Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 147 of 193
Found at i:45826942 original size:31 final size:29
Alignment explanation
Indices: 45826870--45826943 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
45826860 ACAAAATACT
* **
45826870 AACATAAGTGACTAAAACGTAACATTTCA
1 AACAAAAGTGACTAAAACGTAACATGGCA
* * *
45826899 AATACAAGTGACTAAAATGTAACATGAGGCA
1 AACAAAAGTGACTAAAACGTAACAT--GGCA
45826930 AACAAAAGTGACTA
1 AACAAAAGTGACTA
45826944 TTTTTATAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 22 0.61
31 14 0.39
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACAAAAGTGACTAAAACGTAACATGGCA
Found at i:45839894 original size:5 final size:5
Alignment explanation
Indices: 45839884--45839909 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45839874 CTTGAAAATG
45839884 TCTCT TCTCT TCTCT TCTCT TCTCT T
1 TCTCT TCTCT TCTCT TCTCT TCTCT T
45839910 TGCTTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCTCT
Found at i:45842023 original size:2 final size:2
Alignment explanation
Indices: 45842016--45842072 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
45842006 GATTATTGAG
45842016 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45842058 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
45842073 TTCAAAAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45850928 original size:12 final size:12
Alignment explanation
Indices: 45850908--45850965 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 12
45850898 GAATATGAGA
45850908 AAAGAGAAAAAT
1 AAAGAGAAAAAT
* *
45850920 AAAGGGAAATAAG
1 AAAGAGAAA-AAT
45850933 AAA-AGAAAAAT
1 AAAGAGAAAAAT
*
45850944 AAAGA-AATAA-
1 AAAGAGAAAAAT
*
45850954 AAAGAAAAAAAT
1 AAAGAGAAAAAT
45850966 TAATTATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 5 0.14
11 13 0.36
12 13 0.36
13 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (12 bp):
AAAGAGAAAAAT
Found at i:45850943 original size:24 final size:20
Alignment explanation
Indices: 45850907--45850962 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 20
45850897 TGAATATGAG
45850907 AAAAGAGAAAAATAAAGGGAAAT
1 AAAA-AGAAAAATAAA--GAAAT
45850930 AAGAAAAGAAAAATAAAGAAAT
1 -A-AAAAGAAAAATAAAGAAAT
45850952 AAAAAGAAAAA
1 AAAAAGAAAAA
45850963 AATTAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.32
21 1 0.03
22 5 0.16
24 12 0.39
25 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (20 bp):
AAAAAGAAAAATAAAGAAAT
Found at i:45851639 original size:30 final size:30
Alignment explanation
Indices: 45851595--45851668 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
45851585 TTAGGAGCAC
* *
45851595 AAATATATTA-ATTATATCAAATCATA-TA
1 AAATATAATATATTATATCAAATAATATTA
45851623 AAACTATAATATATTATATCAAATAATATTA
1 AAA-TATAATATATTATATCAAATAATATTA
45851654 AAATATAATATATTA
1 AAATATAATATATTA
45851669 AACTATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 3 0.07
29 6 0.15
30 27 0.66
31 5 0.12
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATATAATATATTATATCAAATAATATTA
Found at i:45851643 original size:25 final size:25
Alignment explanation
Indices: 45851615--45851666 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
45851605 ATTATATCAA
* * *
45851615 ATCATATAAAACTATAATATATTAT
1 ATCAAATAAAACTAAAATATAATAT
* *
45851640 ATCAAATAATATTAAAATATAATAT
1 ATCAAATAAAACTAAAATATAATAT
45851665 AT
1 AT
45851667 TAAACTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
ATCAAATAAAACTAAAATATAATAT
Found at i:45851666 original size:15 final size:15
Alignment explanation
Indices: 45851621--45851675 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
45851611 TCAAATCATA
45851621 TAAAACTATAATATAT
1 TAAAA-TATAATATAT
*
45851637 T-ATATCA-AATAATAT
1 TAAAAT-ATAAT-ATAT
45851652 TAAAATATAATATAT
1 TAAAATATAATATAT
*
45851667 TAAACTATA
1 TAAAATATA
45851676 TATTAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 4 0.12
15 21 0.66
16 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATATAATATAT
Found at i:45856612 original size:17 final size:17
Alignment explanation
Indices: 45856567--45856614 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
45856557 AAATTCGTAG
* * *
45856567 TACAACACAAGTTCGCA
1 TACAACATAGGTTCACA
*
45856584 TAACATCATAGGTTCACA
1 T-ACAACATAGGTTCACA
45856602 TACAACATAGGTT
1 TACAACATAGGTT
45856615 TGTAATATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (17 bp):
TACAACATAGGTTCACA
Found at i:45860179 original size:22 final size:24
Alignment explanation
Indices: 45860151--45860194 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
45860141 TCTATGATTT
45860151 TATTTATGTAA-AAAA-AGTTTGA
1 TATTTATGTAAGAAAATAGTTTGA
*
45860173 TATTTATTTAAGAAAATAGTTT
1 TATTTATGTAAGAAAATAGTTT
45860195 TTAAGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 4 0.21
24 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (24 bp):
TATTTATGTAAGAAAATAGTTTGA
Found at i:45862419 original size:18 final size:16
Alignment explanation
Indices: 45862388--45862431 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
45862378 AGGTTTAGGT
*
45862388 TTAAAAATTTTAATTAA
1 TTAAAAA-TTTATTTAA
45862405 TT--AAATTTATTTAA
1 TTAAAAATTTATTTAA
45862419 TTAAAAATTTATT
1 TTAAAAATTTATT
45862432 CTCGTCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 9 0.38
17 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATTTATTTAA
Found at i:45869602 original size:17 final size:16
Alignment explanation
Indices: 45869580--45869630 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
45869570 GGCCCAAACC
45869580 ATTTTGAAATTAAATTT
1 ATTTTG-AATTAAATTT
*
45869597 ATTTTGAATTCAATTT
1 ATTTTGAATTAAATTT
* *
45869613 AAATTTGAATTTAATTT
1 -ATTTTGAATTAAATTT
45869630 A
1 A
45869631 AATTTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (16 bp):
ATTTTGAATTAAATTT
Found at i:45869631 original size:17 final size:17
Alignment explanation
Indices: 45869599--45869635 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
45869589 TTAAATTTAT
45869599 TTTGAATTCAATTTAAA
1 TTTGAATTCAATTTAAA
*
45869616 TTTGAATTTAATTTAAA
1 TTTGAATTCAATTTAAA
45869633 TTT
1 TTT
45869636 AATATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTGAATTCAATTTAAA
Found at i:45871118 original size:30 final size:30
Alignment explanation
Indices: 45871079--45871235 Score: 210
Period size: 30 Copynumber: 5.2 Consensus size: 30
45871069 CCCTAAATTG
*
45871079 TCTAGAAATTACATTTTGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* *
45871109 TCTAAAAATTATATTTTGACCCCAAAAATT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
** *
45871139 T-TCCGAAATTATATTTTGACCCCAAAACTT
1 TCT-AAAAATTACATTTTGACCCCAAAACTT
45871169 TCTAAAAATTACATTTTGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
*
45871199 T-TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCT-AAAAATTACATTTTGACCCCAAAAC-TT
45871230 TCTAAA
1 TCTAAA
45871236 TCCCATTTTT
Statistics
Matches: 111, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
29 2 0.02
30 102 0.92
31 6 0.05
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.35
Consensus pattern (30 bp):
TCTAAAAATTACATTTTGACCCCAAAACTT
Found at i:45871176 original size:60 final size:60
Alignment explanation
Indices: 45871083--45871235 Score: 261
Period size: 60 Copynumber: 2.5 Consensus size: 60
45871073 AAATTGTCTA
*
45871083 GAAATTACATTTTGACCCCAAAACTTTCTAAAAATTATATTTTGACCCCAAAAATTTTCC
1 GAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAAATTTTCC
* *
45871143 GAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTTCC
1 GAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAAATTTTCC
*
45871203 AAAATTACATTTTGACCCCAAAACTTTTCTAAA
1 GAAATTACATTTTGACCCCAAAAC-TTTCTAAA
45871236 TCCCATTTTT
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
60 79 0.91
61 8 0.09
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.35
Consensus pattern (60 bp):
GAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCAAAAATTTTCC
Found at i:45891861 original size:26 final size:26
Alignment explanation
Indices: 45891825--45891894 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
45891815 TTGTATTTTA
*
45891825 GGTTTAAAATACGGGGGCCGCCTTTG
1 GGTTTAAAATACGGGGGCCGCCTATG
*
45891851 GGTTTAAAATACGGGGGCCTCCTATG
1 GGTTTAAAATACGGGGGCCGCCTATG
*
45891877 GGTTTAAAATACAGGGGC
1 GGTTTAAAATACGGGGGC
45891895 AGCCGATTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (26 bp):
GGTTTAAAATACGGGGGCCGCCTATG
Found at i:45894999 original size:38 final size:38
Alignment explanation
Indices: 45894957--45895032 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
45894947 TGTTAAAGGC
45894957 ATATACCTTGATGCTAGATGCAGCACTAAATAAAATAA
1 ATATACCTTGATGCTAGATGCAGCACTAAATAAAATAA
