Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 21 of 253
Found at i:5751537 original size:23 final size:22
Alignment explanation
Indices: 5751511--5751554 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
5751501 ATAAATAGTA
5751511 ATAGTGTTAGAAATATACTATAT
1 ATAGTGTTAGAAATATA-TATAT
* *
5751534 ATAGTGTTTGAAGTATATATA
1 ATAGTGTTAGAAATATATATA
5751555 GAAAATAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (22 bp):
ATAGTGTTAGAAATATATATAT
Found at i:5751617 original size:25 final size:26
Alignment explanation
Indices: 5751583--5751635 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
5751573 ACTAGTAATG
*
5751583 TACATAATATAGTGTAAAA-A-ATACA
1 TACATAATATAAT-TAAAATATATACA
5751608 TACATAATATAATTAAAATATATACA
1 TACATAATATAATTAAAATATATACA
5751634 TA
1 TA
5751636 AAATAACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 13 0.52
26 7 0.28
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (26 bp):
TACATAATATAATTAAAATATATACA
Found at i:5751632 original size:22 final size:22
Alignment explanation
Indices: 5751600--5751641 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5751590 TATAGTGTAA
*
5751600 AAAATACATACATAATATAATT
1 AAAATACATACATAAAATAATT
*
5751622 AAAATATATACATAAAATAA
1 AAAATACATACATAAAATAA
5751642 CATGTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAAATAATT
Found at i:5751652 original size:27 final size:29
Alignment explanation
Indices: 5751622--5751697 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 29
5751612 TAATATAATT
5751622 AAAATATATACATAAAATAACAT-GTA-G
1 AAAATATATACATAAAATAACATAGTATG
* * * * *
5751649 AAAA-AAAAATATATAAATAATATAGTATT
1 AAAATATATACATA-AAATAACATAGTATG
5751678 AAAGATATATACATAAAATA
1 AAA-ATATATACATAAAATA
5751698 GTATAATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
26 6 0.17
27 12 0.33
28 3 0.08
29 3 0.08
30 6 0.17
31 6 0.17
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAATATATACATAAAATAACATAGTATG
Found at i:5751687 original size:25 final size:25
Alignment explanation
Indices: 5751657--5751780 Score: 100
Period size: 23 Copynumber: 5.2 Consensus size: 25
5751647 AGAAAAAAAA
*
5751657 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
5751682 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
5751705 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
5751729 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
5751751 A-ATATATATAATATAATATTAAAAG
1 ATATATACATAATATAGTATT-AAAG
5751776 ATATA
1 ATATA
5751781 ATAATAACAA
Statistics
Matches: 78, Mismatches: 15, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.01
22 15 0.19
23 32 0.41
24 5 0.06
25 22 0.28
26 3 0.04
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:5752099 original size:15 final size:16
Alignment explanation
Indices: 5752064--5752102 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5752054 TAATCTCCAA
*
5752064 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
5752080 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
5752096 AAAAACT
1 AAAAACT
5752103 CTTCTCCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:5760748 original size:3 final size:3
Alignment explanation
Indices: 5760740--5760764 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5760730 AAAAAGGACC
5760740 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
5760765 TTGGTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5762875 original size:30 final size:30
Alignment explanation
Indices: 5762841--5762898 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
5762831 TTTAACAAGC
*
5762841 AAATGCCTCTAGAATAATAACAAAATTAGG
1 AAATGCCTCTAAAATAATAACAAAATTAGG
* * *
5762871 AAATGTCTTTAAAATAATAATAAAATTA
1 AAATGCCTCTAAAATAATAACAAAATTA
5762899 ATAATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAGG
Found at i:5762902 original size:12 final size:12
Alignment explanation
Indices: 5762880--5762908 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5762870 GAAATGTCTT
5762880 TAAAA-TAATAA
1 TAAAATTAATAA
5762891 TAAAATTAATAA
1 TAAAATTAATAA
5762903 TAAAAT
1 TAAAAT
5762909 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:5762957 original size:22 final size:22
Alignment explanation
Indices: 5762932--5762974 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5762922 TATCCAAACA
5762932 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
5762954 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
5762975 AATAGGGAAA
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:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:5762978 original size:11 final size:11
Alignment explanation
Indices: 5762939--5762979 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
5762929 ACAATAACAA
5762939 CAAAATAGTAG
1 CAAAATAGTAG
* *
5762950 CAACATAATAG
1 CAAAATAGTAG
*
5762961 TAAAATAGTAG
1 CAAAATAGTAG
5762972 CAAAATAG
1 CAAAATAG
5762980 GGAAAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:5768799 original size:35 final size:35
Alignment explanation
Indices: 5768753--5768827 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
5768743 ATTAGGATGC
5768753 CATTATGATAATCAAATCATGATGTTGATGATAAA
1 CATTATGATAATCAAATCATGATGTTGATGATAAA
5768788 CATTATGATAATCAAATCATGATGTTGATGATAAA
1 CATTATGATAATCAAATCATGATGTTGATGATAAA
5768823 CATTA
1 CATTA
5768828 AATATGTTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (35 bp):
CATTATGATAATCAAATCATGATGTTGATGATAAA
Found at i:5770904 original size:35 final size:37
Alignment explanation
Indices: 5770836--5770904 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 37
5770826 TTTATATATA
* * *
5770836 TTATGTATATATTTTTTTAATGCCATTAGTATATTTC
1 TTATGTATATATTTCTTAAATACCATTAGTATATTTC
*
5770873 TTATGTATATA-TTCTTAAATACTATTA-TATAT
1 TTATGTATATATTTCTTAAATACCATTAGTATAT
5770905 ATATATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.18
36 12 0.43
37 11 0.39
ACGTcount: A:0.32, C:0.07, G:0.06, T:0.55
Consensus pattern (37 bp):
TTATGTATATATTTCTTAAATACCATTAGTATATTTC
Found at i:5771144 original size:37 final size:37
Alignment explanation
Indices: 5771102--5771201 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 37
5771092 CTAATATTTT
5771102 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
5771139 CTTTTATTATATGCATA-TATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATATTAT-TAT-TATTATTATGTACATA
*
5771180 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
5771202 CCAAATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 16 0.30
38 7 0.13
39 6 0.11
40 11 0.21
41 11 0.21
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:5774879 original size:12 final size:12
Alignment explanation
Indices: 5774862--5774897 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5774852 AACATTTTGA
5774862 CATTCATACATT
1 CATTCATACATT
**
5774874 CATTCATGTATT
1 CATTCATACATT
5774886 CATTCATACATT
1 CATTCATACATT
5774898 GCATATCCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (12 bp):
CATTCATACATT
Found at i:5783351 original size:53 final size:53
Alignment explanation
Indices: 5783292--5783489 Score: 166
Period size: 53 Copynumber: 3.5 Consensus size: 53
5783282 TTTTAAATTG
5783292 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCA
* * * * * **
5783345 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACACTGACGTATTTTTA-GTTTC-AAATTG
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTTATTTTTCAAAATCA
* **
5783408 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCA
* *
5783461 ACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
5783490 CGGGGCACGC
Statistics
Matches: 112, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
51 5 0.04
52 4 0.04
53 58 0.52
54 1 0.01
62 2 0.02
63 31 0.28
64 4 0.04
65 7 0.06
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (53 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCA
Found at i:5783421 original size:116 final size:116
Alignment explanation
Indices: 5783205--5783510 Score: 508
Period size: 116 Copynumber: 2.6 Consensus size: 116
5783195 GTTGAGGTAT
* * *
5783205 TTTTAATTGTTG--TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTCGGGGCACGC
1 TTTTAATT-TTGATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
*
5783268 TGAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
65 TGAGGTATTTTTAGTTTCAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
* *
5783320 TTTTAATTTTTATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACACT
1 TTTTAATTTTGATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
5783385 GACGTATTTTTAGTTTCAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTCAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
* *
5783436 TTTTTATTTTGGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTGATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
5783501 GAGGTATTTT
66 GAGGTATTTT
5783511 GAATTTTTGT
Statistics
Matches: 177, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
114 2 0.01
115 8 0.05
116 167 0.94
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (116 bp):
TTTTAATTTTGATTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTTAGTTTCAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:5783558 original size:72 final size:73
Alignment explanation
Indices: 5783447--5783630 Score: 212
Period size: 72 Copynumber: 2.5 Consensus size: 73
5783437 TTTTATTTTG
* * * * * *
5783447 GTTTTTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
