Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 141 of 211
Found at i:44501449 original size:21 final size:21
Alignment explanation
Indices: 44501398--44501493 Score: 84
Period size: 21 Copynumber: 4.4 Consensus size: 21
44501388 TTCTTTTGAA
* **
44501398 CCTCTGCTTCTATCGCTGCTT
1 CCTCTGCTTCTCTCGCTGCAG
* *
44501419 CTCTCGCTGCTTCTCTTGCTGCGG
1 C-CT--CTGCTTCTCTCGCTGCAG
* *
44501443 CCTCTGCTTCTCTCGATGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
44501464 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
44501485 CCTCTGCTT
1 CCTCTGCTT
44501494 TAAGTTGTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 41 0.68
22 2 0.03
23 2 0.03
24 15 0.25
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:44506976 original size:25 final size:25
Alignment explanation
Indices: 44506948--44507188 Score: 127
Period size: 25 Copynumber: 9.2 Consensus size: 25
44506938 TATTTTCTCA
44506948 ATGTAAGTTATGTATTAAGTAAATT
1 ATGTAAGTTATGTATTAAGTAAATT
*
44506973 ATGTAAGTTATGTA-TATAGTATAAAAGAT
1 ATGTAAGTTATGTATTA-AG--T-AAA-TT
* *
44507002 ATGTAAGTTATGTATTATGTAAGTT
1 ATGTAAGTTATGTATTAAGTAAATT
**
44507027 ATGTAAGTTATGTAGGTTATTA-TAAGCT
1 ATGTAAGTTATGTA--TTA--AGTAAATT
44507055 ATGTAAGTTATTATGTAAGTTAAGATATAATAT
1 ATGTAAG---TTATGT-A-TTAAG-TA-AAT-T
*
44507088 ATGT-TGATTATGTATTAAGTAAATT
1 ATGTAAG-TTATGTATTAAGTAAATT
* * * *
44507113 ATGTAAGTTATGGAGTATGTAAGTT
1 ATGTAAGTTATGTATTAAGTAAATT
* * *
44507138 ATATAAGCTATG---TAAGT-TATT
1 ATGTAAGTTATGTATTAAGTAAATT
* * *
44507159 ATGTAAGTAATGTATTAAATAAGTT
1 ATGTAAGTTATGTATTAAGTAAATT
44507184 ATGTA
1 ATGTA
44507189 TTTATTTAAG
Statistics
Matches: 168, Mismatches: 25, Indels: 46
0.70 0.10 0.19
Matches are distributed among these distances:
21 11 0.07
22 4 0.02
24 6 0.04
25 67 0.40
26 6 0.04
27 7 0.04
28 20 0.12
29 18 0.11
30 9 0.05
31 12 0.07
32 3 0.02
33 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.43
Consensus pattern (25 bp):
ATGTAAGTTATGTATTAAGTAAATT
Found at i:44506983 original size:9 final size:9
Alignment explanation
Indices: 44506948--44507293 Score: 152
Period size: 9 Copynumber: 38.6 Consensus size: 9
44506938 TATTTTCTCA
44506948 ATGTAAGTT
1 ATGTAAGTT
44506957 ATGT-A-TT
1 ATGTAAGTT
* *
44506964 AAGTAAATT
1 ATGTAAGTT
44506973 ATGTAAGTT
1 ATGTAAGTT
44506982 ATGTATA-TAGT
1 ATGTA-AGT--T
** *
44506993 ATAAAAGAT
1 ATGTAAGTT
44507002 ATGTAAGTT
1 ATGTAAGTT
44507011 ATGT-A-TT
1 ATGTAAGTT
44507018 ATGTAAGTT
1 ATGTAAGTT
44507027 ATGTAAGTT
1 ATGTAAGTT
*
44507036 ATGTAGGTT
1 ATGTAAGTT
* *
44507045 ATTATAAGCT
1 A-TGTAAGTT
44507055 ATGTAAGTTATT
1 ATGTAAG---TT
44507067 ATGTAAGTT
1 ATGTAAGTT
* *
44507076 AAGATATAATAT
1 ATG-TA-AGT-T
*
44507088 ATGT-TGATT
1 ATGTAAG-TT
44507097 ATGT-A-TT
1 ATGTAAGTT
* *
44507104 AAGTAAATT
1 ATGTAAGTT
44507113 ATGTAAGTT
1 ATGTAAGTT
*
44507122 ATG-GAG-T
1 ATGTAAGTT
44507129 ATGTAAGTT
1 ATGTAAGTT
* *
44507138 ATATAAGCT
1 ATGTAAGTT
44507147 ATGTAAGTTATT
1 ATGTAAG---TT
*
44507159 ATGTAAGTA
1 ATGTAAGTT
44507168 ATGT-A-TT
1 ATGTAAGTT
**
44507175 AAATAAGTT
1 ATGTAAGTT
*
44507184 ATGT-ATTT
1 ATGTAAGTT
*
44507192 ATTTAAGTT
1 ATGTAAGTT
44507201 ATGT-A-TT
1 ATGTAAGTT
44507208 ATGTAAGTT
1 ATGTAAGTT
* *
44507217 ATATAAGCT
1 ATGTAAGTT
*
44507226 ATGTACCATTT
1 ATGTA--AGTT
44507237 AT-TAAGTT
1 ATGTAAGTT
*
44507245 ATGTATGTAT
1 ATGTAAGT-T
*
44507255 ATG--ACTT
1 ATGTAAGTT
*
44507262 TTGTAAGTT
1 ATGTAAGTT
*
44507271 ATGTGAGTT
1 ATGTAAGTT
*
44507280 ATGTAAATT
1 ATGTAAGTT
44507289 ATGTA
1 ATGTA
44507294 TTAAATTAAA
Statistics
Matches: 248, Mismatches: 55, Indels: 68
0.67 0.15 0.18
Matches are distributed among these distances:
7 32 0.13
8 25 0.10
9 144 0.58
10 17 0.07
11 11 0.04
12 19 0.08
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:44507057 original size:19 final size:19
Alignment explanation
Indices: 44507017--44507068 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
44507007 AGTTATGTAT
* *
44507017 TATGTAAGTTA-TGTAAGT
1 TATGTAAGTTATTATAAGC
*
44507035 TATGTAGGTTATTATAAGC
1 TATGTAAGTTATTATAAGC
44507054 TATGTAAGTTATTAT
1 TATGTAAGTTATTAT
44507069 GTAAGTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (19 bp):
TATGTAAGTTATTATAAGC
Found at i:44507182 original size:46 final size:46
Alignment explanation
Indices: 44507014--44507185 Score: 129
Period size: 46 Copynumber: 3.7 Consensus size: 46
44507004 GTAAGTTATG
* ** *
44507014 TATTATGTAAGTTATGTAAGTTATGTAGGTTATTATAAGCTATGTAAGT
1 TATTATGTAAGTAATGT-A-TTAAATAAGTTA-TATAAGCTATGTAAGT
* *
44507063 TATTATGTAAGTTAA-G-ATATAATATATGTTGAT-TATG-TAT-TAAGT
1 TATTATGTAAG-TAATGTAT-TAA-ATAAGTT-ATATAAGCTATGTAAGT
* * * * **
44507108 AAATTATGTAAGTTATGGAGTATGTAAGTTATATAAGCTATGTAAGT
1 -TATTATGTAAGTAATGTATTAAATAAGTTATATAAGCTATGTAAGT
44507155 TATTATGTAAGTAATGTATTAAATAAGTTAT
1 TATTATGTAAGTAATGTATTAAATAAGTTAT
44507186 GTATTTATTT
Statistics
Matches: 95, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
44 2 0.02
45 15 0.16
46 45 0.47
47 12 0.13
48 6 0.06
49 13 0.14
50 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (46 bp):
TATTATGTAAGTAATGTATTAAATAAGTTATATAAGCTATGTAAGT
Found at i:44507200 original size:17 final size:16
Alignment explanation
Indices: 44507001--44507218 Score: 109
Period size: 16 Copynumber: 13.8 Consensus size: 16
44506991 GTATAAAAGA
44507001 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
44507017 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
44507035 TATGTAGGTTAT-TA-
1 TATGTAAGTTATGTAT
* * *
44507049 TAAGCTATG-TAAGTTAT
1 TATG-TAAGTTATG-TAT
*
44507066 TATGTAAGTTAAGATAT
1 TATGTAAGTTATG-TAT
* * *
44507083 AATATATGTTGAT-TAT
1 TATGTAAGTT-ATGTAT
*
44507099 GTAT-TAAG-TA--AAT
1 -TATGTAAGTTATGTAT
* *
44507112 TATGTAAGTTATGGAG
1 TATGTAAGTTATGTAT
* *
44507128 TATGTAAGTTATATAAGC
1 TATGTAAGTTATGT-A-T
44507146 TATGTAAG---T-TAT
1 TATGTAAGTTATGTAT
*
44507158 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
**
44507174 TAAATAAGTTATGTATT
1 TATGTAAGTTATGTA-T
*
44507191 TATTTAAGTTATGTAT
1 TATGTAAGTTATGTAT
44507207 TATGTAAGTTAT
1 TATGTAAGTTAT
44507219 ATAAGCTATG
Statistics
Matches: 156, Mismatches: 26, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
12 11 0.07
13 7 0.04
14 9 0.06
15 6 0.04
16 66 0.42
17 36 0.23
18 21 0.13
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:44507280 original size:79 final size:80
Alignment explanation
Indices: 44507106--44507293 Score: 202
Period size: 79 Copynumber: 2.4 Consensus size: 80
44507096 TATGTATTAA
* * **
44507106 GTAAATTATGTAAGTTATGGAGTATGTAAGTTATATAAGCTATGTAAGTTATTATGTAAGTAATG
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATATAAGCTATGTAACATATTATGTAAGTAATG
*
44507171 TATTAAATAAGTTAT
66 TATTAAATAACTTAT
* * * *
44507186 GT-ATTTATTTAAGTTATGTATTATGTAAGTTATATAAGCTATGTACCAT-TTAT-TAAGTTATG
1 GTAAATTATGTAAGTTATGTATTATGTAAGTTATATAAGCTATGTAACATATTATGTAAGTAATG
* * *
44507248 TATGTATATGACTTTT