45894995 ATATACCTTGATGCTAGATGCAGCACTAAATAAAATAA
1 ATATACCTTGATGCTAGATGCAGCACTAAATAAAATAA
45895033 GTATCGACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (38 bp):
ATATACCTTGATGCTAGATGCAGCACTAAATAAAATAA
Found at i:45901040 original size:117 final size:117
Alignment explanation
Indices: 45900834--45901055 Score: 408
Period size: 117 Copynumber: 1.9 Consensus size: 117
45900824 ATGTTTCATG
*
45900834 GTAGAAGTTGGCATGGTAATGGTAAATTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGA
1 GTAGAAGTTGGCATAGTAATGGTAAATTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGA
45900899 AATAGTAAATCAAAGTGCCATTTTTCTTTTCAATATAATGTCATTTTTCTTT
66 AATAGTAAATCAAAGTGCCATTTTTCTTTTCAATATAATGTCATTTTTCTTT
* *
45900951 GTAGAAGTTGGCATAGTAATGGTATATTTTCTAAATAAGGTAAATGATGTCACTAGTCTAGTAGA
1 GTAGAAGTTGGCATAGTAATGGTAAATTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGA
*
45901016 AATAGTAGATCAAAGTGCCATTTTTCTTTTCAATATAATG
66 AATAGTAAATCAAAGTGCCATTTTTCTTTTCAATATAATG
45901056 CCTAAGCATG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 101 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (117 bp):
GTAGAAGTTGGCATAGTAATGGTAAATTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGA
AATAGTAAATCAAAGTGCCATTTTTCTTTTCAATATAATGTCATTTTTCTTT
Found at i:45901041 original size:60 final size:60
Alignment explanation
Indices: 45900860--45901042 Score: 132
Period size: 60 Copynumber: 3.1 Consensus size: 60
45900850 TAATGGTAAA
*
45900860 TTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGAAATAGTAAATCAAAGTGCCAT
1 TTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGAAATAGTAGATCAAAGTGCCAT
** * * ** * * * **
45900920 TTTTCT-TTTCAA--T--ATAATGTCATTTTTCTTTGTAGAAGT--TGGCAT-AGTAA-TGGTAT
1 TTTTCTAAAT-AAGGTAAATGATGTCAATAGTC-TAGTAGAAATAGTAG-ATCA--AAGTGCCAT
*
45900976 ATTTTCTAAATAAGGTAAATGATGTCACTAGTCTAGTAGAAATAGTAGATCAAAGTGCCAT
1 -TTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGAAATAGTAGATCAAAGTGCCAT
45901037 TTTTCT
1 TTTTCT
45901043 TTTCAATATA
Statistics
Matches: 85, Mismatches: 23, Indels: 30
0.62 0.17 0.22
Matches are distributed among these distances:
55 2 0.02
56 17 0.20
57 18 0.21
58 2 0.02
59 2 0.02
60 24 0.28
61 17 0.20
62 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (60 bp):
TTTTCTAAATAAGGTAAATGATGTCAATAGTCTAGTAGAAATAGTAGATCAAAGTGCCAT
Found at i:45907595 original size:23 final size:23
Alignment explanation
Indices: 45907548--45907615 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
45907538 GGATCGAAAT
*
45907548 TAAATTGTAATTTTTATTA-TGGAA
1 TAAA-TGTAA-TTTTATTATTTGAA
45907572 TAAATGTAATTTTATTATTTGAA
1 TAAATGTAATTTTATTATTTGAA
* * *
45907595 TAGAATATATTTTTATAATTT
1 TA-AATGTAATTTTATTATTT
45907616 TTAAAAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.21
23 11 0.29
24 19 0.50
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (23 bp):
TAAATGTAATTTTATTATTTGAA
Found at i:45907669 original size:30 final size:29
Alignment explanation
Indices: 45907598--45907669 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
45907588 ATTTGAATAG
*
45907598 AATATATTTTTATAATTTTTAAAAGATTA
1 AATATATTTTTATAATTTTTAAAAGATAA
*
45907627 AATCATATTTTTAT-ATTTTTAGATAAGCTAA
1 AAT-ATATTTTTATAATTTTTA-A-AAGATAA
*
45907658 AATATAATTTTA
1 AATATATTTTTA
45907670 CCTTTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 10 0.27
30 19 0.51
31 8 0.22
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (29 bp):
AATATATTTTTATAATTTTTAAAAGATAA
Found at i:45907936 original size:15 final size:16
Alignment explanation
Indices: 45907905--45907937 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45907895 ATGAGACTCA
*
45907905 TATTTTTTAATAAATT
1 TATTTATTAATAAATT
45907921 TATTTATTAA-AAATT
1 TATTTATTAATAAATT
45907936 TA
1 TA
45907938 ATATAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTATTAATAAATT
Found at i:45908354 original size:56 final size:57
Alignment explanation
Indices: 45908277--45908384 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 57
45908267 TATAAATTAT
* *
45908277 ATCATTTTATAATTTTTCATAATTAG-T-A-AATTAAAAAAATTACTAACAATTACATG
1 ATCATTTTATAACTTTTCATAATTAGATGACAA--AAAAAAAATACTAACAATTACATG
*
45908333 ATCATTTTGTAACTTTTCATAATTAGATGACAAAAAAAAAATACTAACAATT
1 ATCATTTTATAACTTTTCATAATTAGATGACAAAAAAAAAATACTAACAATT
45908385 GGGTGATTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
56 24 0.52
57 19 0.41
58 1 0.02
59 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (57 bp):
ATCATTTTATAACTTTTCATAATTAGATGACAAAAAAAAAATACTAACAATTACATG
Found at i:45908797 original size:10 final size:9
Alignment explanation
Indices: 45908735--45908829 Score: 72
Period size: 9 Copynumber: 10.7 Consensus size: 9
45908725 CATATGACAA
45908735 AAAAATTAT
1 AAAAATTAT
45908744 AAAAA--AT
1 AAAAATTAT
*
45908751 AAAAATCAAT
1 AAAAAT-TAT
*
45908761 AAAAGTTAT
1 AAAAATTAT
45908770 AAAAA-TATT
1 AAAAATTA-T
**
45908779 AAATTTTAAT
1 AAAAATT-AT
45908789 AAAAATTA-
1 AAAAATTAT
*
45908797 AAAAATTAC
1 AAAAATTAT
*
45908806 AAAAATCAT
1 AAAAATTAT
*
45908815 AAAAAATAT
1 AAAAATTAT
45908824 AAAAAT
1 AAAAAT
45908830 GTATTTTTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.10
8 10 0.15
9 35 0.52
10 14 0.21
11 1 0.01
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:45908920 original size:19 final size:19
Alignment explanation
Indices: 45908896--45908945 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
45908886 TTATAAAATT
45908896 TTATAAAATTGT-AAGAAAA
1 TTATAAAATTGTAAAG-AAA
*
45908915 TTATAAAAATGTAAAGAAA
1 TTATAAAATTGTAAAGAAA
45908934 -TATAAGAATTGT
1 TTATAA-AATTGT
45908946 TGTACCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 19 0.70
20 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (19 bp):
TTATAAAATTGTAAAGAAA
Found at i:45908923 original size:20 final size:19
Alignment explanation
Indices: 45908890--45908945 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
45908880 AAAATATTAT
*
45908890 AAAATTTTATAAAATTGTAA
1 AAAATTATA-AAAATTGTAA
45908910 GAAAATTATAAAAA-TGTAA
1 -AAAATTATAAAAATTGTAA
*
45908929 AGAAA-TATAAGAATTGT
1 A-AAATTATAAAAATTGT
45908946 TGTACCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 8 0.26
19 11 0.35
20 4 0.13
21 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAATTATAAAAATTGTAA
Found at i:45909908 original size:23 final size:22
Alignment explanation
Indices: 45909851--45909917 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
45909841 TTATTTGATT
* *
45909851 AAAACTAAAATTTTAAATATTTA
1 AAAAGTAAAATATTAAA-ATTTA
45909874 AAAAGTAGAAATATTAAAATTTA
1 AAAAGTA-AAATATTAAAATTTA
* * *
45909897 TCAAATTAAAATATAAAAATT
1 -AAAAGTAAAATATTAAAATT
45909918 AAGTACTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 23 0.62
24 14 0.38
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AAAAGTAAAATATTAAAATTTA
Found at i:45909993 original size:13 final size:13
Alignment explanation
Indices: 45909975--45910015 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
45909965 AATAATAATG
45909975 ATAATAAAATTAA
1 ATAATAAAATTAA
* *
45909988 ATAATAATATGAA
1 ATAATAAAATTAA
*
45910001 ATAAAAAAATTAA
1 ATAATAAAATTAA
45910014 AT
1 AT
45910016 GTACCACTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
ATAATAAAATTAA
Found at i:45911201 original size:55 final size:55
Alignment explanation
Indices: 45911132--45911263 Score: 192
Period size: 55 Copynumber: 2.4 Consensus size: 55
45911122 GATGTGTTGT
* * ** * * *
45911132 ATAATAATTGATTTAAAGTTATAAATAATCGATTTAAAAGAAGTATTATTTTAAT
1 ATAACAATCGATTTAAACATATAAACAATCGATTTAAAAGAAGTATTATTCTAAC
*
45911187 ATACCAATCGATTTAAACATATAAACAATCGATTTAAAAGAAGTATTATTCTAAC
1 ATAACAATCGATTTAAACATATAAACAATCGATTTAAAAGAAGTATTATTCTAAC
45911242 ATAACAATCGATTTAAACATAT
1 ATAACAATCGATTTAAACATAT
45911264 CGCTTCCTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.36
Consensus pattern (55 bp):
ATAACAATCGATTTAAACATATAAACAATCGATTTAAAAGAAGTATTATTCTAAC
Found at i:45914888 original size:3 final size:3
Alignment explanation
Indices: 45914880--45914911 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
45914870 TGAATTGGTC
*
45914880 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
45914912 AATATAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:45920742 original size:37 final size:37
Alignment explanation
Indices: 45920701--45920776 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
45920691 TATGTTCATT
45920701 TTCTTTAAAATATTTATGTGATGGAAGTGCGGTTTTA
1 TTCTTTAAAATATTTATGTGATGGAAGTGCGGTTTTA
*
45920738 TTCTTTAAAATATTTATGTGATGGAAGTGGGGTTTTA
1 TTCTTTAAAATATTTATGTGATGGAAGTGCGGTTTTA
45920775 TT
1 TT
45920777 TTTCTAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.47