1 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTT
* *
5783511 GAATTTTT
66 CAATTTCT
* ** * *
5783519 GTGTT-TTAA-TTTCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACAGGATGAGGTAATT
1 GT-TTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATT
5783582 TCAATTTCT
65 TCAATTTCT
*
5783591 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
5783631 ACCTTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
71 2 0.02
72 62 0.67
73 28 0.30
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (73 bp):
GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTT
CAATTTCT
Found at i:5784005 original size:30 final size:30
Alignment explanation
Indices: 5783964--5784021 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
5783954 TCATATTGCA
5783964 AGAGGTGAGTTGAG-CTTTTTAATTTCTGCG
1 AGAGGTGAGTTGAGTC-TTTTAATTTCTGCG
*
5783994 AGAGTTGAGTTGAGTCTTTTAATTTCTG
1 AGAGGTGAGTTGAGTCTTTTAATTTCTG
5784022 TTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.43
Consensus pattern (30 bp):
AGAGGTGAGTTGAGTCTTTTAATTTCTGCG
Found at i:5786794 original size:12 final size:12
Alignment explanation
Indices: 5786777--5786801 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5786767 AACATAAAAG
5786777 ATTTATTTATTA
1 ATTTATTTATTA
5786789 ATTTATTTATTA
1 ATTTATTTATTA
5786801 A
1 A
5786802 GTACGTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTATTTATTA
Found at i:5787972 original size:49 final size:49
Alignment explanation
Indices: 5787916--5788015 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
5787906 AATAGGGCAT
5787916 GGACATTGACACTATGATGGGTTATGTCTTATGGAATTACTATATAAAA
1 GGACATTGACACTATGATGGGTTATGTCTTATGGAATTACTATATAAAA
*
5787965 GGACATTGACACTATGATGGGTTATGTCTTATGGATTTACTATATAAAA
1 GGACATTGACACTATGATGGGTTATGTCTTATGGAATTACTATATAAAA
5788014 GG
1 GG
5788016 CCCTCGGTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (49 bp):
GGACATTGACACTATGATGGGTTATGTCTTATGGAATTACTATATAAAA
Found at i:5792018 original size:3 final size:3
Alignment explanation
Indices: 5792012--5792047 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
5792002 TGTTTTTTTT
* *
5792012 TAA TAA TAA TAA TAA TAA TGA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5792048 ATATTATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5792363 original size:22 final size:22
Alignment explanation
Indices: 5792338--5792395 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
5792328 TGATATTAGT
*
5792338 AATAAAAAATAATAGCTATAAA
1 AATAAAAAATAATAGCCATAAA
* * *
5792360 AAT-AAAAATAATAACCATGAC
1 AATAAAAAATAATAGCCATAAA
*
5792381 AATAAAGAATAATAG
1 AATAAAAAATAATAG
5792396 TAATAATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAAAAAATAATAGCCATAAA
Found at i:5792600 original size:12 final size:12
Alignment explanation
Indices: 5792583--5792697 Score: 51
Period size: 12 Copynumber: 9.2 Consensus size: 12
5792573 AATACTAAGA
5792583 TAATAATAATAG
1 TAATAATAATAG
*
5792595 TAATAAT-ATAA
1 TAATAATAATAG
* *
5792606 TGATAATAGATAT
1 TAATAATA-ATAG
*
5792619 TAATAATAAAAGGAG
1 TAATAAT--AA-TAG
5792634 TAATAATATCAGTAG
1 TAATAATA--A-TAG
*
5792649 TAAATAAAAATAG
1 T-AATAATAATAG
* *
5792662 TGATAA-CA-A-
1 TAATAATAATAG
5792671 TAATGAA-AATAG
1 TAAT-AATAATAG
5792683 TAATAATAATAG
1 TAATAATAATAG
5792695 TAA
1 TAA
5792698 ATACTAAGGA
Statistics
Matches: 79, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 13 0.16
12 23 0.29
13 14 0.18
14 2 0.03
15 14 0.18
16 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:5792642 original size:24 final size:23
Alignment explanation
Indices: 5792585--5792642 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
5792575 TACTAAGATA
* * *
5792585 ATAATAATAGTAATAATATAATG
1 ATAATAATATTAATAATAAAAGG
5792608 ATAATAGATATTAATAATAAAAGG
1 ATAATA-ATATTAATAATAAAAGG
5792632 AGTAATAATAT
1 A-TAATAATAT
5792643 CAGTAGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.20
24 19 0.63
25 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (23 bp):
ATAATAATATTAATAATAAAAGG
Found at i:5792831 original size:28 final size:28
Alignment explanation
Indices: 5792773--5792834 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
5792763 AACGCCAATG
* * *
5792773 ATAATATTAATATTGATAATAAATAATA
1 ATAATATAAACATTGATAATAAATAAAA
*
5792801 ATAATATAAACATTGATGAT-AATAGAAA
1 ATAATATAAACATTGATAATAAATA-AAA
5792829 ATAATA
1 ATAATA
5792835 ATGTTAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (28 bp):
ATAATATAAACATTGATAATAAATAAAA
Found at i:5792886 original size:30 final size:30
Alignment explanation
Indices: 5792845--5792904 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
5792835 ATGTTAAAAC
* * *
5792845 ATAATAGCAATGGTGATAATAAT-AATAATA
1 ATAATAACAATGCTGAAAAT-ATGAATAATA
5792875 ATAATAACAATGCTGAAAATATGAATAATA
1 ATAATAACAATGCTGAAAATATGAATAATA
5792905 GTAACATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (30 bp):
ATAATAACAATGCTGAAAATATGAATAATA
Found at i:5803964 original size:20 final size:20
Alignment explanation
Indices: 5803939--5803981 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
5803929 AAACACTACC
5803939 TTTCAATATTTATATAATCA
1 TTTCAATATTTATATAATCA
5803959 TTTCAATATTTATATAATCA
1 TTTCAATATTTATATAATCA
5803979 TTT
1 TTT
5803982 ACATAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTCAATATTTATATAATCA
Found at i:5804547 original size:82 final size:81
Alignment explanation
Indices: 5804410--5804572 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 81
5804400 AGCAAATCTA
*
5804410 AATAAACATAGTGTTAATATTCTATCATCAATAAATTTTTACTTTACTTTATCATCCCGAGTTGC
1 AATAAACATAGTGTTAATATTCTATCATCAATAAATTTTTACTTTACTTTATCATCCCAAGTTGC
5804475 CAAACAATGATGGATT
66 CAAACAATGATGGATT
* *
5804491 AATAAACATATTGTGTTAATATTCTATCATCAAT-AATTTTTAGTTTACTTTGTCATCCCAAGTT
1 AATAAACATA--GTGTTAATATTCTATCATCAATAAATTTTTACTTTACTTTATCATCCCAAGTT
*
5804555 GCCTAACAATGATGGATT
64 GCCAAACAATGATGGATT
5804573 TCATTGATAT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
81 10 0.13
82 44 0.58
83 22 0.29
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (81 bp):
AATAAACATAGTGTTAATATTCTATCATCAATAAATTTTTACTTTACTTTATCATCCCAAGTTGC
CAAACAATGATGGATT
Found at i:5810065 original size:17 final size:18
Alignment explanation
Indices: 5810035--5810068 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
5810025 ACGTGGCTTG
5810035 CCCGTGTGGGCCCACATA
1 CCCGTGTGGGCCCACATA
5810053 CCCGTGT-GGCCCACAT
1 CCCGTGTGGGCCCACAT
5810069 GGCCCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.15, C:0.41, G:0.26, T:0.18
Consensus pattern (18 bp):
CCCGTGTGGGCCCACATA
Found at i:5810106 original size:33 final size:33
Alignment explanation
Indices: 5810054--5810123 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
5810044 GCCCACATAC
* *
5810054 CCGTGTGGCCCACATGGCCCAAATTGGCCTTAA
1 CCGTATGGCCCACACGGCCCAAATTGGCCTTAA
* *
5810087 CCGTATGGCCCATACGGCCCAAATTGGCCTTGA
1 CCGTATGGCCCACACGGCCCAAATTGGCCTTAA
5810120 CCGT
1 CCGT
5810124 GTGGAACACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.20, C:0.34, G:0.24, T:0.21
Consensus pattern (33 bp):
CCGTATGGCCCACACGGCCCAAATTGGCCTTAA
Found at i:5812756 original size:2 final size:2
Alignment explanation
Indices: 5812744--5812778 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
5812734 ATTAATTAGA
*
5812744 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5812779 TTTAAGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:5813140 original size:21 final size:21
Alignment explanation
Indices: 5813116--5813184 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
5813106 GGTTGGACGA
5813116 TAATAAATGTCATATAGAGTG
1 TAATAAATGTCATATAGAGTG
* * * *
5813137 TAATAAAATATTA-AAAAAGT-
1 TAAT-AAATGTCATATAGAGTG
*
5813157 AAATAAATGTCATATAGAGTG
1 TAATAAATGTCATATAGAGTG
5813178 TAATAAA
1 TAATAAA
5813185 ATATTAAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 6 0.17
20 8 0.23
21 15 0.43
22 6 0.17
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (21 bp):
TAATAAATGTCATATAGAGTG
Found at i:5813172 original size:41 final size:41
Alignment explanation
Indices: 5813117--5813202 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
5813107 GTTGGACGAT
5813117 AATAAATGTCATATAGAGTGTAATAAAATATTAAAAAAGTA
1 AATAAATGTCATATAGAGTGTAATAAAATATTAAAAAAGTA
5813158 AATAAATGTCATATAGAGTGTAATAAAATATTAAAAAAGTA
1 AATAAATGTCATATAGAGTGTAATAAAATATTAAAAAAGTA
5813199 AATA
1 AATA
5813203 TATAAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (41 bp):
AATAAATGTCATATAGAGTGTAATAAAATATTAAAAAAGTA
Found at i:5813892 original size:23 final size:23
Alignment explanation
Indices: 5813861--5813911 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
5813851 TCTTATAAGC
*
5813861 AATTGAATGAATATATTCAATTA
1 AATTAAATGAATATATTCAATTA
5813884 AATTAAATGAATATATTCAATTA
1 AATTAAATGAATATATTCAATTA
5813907 AATTA
1 AATTA
5813912 GGGTTCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (23 bp):
AATTAAATGAATATATTCAATTA
Found at i:5815741 original size:24 final size:23
Alignment explanation
Indices: 5815709--5815776 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 23
5815699 GGTTTCTTGG
5815709 TTTTTTTTGGGGGTTAGGTTTTCT
1 TTTTTTTTGGGGGTTAGGTTTT-T
5815733 TTTTTTTT--GGGTTAGGTTTTT
1 TTTTTTTTGGGGGTTAGGTTTTT
5815754 TTTTTTTT---GGTTAGGTTTTT
1 TTTTTTTTGGGGGTTAGGTTTTT
5815774 TTT
1 TTT
5815777 GGAGGGCTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.34
21 9 0.20
22 12 0.27
24 8 0.18
ACGTcount: A:0.04, C:0.01, G:0.24, T:0.71