66 TAT-TAAATAACTTAT
* *
44507264 GTAAGTTATGTGAGTTATGTAAATTATGTA
1 GTAAATTATGTAAGTTATGT--ATTATGTA
44507294 TTAAATTAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
77 11 0.12
78 14 0.16
79 54 0.61
80 2 0.02
81 8 0.09
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.45
Consensus pattern (80 bp):
GTAAATTATGTAAGTTATGTATTATGTAAGTTATATAAGCTATGTAACATATTATGTAAGTAATG
TATTAAATAACTTAT
Found at i:44509868 original size:261 final size:261
Alignment explanation
Indices: 44509404--44509934 Score: 945
Period size: 261 Copynumber: 2.0 Consensus size: 261
44509394 AGAGTAAAAA
*
44509404 CGCCACTAATAACACGGACAAAACGGCATCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
1 CGCCACTAATAACACGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
* *
44509469 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGGCGCCGTTTCCTCAGCTCGTAATAAATATTTG
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTTC
44509534 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGGTACAGTTAAA
131 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGGTACAGTTAAA
*
44509599 GGAAATTTGTGGCATTTCTTCATAAAACGCCAGTAATATATCACCTTTAGCGGCGTTTTTCAAAT
196 GGAAATTTGTGGCATTTCTTCATAAAACGCCAGTAATATATCACCTTTAGCGGCATTTTTCAAAT
44509664 G
261 G
* *
44509665 CGCCACTAATAACACGGACAAAACGGCACCTTTATAAGATAACATTAAACATTTTTTCGGCGCTT
1 CGCCACTAATAACACGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
*
44509730 TAGCTAAATCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTTC
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTTC
* *
44509795 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAA
131 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGGTACAGTTAAA
* * * *
44509860 GGAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGCATTTTTCAAAT
196 GGAAATTTGTGGCATTTCTTCATAAAACGCCAGTAATATATCACCTTTAGCGGCATTTTTCAAAT
44509925 G
261 G
44509926 CGCCACTAA
1 CGCCACTAA
44509935 AAGAAAACAA
Statistics
Matches: 257, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
261 257 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (261 bp):
CGCCACTAATAACACGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
TAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTTC
TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGGTACAGTTAAA
GGAAATTTGTGGCATTTCTTCATAAAACGCCAGTAATATATCACCTTTAGCGGCATTTTTCAAAT
G
Found at i:44510002 original size:115 final size:115
Alignment explanation
Indices: 44509800--44510034 Score: 389
Period size: 115 Copynumber: 2.0 Consensus size: 115
44509790 ATTTCTGGCG
44509800 TTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAAA
1 TTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAAA
** * ** * *
44509865 TTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGCA
66 TTTACGGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAACGGCA
* *
44509915 TTTTTCAAATGCGCCACTAAAAGAAAACAACAAAACGGCATCGTCTTTGTTACAGTTAAAGGAAA
1 TTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAAA
44509980 TTTACGGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAACGGCA
66 TTTACGGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAACGGCA
44510030 TTTTT
1 TTTTT
44510035 TCTGAAGCGC
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
115 111 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (115 bp):
TTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAGGAAA
TTTACGGCATTTCTTCACAAAACGCCGGTAATATATCACCTTTAACGGCA
Found at i:44510698 original size:20 final size:21
Alignment explanation
Indices: 44510660--44510709 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
44510650 TCCTCAATTT
44510660 CCAAACT-AAACCCTAAAACC
1 CCAAACTCAAACCCTAAAACC
* *
44510680 CTAAACTCAAA-CCTTAAACC
1 CCAAACTCAAACCCTAAAACC
44510700 CCAAACTCAA
1 CCAAACTCAA
44510710 TCTCTAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (21 bp):
CCAAACTCAAACCCTAAAACC
Found at i:44510898 original size:7 final size:7
Alignment explanation
Indices: 44510859--44510927 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
44510849 TGCGTTGAAA
44510859 CCCTAA-
1 CCCTAAC
44510865 CCCTAA-
1 CCCTAAC
*
44510871 CCGTAAC
1 CCCTAAC
44510878 CCCTAAATC
1 CCCT-AA-C
44510887 CCCTAAC
1 CCCTAAC
44510894 CCCTAAC
1 CCCTAAC
* *
44510901 CCATAAA
1 CCCTAAC
* *
44510908 GCATAAC
1 CCCTAAC
*
44510915 ACCTAAC
1 CCCTAAC
44510922 CCCTAA
1 CCCTAA
44510928 ACTTTAAATC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
6 11 0.22
7 31 0.61
8 4 0.08
9 5 0.10
ACGTcount: A:0.36, C:0.45, G:0.03, T:0.16
Consensus pattern (7 bp):
CCCTAAC
Found at i:44510907 original size:23 final size:22
Alignment explanation
Indices: 44510865--44510907 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
44510855 GAAACCCTAA
* *
44510865 CCCTAACCGTAACCCCTAAATC
1 CCCTAACCCTAACCCATAAATC
44510887 CCCTAACCCCTAACCCATAAA
1 CCCTAA-CCCTAACCCATAAA
44510908 GCATAACACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.35, C:0.47, G:0.02, T:0.16
Consensus pattern (22 bp):
CCCTAACCCTAACCCATAAATC
Found at i:44511418 original size:75 final size:77
Alignment explanation
Indices: 44511284--44511427 Score: 195
Period size: 75 Copynumber: 1.9 Consensus size: 77
44511274 CCGCTAAATG
* *
44511284 AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAATCCACTGAAAGTTAAGAAAACGGTGCCG
1 AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCCG
44511349 TTGGGCACCCCC
66 TTGGGCACCCCC
* * * **
44511361 AAGCATTAGCGGTGC-TTCATTA-AAAACGCCGCTAAGGCCTC-GAAAGATCTGAAAACGGTGCC
1 AAGCATTAGCGGCGCTTTC-TTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCC
44511423 GTTGG
65 GTTGG
44511428 ACATATGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 23 0.39
76 19 0.32
77 17 0.29
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (77 bp):
AAGCATTAGCGGCGCTTTCTTAGAAAACGCCGCTAAAGCCACTGAAAGATAAGAAAACGGTGCCG
TTGGGCACCCCC
Found at i:44511616 original size:72 final size:72
Alignment explanation
Indices: 44511527--44511697 Score: 191
Period size: 72 Copynumber: 2.4 Consensus size: 72
44511517 AAAGCTGAGA
* *
44511527 AAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCACTTCCCCAAAAACGCCGCTAAAT-CCCAAA
1 AAACGGCACCGTTTGGCTTAGGTTTTTTAGCGGCACTTCACCAAAAACGCCGCTAAATCCCCAAA
44511591 AACTACGG
66 AACT-CGG
* * * * * ** *
44511599 AAACGGCACCGTTTGGCTTAGGATTATTAGTGGCGCTTGATTAAAAACGTCGCTAAATCCCCAAA
1 AAACGGCACCGTTTGGCTTAGGTTTTTTAGCGGCACTTCACCAAAAACGCCGCTAAATCCCCAAA
*
44511664 AGCTCGG
66 AACTCGG
** * *
44511671 AAACGGCGTCGTTGGGCTTTGGTTTTT
1 AAACGGCACCGTTTGGCTTAGGTTTTT
44511698 GCGGCGCTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 72 0.89
73 9 0.11
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (72 bp):
AAACGGCACCGTTTGGCTTAGGTTTTTTAGCGGCACTTCACCAAAAACGCCGCTAAATCCCCAAA
AACTCGG
Found at i:44516824 original size:41 final size:41
Alignment explanation
Indices: 44516762--44516907 Score: 249
Period size: 41 Copynumber: 3.6 Consensus size: 41