Consensus pattern (37 bp):
TTCTTTAAAATATTTATGTGATGGAAGTGCGGTTTTA
Found at i:45923003 original size:2 final size:2
Alignment explanation
Indices: 45922991--45923025 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
45922981 ATTTGGTTCA
45922991 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45923026 TGAAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45928244 original size:2 final size:2
Alignment explanation
Indices: 45928237--45928274 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
45928227 CCATTTGCTA
*
45928237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45928275 TACCTGCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45937409 original size:18 final size:18
Alignment explanation
Indices: 45937386--45937428 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45937376 GTTCAAGGTA
45937386 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
45937404 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
45937422 TAATTAA
1 TAATTAA
45937429 AAACCTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:45938138 original size:21 final size:21
Alignment explanation
Indices: 45938114--45938176 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
45938104 TCAAAAAATT
45938114 TATATTACTATTTAAAAATAA
1 TATATTACTATTTAAAAATAA
***
45938135 TATA-TACT-TTT-ATTTTAA
1 TATATTACTATTTAAAAATAA
*
45938153 TATATT-CATAATTAAAAATAA
1 TATATTAC-TATTTAAAAATAA
45938174 TAT
1 TAT
45938177 TAATAAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 6 0.19
21 11 0.35
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTACTATTTAAAAATAA
Found at i:45949282 original size:222 final size:222
Alignment explanation
Indices: 45948890--45949314 Score: 751
Period size: 222 Copynumber: 1.9 Consensus size: 222
45948880 CTAATAGCTC
* * *
45948890 ATCAGAGTCTATCACATACATTGCACCTTGAGATGTAAGTACTACTATTGTATCTGCTACAACTT
1 ATCAGAGTCTATAACATACATTGCAACTTGAGATGTAAGTACTACTATTGTATCAGCTACAACTT
*
45948955 ATCACAAATATTGCTATGCCTACTGCTATTGGGTGATGGTGCAAGAAATGCTGTGTCAATTCCAA
66 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTGTCAATTCCAA
* *
45949020 GCACTTATGTTCTGAGACTATAGTCCAAAAGTTGCAGGAAATTGTTAATTGAAGAGGAGAATAGA
131 GCACTTATGTTCTGAGACTATAGTCCAAAAGTTACAGGAAATTGTTAATTGAAGAGAAGAATAGA
45949085 GGGAAAGTGTATCTGATGCTTACTGAT
196 GGGAAAGTGTATCTGATGCTTACTGAT
* * *
45949112 ATCAGAGTGTATAACATACATTGCAACTTGAGATGTAAGTACTACTATTTTATCAGCTATAACTT
1 ATCAGAGTCTATAACATACATTGCAACTTGAGATGTAAGTACTACTATTGTATCAGCTACAACTT
*
45949177 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTTTCAATTCCAA
66 ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTGTCAATTCCAA
*
45949242 GCACTTATGTTCTGAGACTATTGTCCAAAAGTTACAGGAAATTGTTAATTGAAGAGAAGAATAGA
131 GCACTTATGTTCTGAGACTATAGTCCAAAAGTTACAGGAAATTGTTAATTGAAGAGAAGAATAGA
45949307 GGGAAAGT
196 GGGAAAGT
45949315 ATTATACCTG
Statistics
Matches: 192, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
222 192 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (222 bp):
ATCAGAGTCTATAACATACATTGCAACTTGAGATGTAAGTACTACTATTGTATCAGCTACAACTT
ATCACAAATATTGCTATGCCTACTGCTATCGGGTGATGGTGCAAGAAATGCTGTGTCAATTCCAA
GCACTTATGTTCTGAGACTATAGTCCAAAAGTTACAGGAAATTGTTAATTGAAGAGAAGAATAGA
GGGAAAGTGTATCTGATGCTTACTGAT
Found at i:45959678 original size:275 final size:275
Alignment explanation
Indices: 45959187--45959735 Score: 1055
Period size: 275 Copynumber: 2.0 Consensus size: 275
45959177 ATCCTTCATG
45959187 TTTTCAACACACTCTTGAAATTCTTCCCTCGCACCATCTGACTGAGCTTCCAACAAAACCTGGTA
1 TTTTCAACACACTCTTGAAATTCTTCCCTCGCACCATCTGACTGAGCTTCCAACAAAACCTGGTA
*
45959252 TTAATTACCCTTCACATATTTGTGCCCAGCAAAATATTTTGCCCCACACCAAAAACATAACACTT
66 TTAATTACCCTTCACATATTTGTGCCCAGCAAAATATTTTGCCCCACACAAAAAACATAACACTT
45959317 TTTGTTTTCTTTCATTCATCAAAGTTGTACTAATTCCTTTAAGAGCTCCCTTGTTGACACCAGTA
131 TTTGTTTTCTTTCATTCATCAAAGTTGTACTAATTCCTTTAAGAGCTCCCTTGTTGACACCAGTA
45959382 GATACAAGGGTTGTTTGACCTCCAGTGTAGGTTAAGGCTAAAGGTTTGTTGTGGTGGGTATTGGT
196 GATACAAGGGTTGTTTGACCTCCAGTGTAGGTTAAGGCTAAAGGTTTGTTGTGGTGGGTATTGGT
45959447 TTGAGTAGGCTATTA
261 TTGAGTAGGCTATTA
*
45959462 TTTTCAACACACTCTTGAAATTCTTCCTTCGCACCATCTGACTGAGCTTCCAACAAAACCTGGTA
1 TTTTCAACACACTCTTGAAATTCTTCCCTCGCACCATCTGACTGAGCTTCCAACAAAACCTGGTA
45959527 TTAATTACCCTTCACATATTTGTGCCCAGCAAAATATTTTGCCCCACACAAAAAACATAACACTT
66 TTAATTACCCTTCACATATTTGTGCCCAGCAAAATATTTTGCCCCACACAAAAAACATAACACTT
*
45959592 TTTGTTTTCTTTCATTCATCAAAGTTGTACTAATTCCTTTAGGAGCTCCCTTGTTGACACCAGTA
131 TTTGTTTTCTTTCATTCATCAAAGTTGTACTAATTCCTTTAAGAGCTCCCTTGTTGACACCAGTA
45959657 GATAC-AGGAGTTGTTTGACCTCCAGTGTAGGTTAAGGCTAAAGGTTTGTTGTGGTGGGTATTGG
196 GATACAAGG-GTTGTTTGACCTCCAGTGTAGGTTAAGGCTAAAGGTTTGTTGTGGTGGGTATTGG
45959721 TTTGAGTAGGCTATT
260 TTTGAGTAGGCTATT
45959736 TAGTGAAAGA
Statistics
Matches: 270, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
274 3 0.01
275 267 0.99
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (275 bp):
TTTTCAACACACTCTTGAAATTCTTCCCTCGCACCATCTGACTGAGCTTCCAACAAAACCTGGTA
TTAATTACCCTTCACATATTTGTGCCCAGCAAAATATTTTGCCCCACACAAAAAACATAACACTT
TTTGTTTTCTTTCATTCATCAAAGTTGTACTAATTCCTTTAAGAGCTCCCTTGTTGACACCAGTA
GATACAAGGGTTGTTTGACCTCCAGTGTAGGTTAAGGCTAAAGGTTTGTTGTGGTGGGTATTGGT
TTGAGTAGGCTATTA
Found at i:45960714 original size:21 final size:20
Alignment explanation
Indices: 45960689--45960728 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45960679 AAAAATTTAG
*
45960689 GGGTTAAGAGAGGAGAAGATA
1 GGGTTAAGAG-GAAGAAGATA
*
45960710 GGGTTACGAGGAAGAAGAT
1 GGGTTAAGAGGAAGAAGAT
45960729 GGAGAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.42, T:0.15
Consensus pattern (20 bp):
GGGTTAAGAGGAAGAAGATA
Found at i:45962548 original size:16 final size:16
Alignment explanation
Indices: 45962521--45962553 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45962511 AATTTTAAGC
45962521 TCAAATTTTGAATCAAA
1 TCAAATTTTGAAT-AAA
45962538 TCAAA-TTTGAATAAA
1 TCAAATTTTGAATAAA
45962553 T
1 T
45962554 ATAAAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (16 bp):
TCAAATTTTGAATAAA
Found at i:45969555 original size:2 final size:2
Alignment explanation
Indices: 45969548--45969605 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
45969538 CATCCTCCTC
45969548 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
45969590 CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT
45969606 TATTTTATTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:45974811 original size:59 final size:59
Alignment explanation
Indices: 45974717--45974840 Score: 167
Period size: 59 Copynumber: 2.1 Consensus size: 59
45974707 ACTATTAATT
* * * ** *
45974717 AATTTTTTTTTGGTCATCAAACTATAAATAATTACAAAATGGTCACTCAATTATTAGTC
1 AATTTTTTTTCGGCCACCAAACTATAAATAATTACAAAATAATCACTCAAATATTAGTC
* * *
45974776 AATTTTTTTTCGGCCACCCAACTATGAATAGTTACAAAATAATCACTCAAATATTAGTC
1 AATTTTTTTTCGGCCACCAAACTATAAATAATTACAAAATAATCACTCAAATATTAGTC
45974835 AATTTT
1 AATTTT
45974841 GTGTTTTTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (59 bp):
AATTTTTTTTCGGCCACCAAACTATAAATAATTACAAAATAATCACTCAAATATTAGTC
Found at i:45976580 original size:20 final size:20
Alignment explanation
Indices: 45976555--45976596 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
45976545 AAATACTCCA
*
45976555 TTTTTGGAATTATTTTCTTC
1 TTTTTGGAATCATTTTCTTC
45976575 TTTTTGGAATCATTTTCTTC
1 TTTTTGGAATCATTTTCTTC
45976595 TT
1 TT
45976597 CTTTACTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTTGGAATCATTTTCTTC
Found at i:45982170 original size:27 final size:27
Alignment explanation
Indices: 45982132--45982185 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45982122 GGGTTCTTCT
45982132 GAGAAAATTAAAGCTAAGGAAGGGTCG
1 GAGAAAATTAAAGCTAAGGAAGGGTCG
45982159 GAGAAAATTAAAGCTAAGGAAGGGTCG
1 GAGAAAATTAAAGCTAAGGAAGGGTCG
45982186 AAGTTAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.33, T:0.15
Consensus pattern (27 bp):
GAGAAAATTAAAGCTAAGGAAGGGTCG
Found at i:45984837 original size:60 final size:61
Alignment explanation
Indices: 45984767--45984883 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 61
45984757 CAATTCATAC
* * * *
45984767 CAAAACAAAATATTAGATATTAAATTAAGAAAAAGTATT-AAATTCAAATATTAAATTGAAA
1 CAAAACAAAATATTAAATATCAAATTAAGAAAAACT-TTCAAATTCAAATACTAAATTGAAA
* *
45984828 CAAAA-AAAATATTAAATATCAAATTAAGAATAACTTTCAAATTCAGATACTAAATT
1 CAAAACAAAATATTAAATATCAAATTAAGAAAAACTTTCAAATTCAAATACTAAATT
45984884 AAAAAATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 2 0.04
60 42 0.86
61 5 0.10
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (61 bp):
CAAAACAAAATATTAAATATCAAATTAAGAAAAACTTTCAAATTCAAATACTAAATTGAAA
Found at i:45991336 original size:17 final size:18