Consensus pattern (23 bp):
TTTTTTTTGGGGGTTAGGTTTTT
Found at i:5816743 original size:34 final size:33
Alignment explanation
Indices: 5816705--5816769 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 33
5816695 GCAATATGAG
*
5816705 TTGAAAACAGAAATTGAAATTACCTCAGCGTGAT
1 TTGAAAACAGAAATTGAAAATACCTC-GCGTGAT
5816739 TTGAAAACAGAAATTGAAAATACCTCGCGTG
1 TTGAAAACAGAAATTGAAAATACCTCGCGTG
5816770 CCGAGGCTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (33 bp):
TTGAAAACAGAAATTGAAAATACCTCGCGTGAT
Found at i:5816929 original size:67 final size:68
Alignment explanation
Indices: 5816738--5816976 Score: 353
Period size: 68 Copynumber: 3.5 Consensus size: 68
5816728 CTCAGCGTGA
*
5816738 TTTGAAAACAGAAATTGAAAATACCTC-GCGTG-CCGAGGCTCAACTCACTCTCGCAATATGAGT
1 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCA-TCTCGCAATATGAGT
*
5816801 T-TT
65 TGAT
*
5816804 TTTGAAAAACAAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCGCAATATGA
1 TTTG-AAAAC-AGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCATCTCGCAATATGA
5816869 GTTGAT
63 GTTGAT
5816875 TTTGAAAACAGAAATTG-AAATACCTCAGCGTGTCTGAGGCTCAACTCATCTCGCAATATGAGTT
1 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCATCTCGCAATATGAGTT
5816939 GATT
66 GA-T
* *
5816943 TTTTAAAACA-AAATTGAAATTACCTCAGCGTGTC
1 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTC
5816977 CTGAACAAAA
Statistics
Matches: 159, Mismatches: 6, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
66 4 0.03
67 44 0.28
68 59 0.37
69 12 0.08
70 21 0.13
71 19 0.12
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (68 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCATCTCGCAATATGAGTT
GAT
Found at i:5817123 original size:61 final size:66
Alignment explanation
Indices: 5817055--5817244 Score: 227
Period size: 70 Copynumber: 2.9 Consensus size: 66
5817045 AAAATTGAAT
5817055 TACCTCAGCGTGTCCCCGAGG-TCAACTCACTCTCGCAATATGAGTTGATTTTTGAAA-AAA-AA
1 TACCTCAGCGTGTCCCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAGAAATAA
5817117 A
66 A
*
5817118 -A-CTCAGCGTCTCCCC-AGGCTCAACTCAC-CTCGCAATATGATGTTGA-TTTTGACAACAGAA
1 TACCTCAGCGTGTCCCCGAGGCTCAACTCACTCTCGCAATATGA-GTTGATTTTTG--AA-AGAA
5817178 ATTGAAA
62 A-T-AAA
*
5817185 TTACCTCAGCGTGT-CCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTGAAAG
1 -TACCTCAGCGTGTCCCCGAGGCTCAACTCACTCTCGCAATATGAGTTGA-TTTTTGAAAG
5817245 CAGAAATAAA
Statistics
Matches: 108, Mismatches: 3, Indels: 26
0.79 0.02 0.19
Matches are distributed among these distances:
60 20 0.19
61 27 0.25
62 3 0.03
63 1 0.01
64 3 0.03
67 3 0.03
69 5 0.05
70 29 0.27
71 12 0.11
72 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (66 bp):
TACCTCAGCGTGTCCCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAGAAATAA
A
Found at i:5825463 original size:12 final size:12
Alignment explanation
Indices: 5825443--5825478 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
5825433 TCGGATATGC
*
5825443 AATGTATGAATG
1 AATGCATGAATG
5825455 AATGCATGAATG
1 AATGCATGAATG
5825467 AATGCATGAATG
1 AATGCATGAATG
5825479 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:5828000 original size:25 final size:25
Alignment explanation
Indices: 5827966--5828020 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
5827956 TTTCTTGGTT
*
5827966 TTTTTTTTTTGGGGTTAGGTTTTTC
1 TTTTTCTTTTGGGGTTAGGTTTTTC
* *
5827991 TTTTTCTTTTTGGGTTAGGTTTTTT
1 TTTTTCTTTTGGGGTTAGGTTTTTC
5828016 TTTTT
1 TTTTT
5828021 TGGTTAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.04, C:0.04, G:0.20, T:0.73
Consensus pattern (25 bp):
TTTTTCTTTTGGGGTTAGGTTTTTC
Found at i:5828034 original size:19 final size:20
Alignment explanation
Indices: 5827962--5828036 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 20
5827952 AGGGTTTCTT
5827962 GGTTTTTTTTTTTTGGGGTTA
1 GGTTTTTTTTTTTT-GGGTTA
5827983 GGTTTTTCTTTTTCTTTTTGGGTTA
1 GG---TT-TTTTT-TTTTTGGGTTA
5828008 GGTTTTTTTTTTTT-GGTTA
1 GGTTTTTTTTTTTTGGGTTA
5828027 GGTTTTTTTT
1 GGTTTTTTTT
5828037 GGGGGGGGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
19 15 0.31
20 5 0.10
21 7 0.14
22 2 0.04
24 2 0.04
25 13 0.27
26 5 0.10
ACGTcount: A:0.04, C:0.03, G:0.23, T:0.71
Consensus pattern (20 bp):
GGTTTTTTTTTTTTGGGTTA
Found at i:5834291 original size:32 final size:32
Alignment explanation
Indices: 5834245--5834316 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
5834235 TTTGACTATC
* *
5834245 ATTTTTAATAAAAATTCTGACTAAAACGTTAA
1 ATTTTTAATAAAAATACTAACTAAAACGTTAA
* * *
5834277 ATTTTTAATGAAAATACTAATTAAAATGTTAA
1 ATTTTTAATAAAAATACTAACTAAAACGTTAA
5834309 ATTTTTAA
1 ATTTTTAA
5834317 ACATAGCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (32 bp):
ATTTTTAATAAAAATACTAACTAAAACGTTAA
Found at i:5838798 original size:21 final size:21
Alignment explanation
Indices: 5838772--5838811 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5838762 TCATGCCAAG
*
5838772 CAGATTAGAACTCACCTGAGC
1 CAGATTAAAACTCACCTGAGC
5838793 CAGATTAAAACTCACCTGA
1 CAGATTAAAACTCACCTGA
5838812 ATTCATCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.20
Consensus pattern (21 bp):
CAGATTAAAACTCACCTGAGC
Found at i:5841156 original size:6 final size:6
Alignment explanation
Indices: 5841131--5841169 Score: 51
Period size: 6 Copynumber: 6.0 Consensus size: 6
5841121 AAAAGAAGGA
5841131 TTTTTCC TTTCTTGC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTT-C TTT-TT-C TTTTTC TTTTTC TTTTTC TTTTTC
5841170 CACCGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 19 0.63
7 5 0.17
8 6 0.20
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:5847015 original size:40 final size:40
Alignment explanation
Indices: 5846960--5847037 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 40
5846950 TACGGTACCT
5846960 TTTGGTGTGTAGGGTTG-GATGGGTTGATTATATCCCCATG
1 TTTGGTGTGTAGGGTTGAG-TGGGTTGATTATATCCCCATG
*
5847000 TTTGGTGTGTAGGGTTGAGTGGGTTGATTCTATCCCCA
1 TTTGGTGTGTAGGGTTGAGTGGGTTGATTATATCCCCA
5847038 CATGGTGTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.35, T:0.40
Consensus pattern (40 bp):
TTTGGTGTGTAGGGTTGAGTGGGTTGATTATATCCCCATG
Found at i:5847053 original size:38 final size:39
Alignment explanation
Indices: 5846962--5847055 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
5846952 CGGTACCTTT
**
5846962 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATGTT
1 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCA-GCA
*
5847002 TGGTGTGTAGGGTT-GAGTGGGTTGATTCTATCCCCA-CA
1 TGGTGTGTAGGGTTGGA-TGGGTTGATTATATCCCCAGCA
*
5847040 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
5847056 TTGGAGATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 13 0.27
39 3 0.06
40 32 0.67
ACGTcount: A:0.13, C:0.11, G:0.38, T:0.38
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCAGCA
Found at i:5855708 original size:17 final size:17
Alignment explanation
Indices: 5855686--5855736 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
5855676 GGGTAAACCA
5855686 TCTTTTATAAAAAAATT
1 TCTTTTATAAAAAAATT
* *
5855703 TCTTTTAT-GAATAATT
1 TCTTTTATAAAAAAATT
*
5855719 TCATTTTATATAAAAATT
1 TC-TTTTATAAAAAAATT
5855737 AATTTGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 8 0.29
17 14 0.50
18 6 0.21
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (17 bp):
TCTTTTATAAAAAAATT
Found at i:5858453 original size:21 final size:21
Alignment explanation
Indices: 5858424--5858464 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5858414 TTTATGTTAT
* *
5858424 AAATTACATAATATTATATAA
1 AAATAACATAATATAATATAA
5858445 AAATAACATAATATAATATA
1 AAATAACATAATATAATATA
5858465 TTACAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATAACATAATATAATATAA
Found at i:5872007 original size:28 final size:28
Alignment explanation
Indices: 5871967--5872024 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
5871957 GTTCTTGAGT
5871967 TTCAAGGTAGTTAGGAAAATTATCTAAC
1 TTCAAGGTAGTTAGGAAAATTATCTAAC
5871995 TTCAAGGTAGTTAGGAAAATTATCTAAC
1 TTCAAGGTAGTTAGGAAAATTATCTAAC
5872023 TT
1 TT
5872025 TGGTCGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (28 bp):
TTCAAGGTAGTTAGGAAAATTATCTAAC
Found at i:5881832 original size:17 final size:17
Alignment explanation
Indices: 5881812--5881847 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5881802 GGAAGCTAAG
5881812 GATTCTTGGATAACGTA
1 GATTCTTGGATAACGTA
5881829 GATTCTTGGATAACGTA
1 GATTCTTGGATAACGTA
5881846 GA
1 GA
5881848 GGTGTTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (17 bp):
GATTCTTGGATAACGTA
Found at i:5885449 original size:27 final size:27
Alignment explanation
Indices: 5885419--5885498 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
5885409 TAACTTAGGC
* *
5885419 AATATGAAAGGAACA-CCTTTATGGTGT
1 AATATGAAA-GAAAAGCCTTTATGGCGT
*
5885446 AATATGAAAGAAAAGCCTTTGTGGCGT
1 AATATGAAAGAAAAGCCTTTATGGCGT
* *
5885473 AATATGAAAAAAAAGCCTTTGTGGCG
1 AATATGAAAGAAAAGCCTTTATGGCG
5885499 AACTCTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.08
27 44 0.92
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (27 bp):
AATATGAAAGAAAAGCCTTTATGGCGT
Found at i:5885507 original size:27 final size:27
Alignment explanation
Indices: 5885434--5885498 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
5885424 GAAAGGAACA
* * *
5885434 CCTTTATGGTGTAATATGAAAGAAAAG
1 CCTTTGTGGCGTAATATGAAAAAAAAG
5885461 CCTTTGTGGCGTAATATGAAAAAAAAG
1 CCTTTGTGGCGTAATATGAAAAAAAAG
5885488 CCTTTGTGGCG
1 CCTTTGTGGCG