44516752 TTTAAACAGA
* *
44516762 TTCACTGGCACTTCA-CTTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
44516803 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
44516844 TTCACCGGCACTTAGCCTGCTACGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
44516885 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
44516908 ACGTAAAGTC
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 1 0.01
41 99 0.99
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:44516930 original size:82 final size:82
Alignment explanation
Indices: 44516755--44516932 Score: 216
Period size: 82 Copynumber: 2.2 Consensus size: 82
44516745 CACTTAATTT
* * *
44516755 AAACAGATTCACTGGCACTTCACTTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
1 AAACAG-TTCACCGGCACTTCACCTGCTACGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
* * * *
44516820 TGCTAGGCTTATAGCCTG
65 TGCTAGACGTAAAGCCTA
**
44516838 ATTCAGTTCACCGGCACTT-AGCCTGCTACGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
1 AAACAGTTCACCGGCACTTCA-CCTGCTACGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
44516902 TGCTAGACGTAAAGTCC-A
65 TGCTAGACGTAAAG-CCTA
* *
44516920 AAAGATTTCACCG
1 AAACAGTTCACCG
44516933 ACAATTAATC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 1 0.01
82 73 0.91
83 6 0.08
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (82 bp):
AAACAGTTCACCGGCACTTCACCTGCTACGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCT
GCTAGACGTAAAGCCTA
Found at i:44518638 original size:28 final size:31
Alignment explanation
Indices: 44518606--44518664 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
44518596 TGTTTTGTTT
44518606 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
44518634 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
44518665 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:44524332 original size:33 final size:34
Alignment explanation
Indices: 44524247--44524341 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 34
44524237 TAGTCCAATA
44524247 CCACCGCAGTACAACACTCCTC-CCGGCTCGTAT
1 CCACCGCAGTACAACACTCCTCTCCGGCTCGTAT
* * * * *
44524280 CCATCACATTAC-TCTACTCCTCTCTGG-TCGTAT
1 CCACCGCAGTACAAC-ACTCCTCTCCGGCTCGTAT
44524313 CCACCGCAGTACAACACTCCTCT-CGGCTC
1 CCACCGCAGTACAACACTCCTCTCCGGCTC
44524342 AAGTTCATCG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
32 3 0.06
33 41 0.85
34 4 0.08
ACGTcount: A:0.20, C:0.43, G:0.13, T:0.24
Consensus pattern (34 bp):
CCACCGCAGTACAACACTCCTCTCCGGCTCGTAT
Found at i:44524749 original size:48 final size:48
Alignment explanation
Indices: 44524607--44524741 Score: 227
Period size: 48 Copynumber: 2.8 Consensus size: 48
44524597 AGATTAATTG
* **
44524607 CAACACTAAAACTTGGAACAAACTTTGTGGTCATAAATTAAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTAAATACATTA
44524656 CAACATTAAAA-TTGGAACAAACTTTGTAATATAAATTAAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTA
44524703 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTA
44524742 GGTACATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
47 28 0.34
48 44 0.54
49 10 0.12
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.30
Consensus pattern (48 bp):
CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTA
Found at i:44528979 original size:44 final size:46
Alignment explanation
Indices: 44528889--44528980 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
44528879 TTTGGTTCGC
*
44528889 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
44528935 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
44528979 TG
1 TG
44528981 GAATAGAGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.44
45 3 0.07
46 22 0.49
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.39
Consensus pattern (46 bp):
TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
Found at i:44528981 original size:39 final size:44
Alignment explanation
Indices: 44528889--44528997 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 44
44528879 TTTGGTTCGC
*
44528889 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--A
44528935 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
*
44528975 TG-AATGGAATAGAGGTGTAATAG
1 TGTAATGGAATAGAGGCGTAATAG
44528998 CATAAGGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
39 18 0.30
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 22 0.37
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
Found at i:44529150 original size:16 final size:16
Alignment explanation
Indices: 44529142--44529178 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
44529132 TAATTGTTAT
44529142 AAAATATAATTTAATAA
1 AAAATATAATTTAAT-A
44529159 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
44529176 AAA
1 AAA
44529179 TTGTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:44529239 original size:23 final size:23
Alignment explanation
Indices: 44529209--44529281 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
44529199 ATGAATTTAC
*
44529209 TAATAAAATCGTAATATATAATT
1 TAATAAAATCATAATATATAATT
**
44529232 TAATAAAATTCTTATTCTTATATGAATT
1 TAATAAAA-TC--A-TAATATAT-AATT
*
44529260 TACTAAAATCATAATATATAAT
1 TAATAAAATCATAATATATAAT
44529282 ACTATAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 11 0.28
24 8 0.21
25 1 0.03
27 8 0.21
28 11 0.28
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (23 bp):
TAATAAAATCATAATATATAATT
Found at i:44529289 original size:51 final size:52
Alignment explanation
Indices: 44529190--44529291 Score: 145
Period size: 51 Copynumber: 1.9 Consensus size: 52
44529180 TGTTAATAAA
* *
44529190 TATTCTTATATGAATTTACTAATAAAATCGTAATATATAATTTAATAAAATTCT
1 TATTCTTATATGAATTTAC--ATAAAATCATAATATATAATCTAATAAAATTCT
44529244 TATTCTTATATGAATTTAC-TAAAATCATAATATATAATACT-ATAAAAT
1 TATTCTTATATGAATTTACATAAAATCATAATATATAAT-CTAATAAAAT
44529292 ATAATTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
51 25 0.56
52 1 0.02
54 19 0.42
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (52 bp):
TATTCTTATATGAATTTACATAAAATCATAATATATAATCTAATAAAATTCT
Found at i:44529320 original size:32 final size:32
Alignment explanation
Indices: 44529284--44529347 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
44529274 TATATAATAC
*
44529284 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
44529316 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
44529348 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:44530787 original size:49 final size:49
Alignment explanation
Indices: 44530715--44530818 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
44530705 GAAAAAAAAC
* ** * *
44530715 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
*
44530764 AAATTAAAATTGAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
44530813 AAATTA
1 AAATTA
44530819 TAACACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
Found at i:44532555 original size:28 final size:28
Alignment explanation