Alignment explanation
Indices: 45991314--45991355 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
45991304 CCCAATGAGA
*
45991314 TAAATTTGGTTTTAAA-T
1 TAAATTTGATTTTAAATT
45991331 TAAATTT-ATTTTAAATT
1 TAAATTTGATTTTAAATT
45991348 TAAATTTG
1 TAAATTTG
45991356 CACAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (18 bp):
TAAATTTGATTTTAAATT
Found at i:45991389 original size:17 final size:17
Alignment explanation
Indices: 45991326--45991389 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
45991316 AATTTGGTTT
*
45991326 TAAA-TTAAATTTATTT
1 TAAATTTAAATTTATTA
*
45991342 TAAATTTAAATTTGCA-CA
1 TAAATTTAAATTT--ATTA
*
45991360 -AAATTTAAGTTTATTA
1 TAAATTTAAATTTATTA
*
45991376 TAAATATAAATTTA
1 TAAATTTAAATTTA
45991390 AAATTAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 30 0.81
19 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAATTTAAATTTATTA
Found at i:45992197 original size:16 final size:16
Alignment explanation
Indices: 45992159--45992204 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
45992149 GTTAACAAAT
45992159 ATTTTAATAATAATAA
1 ATTTTAATAATAATAA
*
45992175 ATATTAATAATAAT-A
1 ATTTTAATAATAATAA
45992190 ATGTTTAATATATAA
1 AT-TTTAATA-ATAA
45992205 AAAAAAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 3 0.12
16 19 0.73
17 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTTTAATAATAATAA
Found at i:45993426 original size:59 final size:58
Alignment explanation
Indices: 45993361--45993482 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 58
45993351 CAGAAATTAT
* * * ** *
45993361 TTTTTGACCCTAAAACTTCCAAAAATTACTATTTTGACTCTGAACTTTCTAAAATTCCA
1 TTTTTGACCCTAAAACTTCC-AAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
45993420 TTTTTGACCCTAAAACTTCCAAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
1 TTTTTGACCCTAAAACTTCCAAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
45993478 TTTTT
1 TTTTT
45993483 AACCTTGATT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 37 0.65
59 20 0.35
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (58 bp):
TTTTTGACCCTAAAACTTCCAAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
Found at i:45993465 original size:58 final size:59
Alignment explanation
Indices: 45993361--45993549 Score: 186
Period size: 59 Copynumber: 3.2 Consensus size: 59
45993351 CAGAAATTAT
* * * ** *
45993361 TTTTTGACCCTAAAACTTCCAAAAATTACTATTTTGACTCTGAACTTTCTAAAATTCCA
1 TTTTTGACCCTAAAACTTCCAAAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
45993420 TTTTTGACCCTAAAACTTCC-AAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
1 TTTTTGACCCTAAAACTTCCAAAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
* * * *** * * * *
45993478 TTTTTAACCTTGATTTTTCCAAAAATTA-T-CATTTTACCCCCAAACTTTTCAAAATTCTA
1 TTTTTGACCCTAAAACTTCCAAAAACTACTAC-TTTGA-CCCCAAACTTTCCAAAATTCCA
*
45993537 TTTTTAACCCTAA
1 TTTTTGACCCTAA
45993550 TTTCACCAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
57 1 0.01
58 51 0.47
59 57 0.52
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (59 bp):
TTTTTGACCCTAAAACTTCCAAAAACTACTACTTTGACCCCAAACTTTCCAAAATTCCA
Found at i:45993604 original size:58 final size:58
Alignment explanation
Indices: 45993455--45993692 Score: 268
Period size: 59 Copynumber: 4.1 Consensus size: 58
45993445 TACTACTTTG
* * **
45993455 ACCCC-AAACTTTCCAAAATTCCATTTTTAACCTTGATTTTTCCAAAAATTATCATTTT
1 ACCCCTAAACTTTCCAAAATT-CATTTTTAACCCTAATTTCACCAAAAATTATCATTTT
* *
45993513 ACCCCCAAACTTTTCAAAATTCTATTTTTAACCCTAATTTCACCAAAAATTATCATTTT
1 ACCCCTAAACTTTCCAAAATTC-ATTTTTAACCCTAATTTCACCAAAAATTATCATTTT
* * *
45993572 A-CCCTGAACTTTCCAAAATATCATTTTTAACCCCAATTTCACC-AAAATTACCATTTT
1 ACCCCTAAACTTTCCAAAAT-TCATTTTTAACCCTAATTTCACCAAAAATTATCATTTT
* * * * *
45993629 ACCCCTAAACTTTCCAAAATTTCATTTTTGACCTCGATTTTC-CTAAAAATTACCATTTT
1 ACCCCTAAACTTTCCAAAA-TTCATTTTTAACC-CTAATTTCACCAAAAATTATCATTTT
*
45993688 TCCCC
1 ACCCC
45993693 CGGGCATCCA
Statistics
Matches: 157, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
57 14 0.09
58 69 0.44
59 74 0.47
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.39
Consensus pattern (58 bp):
ACCCCTAAACTTTCCAAAATTCATTTTTAACCCTAATTTCACCAAAAATTATCATTTT
Found at i:45993645 original size:29 final size:30
Alignment explanation
Indices: 45993339--45993657 Score: 142
Period size: 29 Copynumber: 10.9 Consensus size: 30
45993329 TTTTGTAGGT
* *
45993339 CCCTAAACTGTCCAGAAATTA--TTTTTTGA-
1 CCCTAAACTTTCCA-AAATTACCATTTTT-AC
* *
45993368 CCCTAAAAC-TTCCAAAAATTACTATTTTGA-
1 CCCT-AAACTTTCC-AAAATTACCATTTTTAC
* * *
45993398 CTCTGAACTTTCTAAAATT-CCATTTTTGA-
1 CCCTAAACTTTCCAAAATTACCATTTTT-AC
* * * *
45993427 CCCTAAAAC-TTCCAAAACTACTACTTTGAC
1 CCCT-AAACTTTCCAAAATTACCATTTTTAC
*
45993457 CCC-AAACTTTCCAAAATT-CCATTTTTAA
1 CCCTAAACTTTCCAAAATTACCATTTTTAC
* * ** *
45993485 CCTTGATTTTTCCAAAAATTATCA-TTTTAC
1 CCCTAAACTTTCC-AAAATTACCATTTTTAC
* * * *
45993515 CCCCAAACTTTTCAAAATT-CTATTTTTAA
1 CCCTAAACTTTCCAAAATTACCATTTTTAC
*
45993544 CCCT-AA-TTTCACCAAAAATTATCA-TTTTA-
1 CCCTAAACTTT--CC-AAAATTACCATTTTTAC
* *
45993573 CCCTGAACTTTCCAAAA-TATCATTTTTAAC
1 CCCTAAACTTTCCAAAATTACCATTTTT-AC
45993603 CCC--AA-TTTCACCAAAATTACCA-TTTTAC
1 CCCTAAACTTT--CCAAAATTACCATTTTTAC
*
45993631 CCCTAAACTTTCCAAAATT-TCATTTTT
1 CCCTAAACTTTCCAAAATTACCATTTTT
45993658 GACCTCGATT
Statistics
Matches: 219, Mismatches: 41, Indels: 60
0.68 0.13 0.19
Matches are distributed among these distances:
27 11 0.05
28 38 0.17
29 94 0.43
30 63 0.29
31 13 0.06
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAATTACCATTTTTAC
Found at i:45995254 original size:157 final size:157
Alignment explanation
Indices: 45994911--45995327 Score: 674
Period size: 157 Copynumber: 2.6 Consensus size: 157
45994901 GGTTTCGACA
* * *
45994911 CTGGGTGTTACAAATATTCTTCTTCCTTATTGTTCCATACTTTTGTTCATCTGTAAACCTTTAGA
1 CTGGGTGTTACAAATCTTCTTCTTCCTCATTGTTCCATACTTTTGTTCATCTGTAAGCCTTTAGA
45994976 AACACTAATTTTCAAATTTCAAAAACCCAAATTTTTAAAAATAAAATTTGAGTTTTTGAAATCTG
66 AACACTAATTTTCAAATTTCAAAAA-CCAAATTTTTAAAAATAAAATTTGAGTTTTTGAAATCTG
* * *
45995041 AAAGTTTTTTAAAATCAAACTTAAAAAC
130 AAAATTTTTAAAAATAAAACTTAAAAAC
* * *
45995069 ATGAGTGTTACAAATCTTCTTCTTCCTCATTGTTCCATACTTTTATTCATCTGTAAGCCTTTAGA
1 CTGGGTGTTACAAATCTTCTTCTTCCTCATTGTTCCATACTTTTGTTCATCTGTAAGCCTTTAGA
* * *
45995134 AACACTAATTTTTAAATTTCAAAAATCCAAATTTTTAAATA-AAAATTTGGGTTTTTGAAATCTG
66 AACACTAATTTTCAAATTTCAAAAA-CCAAATTTTTAAAAATAAAATTTGAGTTTTTGAAATCTG
45995198 AAAATTTTTAAAAATAAAACTTAAAAAC
130 AAAATTTTTAAAAATAAAACTTAAAAAC
*
45995226 CTGGGTGTTACAAATCTTCTTCTTCCTCACTGTTCCATACTTTTGTTCATCTGTAAGCCTTTAGA
1 CTGGGTGTTACAAATCTTCTTCTTCCTCATTGTTCCATACTTTTGTTCATCTGTAAGCCTTTAGA
*
45995291 AACACTAATTTTCAATTTTCAAAAACTCAAATTTTTA
66 AACACTAATTTTCAAATTTCAAAAAC-CAAATTTTTA
45995328 GTGAATTAAG
Statistics
Matches: 239, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
156 1 0.00
157 141 0.59
158 97 0.41
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (157 bp):
CTGGGTGTTACAAATCTTCTTCTTCCTCATTGTTCCATACTTTTGTTCATCTGTAAGCCTTTAGA
AACACTAATTTTCAAATTTCAAAAACCAAATTTTTAAAAATAAAATTTGAGTTTTTGAAATCTGA
AAATTTTTAAAAATAAAACTTAAAAAC
Found at i:45995464 original size:30 final size:30
Alignment explanation
Indices: 45995408--45995483 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
45995398 AAATAATATC
*
45995408 ATAA-TTTAATAATTAT-TATTTCAAAAAA
1 ATAATTTTAATAATTTTATATTTCAAAAAA
*
45995436 ATAATTTTAATAATTTTATATTTTAAAAAA
1 ATAATTTTAATAATTTTATATTTCAAAAAA
45995466 ATAATTTTAATAATTTTA
1 ATAATTTTAATAATTTTA
45995484 AAATCATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 4 0.09
29 11 0.25
30 29 0.66
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
ATAATTTTAATAATTTTATATTTCAAAAAA
Found at i:45995468 original size:21 final size:23
Alignment explanation
Indices: 45995444--45995486 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
45995434 AAATAATTTT
45995444 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
45995465 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
45995487 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:45996396 original size:21 final size:21
Alignment explanation
Indices: 45996370--45996420 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
45996360 ACAAAATATT
*
45996370 ATGTTTGTAACTCTTCTCATA
1 ATGTTTGTAACTCTCCTCATA
*
45996391 ATGTTTTGTAACTCTCCTCATT
1 ATG-TTTGTAACTCTCCTCATA
45996413 ATGTTTGT
1 ATGTTTGT
45996421 TTTAAATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.51
Consensus pattern (21 bp):
ATGTTTGTAACTCTCCTCATA
Found at i:46004062 original size:21 final size:21
Alignment explanation
Indices: 46004038--46004079 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46004028 ACCTTAAATA