5885499 AACTCTGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCGTAATATGAAAAAAAAG
Found at i:5888053 original size:6 final size:6
Alignment explanation
Indices: 5888042--5888120 Score: 149
Period size: 6 Copynumber: 13.2 Consensus size: 6
5888032 TCCTAAGCTT
*
5888042 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA GAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
5888090 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
5888121 GGGGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:5895818 original size:42 final size:42
Alignment explanation
Indices: 5895772--5895893 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
5895762 TCCAACACTA
*
5895772 TTTCCTGACTGACCT-CCATTTCC-GATACCAAATCCAATACCG
1 TTTCCTAACTG-CCTCCCATTTCCAG-TACCAAATCCAATACCG
** *
5895814 TTTCCTAACTGGTTCCCATTTCCAGTACCATATCCAATACCCG
1 TTTCCTAACTGCCTCCCATTTCCAGTACCAAATCCAATA-CCG
** * *
5895857 -TTCCTAACTGGTTCCCATTTCCAGTGCCATATCCAAT
1 TTTCCTAACTGCCTCCCATTTCCAGTACCAAATCCAAT
5895894 GCCATATCCC
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
41 1 0.01
42 67 0.93
43 4 0.06
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (42 bp):
TTTCCTAACTGCCTCCCATTTCCAGTACCAAATCCAATACCG
Found at i:5896106 original size:42 final size:44
Alignment explanation
Indices: 5896014--5896114 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 44
5896004 GATCCCCATT
* *
5896014 TCCAATGCCATACCCAATGCCCATCCCTAACTGGTTCCCACTTC
1 TCCAATGCCATATCCAATGCCCATACCTAACTGGTTCCCACTTC
* ** *
5896058 -CC-ATGCCATGTCCAATGCCTGTACCTACCTGGTT-CC-CTTC
1 TCCAATGCCATATCCAATGCCCATACCTAACTGGTTCCCACTTC
5896098 TCCAATGCCATATCCAA
1 TCCAATGCCATATCCAA
5896115 CGCCATATCC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
40 4 0.08
41 4 0.08
42 38 0.79
43 2 0.04
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.27
Consensus pattern (44 bp):
TCCAATGCCATATCCAATGCCCATACCTAACTGGTTCCCACTTC
Found at i:5896174 original size:54 final size:54
Alignment explanation
Indices: 5896056--5896174 Score: 166
Period size: 54 Copynumber: 2.2 Consensus size: 54
5896046 GGTTCCCACT
* * *
5896056 TCCCATGCCATGTCCAATGCCTGTACCTACCTGGTTCCCTTCTCCAATGCCATA
1 TCCCATGCCATATCCAATGCCTGTACCTAACTGGTTCCCATCTCCAATGCCATA
* * * * *
5896110 TCCAACGCCATATCCAGTGGCTGTACCTAACTGGTTCCCATCTTCAATGCCATA
1 TCCCATGCCATATCCAATGCCTGTACCTAACTGGTTCCCATCTCCAATGCCATA
5896164 TCCCATGCCAT
1 TCCCATGCCAT
5896175 TTCCTGAGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.21, C:0.37, G:0.13, T:0.29
Consensus pattern (54 bp):
TCCCATGCCATATCCAATGCCTGTACCTAACTGGTTCCCATCTCCAATGCCATA
Found at i:5901202 original size:38 final size:38
Alignment explanation
Indices: 5901142--5901225 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
5901132 ATTTGATGTG
* * *
5901142 TATTCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTA
1 TATTCGGGATAAATCCTGCAGGCCTAGTGCTGGTATTA
*
5901180 TATTTGGGATAAAT-CTCGCAGGCCTAGTGCTGGTATTA
1 TATTCGGGATAAATCCT-GCAGGCCTAGTGCTGGTATTA
5901218 TATTCGGG
1 TATTCGGG
5901226 CCTTTGTGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 2 0.05
38 38 0.95
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (38 bp):
TATTCGGGATAAATCCTGCAGGCCTAGTGCTGGTATTA
Found at i:5901682 original size:45 final size:42
Alignment explanation
Indices: 5901615--5901722 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
5901605 TTGACTTGAT
* * *
5901615 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGACGGT--GA-AC
*
5901660 TATTCGGGCCTTCGAGCCTAGCAGACTATAATGACGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGACGGTGAAC
5901702 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
5901723 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGACGGTGAAC
Found at i:5920056 original size:3 final size:3
Alignment explanation
Indices: 5920048--5920081 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5920038 ATTTGACTTC
5920048 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5920082 CACAATTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5920420 original size:172 final size:168
Alignment explanation
Indices: 5920072--5920478 Score: 466
Period size: 171 Copynumber: 2.4 Consensus size: 168
5920062 TTATTATTAT
* * *
5920072 TATTATTATTCACAATTATC--ATTTTTCTTGTCGAAATTAAGATGTCCACTATCGGTAGCAATG
1 TATTATTATTCACAATTATCATATTTTTTTTCTCGAAATTAAGATGTCCACTACCGGTAGCAATG
* * * *
5920135 ATTAATTCCCTCGTTTGTCTCCAACTTGGACAAATATAGAAATAAAAATCAAAGGGTCCCACTCC
66 ACTAATCCCCTCGTGTGTCTCCAACTTGGACAAATATAGAAACAAAAATCAAAGGGTCCCACTCC
* *
5920200 CAACACTTCTAAAAATATTCAAATATGACTATTCAAAG
131 CAACACTACTAAAAATATTCAAATATGACTACTCAAAG
* * * * *
5920238 TATCATTATTCACAATTATTCATATTTTTTTTCTCTTGAAATTAGGATGTCTATTGCCGGTAGCA
1 TATTATTATTCACAATTA-TCATATTTTTTTTCTC--GAAATTAAGATGTCCACTACCGGTAGCA
* * *
5920303 ATGACTAATCCCCTCGTGTG-CTTCCAACTTGGACAAATGTCA-AAGCAAATATCAAAGGGTTCC
63 ATGACTAATCCCCTCGTGTGTC-TCCAACTTGGACAAATAT-AGAAACAAAAATCAAAGGG-TCC
* ** *
5920366 CACTCCCAACGCTACTTGAAATATTCAAATTTGACTACTCAAAG
125 CACTCCCAACACTACTAAAAATATTCAAATATGACTACTCAAAG
* * * **
5920410 TATTATTATTCACAATCATCAATATTTTTTTT-TCCAAATT-AGAATGTCCATTATTGGTAGCAA
1 TATTATTATTCACAATTATC-ATATTTTTTTTCTCGAAATTAAG-ATGTCCACTACCGGTAGCAA
5920473 TGACTA
64 TGACTA
5920479 GTTCCATCGT
Statistics
Matches: 202, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
166 17 0.08
167 2 0.01
168 1 0.00
169 37 0.18
170 1 0.00
171 75 0.37
172 69 0.34
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (168 bp):
TATTATTATTCACAATTATCATATTTTTTTTCTCGAAATTAAGATGTCCACTACCGGTAGCAATG
ACTAATCCCCTCGTGTGTCTCCAACTTGGACAAATATAGAAACAAAAATCAAAGGGTCCCACTCC
CAACACTACTAAAAATATTCAAATATGACTACTCAAAG
Found at i:5930354 original size:25 final size:25
Alignment explanation
Indices: 5930322--5930378 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
5930312 TTCACTATAG
*
5930322 TTTCAGAGGATGCTAACTATAGTAT
1 TTTCAGAGGATGCTAACTACAGTAT
* *
5930347 TTTCAGAGTATGCTATCTACAGTAT
1 TTTCAGAGGATGCTAACTACAGTAT
5930372 TTTCAGA
1 TTTCAGA
5930379 ATAAACTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (25 bp):
TTTCAGAGGATGCTAACTACAGTAT
Found at i:5930390 original size:25 final size:25
Alignment explanation
Indices: 5930342--5930390 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5930332 TGCTAACTAT
* **
5930342 AGTATTTTCAGAGTATGCTATCTAC
1 AGTATTTTCAGAATAAACTATCTAC
*
5930367 AGTATTTTCAGAATAAACTGTCTA
1 AGTATTTTCAGAATAAACTATCTA
5930391 AACTTCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (25 bp):
AGTATTTTCAGAATAAACTATCTAC
Found at i:5943091 original size:20 final size:21
Alignment explanation
Indices: 5943063--5943101 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
5943053 CCTATAATTA
5943063 CTATATCACATTG-TTTCTTC
1 CTATATCACATTGATTTCTTC
* *
5943083 CTATTTCACTTTGATTTCT
1 CTATATCACATTGATTTCT
5943102 CAAAACCGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (21 bp):
CTATATCACATTGATTTCTTC
Found at i:5946824 original size:25 final size:25
Alignment explanation
Indices: 5946790--5946839 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5946780 TAAATAGAGA
5946790 AAAATAATTAAATTTAAATTTAAAT
1 AAAATAATTAAATTTAAATTTAAAT
* * **
5946815 AAAATGATTAATTTTTTATTTAAAT
1 AAAATAATTAAATTTAAATTTAAAT
5946840 TTATTAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AAAATAATTAAATTTAAATTTAAAT
Found at i:5947391 original size:5 final size:6
Alignment explanation
Indices: 5947375--5947431 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
5947365 TTGTTTACAT
* * *
5947375 TAAAAA TAAAAA TAAAAA TAAAAA TCAAGGAGA CAAAAA GTAAAAA GAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-AA--AAA TAAAAA -TAAAAA TAAAAA
5947427 TAAAA
1 TAAAA
5947432 GCATGTGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
6 30 0.73
7 7 0.17
8 2 0.05
9 2 0.05
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (6 bp):
TAAAAA
Found at i:5948336 original size:23 final size:23
Alignment explanation
Indices: 5948308--5948401 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
5948298 ATGTGTGTAT
* *
5948308 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
5948331 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
5948354 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
5948377 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
5948400 CT
1 CT
5948402 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:5952841 original size:23 final size:23
Alignment explanation
Indices: 5952813--5952906 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
5952803 ATGTGTGTAT
* *
5952813 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
5952836 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
5952859 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
5952882 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
5952905 CT
1 CT
5952907 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:5955349 original size:21 final size:22
Alignment explanation
Indices: 5955323--5955369 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5955313 CTCTGCTCAA
*
5955323 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
5955344 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
5955366 ACTC
1 ACTC
5955370 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:5978273 original size:43 final size:43
Alignment explanation
Indices: 5978239--5978558 Score: 559
Period size: 43 Copynumber: 7.4 Consensus size: 43
5978229 CGGCATTACA
*
