:22 final size:22
Alignment explanation
Indices: 25341056--25341103 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
25341046 GCTCTGTTAG
* * *
25341056 TATGGCTGTGGGGGCTGTCAGC
1 TATGGCTGTGGGGACTCTCAGA
*
25341078 TATGGCTGTGGGGACTCTGAGA
1 TATGGCTGTGGGGACTCTCAGA
25341100 TATG
1 TATG
25341104 AAAGTGAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.42, T:0.29
Consensus pattern (22 bp):
TATGGCTGTGGGGACTCTCAGA
Found at i:25348472 original size:30 final size:30
Alignment explanation
Indices: 25348438--25348502 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
25348428 TATTTATAAT
*
25348438 TAAAATATTAAT-TCTATTACTATAAAATAG
1 TAAAATAGTAATATCTATTA-TATAAAATAG
* * *
25348468 TAAAATAGTAATATTTATTATTTAAAATAT
1 TAAAATAGTAATATCTATTATATAAAATAG
25348498 TAAAA
1 TAAAA
25348503 CATTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAAATAGTAATATCTATTATATAAAATAG
Found at i:25348737 original size:15 final size:16
Alignment explanation
Indices: 25348717--25348747 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25348707 AAAATAGTAA
25348717 TATATTA-TATTAAAT
1 TATATTATTATTAAAT
25348732 TATATTATTATTAAAT
1 TATATTATTATTAAAT
25348748 AATACAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATTATTATTAAAT
Found at i:25354209 original size:20 final size:21
Alignment explanation
Indices: 25354157--25354209 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
25354147 ATATTTAGTG
*
25354157 TATAAAATTTTTATTAAATAA
1 TATAAAATTATTATTAAATAA
25354178 TAT-AAATTATTATTTTAAATTAA
1 TATAAAATTATTA--TTAAA-TAA
25354201 T-TAAAATTA
1 TATAAAATTA
25354210 ATATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.30
21 3 0.11
22 6 0.22
23 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATAAAATTATTATTAAATAA
Found at i:25354979 original size:24 final size:25
Alignment explanation
Indices: 25354920--25354979 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
25354910 AAAAATTTTT
*
25354920 TGATAGAAAATATATTTTTTAATAA
1 TGATATAAAATATATTTTTTAATAA
*
25354945 -GAT-TAACAAATCTATTTTTTAA-AA
1 TGATAT-A-AAATATATTTTTTAATAA
25354969 TGATATAAAAT
1 TGATATAAAAT
25354980 TTTTTACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
24 10 0.34
25 18 0.62
26 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (25 bp):
TGATATAAAATATATTTTTTAATAA
Found at i:25355080 original size:32 final size:32
Alignment explanation
Indices: 25354958--25355072 Score: 104
Period size: 32 Copynumber: 3.5 Consensus size: 32
25354948 TAACAAATCT
*
25354958 ATTTTTTAAAATGATATAAAATTTTTTACTTA
1 ATTTTTTAAAATAATATAAAATTTTTTACTTA
* * *** *
25354990 ATATTTTAAAATAATGTGGAGTTTTTTTTATTTA
1 ATTTTTTAAAATAATAT--AAAATTTTTTACTTA
* ** * *
25355024 ATTCTTTAAACCAATACAAAATTTTTTAGTTA
1 ATTTTTTAAAATAATATAAAATTTTTTACTTA
25355056 ATTTTTTAAAATAATAT
1 ATTTTTTAAAATAATAT
25355073 GGAATTTTCT
Statistics
Matches: 60, Mismatches: 21, Indels: 4
0.71 0.25 0.05
Matches are distributed among these distances:
32 38 0.63
34 22 0.37