Indices: 44532515--44532580 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
44532505 CTGTGGGTGG
44532515 AGGAAGCAATCAAACAAGCCGCCTCAAT
1 AGGAAGCAATCAAACAAGCCGCCTCAAT
44532543 AGGAAGCAATCAAACAAGCCGCCTCAAT
1 AGGAAGCAATCAAACAAGCCGCCTCAAT
44532571 AGGAAGCAAT
1 AGGAAGCAAT
44532581 ATCACACTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.44, C:0.26, G:0.20, T:0.11
Consensus pattern (28 bp):
AGGAAGCAATCAAACAAGCCGCCTCAAT
Found at i:44533544 original size:18 final size:19
Alignment explanation
Indices: 44533511--44533551 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
44533501 ATATATAAAA
44533511 ATACCAATAAAAATTATCCT
1 ATACCAAT-AAAATTATCCT
44533531 ATACCAAT-AAATTATCCT
1 ATACCAATAAAATTATCCT
44533549 ATA
1 ATA
44533552 AAGTCCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (19 bp):
ATACCAATAAAATTATCCT
Found at i:44533729 original size:25 final size:25
Alignment explanation
Indices: 44533697--44533757 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
44533687 AATTTACTGA
44533697 AATTGCAACTATAAAATACCTCTTG
1 AATTGCAACTATAAAATACCTCTTG
44533722 AATTGCAACTATAAAATACCTCTTG
1 AATTGCAACTATAAAATACCTCTTG
*
44533747 AAATGCAACTA
1 AATTGCAACTA
44533758 GAGCTTCAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (25 bp):
AATTGCAACTATAAAATACCTCTTG
Found at i:44533841 original size:10 final size:10
Alignment explanation
Indices: 44533826--44533850 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44533816 CCTACAAAGG
44533826 AATCACAGTC
1 AATCACAGTC
44533836 AATCACAGTC
1 AATCACAGTC
44533846 AATCA
1 AATCA
44533851 GCCAATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (10 bp):
AATCACAGTC
Found at i:44537275 original size:16 final size:16
Alignment explanation
Indices: 44537251--44537281 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44537241 AGATTAAGTA
44537251 AAAAATAAAAAAAATC
1 AAAAATAAAAAAAATC
*
44537267 AAAATTAAAAAAAAT
1 AAAAATAAAAAAAAT
44537282 TGTAATTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAAAAATC
Found at i:44538226 original size:14 final size:13
Alignment explanation
Indices: 44538204--44538246 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
44538194 AACAAGTGAG
*
44538204 GAAAAAGAAAAAT
1 GAAAGAGAAAAAT
44538217 GAGAAGAGAAAAAT
1 GA-AAGAGAAAAAT
*
44538231 GAAAGTGAAAAA-
1 GAAAGAGAAAAAT
44538243 GAAA
1 GAAA
44538247 TTGAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
14 12 0.44
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (13 bp):
GAAAGAGAAAAAT
Found at i:44538240 original size:13 final size:13
Alignment explanation
Indices: 44538210--44538252 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
44538200 TGAGGAAAAA
*
44538210 GAAAAATGAGAAGA
1 GAAAAATGA-AAGT
44538224 GAAAAATGAAAGT
1 GAAAAATGAAAGT
*
44538237 GAAAAA-GAAATT
1 GAAAAATGAAAGT
44538249 GAAA
1 GAAA
44538253 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (13 bp):
GAAAAATGAAAGT
Found at i:44538246 original size:33 final size:33
Alignment explanation
Indices: 44538204--44538278 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
44538194 AACAAGTGAG
* *
44538204 GAAAAAGAAAAATG-AGAAGAGAAAAATGAAAGT
1 GAAAAAGAAAAATGAAGAAAAGAAAAAT-AAAAT
*
44538237 GAAAAAG-AAATTGAAAGAAAAGAAAAATAAAAT
1 GAAAAAGAAAAATG-AAGAAAAGAAAAATAAAAT
44538270 GAAAAAGAA
1 GAAAAAGAA
44538279 GAAGAGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 5 0.14
33 18 0.50
34 13 0.36
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (33 bp):
GAAAAAGAAAAATGAAGAAAAGAAAAATAAAAT
Found at i:44538261 original size:21 final size:21
Alignment explanation
Indices: 44538237--44538312 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
44538227 AAATGAAAGT
*
44538237 GAAAAAGAAATTGAAAGAA-AA
1 GAAAAAGAAAATGAAA-AAGAA
*
44538258 GAAAAATAAAATGAAAAAGAA
1 GAAAAAGAAAATGAAAAAGAA
* * * * *
44538279 GAAGAGGAAAACGAGAGAGAA
1 GAAAAAGAAAATGAAAAAGAA
44538300 -ACAAAAGAAAATG
1 GA-AAAAGAAAATG
44538313 TGAATGCAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 3 0.07
21 39 0.93
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.07
Consensus pattern (21 bp):
GAAAAAGAAAATGAAAAAGAA
Found at i:44538275 original size:12 final size:12
Alignment explanation
Indices: 44538224--44538278 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
44538214 AATGAGAAGA
*
44538224 GAAAAATGAAAGT
1 GAAAAA-GAAAAT
*
44538237 GAAAAAGAAATT
1 GAAAAAGAAAAT
44538249 G--AAAGAAAA-
1 GAAAAAGAAAAT
*
44538258 GAAAAATAAAAT
1 GAAAAAGAAAAT
44538270 GAAAAAGAA
1 GAAAAAGAA
44538279 GAAGAGGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 1 0.03
10 7 0.20
11 7 0.20
12 14 0.40
13 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAAT
Found at i:44543830 original size:4 final size:4
Alignment explanation
Indices: 44543821--44543854 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
44543811 AAAAATACAT
44543821 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
44543855 CTCCCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:44544185 original size:17 final size:17
Alignment explanation
Indices: 44544142--44544185 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
44544132 AATATTCTTA
*
44544142 AAAAATCTTTAAAAAAT
1 AAAAATATTTAAAAAAT
*
44544159 ATTAAA-ATTTAAAAAAT
1 A-AAAATATTTAAAAAAT
44544176 AAAAATATTT
1 AAAAATATTT
44544186 TAATTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATATTTAAAAAAT
Found at i:44544190 original size:23 final size:25
Alignment explanation
Indices: 44544153--44544200 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
44544143 AAAATCTTTA
44544153 AAAAATATTAAAATT-TA-AAAAAT
1 AAAAATATTAAAATTATATAAAAAT
**
44544176 AAAAATATTTTAATTATATAAAAAT
1 AAAAATATTAAAATTATATAAAAAT
44544201 TTCAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 2 0.10
25 6 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAATATTAAAATTATATAAAAAT
Found at i:44544624 original size:17 final size:17
Alignment explanation
Indices: 44544598--44544635 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
44544588 TAACATTGAA
*
44544598 TTTTAGAATTTTTATAT
1 TTTTAAAATTTTTATAT
*
44544615 TTTTAAAATTTTTTTAT
1 TTTTAAAATTTTTATAT
44544632 TTTT
1 TTTT
44544636 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTAAAATTTTTATAT
Found at i:44550391 original size:3 final size:3
Alignment explanation
Indices: 44550383--44550410 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44550373 GGATGAACGG
44550383 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
44550411 TAGAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:44552980 original size:46 final size:44
Alignment explanation
Indices: 44552889--44552996 Score: 137
Period size: 46 Copynumber: 2.4 Consensus size: 44
44552879 ATTACAACAT
*
44552889 CATTCCATTCAACTAAACACAATAATACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAATAATACTATTACAGCTCTATTC
*