5978239 CCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
5978282 CCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCAAGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
5978325 CCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
5978368 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGACATGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
5978411 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
5978454 CCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
5978497 CCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
5978540 CCTGCTAGGCACGAAGGCC
1 CCTGCTAGGCACGAAGGCC
5978559 AAAATATAAT
Statistics
Matches: 262, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 262 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:5978623 original size:38 final size:38
Alignment explanation
Indices: 5978580--5978664 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
5978570 CCAGCACTAG
* *
5978580 GCCTGCGGGATTTATCCCTGATATTATACCAACACGAA
1 GCCTGCGGGATTTAACCCGGATATTATACCAACACGAA
* *
5978618 GCCTGCGGGATTTAACCCGGATATTTTACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATTATACCAACACGAA
5978656 GCCTGCGGG
1 GCCTGCGGG
5978665 TCTTTAAGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (38 bp):
GCCTGCGGGATTTAACCCGGATATTATACCAACACGAA
Found at i:5981775 original size:82 final size:82
Alignment explanation
Indices: 5981638--5981803 Score: 332
Period size: 82 Copynumber: 2.0 Consensus size: 82
5981628 GGAATCACAT
5981638 TATCACTATAGAATATTGCAATAATAAGCGAATAGAACATACATTTTAACGATACAATAGCAATT
1 TATCACTATAGAATATTGCAATAATAAGCGAATAGAACATACATTTTAACGATACAATAGCAATT
5981703 ATACAAGAATCATATAC
66 ATACAAGAATCATATAC
5981720 TATCACTATAGAATATTGCAATAATAAGCGAATAGAACATACATTTTAACGATACAATAGCAATT
1 TATCACTATAGAATATTGCAATAATAAGCGAATAGAACATACATTTTAACGATACAATAGCAATT
5981785 ATACAAGAATCATATAC
66 ATACAAGAATCATATAC
5981802 TA
1 TA
5981804 GATGCATACA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (82 bp):
TATCACTATAGAATATTGCAATAATAAGCGAATAGAACATACATTTTAACGATACAATAGCAATT
ATACAAGAATCATATAC
Found at i:5982393 original size:12 final size:12
Alignment explanation
Indices: 5982373--5982496 Score: 82
Period size: 12 Copynumber: 10.5 Consensus size: 12
5982363 TCTTAAAATT
5982373 ATAAATAATATA
1 ATAAATAATATA
*
5982385 ATGAATAATATAAA
1 ATAAATAATAT--A
5982399 CATAAATAATATA
1 -ATAAATAATATA
5982412 ATAAATAATAT-
1 ATAAATAATATA
* *
5982423 AT-GATATACATA
1 ATAAATA-ATATA
* *
5982435 ATATATGATA-A
1 ATAAATAATATA
*
5982446 AAAAATAATATA
1 ATAAATAATATA
*
5982458 ATAAGTAATAT-
1 ATAAATAATATA
5982469 ATATAATAA-A-A
1 ATA-AATAATATA
*
5982480 GTAAA-AATATA
1 ATAAATAATATA
5982491 ATAAAT
1 ATAAAT
5982497 GCTATATAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
9 2 0.02
10 6 0.07
11 24 0.28
12 39 0.46
13 3 0.04
14 1 0.01
15 10 0.12
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:5982456 original size:16 final size:15
Alignment explanation
Indices: 5982402--5982495 Score: 55
Period size: 16 Copynumber: 5.9 Consensus size: 15
5982392 ATATAAACAT
5982402 AAATAATATAAT-AAA
1 AAAT-ATATAATAAAA
* * *
5982417 TAATATATGATATACA
1 AAATATATAATA-AAA
* *
5982433 TAATATATGATAAAA
1 AAATATATAATAAAA
*
5982448 AAATAATATAATAAGTA
1 AAAT-ATATAATAA-AA
*
5982465 ATATATATAATAAAA
1 AAATATATAATAAAA
*
5982480 GTAAAAATATAATAAA
1 --AAATATATAATAAA
5982496 TGCTATATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
14 6 0.10
15 9 0.15
16 31 0.50
17 16 0.26
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (15 bp):
AAATATATAATAAAA
Found at i:5982491 original size:17 final size:17
Alignment explanation
Indices: 5982446--5982495 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
5982436 TATATGATAA
5982446 AAAAATA-ATATAATAAGT
1 AAAAATATA-ATAA-AAGT
*
5982464 AATATATATAATAAAAGT
1 AA-AAATATAATAAAAGT
5982482 AAAAATATAATAAA
1 AAAAATATAATAAA
5982496 TGCTATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 11 0.39
18 8 0.29
19 8 0.29
20 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AAAAATATAATAAAAGT
Found at i:5982504 original size:33 final size:32
Alignment explanation
Indices: 5982404--5982496 Score: 82
Period size: 34 Copynumber: 2.8 Consensus size: 32
5982394 ATAAACATAA
* *
5982404 ATAATATAATAAATAATAT-ATGATATACATAATAT
1 ATAATA-AAAAAATAATATAAT-AAATA-AT-ATAT
* *
5982439 ATGATAAAAAAATAATATAATAAGTAATATAT
1 ATAATAAAAAAATAATATAATAAATAATATAT
5982471 ATAATAAAAGTAAA-AATATAATAAAT
1 ATAATAAAA--AAATAATATAATAAAT
5982497 GCTATATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
32 12 0.24
33 13 0.27
34 17 0.35
35 7 0.14
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (32 bp):
ATAATAAAAAAATAATATAATAAATAATATAT
Found at i:5982617 original size:23 final size:24
Alignment explanation
Indices: 5982573--5982617 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
5982563 TCAATAGTAT
*
5982573 TTTTAATAATAATATATGTATAGA
1 TTTTAATAATAATAAATGTATAGA
5982597 TTTTAA-AATAAATAAAT-TATA
1 TTTTAATAAT-AATAAATGTATA
5982618 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
TTTTAATAATAATAAATGTATAGA
Found at i:5982624 original size:20 final size:18
Alignment explanation
Indices: 5982601--5982651 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
5982591 TATAGATTTT
*
5982601 AAAATAAATAAATTATATAA
1 AAAATAAAAAAATT-TA-AA
5982621 AAAATAAAAAAATTTAAA
1 AAAATAAAAAAATTTAAA
*
5982639 ATAATAAAGAAAA
1 AAAATAAA-AAAA
5982652 GGAGTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.32
19 6 0.21
20 13 0.46
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATAAAAAAATTTAAA
Found at i:5990948 original size:51 final size:51
Alignment explanation
Indices: 5990860--5990956 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
5990850 TTTTTTTAAA
* *
5990860 TCTGATAAAGTTGGTGTCGGCCTTCAATGTCCCAAAACTAAAAAAATTTAT
1 TCTGATAAAGTTGGTGCCGGCCTTCAATGTCCCAAAACAAAAAAAATTTAT
*
5990911 TCTGATAAAGTTGGTGCCGG-CTATCAGTG-CCCTAAAACAAAAAAAA
1 TCTGATAAAGTTGGTGCCGGCCT-TCAATGTCCC-AAAACAAAAAAAA
5990957 AATTTAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
50 5 0.12
51 36 0.88
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (51 bp):
TCTGATAAAGTTGGTGCCGGCCTTCAATGTCCCAAAACAAAAAAAATTTAT
Found at i:5991494 original size:82 final size:81
Alignment explanation
Indices: 5991333--5991494 Score: 216
Period size: 82 Copynumber: 2.0 Consensus size: 81
5991323 GTTTACTCAT
* * ***
5991333 TTCCCACTTGATTCTGTTTCTTGTCACATCACCTCGCATGCGCCAACATATTTCAATTTTTTTGC
1 TTCCCACTTGATTCTGTTTCTTGTCACATCACCCCACATGCGCCAACATATTTCAAAACTTTTGC
*
5991398 TTTTCACTTAAGTAAA
66 TTTCCACTTAAGTAAA
* ** *
5991414 TTCCCACTTGATTTTGTTTCTTGTCACATCACCCCTACATGCGCGTACATATTTGAAAACTTTTG
1 TTCCCACTTGATTCTGTTTCTTGTCACATCACCCC-ACATGCGCCAACATATTTCAAAACTTTTG
*
5991479 CTTTCCATTTAAGTAA
65 CTTTCCACTTAAGTAA
5991495 TTGACTAACT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 33 0.48
82 36 0.52
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.41
Consensus pattern (81 bp):
TTCCCACTTGATTCTGTTTCTTGTCACATCACCCCACATGCGCCAACATATTTCAAAACTTTTGC
TTTCCACTTAAGTAAA
Found at i:5991935 original size:102 final size:104
Alignment explanation
Indices: 5991799--5992043 Score: 266
Period size: 103 Copynumber: 2.4 Consensus size: 104
5991789 ACAAAAATAT
* * *
5991799 CAGTATTTTAAAAAAATCAGTTCTGGCCTGTCAATGGGAAGCACCAAGTAC-GAAAAAAATAATT
1 CAGTATTTTAAAAAAATCAGTGCTGGCCTGTCAATGGCAAGCACCAAGTACAAAAAAAAATAATT
5991863 TTTTTTGTGCTGGCCTGTCAATGG-TCGACACCAGAGTA-
66 TTTTTTGTGCTGGCCTGTCAATGGAT-GACACCAGAGTAC
** * ** * *
5991901 C-GTATTTTAAAAAAATTTGGTGCTGGTCTGTCAATGGCCGGCACTAAGTACAAAAAAAAATCAT
1 CAGTATTTTAAAAAAA-TCAGTGCTGGCCTGTCAATGGCAAGCACCAAGTACAAAAAAAAATAAT
* * * *
5991965 TTTTTTTGTGTTGGTCTGTTAATGGATGGCACCAGAGTAC
65 TTTTTTTGTGCTGGCCTGTCAATGGATGACACCAGAGTAC
* * *
5992005 CAGTATTTAAAAAAAAATTA-TAGCTGGCTTGTCAATGGC
1 CAGTATTT-TAAAAAAATCAGT-GCTGGCCTGTCAATGGC
5992044 CGGCTCCAGA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
101 14 0.12
102 28 0.24
103 43 0.36
104 3 0.03
105 23 0.19
106 7 0.06
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (104 bp):
CAGTATTTTAAAAAAATCAGTGCTGGCCTGTCAATGGCAAGCACCAAGTACAAAAAAAAATAATT
TTTTTTGTGCTGGCCTGTCAATGGATGACACCAGAGTAC
Found at i:5995173 original size:76 final size:78
Alignment explanation
Indices: 5995061--5995269 Score: 268
Period size: 76 Copynumber: 2.7 Consensus size: 78
5995051 AGGTTGATAC
** * *
5995061 TTTAAATGAAATGA-GAAAACAATTTTGTTTGAAATGAAATG-GTACAAAATTTAAATGAAAATT
1 TTTAAATGAAATGAGGAAAACAATTTTCATTGAAATGAAATGAG-AAAAAAATTAAATGAAAATT
5995124 GAAAGAAAGATAAA
65 GAAAGAAAGATAAA
* *
5995138 TTTAAATGAAATGAGGAAAA-AA-TTTCATTGAAATGAAATGAGAAAAAAATTAAATTAAATTTG
1 TTTAAATGAAATGAGGAAAACAATTTTCATTGAAATGAAATGAGAAAAAAATTAAATGAAAATTG
5995201 AAAGAAAGATAAA
66 AAAGAAAGATAAA
* * * * *
5995214 TTTAAATGAAATGAGGGAAAC--TTTTAATTTAAATAAAATGAGCAAAAAATTAAATG
1 TTTAAATGAAATGAGGAAAACAATTTTCATTGAAATGAAATGAGAAAAAAATTAAATG
5995270 GAAAGATAGA
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
76 94 0.81
77 17 0.15
78 5 0.04
ACGTcount: A:0.55, C:0.02, G:0.15, T:0.28
Consensus pattern (78 bp):
TTTAAATGAAATGAGGAAAACAATTTTCATTGAAATGAAATGAGAAAAAAATTAAATGAAAATTG
AAAGAAAGATAAA
Found at i:5995312 original size:48 final size:47
Alignment explanation
Indices: 5995259--5995364 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 47
5995249 AAATGAGCAA
*
5995259 AAAATTAAATGGAAAGATAGATAATTTAAAAGAAATGACA-AAAAAAATT
1 AAAATTAAATGGAAA-ATAGAAAATTTAAAAGAAAT-A-AGAAAAAAATT