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTTTTTAAAATAATATAAAATTTTTTACTTA
Found at i:25356056 original size:34 final size:33
Alignment explanation
Indices: 25356018--25356366 Score: 164
Period size: 34 Copynumber: 10.7 Consensus size: 33
25356008 TTTACCTCAA
* *
25356018 TTCAGTCCAAGTCATTTAATTTTCTAACTTGTGG
1 TTCAGTCCAGGTCATTTAATTTTCTAACTT-CGG
* * * ** *
25356052 TTCAGTTCTGGTCACTT-ATTTTAGACCTT-GG
1 TTCAGTCCAGGTCATTTAATTTTCTAACTTCGG
* *
25356083 TTCAGTCCAAGTCATTTAATTTTCTTACTTGCGG
1 TTCAGTCCAGGTCATTTAATTTTCTAACTT-CGG
* *** * * *
25356117 TTTAGTCTTTGTCACTT-ATTTTC-AACCTCGA
1 TTCAGTCCAGGTCATTTAATTTTCTAACTTCGG
* * *
25356148 TTCAGTCTAGGTTATTTAATTTTCTAACTTACGA
1 TTCAGTCCAGGTCATTTAATTTTCTAACTT-CGG
* * * * *
25356182 TTCAGTTCTGCTCACTT-ATTTTC-AACTTTGG
1 TTCAGTCCAGGTCATTTAATTTTCTAACTTCGG
* *
25356213 TTCAGTCTAGGTCATTTAATTTTTTAACTTACGG
1 TTCAGTCCAGGTCATTTAATTTTCTAACTT-CGG
* * * * *
25356247 TTCAATACC-GATCACCTTCATTTTC-AACTTTGG
1 TTCAGT-CCAGGTCA-TTTAATTTTCTAACTTCGG
* ** * * *
25356280 TTTAGT-TTGGTCACTT-ATTTTC-GACTTCGA
1 TTCAGTCCAGGTCATTTAATTTTCTAACTTCGG
* * *
25356310 TTTAGTCTAGGTCATTTAATTTTTTAACTTACGG
1 TTCAGTCCAGGTCATTTAATTTTCTAACTT-CGG
*
25356344 TTCAGTCTCA-GTCATTTATTTTT
1 TTCAGTC-CAGGTCATTTAATTTT
25356367 AATCTCAATT
Statistics
Matches: 232, Mismatches: 66, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
30 17 0.07
31 53 0.23
32 36 0.16
33 40 0.17
34 77 0.33
35 9 0.04
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (33 bp):
TTCAGTCCAGGTCATTTAATTTTCTAACTTCGG
Found at i:25356087 original size:65 final size:65
Alignment explanation
Indices: 25356018--25356250 Score: 281
Period size: 65 Copynumber: 3.6 Consensus size: 65
25356008 TTTACCTCAA
*
25356018 TTCAGTCCAAGTCATTTAATTTTCTAACTTGTGGTTCAGTTCTGGTCACTTATTTT-AGACCTTG
1 TTCAGTCCAAGTCATTTAATTTTCTAACTTGCGGTTCAGTTCTGGTCACTTATTTTCA-ACCTTG
25356082 G
65 G
* * * *
25356083 TTCAGTCCAAGTCATTTAATTTTCTTACTTGCGGTTTAG-TCTTTGTCACTTATTTTCAACCTCG
1 TTCAGTCCAAGTCATTTAATTTTCTAACTTGCGGTTCAGTTC-TGGTCACTTATTTTCAACCTTG
*
25356147 A
65 G
* * * * * * *
25356148 TTCAGTCTAGGTTATTTAATTTTCTAACTTACGATTCAGTTCTGCTCACTTATTTTCAACTTTGG
1 TTCAGTCCAAGTCATTTAATTTTCTAACTTGCGGTTCAGTTCTGGTCACTTATTTTCAACCTTGG
* * * *
25356213 TTCAGTCTAGGTCATTTAATTTTTTAACTTACGGTTCA
1 TTCAGTCCAAGTCATTTAATTTTCTAACTTGCGGTTCA
25356251 ATACCGATCA
Statistics
Matches: 144, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
64 2 0.01
65 139 0.97
66 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (65 bp):
TTCAGTCCAAGTCATTTAATTTTCTAACTTGCGGTTCAGTTCTGGTCACTTATTTTCAACCTTGG
Found at i:25356235 original size:130 final size:130
Alignment explanation
Indices: 25356002--25356248 Score: 336
Period size: 130 Copynumber: 1.9 Consensus size: 130
25355992 TCAGACTTAG
** ** * *
25356002 TTATTTTTTACCTCAATTCAGTCCAAGTCATTTAATTTTCTAACTTGTGGTTCAGTTCTGGTCAC
1 TTATTTTCAACCTCAATTCAGTCCAAGTCATTTAATTTTCTAACTTACGATTCAGTTCTGCTCAC
*
25356067 TTATTTTAGACCTTGGTTCAGTCCAAGTCATTTAATTTTCTT-ACTTGCGGTTTAGTCTTTGTCA