44552933 CATTCCATTCAACCAAACA-ATTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAT-AA-TAC-TATTACAGCTCTATTC
* * *
44552979 CATTACAGTGAACCAAAC
1 CATTCCATTCAACCAAAC
44552997 GTTTCCAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 2 0.04
44 20 0.36
45 3 0.05
46 31 0.55
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAATAATACTATTACAGCTCTATTC
Found at i:44560054 original size:2 final size:2
Alignment explanation
Indices: 44560047--44560074 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44560037 CTGAATATTC
44560047 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
44560075 TCGTCCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44561915 original size:28 final size:28
Alignment explanation
Indices: 44561884--44561941 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
44561874 TTTTAGGCCC
44561884 AATCTCAAACAAAATGAAAAAGATGAAA
1 AATCTCAAACAAAATGAAAAAGATGAAA
44561912 AATCTCAAACAAAATGAAAAAGATGAAA
1 AATCTCAAACAAAATGAAAAAGATGAAA
44561940 AA
1 AA
44561942 AAATTCGGCT
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:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (28 bp):
AATCTCAAACAAAATGAAAAAGATGAAA
Found at i:44567889 original size:89 final size:90
Alignment explanation
Indices: 44567752--44568012 Score: 275
Period size: 89 Copynumber: 2.9 Consensus size: 90
44567742 CAAAATTTTT
* * * *
44567752 TTTTTTAAAAAAAAGCAATTAAGCCTCCT--T-TTTTTTGCATTCAATTAGGTACTTGAACTTTT
1 TTTTTAAAAAAAAAACAATTAAG-CTCCTGCTATTTTTTGCACTCAATTAGGTACTTGAACTGTT
**
44567814 AAAATGCATAAAAAAGGCCCTCGGAC
65 AAAATGCATAAAAAAGGCCCTCAAAC
* * *
44567840 TTTTTCAAAAAAAAATAATTAAGCTCCTGCTATTTTTT-CACTCAATTAGGTACTTGAACTGTCA
1 TTTTTAAAAAAAAAACAATTAAGCTCCTGCTATTTTTTGCACTCAATTAGGTACTTGAACTGTTA
* *
44567904 AAATGCATCAAAAAA-ACTCTCAAAC
66 AAATGCAT-AAAAAAGGCCCTCAAAC
* * *
44567929 --TTTAAAAAAAAAAGCAATTAAGCACCTGCTTATTTTTTTGCACTCAATTGGGTACTTAAACTG
1 TTTTTAAAAAAAAAA-CAATTAAGCTCCTGC-TA-TTTTTTGCACTCAATTAGGTACTTGAACTG
* *
44567992 CTAAAATGTATTAAAAAAGGC
63 TTAAAATGCA-TAAAAAAGGC
44568013 TAGGGGCAGA
Statistics
Matches: 144, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
87 17 0.12
88 33 0.23
89 40 0.28
90 18 0.12
91 34 0.24
92 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (90 bp):
TTTTTAAAAAAAAAACAATTAAGCTCCTGCTATTTTTTGCACTCAATTAGGTACTTGAACTGTTA
AAATGCATAAAAAAGGCCCTCAAAC
Found at i:44568140 original size:87 final size:88
Alignment explanation
Indices: 44568032--44568274 Score: 228
Period size: 88 Copynumber: 2.8 Consensus size: 88
44568022 ATCTAGGGAG
* *
44568032 TTGGCAGTTCAAGCACCCAATTGAGTGCAA-AAAAAAAGGACTTAATTATTTTTTTATTAAAAGT
1 TTGGCAGTTCAAGTATCCAATTGAGTGCAAGAAAAAAAGGACTTAATTATTTTTTTATTAAAAGT
*
44568096 TTAAGGG-TGTTATTTTATTCATT
66 TTAAGGGCT-TTATTTTATGCATT
* * * * * **
44568119 TTGGCAGTTCAAGTATTCAATTGAATG-AAGAAAATGTAAGGGCTTAATTA-CTTTTTAGAAAAA
1 TTGGCAGTTCAAGTATCCAATTGAGTGCAAGAAAA--AAAGGACTTAATTATTTTTTTATTAAAA
* * *
44568182 GTCTGAGGGCTTTTTTTTATGCATT
64 GTTTAAGGGCTTTATTTTATGCATT
** * * * * * *
44568207 TTGAAAGTTTAAGTATCCAATTGAGCGCAAGAAAAAAGGGACCTAATTGTTTTTTT-TT-TAAGT
1 TTGGCAGTTCAAGTATCCAATTGAGTGCAAGAAAAAAAGGACTTAATTATTTTTTTATTAAAAGT
44568270 TTAAG
66 TTAAG
44568275 AACTTTTTAC
Statistics
Matches: 120, Mismatches: 30, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
86 9 0.08
87 36 0.30
88 55 0.46
89 20 0.17
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (88 bp):
TTGGCAGTTCAAGTATCCAATTGAGTGCAAGAAAAAAAGGACTTAATTATTTTTTTATTAAAAGT
TTAAGGGCTTTATTTTATGCATT
Found at i:44574797 original size:30 final size:30
Alignment explanation
Indices: 44574741--44574797 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
44574731 TCACTCAATT
* * *
44574741 ATAAAAAAAATTTCATTTTAGGCACCCAAA
1 ATAAAAAAAATTACAATTTAAGCACCCAAA
*
44574771 ATAAAAAAAATTACAATTTAATCACCC
1 ATAAAAAAAATTACAATTTAAGCACCC
44574798 GCATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.26
Consensus pattern (30 bp):
ATAAAAAAAATTACAATTTAAGCACCCAAA
Found at i:44575149 original size:23 final size:22
Alignment explanation
Indices: 44575097--44575151 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
44575087 TTATATAAAA
44575097 TTTAAATTTATTATTATATTTT
1 TTTAAATTTATTATTATATTTT
* *
44575119 TTGAAAATATTTTTA-TATATTTCT
1 TT-TAAAT-TTATTATTATATTT-T
44575143 TTTAAATTT
1 TTTAAATTT
44575152 TCAGAATTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 4 0.15
23 15 0.56
24 8 0.30
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTAAATTTATTATTATATTTT
Found at i:44575876 original size:76 final size:76
Alignment explanation
Indices: 44575750--44575901 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
44575740 ACTTAAAATA
44575750 CAAGCATTGAAAATACCTACCTAGTTTCAATTTTTATTTAATTAAAATAGAAAGCCTTTAACTAC
1 CAAGCATTGAAAATACCTACCTAGTTTCAATTTTTATTTAATTAAAATAGAAAGCCTTTAACTAC
44575815 CACCATTTTTT
66 CACCATTTTTT
44575826 CAAGCATTGAAAATACCTACCTAGTTTCAATTTTTATTTAATTAAAATAGAAAGCCTTTAACTAC
1 CAAGCATTGAAAATACCTACCTAGTTTCAATTTTTATTTAATTAAAATAGAAAGCCTTTAACTAC
44575891 CACCATTTTTT
66 CACCATTTTTT
44575902 TCAACAATTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (76 bp):
CAAGCATTGAAAATACCTACCTAGTTTCAATTTTTATTTAATTAAAATAGAAAGCCTTTAACTAC
CACCATTTTTT
Found at i:44580615 original size:28 final size:28
Alignment explanation
Indices: 44580575--44580638 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
44580565 TTGCTTGGAA
44580575 GAACTACAAGGAATTTTATGAGCCTTGC
1 GAACTACAAGGAATTTTATGAGCCTTGC
44580603 GAACTACAAGGAATTTTATGAGCCTTGC
1 GAACTACAAGGAATTTTATGAGCCTTGC
44580631 GAACTACA
1 GAACTACA
44580639 CCTCACTCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (28 bp):
GAACTACAAGGAATTTTATGAGCCTTGC
Found at i:44581233 original size:69 final size:69
Alignment explanation
Indices: 44581122--44581274 Score: 173
Period size: 69 Copynumber: 2.2 Consensus size: 69
44581112 GCATTTTTTG
* * * * *
44581122 TCATACTAAGGCTCGTAGACGAAGAGCCACAGCTTTCAACATAATTAGC-GAGAGCAAAACTCCC
1 TCATACTAAGGCTTGCAGACGAAGAGCCACAGCCTCCAACATAATTAGCAG-GAGCAAAACTCAC
*
44581186 AGCTA
65 AACTA
* * * * * *
44581191 TCATACTAAGGCTTGCAGGCGAAGAGTCGCAGCCTCCAACATAGTTAGCAGGAGCAAAGCTCATA
1 TCATACTAAGGCTTGCAGACGAAGAGCCACAGCCTCCAACATAATTAGCAGGAGCAAAACTCACA
44581256 ACTA
66 ACTA
*
44581260 TCACACTAAGGCTTG
1 TCATACTAAGGCTTG
44581275 TAGGGAAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
69 69 0.99
70 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (69 bp):
TCATACTAAGGCTTGCAGACGAAGAGCCACAGCCTCCAACATAATTAGCAGGAGCAAAACTCACA
ACTA
Found at i:44581293 original size:69 final size:69
Alignment explanation
Indices: 44581188--44581320 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 69
44581178 AAACTCCCAG
* * * * *
44581188 CTATCATACTAAGGCTTGCAGGCGAAGAGTCGCAGCCTCCAACATAGTTAGCAGGAGCAAAGCTC
1 CTATCACACTAAGGCTTGCAGGCGAAAAGTCACAGCCTCCAACACAGTTAGCAAGAGCAAAGCTC
44581253 ATAA
66 ATAA
* * * *