* ** * *
5995308 AAATTTGCATTGAAAATAGAAAATTTAAATGAAATAAGAAAAAAATT
1 AAAATTAAATGGAAAATAGAAAATTTAAAAGAAATAAGAAAAAAATT
5995355 AAAATTAAAT
1 AAAATTAAAT
5995365 TTAAAAGTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
46 1 0.02
47 17 0.36
48 18 0.38
49 11 0.23
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.25
Consensus pattern (47 bp):
AAAATTAAATGGAAAATAGAAAATTTAAAAGAAATAAGAAAAAAATT
Found at i:5995398 original size:22 final size:21
Alignment explanation
Indices: 5995345--5995434 Score: 65
Period size: 22 Copynumber: 4.2 Consensus size: 21
5995335 AATGAAATAA
* * *
5995345 GAAAAAAATTAAAATTAAATT
1 GAAAAAAAATATAATTGAATT
* ** *
5995366 TAAAAGTAATATAAATGAATT
1 GAAAAAAAATATAATTGAATT
*
5995387 GAGAAAAAAATA-AATTTAAATT
1 GA-AAAAAAATATAA-TTGAATT
*
5995409 GAAAAAAATATATAATTGAAAT
1 GAAAAAAA-ATATAATTGAATT
5995431 GAAA
1 GAAA
5995435 TGAAATGGAA
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
21 23 0.45
22 26 0.51
23 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (21 bp):
GAAAAAAAATATAATTGAATT
Found at i:5995417 original size:16 final size:18
Alignment explanation
Indices: 5995393--5995429 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5995383 AATTGAGAAA
*
5995393 AAAATAAATTTA-AATTG
1 AAAATAAATATATAATTG
5995410 AAAA-AAATATATAATTG
1 AAAATAAATATATAATTG
5995427 AAA
1 AAA
5995430 TGAAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATAAATATATAATTG
Found at i:5995422 original size:44 final size:44
Alignment explanation
Indices: 5995299--5995430 Score: 131
Period size: 44 Copynumber: 2.9 Consensus size: 44
5995289 AGAAATGACA
** *
5995299 AAAAAAATTAAATTTGCATTGAAAATAGAAAATTTAAATGAAATAAG
1 AAAAAAATTAAATTTAAATTG-AAA-A-AAAATATAAATGAAATAAG
* * ** * *
5995346 AAAAAAATTAAAATTAAATTTAAAAGTAATATAAATGAATTGAG
1 AAAAAAATTAAATTTAAATTGAAAAAAAATATAAATGAAATAAG
*
5995390 AAAAAAA-TAAATTTAAATTGAAAAAAATATATAATTGAAAT
1 AAAAAAATTAAATTTAAATTGAAAAAAA-ATATAAATGAAAT
5995431 GAAATGAAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
43 16 0.23
44 32 0.46
45 1 0.01
46 3 0.04
47 17 0.25
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (44 bp):
AAAAAAATTAAATTTAAATTGAAAAAAAATATAAATGAAATAAG
Found at i:5995447 original size:6 final size:5
Alignment explanation
Indices: 5995425--5995522 Score: 88
Period size: 5 Copynumber: 18.2 Consensus size: 5
5995415 AATATATAAT
*
5995425 TGAAA TGAAA TGAAA TGGAAA TGGAAA TGGAAA TGAAA TTAGAA TGAAA
1 TGAAA TGAAA TGAAA T-GAAA T-GAAA T-GAAA TGAAA TGA-AA TGAAA
* * * *
5995474 TGAAA TTGGAA TGAAA TAAAA TTAAAA TGAAA TGAAAA TGAAA AGAAA
1 TGAAA -TGAAA TGAAA TGAAA -TGAAA TGAAA TG-AAA TGAAA TGAAA
5995522 T
1 T
5995523 AAAAAAAGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
5 45 0.56
6 35 0.44
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.21
Consensus pattern (5 bp):
TGAAA
Found at i:5995447 original size:11 final size:10
Alignment explanation
Indices: 5995425--5995522 Score: 88
Period size: 11 Copynumber: 9.1 Consensus size: 10
5995415 AATATATAAT
5995425 TGAAATGAAA
1 TGAAATGAAA
5995435 TGAAATGGAAA
1 TGAAAT-GAAA
5995446 TGGAAATGGAAA
1 T-GAAAT-GAAA
*
5995458 TGAAATTAGAA
1 TGAAATGA-AA
5995469 TGAAATGAAA
1 TGAAATGAAA
*
5995479 TTGGAATGAAA
1 -TGAAATGAAA
* *
5995490 TAAAATTAAAA
1 TGAAA-TGAAA
5995501 TGAAATGAAAA
1 TGAAATG-AAA
*
5995512 TGAAAAGAAA
1 TGAAATGAAA
5995522 T
1 T
5995523 AAAAAAAGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
10 17 0.23
11 45 0.62
12 11 0.15
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.21
Consensus pattern (10 bp):
TGAAATGAAA
Found at i:5995447 original size:16 final size:15
Alignment explanation
Indices: 5995425--5995522 Score: 88
Period size: 16 Copynumber: 6.1 Consensus size: 15
5995415 AATATATAAT
5995425 TGAAATGAAATGAAA
1 TGAAATGAAATGAAA
5995440 TGGAAATGGAAATGGAAA
1 T-GAAAT-GAAAT-GAAA
*
5995458 TGAAATTAGAATGAAA
1 TGAAATGA-AATGAAA
*
5995474 TGAAATTGGAATGAAA
1 TGAAA-TGAAATGAAA
* *
5995490 TAAAATTAAAATGAAA
1 TGAAA-TGAAATGAAA
*
5995506 TGAAAATGAAAAGAAA
1 TG-AAATGAAATGAAA
5995522 T
1 T
5995523 AAAAAAAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
15 1 0.01
16 45 0.66
17 17 0.25
18 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.21
Consensus pattern (15 bp):
TGAAATGAAATGAAA
Found at i:5995534 original size:5 final size:6
Alignment explanation
Indices: 5995427--5995521 Score: 55
Period size: 6 Copynumber: 17.3 Consensus size: 6
5995417 TATATAATTG
* * * * *
5995427 AAATG- AAATG- AAATGG AAATGG AAATGG AAATG- AAATTA GAATG-
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
* * *
5995471 AAATGA AATTG- GAATG- AAAT-A AAATTA AAATG- AAATGA AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
5995515 AAA-GA AA
1 AAATGA AA
5995522 TAAAAAAAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
5 37 0.49
6 38 0.51
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (6 bp):
AAATGA
Found at i:5995992 original size:25 final size:24
Alignment explanation
Indices: 5995964--5996108 Score: 123
Period size: 25 Copynumber: 5.5 Consensus size: 24
5995954 AATTTGATAA
*
5995964 AATATGACATGAATTGAAAAAAATT
1 AATATGAAATGAATTGAAAAAAA-T
*
5995989 AATATGAAAAAAT-AATATGAGAAAAAT
1 AATATG---AAATGAAT-TGAAAAAAAT
5996016 AATATGAAATGAATTGAAAAAAAAT
1 AATATGAAATGAATTG-AAAAAAAT
5996041 AATATGAAAATGATATAAAAATGAAAAAAAT
1 AATATG-AAATGA-AT-----TGAAAAAAAT
5996072 AATATGAAATGAATTGAAAAAAAAT
1 AATATGAAATGAATTG-AAAAAAAT
*
5996097 AAT-TAAAATGAA
1 AATATGAAATGAA
5996109 AAAACAAGGT
Statistics
Matches: 102, Mismatches: 4, Indels: 29
0.76 0.03 0.21
Matches are distributed among these distances:
24 16 0.16
25 33 0.32
26 6 0.06
27 12 0.12
28 11 0.11
29 2 0.02
30 6 0.06
31 14 0.14
32 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.11, T:0.24
Consensus pattern (24 bp):
AATATGAAATGAATTGAAAAAAAT
Found at i:5996000 original size:14 final size:14
Alignment explanation
Indices: 5995981--5996080 Score: 68
Period size: 14 Copynumber: 7.2 Consensus size: 14
5995971 CATGAATTGA
5995981 AAAAAATTAATATG
1 AAAAAATTAATATG
5995995 AAAAAA-TAATATG
1 AAAAAATTAATATG
5996008 AGAAAAA-TAATATG
1 A-AAAAATTAATATG
*
5996022 ---AAATGAAT-TG
1 AAAAAATTAATATG
*
5996032 AAAAAAAATAATATG
1 -AAAAAATTAATATG
* *
5996047 AAAATGATATAAAAATG
1 AAAA--A-ATTAATATG
*
5996064 AAAAAAATAATATG
1 AAAAAATTAATATG
5996078 AAA
1 AAA
5996081 TGAATTGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
10 5 0.07
11 3 0.04
13 8 0.12
14 37 0.55
15 3 0.04
16 1 0.01
17 10 0.15
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (14 bp):
AAAAAATTAATATG
Found at i:5996090 original size:56 final size:54
Alignment explanation
Indices: 5995964--5996112 Score: 209
Period size: 56 Copynumber: 2.8 Consensus size: 54
5995954 AATTTGATAA
* * * *
5995964 AATATGACATGAATTGAAAAAAATTAATATGAAAA--AATAATATGAGAAAAAT
1 AATATGAAATGAATTGAAAAAAAATAATATGAAAATGAATAAAATGAAAAAAAT
5996016 AATATGAAATGAATTGAAAAAAAATAATATGAAAATGATATAAAAATGAAAAAAAT
1 AATATGAAATGAATTGAAAAAAAATAATATGAAAATGA-AT-AAAATGAAAAAAAT
5996072 AATATGAAATGAATTGAAAAAAAATAAT-T-AAAATGAA-AAAA
1 AATATGAAATGAATTGAAAAAAAATAATATGAAAATGAATAAAA
5996113 CAAGGTTGAA
Statistics
Matches: 89, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
51 4 0.04
52 33 0.37
53 1 0.01
54 8 0.09
55 3 0.03
56 40 0.45
ACGTcount: A:0.65, C:0.01, G:0.11, T:0.23
Consensus pattern (54 bp):
AATATGAAATGAATTGAAAAAAAATAATATGAAAATGAATAAAATGAAAAAAAT
Found at i:5998608 original size:5 final size:5
Alignment explanation
Indices: 5998571--5998721 Score: 55
Period size: 5 Copynumber: 30.2 Consensus size: 5
5998561 AATCTTTTTT
* * * **
5998571 TTTCA TTTTAA TTTAA TTTCA TTTCA ATT-A TTTCA TTTCAA TTTTT TTTCA
1 TTTCA -TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC-A TTTCA TTTCA
* * * *
5998622 ATTCA TTTCA TATT-A TTT-T TTTCA TATT-A TTAT-T TTTCA TTTCT
1 TTTCA TTTCA T-TTCA TTTCA TTTCA T-TTCA TT-TCA TTTCA TTTCA
** * ** *
5998666 TTTCA TATT-A TTTTT TTTCA ATTCA TTTCA TATT-A TTTTT TTTCA ATTCA
1 TTTCA T-TTCA TTTCA TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA
5998716 TTTCA T
1 TTTCA T
5998722 ATTATTTTTT
Statistics
Matches: 108, Mismatches: 26, Indels: 23
0.69 0.17 0.15
Matches are distributed among these distances:
4 14 0.13
5 78 0.72
6 16 0.15
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTCA
Found at i:5998613 original size:25 final size:26
Alignment explanation
Indices: 5998581--5998776 Score: 121
Period size: 25 Copynumber: 7.8 Consensus size: 26
5998571 TTTCATTTTA
5998581 ATTT-AATTTCATTTCA-ATTATTTC
1 ATTTCAATTTCATTTCATATTATTTC
**
5998605 ATTTCAATTTTTTTTCA-ATTCATTTC
1 ATTTCAATTTCATTTCATATT-ATTTC
*
5998631 ATATT--ATTT-TTTTCATATTATTAT-
1 AT-TTCAATTTCATTTCATATTATT-TC
* * *
5998655 TTTTC-ATTTCTTTTCATATTATTTT
1 ATTTCAATTTCATTTCATATTATTTC
* *
5998680 TTTTCAA-TTCATTTCATATTATTTT
1 ATTTCAATTTCATTTCATATTATTTC
*
5998705 TTTTCAA-TTCATTTCATATTATTT-
1 ATTTCAATTTCATTTCATATTATTTC
* * * *
5998729 TTTTCATATTAT-TTTTCATATTGTTTTT
1 ATTTCA-ATT-TCATTTCATATT-ATTTC
*
5998757 TTTTCAATTT-ATTTCATATT
1 ATTTCAATTTCATTTCATATT
5998777 TTATCAAATT
Statistics
Matches: 151, Mismatches: 7, Indels: 26
0.82 0.04 0.14
Matches are distributed among these distances:
23 2 0.01
24 25 0.17
25 81 0.54
26 28 0.19
27 9 0.06
28 6 0.04
ACGTcount: A:0.23, C:0.11, G:0.01, T:0.65
Consensus pattern (26 bp):
ATTTCAATTTCATTTCATATTATTTC
Found at i:5998626 original size:16 final size:16
Alignment explanation