46004038 CTAAATTTTAAACTCTAAACC
1 CTAAATTTTAAACTCTAAACC
*
46004059 CTAAATTTTAAATTCTAAACC
1 CTAAATTTTAAACTCTAAACC
46004080 ATGATCCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (21 bp):
CTAAATTTTAAACTCTAAACC
Found at i:46011971 original size:27 final size:28
Alignment explanation
Indices: 46011908--46011972 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
46011898 TGATGGATAA
* * * *
46011908 TCCAAGTGCAAGCCAAAGTGACGCACAT
1 TCCAAGTGTAAGCCAAAATGACGAACAG
*
46011936 TCCAAGTGTAAGTCAAAATGAC-AACAG
1 TCCAAGTGTAAGCCAAAATGACGAACAG
46011963 TCCAAGTGTA
1 TCCAAGTGTA
46011973 GGACACTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (28 bp):
TCCAAGTGTAAGCCAAAATGACGAACAG
Found at i:46012340 original size:18 final size:18
Alignment explanation
Indices: 46012317--46012356 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46012307 TTGAAGAGCT
*
46012317 TGCAGCTTGTATGCATGC
1 TGCAGCTCGTATGCATGC
*
46012335 TGCAGCTCGTATGCTTGC
1 TGCAGCTCGTATGCATGC
46012353 TGCA
1 TGCA
46012357 ATAGCAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.33
Consensus pattern (18 bp):
TGCAGCTCGTATGCATGC
Found at i:46015989 original size:21 final size:22
Alignment explanation
Indices: 46015963--46016010 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
46015953 CTAAAGAGTG
46015963 TTTATTGTT-TGTTGTTACTAT
1 TTTATTGTTATGTTGTTACTAT
*
46015984 TTTATTGTTAATTTTGTTACTAT
1 TTTATTGTT-ATGTTGTTACTAT
46016007 TTTA
1 TTTA
46016011 GTTACAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.38
23 15 0.62
ACGTcount: A:0.19, C:0.04, G:0.10, T:0.67
Consensus pattern (22 bp):
TTTATTGTTATGTTGTTACTAT
Found at i:46029945 original size:17 final size:17
Alignment explanation
Indices: 46029923--46029992 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 17
46029913 ATAATTTAAT
46029923 TTTTAAAATTAAATTTA
1 TTTTAAAATTAAATTTA
*
46029940 TTTTAAATTTAAATTTA
1 TTTTAAAATTAAATTTA
* * *
46029957 CTTAAAAATTTAAGTTTA
1 TTTTAAAA-TTAAATTTA
* *
46029975 TTATAAATTTAAATTTA
1 TTTTAAAATTAAATTTA
46029992 T
1 T
46029993 AAATTAAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
17 30 0.71
18 12 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTTAAAATTAAATTTA
Found at i:46031755 original size:29 final size:30
Alignment explanation
Indices: 46031723--46031801 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
46031713 TAAAATTTAA
*
46031723 AAAAATTATATTTTAACCCCGAAAC-TTCC
1 AAAAATTATATTTTAACCCCCAAACTTTCC
* *
46031752 AAAATTTACCATTTT-ACCCCCAAACTTTCC
1 AAAAATTA-TATTTTAACCCCCAAACTTTCC
46031782 -AAAATTCCAT-TTTTAACCCC
1 AAAAATT--ATATTTTAACCCC
46031802 AATTTCACCG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
29 25 0.62
30 14 0.35
31 1 0.03
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (30 bp):
AAAAATTATATTTTAACCCCCAAACTTTCC
Found at i:46031782 original size:30 final size:27
Alignment explanation
Indices: 46031732--46031803 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 27
46031722 AAAAAATTAT
*
46031732 ATTTTAACCCCGAAACTTCCAAAATTTACC
1 ATTTT-ACCCCCAAACTTCCAAAA-TT-CC
46031762 ATTTTACCCCCAAACTTTCCAAAATTCC
1 ATTTTACCCCCAAAC-TTCCAAAATTCC
*
46031790 ATTTTTAACCCCAA
1 A-TTTTACCCCCAA
46031804 TTTCACCGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 22 0.58
30 13 0.34
ACGTcount: A:0.35, C:0.32, G:0.01, T:0.32
Consensus pattern (27 bp):
ATTTTACCCCCAAACTTCCAAAATTCC
Found at i:46031802 original size:29 final size:29
Alignment explanation
Indices: 46031732--46031803 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
46031722 AAAAAATTAT
46031732 ATTTTAACCCCGAAACTTCCAAAATTTACC
1 ATTTTAACCCC-AAACTTCCAAAATTTACC
*
46031762 ATTTTACCCCCAAACTTTCCAAAA-TT-CC
1 ATTTTAACCCCAAAC-TTCCAAAATTTACC
46031790 ATTTTTAACCCCAA
1 A-TTTTAACCCCAA
46031804 TTTCACCGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 17 0.45
30 18 0.47
ACGTcount: A:0.35, C:0.32, G:0.01, T:0.32
Consensus pattern (29 bp):
ATTTTAACCCCAAACTTCCAAAATTTACC
Found at i:46034813 original size:17 final size:17
Alignment explanation
Indices: 46034793--46034826 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46034783 ACTTGTATTT
*
46034793 ATATTCTCTAGGTCCAA
1 ATATTCTCTAAGTCCAA
46034810 ATATTCTCTAAGTCCAA
1 ATATTCTCTAAGTCCAA
46034827 TAATCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (17 bp):
ATATTCTCTAAGTCCAA
Found at i:46048664 original size:2 final size:2
Alignment explanation
Indices: 46048657--46048681 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46048647 TCATTTATCA
46048657 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 A
46048682 ATGATAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46049792 original size:28 final size:30
Alignment explanation
Indices: 46049746--46049807 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
46049736 TTAATATGAC
*
46049746 TATATAAAAATTTTCAATA-AATAAAA-AA
1 TATATAAAAATTTTAAATATAATAAAACAA
46049774 TATAT-AAAATTATTAAATATTAATAAAACAA
1 TATATAAAAATT-TTAAATA-TAATAAAACAA
46049805 TAT
1 TAT
46049808 GCATATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.21
28 11 0.38
30 7 0.24
31 5 0.17
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (30 bp):
TATATAAAAATTTTAAATATAATAAAACAA
Found at i:46050861 original size:19 final size:19
Alignment explanation
Indices: 46050825--46050863 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46050815 CATATTATAT
*
46050825 AATTTTTAATATATATTTA
1 AATTTTTAAAATATATTTA
46050844 AATTTTTATAAATA-ATTTA
1 AATTTTTA-AAATATATTTA
46050863 A
1 A
46050864 TAATGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTTAAAATATATTTA
Found at i:46051554 original size:6 final size:6
Alignment explanation
Indices: 46051545--46051575 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
46051535 AAGAGGAAGA
*
46051545 TGATGG TGATGG TGATGG TGGTGG TGATGG T
1 TGATGG TGATGG TGATGG TGATGG TGATGG T
46051576 TGGACTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.52, T:0.35
Consensus pattern (6 bp):
TGATGG
Found at i:46056151 original size:16 final size:17
Alignment explanation
Indices: 46056107--46056154 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
46056097 AATTTCAAAT
*
46056107 AAATAAAAAAATGTATA
1 AAATAAAAAAATATATA
* **
46056124 AAATTATTAAATAT-TA
1 AAATAAAAAAATATATA
46056140 AAATAAAAAAATATA
1 AAATAAAAAAATATA
46056155 AATATTTTTT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAATAAAAAAATATATA
Found at i:46056447 original size:14 final size:14
Alignment explanation
Indices: 46056428--46056455 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46056418 TTTGGAAAGA
46056428 AGTCATGAGTGAAT
1 AGTCATGAGTGAAT
46056442 AGTCATGAGTGAAT
1 AGTCATGAGTGAAT
46056456 TTCTAAGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
AGTCATGAGTGAAT
Found at i:46062518 original size:31 final size:29
Alignment explanation
Indices: 46062461--46062539 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
46062451 AAAATCAGAT
*
46062461 TTTTTA-AAAATTTAGGGGTCAATTCAAAA
1 TTTTTAGAAAATTTTGGGGTCAATTC-AAA
*
46062490 TTTTTGGAAAATTTTGGGGTCCAATTCAAA
1 TTTTTAGAAAATTTTGGGGT-CAATTCAAA
46062520 TTTTTAG-AAATTTTAGGGGT
1 TTTTTAGAAAATTTT-GGGGT
46062540 TAAAATGGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 12 0.27
30 26 0.59
31 6 0.14
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (29 bp):
TTTTTAGAAAATTTTGGGGTCAATTCAAA
Found at i:46062566 original size:90 final size:89
Alignment explanation
Indices: 46062471--46062633 Score: 202
Period size: 90 Copynumber: 1.8 Consensus size: 89
46062461 TTTTTAAAAA
* ** *
46062471 TTTAGGGGTCAA-TTCAAAATTTTTGGAAAATTTTGGGGTCCAATTCAAATTTTTAGAAATTTTA
1 TTTAGGGGTCAATTTCAAAATTTTTGGAAAA-TTTGAGGTAAAATTCAAATTTTTAGAAAATTT-
*
46062535 GGGGTTAAAATGGAATTTTTAGAGAG
64 GAGGTTAAAATGGAATTTTTAGAGAG
* ** * * *
46062561 TTTAGGGGTTAATTTTGAATTTTTTGGAAAATTTGAGGTAAAATTTAAATTTTTGGAAAATTTGA
1 TTTAGGGGTCAATTTCAAAATTTTTGGAAAATTTGAGGTAAAATTCAAATTTTTAGAAAATTTGA
46062626 GGTTAAAA
66 GGTTAAAA
46062634 CATAACTTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
89 9 0.15
90 37 0.61
91 15 0.25
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.41
Consensus pattern (89 bp):
TTTAGGGGTCAATTTCAAAATTTTTGGAAAATTTGAGGTAAAATTCAAATTTTTAGAAAATTTGA
GGTTAAAATGGAATTTTTAGAGAG
Found at i:46062646 original size:29 final size:29
Alignment explanation
Indices: 46062585--46062648 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
46062575 TTGAATTTTT
** * *
46062585 TGGAAAATTTGAGGTAAAATTTAAATTTT
1 TGGAAAATTTGAGGTAAAACATAAACTTC
46062614 TGGAAAATTTGAGGTTAAAACAT-AACTTC
1 TGGAAAATTTGAGG-TAAAACATAAACTTC
46062643 TGGAAA
1 TGGAAA