44581257 CTATCACACTAAGGCTTGTAGG-GAAAAAGTTACAGCCTTCATCACAGTTAGCAAGAGCAAAGCT
1 CTATCACACTAAGGCTTGCAGGCG-AAAAGTCACAGCCTCCAACACAGTTAGCAAGAGCAAAGCT
44581321 TCAACAGTCG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 1 0.02
69 53 0.98
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (69 bp):
CTATCACACTAAGGCTTGCAGGCGAAAAGTCACAGCCTCCAACACAGTTAGCAAGAGCAAAGCTC
ATAA
Found at i:44581765 original size:57 final size:57
Alignment explanation
Indices: 44581702--44581854 Score: 193
Period size: 56 Copynumber: 2.7 Consensus size: 57
44581692 ACAATCCTCT
* *
44581702 AAAATTTTTTAAGTATAAAAAAGTTCGCGGAGTCACATTCCCAACTTATTACTTTAG
1 AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTAG
* * ** *
44581759 AAAATTTTCTAAGTAT-AAAAAGTTTGCAGAGTCACTTTCCCGGCTTATTATTTTAG
1 AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTAG
* * *
44581815 AAAATTTTCCAAGTATAAAACAGCTCGCAGA-TCCACATTC
1 AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGT-CACATTC
44581855 GCAGTTGATG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
56 50 0.61
57 32 0.39
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (57 bp):
AAAATTTTCTAAGTATAAAAAAGTTCGCAGAGTCACATTCCCAACTTATTACTTTAG
Found at i:44606377 original size:32 final size:31
Alignment explanation
Indices: 44606304--44606377 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
44606294 AAATTATTTT
*
44606304 TATTATATACATACGTAATATATTTGATTTCA
1 TATTTTATACATACGTAATATATTT-ATTTCA
* *
44606336 TATTATTATACATATGTATATATATTT-TTTACC
1 TATT-TTATACATACGTA-ATATATTTATTT-CA
44606369 TATTTTATA
1 TATTTTATA
44606378 TAATATGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 12 0.33
33 16 0.44
34 8 0.22
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (31 bp):
TATTTTATACATACGTAATATATTTATTTCA
Found at i:44610943 original size:6 final size:6
Alignment explanation
Indices: 44610932--44610968 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
44610922 CAATCCAAAA
44610932 AAAATC AAAATC AAAATC -AAA-- AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
44610969 AATGAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 3 0.11
6 22 0.79
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATC
Found at i:44610953 original size:21 final size:21
Alignment explanation
Indices: 44610929--44610968 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
44610919 ATCCAATCCA
44610929 AAAAAAATCAAAATCAAAATC
1 AAAAAAATCAAAATCAAAATC
44610950 AAAAAAATCAAAATCAAAA
1 AAAAAAATCAAAATCAAAA
44610969 AATGAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAAAATCAAAATCAAAATC
Found at i:44610956 original size:15 final size:15
Alignment explanation
Indices: 44610938--44610970 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
44610928 AAAAAAAATC
44610938 AAAATCAAAATCAAA
1 AAAATCAAAATCAAA
44610953 AAAATCAAAATCAAA
1 AAAATCAAAATCAAA
44610968 AAA
1 AAA
44610971 TGAGAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAATCAAAATCAAA
Found at i:44611872 original size:8 final size:7
Alignment explanation
Indices: 44611854--44611891 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
44611844 TTTGAGTCAA
44611854 AAAAATG
1 AAAAATG
44611861 AAAAATG
1 AAAAATG
44611868 AAAAAT-
1 AAAAATG
*
44611874 TAAAATG
1 AAAAATG
44611881 AAAAAT-
1 AAAAATG
44611887 AAAAA
1 AAAAA
44611892 AATTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:44611880 original size:20 final size:21
Alignment explanation
Indices: 44611855--44611899 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
44611845 TTGAGTCAAA
*
44611855 AAAATGAAAAAT-GAAAAATT
1 AAAATGAAAAATAAAAAAATT
44611875 AAAATGAAAAATAAAAAAATT
1 AAAATGAAAAATAAAAAAATT
44611896 AAAA
1 AAAA
44611900 AATTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (21 bp):
AAAATGAAAAATAAAAAAATT
Found at i:44611891 original size:13 final size:13
Alignment explanation
Indices: 44611854--44611891 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
44611844 TTTGAGTCAA
44611854 AAAAATGAAAAATG
1 AAAAAT-AAAAATG
*
44611868 AAAAATTAAAATG
1 AAAAATAAAAATG
44611881 AAAAATAAAAA
1 AAAAATAAAAA
44611892 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATG
Found at i:44612697 original size:44 final size:43
Alignment explanation
Indices: 44612627--44613084 Score: 318
Period size: 44 Copynumber: 10.6 Consensus size: 43
44612617 GTTGATGGAA
* *
44612627 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TGAT
* * *
44612671 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAT
* * ** * * *
44612714 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TTA-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAT
* * *
44612756 AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TGAT
* * * * *
44612800 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAT
* * * * ** * * *
44612843 AGATCTTATCTCTCTGAAATTGCAATAGAGTGGATCGTA-TTA-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAT
* *
44612885 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TGAT
* * * * *
44612929 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAT
* * * ** * * *
44612972 AGATCTTCTCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TCA-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAT
** * * * * *
44613014 GGTTTTATCTCCCTGAGGTTGCAGTGGAGCAGACT-AAGAAGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TGAT
* *
44613057 AAGTCTTATCCCCCTGAAGTTACAGTGG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGG
44613085 GGGCAGACTG
Statistics
Matches: 312, Mismatches: 89, Indels: 26
0.73 0.21 0.06
Matches are distributed among these distances:
40 1 0.00
41 83 0.27
42 3 0.01
43 17 0.05
44 208 0.67
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTGAT
Found at i:44612786 original size:85 final size:85
Alignment explanation
Indices: 44612671--44613046 Score: 283
Period size: 85 Copynumber: 4.4 Consensus size: 85
44612661 TGAAGCCGAT
* *
44612671 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCTTATCTCCCTGAAGTTG
*
44612736 CAGTAGAGTGGATCGCATTA
66 CAGTAGAGCGGATCGCATTA
* * * ** *
44612756 AATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGCCGATA-ATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAATAGATCTTATCTCCCTGAAGTT
* * * * *
44612820 GTAGTGGAGCGGATTAAAGTAATA
65 GCAGTAGAGCGGA-T--CGCATTA
* * * * * ** * * * *
44612844 GATCTTATCTCTCTGAAATTGCAATAGAGTGGA-T--CGTATTAAATCTTATCTCCCTGAGGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCTTATCTCCCTGAAGTTG
* * * * **
44612906 CAGTGGAGCAGATTGAAGCCGA
66 CAGTAGAGCGGATCGCA--TTA
* * * * *
44612928 TAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTCTCTCTCTGAAGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCTTATCTCCCTGAAGTT
* *
44612993 GCAGTAGAGTGGATCGCATCA
65 GCAGTAGAGCGGATCGCATTA
** * *
44613014 GGTTTTATCTCCCTGAGGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
44613047 CTAAGAAGAC
Statistics