Indices: 5998566--5998626 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
5998556 TTTTCAATCT
* *
5998566 TTTTTTTTCATTTTAA
1 TTTTATTTCATTTCAA
*
5998582 TTTAATTTCATTTCAA
1 TTTTATTTCATTTCAA
5998598 --TTATTTCATTTCAA
1 TTTTATTTCATTTCAA
* *
5998612 TTTTTTTTCAATTCA
1 TTTTATTTCATTTCA
5998627 TTTCATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 13 0.35
16 24 0.65
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATTTCATTTCAA
Found at i:5998646 original size:14 final size:14
Alignment explanation
Indices: 5998627--5998758 Score: 89
Period size: 14 Copynumber: 10.2 Consensus size: 14
5998617 TTTCAATTCA
5998627 TTTCATATTATTTT
1 TTTCATATTATTTT
5998641 TTTCATATTATTATT
1 TTTCATATTATT-TT
*
5998656 TTTC--A-T-TTCT
1 TTTCATATTATTTT
5998666 TTTCATATTATTTTT
1 TTTCATATTA-TTTT
5998681 TTTCA-ATTCA----
1 TTTCATATT-ATTTT
5998691 TTTCATATTATTTTT
1 TTTCATATTA-TTTT
5998706 TTTCA-ATTCA----
1 TTTCATATT-ATTTT
5998716 TTTCATATTATTTT
1 TTTCATATTATTTT
5998730 TTTCATATTA--TT
1 TTTCATATTATTTT
*
5998742 TTTCATATTGTTTT
1 TTTCATATTATTTT
5998756 TTT
1 TTT
5998759 TTCAATTTAT
Statistics
Matches: 94, Mismatches: 3, Indels: 42
0.68 0.02 0.30
Matches are distributed among these distances:
10 17 0.18
11 8 0.09
12 13 0.14
13 2 0.02
14 33 0.35
15 21 0.22
ACGTcount: A:0.21, C:0.10, G:0.01, T:0.68
Consensus pattern (14 bp):
TTTCATATTATTTT
Found at i:5998660 original size:50 final size:48
Alignment explanation
Indices: 5998592--5998776 Score: 142
Period size: 49 Copynumber: 3.9 Consensus size: 48
5998582 TTTAATTTCA
*
5998592 TTTCA-ATTATTTCATTTCAATTTTTTTTCAATTCATTTCATATTATTTT
1 TTTCATATTATTT-TTTTC-ATTTTTTTTCAATTCATTTCATATTATTTT
*
5998641 TTTCATATTATTATTTTTCATTTCTTTTC-A-T-A--T--TA-T-TTTT
1 TTTCATATTATT-TTTTTCATTTTTTTTCAATTCATTTCATATTATTTT
*
5998681 TTTCA-ATTCATTTCATATT-ATTTTTTTTCAATTCATTTCATATTATTTT
1 TTTCATATT-ATTT--TTTTCATTTTTTTTCAATTCATTTCATATTATTTT
** *
5998730 TTTCATATTATTTTTCATATTGTTTTTTTTTCAATTTATTTCATATT
1 TTTCATATTA-TTTT--T-TTCATTTTTTTTCAATTCATTTCATATT
5998777 TTATCAAATT
Statistics
Matches: 109, Mismatches: 7, Indels: 37
0.71 0.05 0.24
Matches are distributed among these distances:
39 4 0.04
40 21 0.19
41 5 0.05
42 3 0.03
43 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.03
48 3 0.03
49 24 0.22
50 16 0.15
51 3 0.03
52 23 0.21
ACGTcount: A:0.23, C:0.11, G:0.01, T:0.66
Consensus pattern (48 bp):
TTTCATATTATTTTTTTCATTTTTTTTCAATTCATTTCATATTATTTT
Found at i:5998668 original size:26 final size:25
Alignment explanation
Indices: 5998641--5998776 Score: 177
Period size: 25 Copynumber: 5.4 Consensus size: 25
5998631 ATATTATTTT
* * *
5998641 TTTCATATTATTATTTTTCATTTCT
1 TTTCATATTATTTTTTTTCAATTCA
5998666 TTTCATATTATTTTTTTTCAATTCA
1 TTTCATATTATTTTTTTTCAATTCA
5998691 TTTCATATTATTTTTTTTCAATTCA
1 TTTCATATTATTTTTTTTCAATTCA
5998716 TTTCATATTA-TTTTTTTCATATT-A
1 TTTCATATTATTTTTTTTCA-ATTCA
* *
5998740 TTTTTCATATTGTTTTTTTTTCAATTTA
1 --TTTCATATT-ATTTTTTTTCAATTCA
5998768 TTTCATATT
1 TTTCATATT
5998777 TTATCAAATT
Statistics
Matches: 101, Mismatches: 4, Indels: 11
0.87 0.03 0.09
Matches are distributed among these distances:
24 10 0.10
25 60 0.59
26 18 0.18
27 3 0.03
28 10 0.10
ACGTcount: A:0.22, C:0.10, G:0.01, T:0.67
Consensus pattern (25 bp):
TTTCATATTATTTTTTTTCAATTCA
Found at i:5998684 original size:64 final size:63
Alignment explanation
Indices: 5998611--5998744 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 63
5998601 TTTCATTTCA
*
5998611 ATTTTTTTTCAATTCATTTCATATTA-TTTTTTTCATATT-A-TTATTTTTCATTTCTTTTCATA
1 ATTTTTTTTCAATTCATTTCATATTATTTTTTTTCA-ATTCATTTA-TATT-ATTT-TTTTCATA
5998673 TT
62 TT
5998675 ATTTTTTTTCAATTCATTTCATATTATTTTTTTTCAATTCATTTCATATTATTTTTTTCATATT
1 ATTTTTTTTCAATTCATTTCATATTATTTTTTTTCAATTCATTT-ATATTATTTTTTTCATATT
5998739 ATTTTT
1 ATTTTT
5998745 CATATTGTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
64 45 0.69
65 14 0.22
66 5 0.08
67 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.67
Consensus pattern (63 bp):
ATTTTTTTTCAATTCATTTCATATTATTTTTTTTCAATTCATTTATATTATTTTTTTCATATT
Found at i:5998745 original size:12 final size:12
Alignment explanation
Indices: 5998716--5998756 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
5998706 TTTCAATTCA
5998716 TTTCATATTATTTT
1 TTTCATATTA--TT
5998730 TTTCATATTATT
1 TTTCATATTATT
*
5998742 TTTCATATTGTT
1 TTTCATATTATT
5998754 TTT
1 TTT
5998757 TTTTCAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 16 0.62
14 10 0.38
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTCATATTATT
Found at i:5998916 original size:22 final size:22
Alignment explanation
Indices: 5998888--5998972 Score: 91
Period size: 22 Copynumber: 3.6 Consensus size: 22
5998878 AAATTTGTTT
5998888 AAAAAATCTCATTTCAATTTAA
1 AAAAAATCTCATTTCAATTTAA
*
5998910 AAAAAATCTCATTTAAAATTTGTCTAA
1 AAAAAATCTCATTT-CAA--T-T-TAA
*
5998937 AAAAAATCTCATTTCGATTTTAA
1 AAAAAATCTCATTTC-AATTTAA
5998960 AAAAAAT-TCATTT
1 AAAAAATCTCATTT
5998973 AAAAAATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
22 20 0.37
23 12 0.22
24 1 0.02
25 2 0.04
26 1 0.02
27 18 0.33
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAAATCTCATTTCAATTTAA
Found at i:5999023 original size:44 final size:41
Alignment explanation
Indices: 5998969--5999052 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 41
5998959 AAAAAAATTC
5998969 ATTTAAAAAATTTTAT-TTTCATTTTAGTATTTCTTTTCATTTAA
1 ATTTAAAAAATTTTATATTTCA-TTTA--ATTT-TTTTCATTTAA
* *
5999013 ATTTATAAAATTTTATATTTTATTTAATTTTTTTCATTTA
1 ATTTAAAAAATTTTATATTTCATTTAATTTTTTTCATTTA
5999053 TTCCTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 10 0.27
42 4 0.11
44 19 0.51
45 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (41 bp):
ATTTAAAAAATTTTATATTTCATTTAATTTTTTTCATTTAA
Found at i:5999646 original size:107 final size:107
Alignment explanation
Indices: 5999534--5999776 Score: 258
Period size: 107 Copynumber: 2.3 Consensus size: 107
5999524 TTACAGGTTG
*
5999534 GCACCAATTTTTTTTTAAAACTCGGTACTTTGGTACCGGCCATTGATAGGCCAGCA-CAAAAAAA
1 GCACCAATTTTTTTTTAAAACTC-GTACTTTGGTACCGGCCATTGACAGGCCAGCACCAAAAAAA
* * * *
5999598 TTTTGA-TTTTTTTTTGTACTTAGTACCT-ACCATTGATATGTCA
65 -ATTGATTTTTTTTTTGTACTTAGT-CCTGACCATTGACAGGCCA
******* * * * *
5999641 GCACCAAAAAAAAATTAAAACTCGTATTTTGGTGCCGGCCATTGACGGGCCAGTACCAAAAAAAA
1 GCACCAATTTTTTTTTAAAACTCGTACTTTGGTACCGGCCATTGACAGGCCAGCACCAAAAAAAA
* *
5999706 TTGATTTTTTTTTTGTACTTAGTGCTGGCCATTGACAGGCCA
66 TTGATTTTTTTTTTGTACTTAGTCCTGACCATTGACAGGCCA
*
5999748 GCACCAATTGTTTTTTTTAAACTCGTACT
1 GCACCAATT-TTTTTTTAAAACTCGTACT
5999777 CTAATGCCAG
Statistics
Matches: 105, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
106 33 0.31
107 60 0.57
108 12 0.11
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (107 bp):
GCACCAATTTTTTTTTAAAACTCGTACTTTGGTACCGGCCATTGACAGGCCAGCACCAAAAAAAA
TTGATTTTTTTTTTGTACTTAGTCCTGACCATTGACAGGCCA
Found at i:6003226 original size:58 final size:58
Alignment explanation
Indices: 6003099--6003237 Score: 147
Period size: 58 Copynumber: 2.3 Consensus size: 58
6003089 GTATCCTAAC
* * *
6003099 AACTAAAAAATATATTTTTTTTTAAATCTACTATTGGATGTCAAAAATTAATGTCCCAAT
1 AACTAAAAAA-ATA-TTTTTTTAAAATATACTATTGGATGTCAAAAATTAATGTCACAAT
* * **
6003159 AACCAAAAAAATATTTTTTTAAAATATGA-TATTGAGGTGTCAGCAATTAATGTCACAA-
1 AACTAAAAAAATATTTTTTTAAAATAT-ACTATTG-GATGTCAAAAATTAATGTCACAAT
*
6003217 CACTAAAAAAATATTGTTTTT
1 AACTAAAAAAATATT-TTTTT
6003238 TTTAAATCTA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 30 0.45
59 28 0.42
60 9 0.13
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (58 bp):
AACTAAAAAAATATTTTTTTAAAATATACTATTGGATGTCAAAAATTAATGTCACAAT
Found at i:6004740 original size:18 final size:19
Alignment explanation
Indices: 6004700--6004740 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
6004690 TAATTCCTAT
6004700 TTTTATCCCTTTAAATTAA
1 TTTTATCCCTTTAAATTAA
6004719 -TTTAT-CC-TTAAATTATA
1 TTTTATCCCTTTAAATTA-A
6004736 TTTTA
1 TTTTA
6004741 ATTAAAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATCCCTTTAAATTAA
Found at i:6019848 original size:14 final size:14
Alignment explanation
Indices: 6019829--6019863 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6019819 CGCTGAGGTA
* *
6019829 TTTTCAATTTCTGT
1 TTTTCAATTTATAT
6019843 TTTTCAATTTATAT
1 TTTTCAATTTATAT
6019857 TTTTCAA
1 TTTTCAA
6019864 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:6019913 original size:87 final size:87
Alignment explanation
Indices: 6019770--6020421 Score: 734
Period size: 89 Copynumber: 7.5 Consensus size: 87
6019760 ATGTTTTTAT
* * ** *
6019770 TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGATACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* *
6019835 ATTTCTGTTTTTCAATTTATAT
66 ATTTCTGTTTTTCAATTTCTAC
* *
6019857 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTC-
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* * * *
6019921 ATTTTTGCTTTTCAATCTCTGC
66 ATTTCTGTTTTTCAATTTCTAC
* * * *
6019943 TTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGTG
1 TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
*
6020007 TTTTC-A-----GTTTTT--ATTTATAC
60 TTTTCAATTTCTGTTTTTCAATTTCTAC
* * * * *
6020027 TTTTCAAAAATCAACTCATATGGCGAGAGGTAAGTTGAGCCTCGAGCCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-GACACGCTGAGGTATTTT
*
6020092 CAAATTCTGTTTTT-AATTTCTAC
64 CAATTTCTGTTTTTCAATTTCTAC
* * * *
6020115 TTTTCAAAAACCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* * *