46062649 GTATAAGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (29 bp):
TGGAAAATTTGAGGTAAAACATAAACTTC
Found at i:46064461 original size:79 final size:79
Alignment explanation
Indices: 46064350--46064795 Score: 520
Period size: 79 Copynumber: 5.6 Consensus size: 79
46064340 ATAGCTTTAG
* * *
46064350 GGGTAAAAGATTTGATTGTTTCAATCTACCCCATGGTCGGGGT-AGAAGATCT-AATGGTCTTCA
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAG-AGAT-TGAATGGTCTTCA
* * *
46064413 AGCTGCCCTTTAGTTA
64 ATCTGCCCTCTGGTTA
* * * *
46064429 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAGAGA-TCAGATGATCTTTAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGA-ATGGTCTTCAA
* *
46064493 TTTTCCCTCTGGTTA
65 TCTGCCCTCTGGTTA
* * * * *
46064508 GGGTAAAAGATTAGATTGCTTCAATCTGCTCCATGATCGGGGTAAGAGATTGGATAGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGAATGGTCTTCAAT
46064573 CTGCCCTCTGGTTA
66 CTGCCCTCTGGTTA
** * * *
46064587 GGGTAAAAGATTTTATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGGTCTTTAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGAATGGTCTTCAAT
*
46064652 CTGTCCTCTGGTTA
66 CTGCCCTCTGGTTA
* * * * * **
46064666 GGGTAAAAGATTGGATTGTTTCAATCTGTCTCATGGTCGGGGTAAAAGATTAAATGACCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGAATGGTCTTCAAT
* * *
46064731 TTCCCCTCTGATTA
66 CTGCCCTCTGGTTA
* * *
46064745 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTTGGGGTAAAAGATT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATT
46064796 CGAGGTTGTA
Statistics
Matches: 314, Mismatches: 49, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
77 1 0.00
78 1 0.00
79 309 0.98
80 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGAATGGTCTTCAAT
CTGCCCTCTGGTTA
Found at i:46064765 original size:237 final size:237
Alignment explanation
Indices: 46064350--46064795 Score: 619
Period size: 237 Copynumber: 1.9 Consensus size: 237
46064340 ATAGCTTTAG
* *
46064350 GGGTAAAAGATTTGATTGTTTCAATCTACCCCATGGTCGGGGTAGAAGATCTAATGGTCTTCAAG
1 GGGTAAAAGATTTGATTGCTTCAATCTACCCCATGGTCGAGGTAGAAGATCTAATGGTCTTCAAG
* *
46064415 CTGCCCTTTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAGAGATC
66 CTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGATC
* * * * *
46064480 AGATGATCTTTAATTTTCCCTCTGGTTAGGGTAAAAGATTAGATTGCTTCAATCTG-CTCCATGA
131 AAATGACCTTCAATTTCCCCTCTGATTAGGGTAAAAGATTAGATTGCTTCAATCTGCCT-CATGA
*
46064544 TCGGGGTAAGAGATTGGATAGTCTTCAATCTGCCCTCTGGTTA
195 TCGGGGTAAAAGATTGGATAGTCTTCAATCTGCCCTCTGGTTA
* * * *
46064587 GGGTAAAAGATTTTATTGCTTCAATCTGCCCCATGGTCGAGGTA-AGAGAT-TGGATGGTCTTTA
1 GGGTAAAAGATTTGATTGCTTCAATCTACCCCATGGTCGAGGTAGA-AGATCT-AATGGTCTTCA
* * * * * * *
46064650 ATCTGTCCTCTGGTTAGGGTAAAAGATTGGATTGTTTCAATCTGTCTCATGGTCGGGGTAAAAGA
64 AGCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGA
* *
46064715 TTAAATGACCTTCAATTTCCCCTCTGATTAGGGTAAAAGATTGGATTGCTTCAATCTGCCTCATG
129 TCAAATGACCTTCAATTTCCCCTCTGATTAGGGTAAAAGATTAGATTGCTTCAATCTGCCTCATG
* *
46064780 GTTGGGGTAAAAGATT
194 ATCGGGGTAAAAGATT
46064796 CGAGGTTGTA
Statistics
Matches: 181, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
236 2 0.01
237 177 0.98
238 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (237 bp):
GGGTAAAAGATTTGATTGCTTCAATCTACCCCATGGTCGAGGTAGAAGATCTAATGGTCTTCAAG
CTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGATC
AAATGACCTTCAATTTCCCCTCTGATTAGGGTAAAAGATTAGATTGCTTCAATCTGCCTCATGAT
CGGGGTAAAAGATTGGATAGTCTTCAATCTGCCCTCTGGTTA
Found at i:46065558 original size:112 final size:112
Alignment explanation
Indices: 46065356--46065574 Score: 323
Period size: 112 Copynumber: 2.0 Consensus size: 112
46065346 CCTTGTATCG
*
46065356 TTAGACCACTAACCGTCATTTCAATGTAAAAATGCTCGAACAGGATTGTAAAGTGGATAAAATTG
1 TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTCGAACAGGATTGTAAAGTGGATAAAATTG
*
46065421 AATTTGATTGGAGGTAAAACTCGCATGAATGA-AAAGATTAAAAATCA
66 AATTTGATTGGAGGCAAAACTCGCATGAATGAGAAA-ATTAAAAATCA
* * * * * *
46065468 TTAGTCCACTAACCGTTATTTCAATGCAAAAATGCTTGAACAGGGTTGTGAGGTGGATAAAATTG
1 TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTCGAACAGGATTGTAAAGTGGATAAAATTG
* * *
46065533 GATTTTATTGGAGGCAAAGCTCGCATGAATGAGAAAATTAAA
66 AATTTGATTGGAGGCAAAACTCGCATGAATGAGAAAATTAAA
46065575 CATTGATCAA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 92 0.97
113 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (112 bp):
TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTCGAACAGGATTGTAAAGTGGATAAAATTG
AATTTGATTGGAGGCAAAACTCGCATGAATGAGAAAATTAAAAATCA
Found at i:46065905 original size:16 final size:16
Alignment explanation
Indices: 46065884--46065952 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
46065874 TCTCCTTTTA
*
46065884 TTTTTTATTTTTTCCT
1 TTTTTTATTTTTTCAT
*
46065900 TTTTTTCTTTTTTCAT
1 TTTTTTATTTTTTCAT
** *
46065916 TTTCCT-TTCTTTC-T
1 TTTTTTATTTTTTCAT
46065930 TTTCTTT-TTTTTTCTAT
1 TTT-TTTATTTTTTC-AT
46065947 TTTTTT
1 TTTTTT
46065953 GGGAGAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 4 0.10
15 13 0.31
16 21 0.50
17 4 0.10
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTATTTTTTCAT
Found at i:46065910 original size:22 final size:21
Alignment explanation
Indices: 46065876--46065940 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
46065866 CCTCGATCTC
* *
46065876 TCCTTTTATT-TTTTATTTTT
1 TCCTTTTTTTCTTTTTTTTTT
*
46065896 TCCTTTTTTTCTTTTTTCATTT
1 TCCTTTTTTTCTTTTTT-TTTT
*
46065918 TCCTTTCTTTCTTTTCTTTTTT
1 TCCTTTTTTTCTTTT-TTTTTT
46065940 T
1 T
46065941 TTCTATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 9 0.24
21 5 0.14
22 21 0.57
23 2 0.05
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
TCCTTTTTTTCTTTTTTTTTT
Found at i:46065952 original size:15 final size:15
Alignment explanation
Indices: 46065882--46065952 Score: 58
Period size: 15 Copynumber: 4.6 Consensus size: 15
46065872 TCTCTCCTTT
46065882 TATTTTTTATTTTTTCC
1 TATTTTTT-TTTTTT-C
46065899 T-TTTTTTCTTTTTTC
1 TATTTTTT-TTTTTTC
* *
46065914 -ATTTTCCTTTCTTTC
1 TATTTT-TTTTTTTTC
46065929 T-TTTCTTTTTTTTTC
1 TATTT-TTTTTTTTTC
46065944 TATTTTTTT
1 TATTTTTTT
46065953 GGGAGAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
15 26 0.59
16 17 0.39
17 1 0.02
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTTTTTTTTTC
Found at i:46067888 original size:22 final size:22
Alignment explanation
Indices: 46067843--46067916 Score: 94
Period size: 23 Copynumber: 3.3 Consensus size: 22
46067833 GAAACAGCAA
46067843 GCACACATAGTGCAATCCAGTAG
1 GCACACATAGTGCAAT-CAGTAG
*
46067866 GCACACACAGTGCAATCAGTAG
1 GCACACATAGTGCAATCAGTAG
* * *
46067888 GCGCACATAGCGCAAATCAGCAG
1 GCACACATAGTGC-AATCAGTAG
46067911 GCACAC
1 GCACAC
46067917 GAACTGCGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.36
23 28 0.64
ACGTcount: A:0.35, C:0.30, G:0.23, T:0.12
Consensus pattern (22 bp):
GCACACATAGTGCAATCAGTAG
Found at i:46067947 original size:23 final size:23
Alignment explanation
Indices: 46067911--46067957 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
46067901 AAATCAGCAG
46067911 GCACACGAACTGCGAAACAGTAA
1 GCACACGAACTGCGAAACAGTAA
* *
46067934 GCACATGAAGTGCGAAACAGTAA
1 GCACACGAACTGCGAAACAGTAA
46067957 G
1 G
46067958 GGCGCTAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.21, G:0.26, T:0.11
Consensus pattern (23 bp):
GCACACGAACTGCGAAACAGTAA
Found at i:46072029 original size:26 final size:26
Alignment explanation
Indices: 46072000--46072056 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
46071990 TTGGGTCATA
46072000 GGTTTGACTTTGGTTTTGGGCTCAAG
1 GGTTTGACTTTGGTTTTGGGCTCAAG
* *
46072026 GGTTTTAGTTTGGTTTTGGGCTCAAG
1 GGTTTGACTTTGGTTTTGGGCTCAAG
46072052 GGTTT
1 GGTTT
46072057 TAGGGTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.11, C:0.09, G:0.35, T:0.46
Consensus pattern (26 bp):
GGTTTGACTTTGGTTTTGGGCTCAAG
Found at i:46072057 original size:26 final size:26
Alignment explanation
Indices: 46072008--46072059 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46071998 TAGGTTTGAC
46072008 TTTGGTTTTGGGCTCAAGGGTTTTAG
1 TTTGGTTTTGGGCTCAAGGGTTTTAG
46072034 TTTGGTTTTGGGCTCAAGGGTTTTAG
1 TTTGGTTTTGGGCTCAAGGGTTTTAG
46072060 GGTATTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.12, C:0.08, G:0.35, T:0.46
Consensus pattern (26 bp):
TTTGGTTTTGGGCTCAAGGGTTTTAG
Found at i:46085370 original size:3 final size:3
Alignment explanation
Indices: 46085362--46085390 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46085352 AACAGCAAGC
46085362 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
46085391 GTGAAACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:46091511 original size:32 final size:31
Alignment explanation