Matches: 219, Mismatches: 61, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
82 2 0.01
84 4 0.02
85 142 0.65
86 6 0.03
87 1 0.00
88 64 0.29
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCTTATCTCCCTGAAGTTG
CAGTAGAGCGGATCGCATTA
Found at i:44613084 original size:129 final size:129
Alignment explanation
Indices: 44612626--44613046 Score: 743
Period size: 129 Copynumber: 3.3 Consensus size: 129
44612616 TGTTGATGGA
*
44612626 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
*
44612691 GTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATT
66 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATT
*
44612755 AAATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
* * *
44612820 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAATTGCAATAGAGTGGATCGTATT
66 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATT
44612884 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
* *
44612949 GTAGTGGAGCGGATTAAAGTAATAGATCTTCTCTCTCTGAAGTTGCAGTAGAGTGGATCGCATC
66 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATT
** *
44613013 AGGTTTTATCTCCCTGAGGTTGCAGTGGAGCAGA
1 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
44613047 CTAAGAAGAC
Statistics
Matches: 277, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 277 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (129 bp):
AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATT
Found at i:44614924 original size:32 final size:32
Alignment explanation
Indices: 44614851--44614924 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 32
44614841 AAATTATTTT
* *
44614851 TATTATATACATACGCAATATATTTTATTTCA
1 TATTTTATACATACGCAATATATTTTATTACA
* * *
44614883 TATTATTATACATATGTATATATATTTT-TTACC
1 TATT-TTATACATACGCA-ATATATTTTATTACA
44614916 TATTTTATA
1 TATTTTATA
44614925 TAATATGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 9 0.26
33 17 0.49
34 9 0.26
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (32 bp):
TATTTTATACATACGCAATATATTTTATTACA
Found at i:44620665 original size:11 final size:11
Alignment explanation
Indices: 44620649--44620681 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
44620639 GGATCATACT
44620649 CATAATAAATA
1 CATAATAAATA
*
44620660 CATAATTAATA
1 CATAATAAATA
44620671 CATAA-AAATA
1 CATAATAAATA
44620681 C
1 C
44620682 GTTATTCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (11 bp):
CATAATAAATA
Found at i:44624905 original size:15 final size:17
Alignment explanation
Indices: 44624885--44624916 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44624875 ACAAAATGAG
44624885 AATAA-TTAAT-ACAAA
1 AATAATTTAATCACAAA
44624900 AATAATTTAATCACAAA
1 AATAATTTAATCACAAA
44624917 TAAATCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATTTAATCACAAA
Found at i:44625108 original size:19 final size:20
Alignment explanation
Indices: 44625075--44625114 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
44625065 GGTAAAAAAG
*
44625075 AATTTAAAATAATGTTGATA
1 AATTTAAAATAATGTGGATA
*
44625095 AATTT-AAATCATGTGGATA
1 AATTTAAAATAATGTGGATA
44625114 A
1 A
44625115 TAATTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (20 bp):
AATTTAAAATAATGTGGATA
Found at i:44627651 original size:27 final size:27
Alignment explanation
Indices: 44627613--44627664 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
44627603 TCAACGGGTA
44627613 TGAAAAAGAGAAGGCTCGACAAATGCT
1 TGAAAAAGAGAAGGCTCGACAAATGCT
44627640 TGAAAAAGAGAAGGCTCGACAAATG
1 TGAAAAAGAGAAGGCTCGACAAATG
44627665 TTTCAATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.27, T:0.13
Consensus pattern (27 bp):
TGAAAAAGAGAAGGCTCGACAAATGCT
Found at i:44629958 original size:23 final size:25
Alignment explanation
Indices: 44629914--44629959 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
44629904 AATTAGAAAT
**
44629914 TAATTTGTAAGTTTAATTATTATTC
1 TAATTTGTAAGTTTAAACATTATTC
44629939 TAATTTG-AAG-TTAAACATTAT
1 TAATTTGTAAGTTTAAACATTAT
44629960 GTTTGTTCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 3 0.16
25 7 0.37
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (25 bp):
TAATTTGTAAGTTTAAACATTATTC
Found at i:44642311 original size:18 final size:18
Alignment explanation
Indices: 44642288--44642323 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44642278 CACAAGGCTT
44642288 GAGACACGGGCATGTCTC
1 GAGACACGGGCATGTCTC
44642306 GAGACACGGGCATGTCTC
1 GAGACACGGGCATGTCTC
44642324 CTGACCGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (18 bp):
GAGACACGGGCATGTCTC
Found at i:44648105 original size:21 final size:21
Alignment explanation
Indices: 44648079--44648142 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
44648069 TTGGTGGATT
44648079 AGCTCTTATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
** *
44648100 AGCTCTTACAAGCTTCCGTTC
1 AGCTCTTATGAGCTTCTGTTC
44648121 AGCTCTTATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
44648142 A
1 A
44648143 ACTTTCGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:44649067 original size:30 final size:30
Alignment explanation
Indices: 44648997--44649067 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
44648987 GCGTGTGTCT
*
44648997 CAGCCGTGTGTAACGCACGGTCAAGTGAAA
1 CAGCCGTGTGTAACGCACGGCCAAGTGAAA
* * * *
44649027 CAGTCATGTGTAATGCATGGCCAAGTGAAA
1 CAGCCGTGTGTAACGCACGGCCAAGTGAAA
*
44649057 TAGCCGTGTGT
1 CAGCCGTGTGT
44649068 CCCCTATATC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (30 bp):
CAGCCGTGTGTAACGCACGGCCAAGTGAAA
Found at i:44649475 original size:42 final size:42
Alignment explanation
Indices: 44649428--44649514 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
44649418 TTTTATTATG
44649428 GATATTGATATGTAATGAAACGTTTGAAATTTCTGTCTGATT
1 GATATTGATATGTAATGAAACGTTTGAAATTTCTGTCTGATT
44649470 GATATTGATATGTAATGAAACGTTTGAAATTTCTGTCTGATT
1 GATATTGATATGTAATGAAACGTTTGAAATTTCTGTCTGATT
44649512 GAT
1 GAT
44649515 CTGTAAACCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.43
Consensus pattern (42 bp):
GATATTGATATGTAATGAAACGTTTGAAATTTCTGTCTGATT
Found at i:44649870 original size:20 final size:18
Alignment explanation
Indices: 44649823--44649880 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
44649813 TTTTCAAAAC
*
44649823 AATTTTAATTTGATTGAA
1 AATTTTAACTTGATTGAA
*
44649841 AATGTTTAACTCGATTGAA
1 AAT-TTTAACTTGATTGAA
44649860 ATCATTTTAACTTGATT-AA
1 A--ATTTTAACTTGATTGAA
44649879 AA
1 AA
44649881 GTTGATTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 1 0.03
18 3 0.09
19 17 0.50
20 11 0.32
21 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (18 bp):
AATTTTAACTTGATTGAA
Found at i:44650417 original size:31 final size:31
Alignment explanation
Indices: 44650376--44650441 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
44650366 TAATGCTTAT
* *
44650376 GTGACTAAAATGAAAGCACCCTAAAAGTTAG
1 GTGACCAAAATGAAAACACCCTAAAAGTTAG
*
44650407 GTGACCAAAATGAAAACACCCTAAAAGTTGG