6020180 ATTTTTGTTTATCAATTTCTAT
66 ATTTCTGTTTTTCAATTTCTAC
* *
6020202 TTTTCAAAGAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTTC--A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
6020267 TCAATTTCTGTTTATCAATTTCTAC
63 TCAATTTCTGTTTTTCAATTTCTAC
* *
6020292 TTTTCAAGAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* * **
6020357 CAATTTCT-ATTTTCAATTTATGT
64 CAATTTCTGTTTTTCAATTTCTAC
*
6020380 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
6020422 TTTAATTTCT
Statistics
Matches: 488, Mismatches: 57, Indels: 41
0.83 0.10 0.07
Matches are distributed among these distances:
81 50 0.10
82 1 0.00
83 1 0.00
84 10 0.02
86 85 0.17
87 79 0.16
88 62 0.13
89 103 0.21
90 82 0.17
91 15 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (87 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTGTTTTTCAATTTCTAC
Found at i:6020436 original size:54 final size:56
Alignment explanation
Indices: 6020366--6020477 Score: 174
Period size: 55 Copynumber: 2.0 Consensus size: 56
6020356 TCAATTTCTA
* *
6020366 TTTTCAATTTATG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
1 TTTTCAATTTATGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTAAGCC
* *
6020421 TTTT-AATTTCTGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTAAGCC
6020476 TT
1 TT
6020478 GGCTCACATG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 7 0.13
55 45 0.87
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (56 bp):
TTTTCAATTTATGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTAAGCC
Found at i:6024581 original size:44 final size:44
Alignment explanation
Indices: 6024532--6024677 Score: 211
Period size: 44 Copynumber: 3.3 Consensus size: 44
6024522 TTCTTATTCC
** * *
6024532 TAATTTAAAACATGTTAAATTATAATACAATACACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
6024576 TAATTTAAAGCACATTAAATTATAATACAATATATATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
6024620 TATTTTAAAACACATTAAATTATAATACAATATACATATATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
6024664 TATTTTAAAACACA
1 TAATTTAAAACACA
6024678 ATAATGAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 92 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.38
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:6024761 original size:26 final size:24
Alignment explanation
Indices: 6024732--6024953 Score: 107
Period size: 26 Copynumber: 9.4 Consensus size: 24
6024722 ACGAAAATTA
6024732 AAATAGAAAGAAAGATAATTTAAATG
1 AAATAGAAA-AAA-ATAATTTAAATG
* *
6024758 AAAT-G-AGAAAA-AA-TTAAATT
1 AAATAGAAAAAAATAATTTAAATG
6024778 AAA-ATGAAAAAAATAATTTAAATG
1 AAATA-GAAAAAAATAATTTAAATG
* *
6024802 ATATGAGAAAAAAAACTTAAATTAAAATG
1 AAAT-AG-AAAAAAA--T-AATTTAAATG
*
6024831 AAA-A-AAAAAGATAATTTAAATG
1 AAATAGAAAAAAATAATTTAAATG
*
6024853 AAATGAGAACAAAATAAATTTAAATG
1 AAAT-AGAAAAAAAT-AATTTAAATG
* * *
6024879 -----GAAAAAATTAATTTCAGTG
1 AAATAGAAAAAAATAATTTAAATG
* * *
6024898 GAAT-GAGAAAAA-AA-TTAAATTA
1 AAATAGAAAAAAATAATTTAAA-TG
6024920 AAATGAGAAAAAAGATAATTTAAATG
1 AAAT-AGAAAAAA-ATAATTTAAATG
6024946 AAAT-GAAA
1 AAATAGAAA
6024954 TGGAAATACA
Statistics
Matches: 148, Mismatches: 23, Indels: 52
0.66 0.10 0.23
Matches are distributed among these distances:
19 8 0.05
20 16 0.11
21 6 0.04
22 24 0.16
23 12 0.08
24 20 0.14
25 15 0.10
26 29 0.20
27 6 0.04
28 1 0.01
29 11 0.07
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (24 bp):
AAATAGAAAAAAATAATTTAAATG
Found at i:6024774 original size:20 final size:21
Alignment explanation
Indices: 6024748--6024814 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
6024738 AAAGAAAGAT
6024748 AATTTAAATGAAATGAGAAAA
1 AATTTAAATGAAATGAGAAAA
* *
6024769 AA-TTAAATTAAAATGAAAAAAA
1 AATTTAAA-TGAAATG-AGAAAA
*
6024791 TAATTTAAATGATATGAGAAAA
1 -AATTTAAATGAAATGAGAAAA
6024813 AA
1 AA
6024815 AACTTAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 5 0.14
21 10 0.27
22 10 0.27
23 7 0.19
24 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.25
Consensus pattern (21 bp):
AATTTAAATGAAATGAGAAAA
Found at i:6024822 original size:67 final size:68
Alignment explanation
Indices: 6024746--6024951 Score: 164
Period size: 72 Copynumber: 2.9 Consensus size: 68
6024736 AGAAAGAAAG
* *
6024746 ATAATTTAAATGAAATGAGAAAAAATTAAATTAAAATGAAAAAAATAATTTAAATGATATGAGAA
1 ATAACTTAAATGAAATGAGAAAAAATTAAATTAAAATGAAAAAAATAATTTAAATGAAATGAGAA
6024811 AAA
66 AAA
* * ** * * * ** *
6024814 A-AACTTAAATTAAAATGAAAAAAAAAGATAATTTAAATGAAATGAGAACAAAATAAATTTAAAT
1 ATAACTTAAA-TGAAATGAGAAAAAATTA-AATTAAAATGAAA--AAAATAATTTAAA-TGAAAT
6024878 G-GAAAAA
61 GAGAAAAA
* * * *
6024885 ATTAATTTCAGTGGAATGAGAAAAAAATTAAATTAAAATGAGAAAAAAGATAATTTAAATGAAAT
1 A-TAACTTAAATGAAATGAG-AAAAAATTAAATTAAAAT--GAAAAAA-ATAATTTAAATGAAAT
6024950 GA
61 GA
6024952 AATGGAAATA
Statistics
Matches: 100, Mismatches: 26, Indels: 19
0.69 0.18 0.13
Matches are distributed among these distances:
67 7 0.07
68 15 0.15
69 12 0.12
71 16 0.16
72 27 0.27
73 19 0.19
74 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.12, T:0.25
Consensus pattern (68 bp):
ATAACTTAAATGAAATGAGAAAAAATTAAATTAAAATGAAAAAAATAATTTAAATGAAATGAGAA
AAA
Found at i:6024824 original size:94 final size:94
Alignment explanation
Indices: 6024715--6024951 Score: 331
Period size: 95 Copynumber: 2.5 Consensus size: 94
6024705 AAATTATTAT
**
6024715 GAAAAAAACGAAAATTAAAAT-AGAAAGAAAGATAATTTAAATGAAATGAGAA-AAAATTAAATT
1 GAAAAAAACTTAAATTAAAATGAGAAA-AAAGATAATTTAAATGAAATGAGAACAAAA-TAAATT
6024778 AAAAT-GAAAAAAATAATTTAAAT-GATATGA
64 AAAATGGAAAAAAATAATTTAAATGGA-ATGA
*
6024808 GAAAAAAAACTTAAATTAAAATGAAAAAAAAAGATAATTTAAATGAAATGAGAACAAAATAAATT
1 G-AAAAAAACTTAAATTAAAATG-AGAAAAAAGATAATTTAAATGAAATGAGAACAAAATAAATT
* * * *
6024873 TAAATGGAAAAAATTAATTTCAGTGGAATGA
64 AAAATGGAAAAAAATAATTTAAATGGAATGA
6024904 GAAAAAAA-TTAAATTAAAATGAGAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAACTTAAATTAAAATGAGAAAAAAGATAATTTAAATGAAATGA
6024952 AATGGAAATA
Statistics
Matches: 130, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
93 27 0.21
94 31 0.24
95 42 0.32
96 28 0.22
97 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (94 bp):
GAAAAAAACTTAAATTAAAATGAGAAAAAAGATAATTTAAATGAAATGAGAACAAAATAAATTAA
AATGGAAAAAAATAATTTAAATGGAATGA
Found at i:6024891 original size:19 final size:21
Alignment explanation
Indices: 6024853--6024946 Score: 68
Period size: 21 Copynumber: 4.3 Consensus size: 21
6024843 AATTTAAATG
6024853 AAATGAGAACAAAATAAATTT
1 AAATGAGAACAAAATAAATTT
*
6024874 AAATG-GAA-AAAATTAATTT
1 AAATGAGAACAAAATAAATTT
* *
6024893 CAGTGGAATGAGAAAAAAATTAAATTA
1 -A----AATGAGAACAAAA-TAAATTT
*
6024920 AAATGAGAA-AAAAGATAATTT
1 AAATGAGAACAAAATA-AATTT
6024941 AAATGA
1 AAATGA
6024947 AATGAAATGG
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
19 10 0.17
20 5 0.08
21 19 0.32
22 8 0.14
24 4 0.07
25 3 0.05
26 5 0.08
27 5 0.08
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATGAGAACAAAATAAATTT
Found at i:6024951 original size:5 final size:5
Alignment explanation
Indices: 6024941--6024997 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
6024931 AAGATAATTT
* *
6024941 AAATG AAATG AAATGG AAATAC AAATG AAATA AAATAG AAATAG AAATG
1 AAATG AAATG AAAT-G AAAT-G AAATG AAATG AAAT-G AAAT-G AAATG
6024990 AAATG AAA
1 AAATG AAA
6024998 AAAAAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 26 0.58
6 19 0.42
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:6024966 original size:22 final size:22
Alignment explanation
Indices: 6024941--6024997 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
6024931 AAGATAATTT
*
6024941 AAATGAAATGAAATGGAAATAC
1 AAATGAAATGAAATAGAAATAC
* *
6024963 AAATGAAATAAAATAGAAATAG
1 AAATGAAATGAAATAGAAATAC
6024985 AAATGAAATGAAA
1 AAATGAAATGAAA
6024998 AAAAAAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.18
Consensus pattern (22 bp):
AAATGAAATGAAATAGAAATAC
Found at i:6024970 original size:11 final size:11
Alignment explanation
Indices: 6024941--6024997 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
6024931 AAGATAATTT
6024941 AAATGAAAT-G
1 AAATGAAATAG
*
6024951 AAATGGAAATAC
1 AAAT-GAAATAG
6024963 AAATGAAATA-
1 AAATGAAATAG
6024973 AAATAGAAATAG
1 AAAT-GAAATAG
6024985 AAATGAAAT-G
1 AAATGAAATAG
6024995 AAA
1 AAA
6024998 AAAAAAATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 12 0.29
11 22 0.52
12 8 0.19
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.18
Consensus pattern (11 bp):
AAATGAAATAG
Found at i:6025009 original size:22 final size:22
Alignment explanation
Indices: 6024957--6025009 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
6024947 AATGAAATGG
* * *
6024957 AAATACAAATGAAATAAAATAG
1 AAATAGAAATGAAATAAAAAAA
6024979 AAATAGAAATGAAATGAAAAAAA
1 AAATAGAAATGAAAT-AAAAAAA
6025002 AAAT-GAAA
1 AAATAGAAA
6025010 GGACATGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AAATAGAAATGAAATAAAAAAA
Found at i:6028225 original size:27 final size:31
Alignment explanation
Indices: 6028184--6028244 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
6028174 TGATATAATG
6028184 AAAATAAAATAATAAT-ATGTTAAAA-A-TAA
1 AAAATAAAATAATAATAATG-TAAAATAGTAA
6028213 AAAAT-AAAT-ATAATAATGTAAAATAGTAA
1 AAAATAAAATAATAATAATGTAAAATAGTAA
6028242 AAA
1 AAA
6028245 GCATGTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 10 0.34
28 8 0.28
29 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (31 bp):
AAAATAAAATAATAATAATGTAAAATAGTAA
Done.