Indices: 46091450--46091516 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
46091440 ATGAAATGAT
* * *
46091450 AACAAAATAGTGAGAAAACAATAAGAAAAAA
1 AACAAAATAGTAAAAAAAAAATAAGAAAAAA
46091481 CAACAAAATAGTAAAAAAAAAATCAA-AAAAAA
1 -AACAAAATAGTAAAAAAAAAAT-AAGAAAAAA
46091513 AACA
1 AACA
46091517 TTATTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.13
32 25 0.81
33 2 0.06
ACGTcount: A:0.75, C:0.09, G:0.07, T:0.09
Consensus pattern (31 bp):
AACAAAATAGTAAAAAAAAAATAAGAAAAAA
Found at i:46093265 original size:18 final size:18
Alignment explanation
Indices: 46093242--46093277 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46093232 GAAGTACTTT
*
46093242 TAAAAAATATTTTTAAAA
1 TAAAAAATATTTTGAAAA
*
46093260 TAAAAAGTATTTTGAAAA
1 TAAAAAATATTTTGAAAA
46093278 AATTAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
TAAAAAATATTTTGAAAA
Found at i:46093631 original size:34 final size:34
Alignment explanation
Indices: 46093593--46093694 Score: 195
Period size: 34 Copynumber: 3.0 Consensus size: 34
46093583 GCTGTCAAAA
46093593 ATGCTTTTGGAATGGAAAAGCTAAAAATTTTAAC
1 ATGCTTTTGGAATGGAAAAGCTAAAAATTTTAAC
46093627 ATGCTTTTGGAATGGAAAAGCTAAAAATTTTAAC
1 ATGCTTTTGGAATGGAAAAGCTAAAAATTTTAAC
*
46093661 ATGTTTTTGGAATGGAAAAGCTAAAAATTTTAAC
1 ATGCTTTTGGAATGGAAAAGCTAAAAATTTTAAC
46093695 TTCTCAATCT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (34 bp):
ATGCTTTTGGAATGGAAAAGCTAAAAATTTTAAC
Found at i:46093918 original size:14 final size:14
Alignment explanation
Indices: 46093899--46093931 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
46093889 GTCCCTACAT
46093899 TTTAAAAGTTTTAA
1 TTTAAAAGTTTTAA
*
46093913 TTTAAAATTTTTAA
1 TTTAAAAGTTTTAA
46093927 TTTAA
1 TTTAA
46093932 TCATTATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTAAAAGTTTTAA
Found at i:46096176 original size:16 final size:16
Alignment explanation
Indices: 46096155--46096188 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46096145 TGGAAAAATT
* *
46096155 AATAATTTAAATATAA
1 AATAATTAAAAAATAA
46096171 AATAATTAAAAAATAA
1 AATAATTAAAAAATAA
46096187 AA
1 AA
46096189 AGACATATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATTAAAAAATAA
Found at i:46107238 original size:12 final size:12
Alignment explanation
Indices: 46107221--46107271 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
46107211 GAGAGAGACA
46107221 AAGCAGAGGAAG
1 AAGCAGAGGAAG
*
46107233 AAGCAGATGAAG
1 AAGCAGAGGAAG
*
46107245 AAGAAGCA-GAAG
1 AAGCAG-AGGAAG
*
46107257 AAACAGAGGAAG
1 AAGCAGAGGAAG
46107269 AAG
1 AAG
46107272 AGGAAGGCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.35, T:0.02
Consensus pattern (12 bp):
AAGCAGAGGAAG
Found at i:46109115 original size:26 final size:25
Alignment explanation
Indices: 46109074--46109123 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
46109064 TAAATATGTA
46109074 TTTTAAATAATATTCAAATTAATTT
1 TTTTAAATAATATTCAAATTAATTT
*
46109099 TTTTGAAATAATGTTCAAATTAATT
1 TTTT-AAATAATATTCAAATTAATT
46109124 AATATTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTAAATAATATTCAAATTAATTT
Found at i:46110858 original size:14 final size:14
Alignment explanation
Indices: 46110841--46110869 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46110831 GGTGAATTGG
46110841 ACTATGGTAATTCA
1 ACTATGGTAATTCA
46110855 ACTATGGTAATTCA
1 ACTATGGTAATTCA
46110869 A
1 A
46110870 TAATTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (14 bp):
ACTATGGTAATTCA
Found at i:46117537 original size:18 final size:18
Alignment explanation
Indices: 46117514--46117549 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46117504 AATGTTTAAA
*
46117514 CTTGGATTCTGCTGCTTT
1 CTTGGATTCTACTGCTTT
46117532 CTTGGATTCTACTGCTTT
1 CTTGGATTCTACTGCTTT
46117550 ATTTAGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.22, G:0.19, T:0.50
Consensus pattern (18 bp):
CTTGGATTCTACTGCTTT
Found at i:46120792 original size:17 final size:16
Alignment explanation
Indices: 46120758--46120790 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46120748 TTTAAGACCT
46120758 ATAATTGTTTTTTTAA
1 ATAATTGTTTTTTTAA
46120774 ATAA-TGTTATTTTTAA
1 ATAATTGTT-TTTTTAA
46120790 A
1 A
46120791 ATTAAGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
ATAATTGTTTTTTTAA
Found at i:46128088 original size:16 final size:17
Alignment explanation
Indices: 46128069--46128109 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
46128059 TTAAATTTTA
46128069 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATGAT
*
46128085 AAAA-TATTAAAATGAT
1 AAAATTATAAAAATGAT
46128101 AAAATTATA
1 AAAATTATA
46128110 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 10 0.48
17 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATGAT
Found at i:46129635 original size:23 final size:24
Alignment explanation
Indices: 46129609--46129662 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
46129599 TTTTTAACAA
*
46129609 AATATTTATATCATTTT-TATTTT
1 AATATTTATATAATTTTATATTTT
46129632 AATA-TTA-ATAATTTTATATTTT
1 AATATTTATATAATTTTATATTTT
**
46129654 TTTATTTAT
1 AATATTTAT
46129663 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 7 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
AATATTTATATAATTTTATATTTT
Found at i:46130988 original size:2 final size:2
Alignment explanation
Indices: 46130981--46131012 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
46130971 ACTAAAAACA
46130981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46131013 TCGCCATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46134141 original size:30 final size:30
Alignment explanation
Indices: 46134105--46134169 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
46134095 CAACTTAACA
* * *
46134105 AACAAATGTCTTTAAAATAGTAATAAAATT
1 AACAAATGCCTCTAAAATAGTAATAAAAGT
46134135 AACAAATGCCTCTAAAATAGTAATAAAAGT
1 AACAAATGCCTCTAAAATAGTAATAAAAGT
46134165 AACAA
1 AACAA
46134170 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAGTAATAAAAGT
Found at i:46134217 original size:14 final size:14
Alignment explanation
Indices: 46134194--46134228 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
46134184 TACAATATCC
*
46134194 AAATAATAACAACA
1 AAATAGTAACAACA
46134208 AAATAGTAACAACA
1 AAATAGTAACAACA
*
46134222 TAATAGT
1 AAATAGT
46134229 GAAATTATAG
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:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:46139350 original size:3 final size:3
Alignment explanation
Indices: 46139342--46139367 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46139332 TGACATCGAC
46139342 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
46139368 AAAAAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:46139746 original size:29 final size:28
Alignment explanation
Indices: 46139696--46139754 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
46139686 CCTTTATAAT
* *
46139696 TTTTAAAGGATTAAAATAAATTTTTATCA
1 TTTTAAAGGAGTAAAATAAA-TTATATCA
*
46139725 TTTTAAA-GAGTAAAATGTAATTATATCA
1 TTTTAAAGGAGTAAAAT-AAATTATATCA
46139753 TT
1 TT
46139755 ACTAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (28 bp):
TTTTAAAGGAGTAAAATAAATTATATCA
Found at i:46150085 original size:30 final size:30
Alignment explanation
Indices: 46150013--46150211 Score: 211
Period size: 30 Copynumber: 6.7 Consensus size: 30
46150003 ACAGGTCACA
* * **
46150013 CTTTGACAGACTCGCACTTT-GCTTGTTGT
1 CTTTAACAGGCTCGCACTTTGGCTTACTGT
*
46150042 CTTCAACAGGCTCGCACTTTGGCTTACTGT
1 CTTTAACAGGCTCGCACTTTGGCTTACTGT
* * *
46150072 CTTTAACAAGCTCGCACTTTAGTTTACTGT
1 CTTTAACAGGCTCGCACTTTGGCTTACTGT
* * * * *
46150102 CTTTGATAGGCTTGCACATTGGCTTACTAT
1 CTTTAACAGGCTCGCACTTTGGCTTACTGT
* * *
46150132 CTTTAACAGGCTCGCTCTTTGGCTTGCTAT
1 CTTTAACAGGCTCGCACTTTGGCTTACTGT
* *
46150162 CTTTGACAGGCTCGCACTTTAGCTTACTGT
1 CTTTAACAGGCTCGCACTTTGGCTTACTGT
* *
46150192 CTTTAATAGGCTCACACTTT
1 CTTTAACAGGCTCGCACTTT
46150212 TGATGGCTTG
Statistics
Matches: 138, Mismatches: 31, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
29 17 0.12
30 121 0.88
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (30 bp):
CTTTAACAGGCTCGCACTTTGGCTTACTGT
Found at i:46164192 original size:15 final size:16
Alignment explanation
Indices: 46164172--46164201 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46164162 ACGAGGTCTC
46164172 GTCATCTTC-CTGAGT
1 GTCATCTTCACTGAGT
46164187 GTCATCTTCACTGAG
1 GTCATCTTCACTGAG
46164202 ATGCTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.37
Consensus pattern (16 bp):
GTCATCTTCACTGAGT
Found at i:46166590 original size:11 final size:10
Alignment explanation
Indices: 46166570--46166625 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
46166560 ATATATTAAA