66 TTATTTTAGACCTTGGTTCAGTCCAAGTCATTTAATTTT-TTAACTTACGGTTTAGTCTTTGTCA
25356131 C
130 C
* * * *
25356132 TTATTTTCAACCTCGATTCAGTCTAGGTTATTTAATTTTCTAACTTACGATTCAGTTCTGCTCAC
1 TTATTTTCAACCTCAATTCAGTCCAAGTCATTTAATTTTCTAACTTACGATTCAGTTCTGCTCAC
* * *
25356197 TTATTTTCA-ACTTTGGTTCAGTCTAGGTCATTTAATTTTTTAACTTACGGTT
66 TTATTTT-AGACCTTGGTTCAGTCCAAGTCATTTAATTTTTTAACTTACGGTT
25356249 CAATACCGAT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
129 2 0.02
130 98 0.97
131 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (130 bp):
TTATTTTCAACCTCAATTCAGTCCAAGTCATTTAATTTTCTAACTTACGATTCAGTTCTGCTCAC
TTATTTTAGACCTTGGTTCAGTCCAAGTCATTTAATTTTTTAACTTACGGTTTAGTCTTTGTCAC
Found at i:25356396 original size:162 final size:163
Alignment explanation
Indices: 25356115--25356412 Score: 388
Period size: 162 Copynumber: 1.8 Consensus size: 163
25356105 TCTTACTTGC
* *
25356115 GGTTTAGTCTTTGTCACTTATTTTCAACCTCGATTCAGTCTAGGTTATTTAATTTTCTAACTTAC
1 GGTTTAGTCTTGGTCACTTATTTTCAACCTCGATTCAGTCTAGGTCATTTAATTTTCTAACTTAC
* *** * *
25356180 GATTCAGTTCTGCTCACTTATTTTCAACTTTGGTTCAGTCTAGGTCATTTAATTTTTTAACTTAC
66 GATTCAGTTCAGCTCACTTATTTTCAACTTCAATTCAGTCGAGGTCAATTAATTTTTTAACTTAC
25356245 GGTTCAATACCGATCACCTTCATTTTCAACTTT
131 GGTTCAATACCGATCACCTTCATTTTCAACTTT
* * * *
25356278 GGTTTAGT-TTGGTCACTTATTTTCGACTTCGATTTAGTCTAGGTCATTTAATTTTTTAACTTAC
1 GGTTTAGTCTTGGTCACTTATTTTCAACCTCGATTCAGTCTAGGTCATTTAATTTTCTAACTTAC
* * * * *
25356342 GGTTCAGTCTCAG-TCATTTATTTTTAA-TCTCAATTCAGTTCGA-GTCAATTAATTTTTTGATT
66 GATTCAGT-TCAGCTCACTTATTTTCAACT-TCAATTCAG-TCGAGGTCAATTAATTTTTTAACT
25356404 TACGGTTCA
128 TACGGTTCA
25356413 GTCTCGATCA
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
161 1 0.01
162 100 0.87
163 14 0.12
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (163 bp):
GGTTTAGTCTTGGTCACTTATTTTCAACCTCGATTCAGTCTAGGTCATTTAATTTTCTAACTTAC
GATTCAGTTCAGCTCACTTATTTTCAACTTCAATTCAGTCGAGGTCAATTAATTTTTTAACTTAC
GGTTCAATACCGATCACCTTCATTTTCAACTTT
Found at i:25356398 original size:65 final size:65
Alignment explanation
Indices: 25356320--25356527 Score: 249
Period size: 65 Copynumber: 3.2 Consensus size: 65
25356310 TTTAGTCTAG
* * * * * *
25356320 GTCATTTAATTTTTTAACTTACGGTTCAGTCTCAGTCATTTATTTTTAATCTCAATTCAGTTCGA
1 GTCATTTAATTTTTTGACTTACGGTTCAGTCTCAGTCATTTATTTTTTACCTCAATTCAATCCAA
* * * *
25356385 GTCAATTAATTTTTTGATTTACGGTTCAGTCTC-GATCACTTATTTTTTACCTCAGTTCAATCCA
1 GTCATTTAATTTTTTGACTTACGGTTCAGTCTCAG-TCATTTATTTTTTACCTCAATTCAATCCA
25356449 A
65 A
* * * * *
25356450 GTCATTTAATTTTTTGACTTGCGATTTAATC-CTAGTCATATATTTTTTACCTCAATTCAATCCA
1 GTCATTTAATTTTTTGACTTACGGTTCAGTCTC-AGTCATTTATTTTTTACCTCAATTCAATCCA
25356514 A
65 A
25356515 GTCATTTAATTTT
1 GTCATTTAATTTT
25356528 CTAAGTTATA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
64 2 0.02
65 118 0.98
66 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (65 bp):
GTCATTTAATTTTTTGACTTACGGTTCAGTCTCAGTCATTTATTTTTTACCTCAATTCAATCCAA
Done.