46166570 TTTTAATATT
1 TTTTAATATT
46166580 TTTTAAATATT
1 TTTT-AATATT
46166591 TTTT-ATATT
1 TTTTAATATT
*
46166600 TTTT-TTATCAT
1 TTTTAATAT--T
46166611 TTTTAATATT
1 TTTTAATATT
46166621 TTTTA
1 TTTTA
46166626 TTTTTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 12 0.30
10 10 0.25
11 15 0.38
12 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTAATATT
Found at i:46166595 original size:21 final size:21
Alignment explanation
Indices: 46166570--46166625 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
46166560 ATATATTAAA
46166570 TTTTAATATTTTTTAAAT-AT
1 TTTTAATATTTTTTAAATCAT
* **
46166590 TTTTTATATTTTTTTTATCAT
1 TTTTAATATTTTTTAAATCAT
46166611 TTTTAATATTTTTTA
1 TTTTAATATTTTTTA
46166626 TTTTTATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAATATTTTTTAAATCAT
Found at i:46169007 original size:17 final size:17
Alignment explanation
Indices: 46168975--46169006 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46168965 TTTCAACATC
46168975 AATAATAAATTTAAAAT
1 AATAATAAATTTAAAAT
46168992 AATAA-AAATTTAAAA
1 AATAATAAATTTAAAA
46169007 AAAATTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAATAAATTTAAAAT
Found at i:46169550 original size:14 final size:15
Alignment explanation
Indices: 46169526--46169558 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46169516 TTTCGTATAA
*
46169526 AAAAGTTTATTAATT
1 AAAAGTTTATTAAAT
46169541 AAAA-TTTATTAAAT
1 AAAAGTTTATTAAAT
46169555 AAAA
1 AAAA
46169559 ATAAGCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
AAAAGTTTATTAAAT
Found at i:46170265 original size:24 final size:25
Alignment explanation
Indices: 46170236--46170283 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
46170226 GTTTATAATA
*
46170236 ATTATATCTCTATAACAG-CATATT
1 ATTATAGCTCTATAACAGTCATATT
* *
46170260 ATTATAGGTGTATAACAGTCATAT
1 ATTATAGCTCTATAACAGTCATAT
46170284 CTCTATAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (25 bp):
ATTATAGCTCTATAACAGTCATATT
Found at i:46174254 original size:40 final size:41
Alignment explanation
Indices: 46174179--46174262 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 41
46174169 AAAAACGCTG
* *
46174179 TAAAAGGTAAAGCAATAGCGACGTTTTTACGTAAATGT-CGC
1 TAAAAGGTAAAGCAATAGCGACGTTTTCACATAAAT-TCCGC
* * *
46174220 TAAAA-GTTAAGCAATAGCGGCGTTTTCCCATAAATTCCGC
1 TAAAAGGTAAAGCAATAGCGACGTTTTCACATAAATTCCGC
46174260 TAA
1 TAA
46174263 TTTATTTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.03
40 31 0.84
41 5 0.14
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (41 bp):
TAAAAGGTAAAGCAATAGCGACGTTTTCACATAAATTCCGC
Found at i:46174617 original size:29 final size:29
Alignment explanation
Indices: 46174520--46174619 Score: 76
Period size: 31 Copynumber: 3.3 Consensus size: 29
46174510 ATTTCTTTAA
* * *
46174520 ATGTGTATGATTACATCAAAATTAAAGTTTC
1 ATGTATATAATTACA-CCAAATTAAAG-TTC
* * *
46174551 ATGTATA-CATGTAAACCACAATTAGAAATTC
1 ATGTATATAAT-TACACCA-AATTA-AAGTTC
**
46174582 ACATATATAATTACACCAAATTAAAGTTC
1 ATGTATATAATTACACCAAATTAAAGTTC
46174611 ATGTATATA
1 ATGTATATA
46174620 TATAATTGCA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
29 12 0.23
30 9 0.17
31 28 0.53
32 4 0.08
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (29 bp):
ATGTATATAATTACACCAAATTAAAGTTC
Found at i:46178349 original size:21 final size:21
Alignment explanation
Indices: 46178320--46178373 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
46178310 TGGAATTTTA
* *
46178320 GTATCGGTAGAAGTATGACTT
1 GTATCGGTAGAAGTATCACAT
* * *
46178341 GTTTCGGTAGTAGTGTCACAT
1 GTATCGGTAGAAGTATCACAT
46178362 GTATCGGTAGAA
1 GTATCGGTAGAA
46178374 CCATCTCGAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACAT
Found at i:46182196 original size:30 final size:31
Alignment explanation
Indices: 46182160--46182231 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
46182150 GTAATTATAA
* * *
46182160 AAATAATCTAATAGA-GAGTGATCAAAATAG
1 AAATAATCTAACACATGAGTGACCAAAATAG
*
46182190 AAATAATCTAACACATGAGTGACCAATATAG
1 AAATAATCTAACACATGAGTGACCAAAATAG
*
46182221 AAATGATCTAA
1 AAATAATCTAA
46182232 AATATTAGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 13 0.36
31 23 0.64
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (31 bp):
AAATAATCTAACACATGAGTGACCAAAATAG
Found at i:46182242 original size:31 final size:31
Alignment explanation
Indices: 46182160--46182242 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
46182150 GTAATTATAA
* * *
46182160 AAATAATCTAATAGA-GAGTGATCAAAATAG
1 AAATAATCTAAAACATGAGTGACCAAAATAG
* *
46182190 AAATAATCTAACACATGAGTGACCAATATAG
1 AAATAATCTAAAACATGAGTGACCAAAATAG
* * *
46182221 AAATGATCTAAAATATTAGTGA
1 AAATAATCTAAAACATGAGTGA
46182243 TTAAATTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 13 0.30
31 31 0.70
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (31 bp):
AAATAATCTAAAACATGAGTGACCAAAATAG
Found at i:46182793 original size:20 final size:18
Alignment explanation
Indices: 46182770--46182818 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 18
46182760 TATTTTTAAA
46182770 TTTACTTTTATATATAAGGC
1 TTTA-TTTTATATATAA-GC
46182790 TTTATTTATATATATAAGC
1 TTTATTT-TATATATAAGC
46182809 TTTATTTTAT
1 TTTATTTTAT
46182819 TATGTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.11
19 12 0.43
20 13 0.46
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTATTTTATATATAAGC
Found at i:46182799 original size:18 final size:19
Alignment explanation
Indices: 46182778--46182815 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
46182768 AATTTACTTT
46182778 TATATATAAGGCTTTATTTA
1 TATATATAA-GCTTTATTTA
46182798 TATATATAAGCTTTATTT
1 TATATATAAGCTTTATTT
46182816 TATTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (19 bp):
TATATATAAGCTTTATTTA
Found at i:46183106 original size:19 final size:18
Alignment explanation
Indices: 46183082--46183149 Score: 50
Period size: 19 Copynumber: 3.7 Consensus size: 18
46183072 TTATACTTAA
46183082 TTAATTTTAAATTATATGT
1 TTAATTTTAAATTATAT-T
*
46183101 TTAATTATT-TATTATATT
1 TTAATT-TTAAATTATATT
* * *
46183119 ATATTTTTAAA-TATACAT
1 TTAATTTTAAATTATA-TT
46183137 TTATATTTTAAAT
1 TTA-ATTTTAAAT
46183150 CTGTAATTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
17 6 0.16
18 9 0.24
19 20 0.54
20 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
TTAATTTTAAATTATATT
Found at i:46183119 original size:24 final size:23
Alignment explanation
Indices: 46183078--46183128 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
46183068 GTTATTATAC
46183078 TTAATTAATTTTAAATTATATGT
1 TTAATTAATTTTAAATTATATGT
* * *
46183101 TTAATTATTTATTATATTATATTT
1 TTAATTAATT-TTAAATTATATGT
46183125 TTAA
1 TTAA
46183129 ATATACATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTAATTAATTTTAAATTATATGT
Found at i:46187830 original size:21 final size:20
Alignment explanation
Indices: 46187786--46187831 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
46187776 TAGTTAAGAT
46187786 TATT-ATTTTAATAAAATGA
1 TATTAATTTTAATAAAATGA
46187805 T-TTAATTTTATATAAAAAT-A
1 TATTAATTTTA-AT-AAAATGA
46187825 TATTAAT
1 TATTAAT
46187832 CATATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.09
19 7 0.30
20 4 0.17
21 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTAATTTTAATAAAATGA
Found at i:46193390 original size:22 final size:22
Alignment explanation
Indices: 46193286--46193390 Score: 97
Period size: 22 Copynumber: 4.7 Consensus size: 22
46193276 ATTATATTGT
*
46193286 TGTTTTGGTGCTGTTTTTTTTTTGC
1 TGTTTTGGT--TG-TTTTTTTTTAC
* * * *
46193311 TGTTTTGATTGCTATTTTTTGC
1 TGTTTTGGTTGTTTTTTTTTAC
*
46193333 TGTTTTGG-TGTTGTGTTTTTAC
1 TGTTTTGGTTGTT-TTTTTTTAC
*
46193355 TATTTTGGTT-TTTTTTTTTAC
1 TGTTTTGGTTGTTTTTTTTTAC
46193376 TGTTTTGGTTGTTTT
1 TGTTTTGGTTGTTTT
46193391 GGTGCTACTT
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
21 20 0.30
22 35 0.53
23 3 0.05
25 8 0.12
ACGTcount: A:0.05, C:0.06, G:0.21, T:0.69
Consensus pattern (22 bp):
TGTTTTGGTTGTTTTTTTTTAC
Found at i:46193447 original size:23 final size:22
Alignment explanation
Indices: 46193387--46193487 Score: 62
Period size: 23 Copynumber: 4.4 Consensus size: 22
46193377 GTTTTGGTTG
* **
46193387 TTTTGGTGCTACTTTTTTACTAT
1 TTTTGTTGCTA-TTTTTTGTTAT
46193410 TTTGGTGTTG-T-TTTTATTGTTAT
1 TTT--TGTTGCTATTTT-TTGTTAT
*
46193433 TTTTGTTGCTATTTTTCTATTAT
1 TTTTGTTGCTATTTTT-TGTTAT
* *
46193456 CTTTGTTGCTGTTTTGGTTGTTAT
1 TTTTGTTGCTATTTT--TTGTTAT
*
46193480 TTTGGTTG
1 TTTTGTTG
46193488 TTTGGTGTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
21 5 0.08
22 6 0.10
23 33 0.54
24 12 0.20
25 5 0.08
ACGTcount: A:0.09, C:0.07, G:0.19, T:0.65
Consensus pattern (22 bp):
TTTTGTTGCTATTTTTTGTTAT
Done.