1 GTGACCAAAATGAAAACACCCTAAAAGTTAG
44650438 GTGA
1 GTGA
44650442 TCAACTAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (31 bp):
GTGACCAAAATGAAAACACCCTAAAAGTTAG
Found at i:44663577 original size:2 final size:2
Alignment explanation
Indices: 44663572--44663596 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44663562 AAATGTTAAT
44663572 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44663597 TTGTATGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44673241 original size:13 final size:14
Alignment explanation
Indices: 44673203--44673243 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
44673193 ATAGGGGTAG
44673203 GATTCTGTATATCT
1 GATTCTGTATATCT
* *
44673217 G-TTCAGTTTATCT
1 GATTCTGTATATCT
44673230 GATTCTG-ATATCT
1 GATTCTGTATATCT
44673243 G
1 G
44673244 TATCTATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:44673480 original size:18 final size:20
Alignment explanation
Indices: 44673441--44673482 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
44673431 AAAGAACTAT
*
44673441 TTTTATTTTAGTAATAATGG
1 TTTTATTTTAGAAATAATGG
44673461 TTTTATTTTA-AAAT-ATGG
1 TTTTATTTTAGAAATAATGG
44673479 TTTT
1 TTTT
44673483 GTTAGAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTTATTTTAGAAATAATGG
Found at i:44674532 original size:15 final size:15
Alignment explanation
Indices: 44674498--44674542 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
44674488 TATTCATGAA
*
44674498 AATA-AAAAATATAT
1 AATATAAAAATATAC
*
44674512 ATATATAAAATTATAC
1 A-ATATAAAAATATAC
44674528 AATATAAAAATATAC
1 AATATAAAAATATAC
44674543 GTAAGTATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.04
15 16 0.62
16 9 0.35
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATAAAAATATAC
Found at i:44676191 original size:16 final size:18
Alignment explanation
Indices: 44676146--44676191 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 18
44676136 TGCTTCTTTG
44676146 CTGTTGTTTTTGTCTGCCT
1 CTGTTG-TTTTGTCTGCCT
44676165 CTGTTCG-TTTGT-TG-CT
1 CTGTT-GTTTTGTCTGCCT
44676181 CTGTTGTTTTG
1 CTGTTGTTTTG
44676192 CAGGTATCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.04
16 11 0.44
17 2 0.08
18 5 0.20
19 5 0.20
20 1 0.04
ACGTcount: A:0.00, C:0.17, G:0.24, T:0.59
Consensus pattern (18 bp):
CTGTTGTTTTGTCTGCCT
Found at i:44676647 original size:14 final size:15
Alignment explanation
Indices: 44676628--44676656 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44676618 ACTTTACGTA
44676628 AACAAATG-GTTTTT
1 AACAAATGAGTTTTT
44676642 AACAAATGAGTTTTT
1 AACAAATGAGTTTTT
44676657 GGAAACACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (15 bp):
AACAAATGAGTTTTT
Found at i:44682842 original size:13 final size:13
Alignment explanation
Indices: 44682824--44682848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44682814 GTGTGTTGGC
44682824 CCACATGGGCATG
1 CCACATGGGCATG
44682837 CCACATGGGCAT
1 CCACATGGGCAT
44682849 ATGGGTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (13 bp):
CCACATGGGCATG
Found at i:44684061 original size:680 final size:680
Alignment explanation
Indices: 44682756--44684116 Score: 2299
Period size: 680 Copynumber: 2.0 Consensus size: 680
44682746 AATTTGGGTT
* * * * *
44682756 TGTCCGTGTGACTGACGAAAGTGTGGCCGTATGAGCCACACGGGATGGGCCAGATTGGGTGTGTT
1 TGTCCGTCTAACTGACGAAAGTGTGGCCGTATGAGCCACACGGGATAGGCCAGATTGAGCGTGTT
** *
44682821 GGCCCACATGGGCATGCCACATGGGCATATGGGTTTTGGGCCCGGCCGTGTGGGCCACACGGGTA
66 GGCCCACATGGGCATGCCACACAGGCATATGGGTTTTGGGCCAGGCCGTGTGGGCCACACGGGTA
*
44682886 AGGCCAATCTAGGCGTGTGGTCCTGCATTGGCATTTGGGCCTAAGATTCTGAAATCTTCCCTAAG
131 AGGCCAATCTAGGCGTGTGGTCCTACATTGGCATTTGGGCCTAAGATTCTGAAATCTTCCCTAAG
* * * *
44682951 GTCGCACGGGTTGTTTCGGTCAATTGTGGACCTACCGTAAGGTCGGTAAGGGCTAATCAAGCTCT
196 GTCGCACGGGTCGTTTCGGTCAACTGTGGACCTACCGTAAGGTAGGTAAGGGCTAATCAAACTCT
* * * *
44683016 GATTCATATGTTCTGATATTCTGGTAGTCTGATCTGAGTAGGACACTGATAGGTATGTCTAACTT
261 AATTCATATGATCTAATATTCTGGTAGTCTGATCTGAGTAGGACACTGATAGGTATGTCTAACTG
*
44683081 TTCTGTTTGAGTATATACGTTATATGTATACGAGCATGTTAAGCATGTTAATTCTGTTAATTCTA
326 TTCTGTTTGAGTATATACGTTATATGTATACGAGCATGTTAAGCATGTTAAATCTGTTAATTCTA
*
44683146 TATTCTGTATCTGTGTTTGGGGTGGGATTTGCATTTGTGGAGGAAGTGATCTGTACGATGACCTT
391 TATTCTGTATCTGTGTTTGGGGTGGGATTTGCATATGTGGAGGAAGTGATCTGTACGATGACCTT
*
44683211 TCGCATATATTCTGGCAGCTTGATTGCATATTATTCTGTTATGTGTCGCATCGACACTATATGGT
456 TCGCATATATTCTGGCAGCTTGACTGCATATTATTCTGTTATGTGTCGCATCGACACTATATGGT
*
44683276 CTGCTGGGATGGGTGGGTGTTTTTAACCTCACATGATGTGATGGGATGGTCGTCGATGGTGTGTA
521 CTGCTGGGATGGGTGGGTGTTTTTAACCTCACATGATGTGATGGGATGGTCGTAGATGGTGTGTA
* * *
44683341 GAGGGTGGGGGTAGGATTCTGTATATCTGTTCAGTTTATTTGATTCTGATATCTATATCTGTTAT
586 GAGGATGGGGGTAGGATTCTGTATATCTGTTCAATTTATTTGATTCTAATATCTATATCTGTTAT
44683406 GGACTTGGTCTGAATCTGTATCTGACCATA
651 GGACTTGGTCTGAATCTGTATCTGACCATA
* * * *
44683436 TGTCCGTCTAACTGATGAAAGTGTGGTCGTATGGGCCACACGGGCTAGGCCAGATTGAGCGTGTT
1 TGTCCGTCTAACTGACGAAAGTGTGGCCGTATGAGCCACACGGGATAGGCCAGATTGAGCGTGTT
44683501 GGCCCACATGGGCATGCCACACAGGCATATGGGTTTTGGGCCAGGCCGTGTGGGCCACACGGGTA
66 GGCCCACATGGGCATGCCACACAGGCATATGGGTTTTGGGCCAGGCCGTGTGGGCCACACGGGTA
* * *
44683566 AGGCCAATCTAGGCGTTTGGTCCTACATTGGCATTTGGGCCTAAGATTCTGAAATTTTCCCTAGG
131 AGGCCAATCTAGGCGTGTGGTCCTACATTGGCATTTGGGCCTAAGATTCTGAAATCTTCCCTAAG
* * *
44683631 GTCGCACGGGTCGTTTCGGTCAACTGTGGATCTACCGTAGGGTAGGTCAGGGCTAATCAAACTCT
196 GTCGCACGGGTCGTTTCGGTCAACTGTGGACCTACCGTAAGGTAGGTAAGGGCTAATCAAACTCT
*
44683696 AATTCATATGATCTAATATTCTGGTAGTCTGATCTGAGTAGGACACTGATAGGTATGTCTGACTG
261 AATTCATATGATCTAATATTCTGGTAGTCTGATCTGAGTAGGACACTGATAGGTATGTCTAACTG
*
44683761 TTCTGTTTGAGTATATATGTTATATGTATACGAGCATGTTAAGCATGTTAAATCTGTTAATTCTA
326 TTCTGTTTGAGTATATACGTTATATGTATACGAGCATGTTAAGCATGTTAAATCTGTTAATTCTA
* *
44683826 TATTCTGTATCTGTGTTTGGGGTGGGATTTGCATATGTGTAGGAAGTGATCTGTATGATGACCTT
391 TATTCTGTATCTGTGTTTGGGGTGGGATTTGCATATGTGGAGGAAGTGATCTGTACGATGACCTT
* * * *
44683891 TTGCCTATATTCTGGCAGCTTGACTGCATATTATTCTGTTATGTGTTGCATCGACACTGTATGGT
456 TCGCATATATTCTGGCAGCTTGACTGCATATTATTCTGTTATGTGTCGCATCGACACTATATGGT
* *
44683956 CTGTTGGGATGGGTGGGTGTTTTTAACCTCGCATGATGTGATGGGATGGTCGTAGATGGTGTGTA
521 CTGCTGGGATGGGTGGGTGTTTTTAACCTCACATGATGTGATGGGATGGTCGTAGATGGTGTGTA
*
44684021 GAGGATGGGGGTAGGATTCTGTATATCTGTTCAATTTATTTGATTCTAATATCTATATTTGTTAT
586 GAGGATGGGGGTAGGATTCTGTATATCTGTTCAATTTATTTGATTCTAATATCTATATCTGTTAT
* *
44684086 GGACTTGGTCTGAATTTGTATCTGACTATA
651 GGACTTGGTCTGAATCTGTATCTGACCATA
44684116 T
1 T
44684117 ATGAAATTCT
Statistics
Matches: 634, Mismatches: 47, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
680 634 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (680 bp):
TGTCCGTCTAACTGACGAAAGTGTGGCCGTATGAGCCACACGGGATAGGCCAGATTGAGCGTGTT
GGCCCACATGGGCATGCCACACAGGCATATGGGTTTTGGGCCAGGCCGTGTGGGCCACACGGGTA
AGGCCAATCTAGGCGTGTGGTCCTACATTGGCATTTGGGCCTAAGATTCTGAAATCTTCCCTAAG
GTCGCACGGGTCGTTTCGGTCAACTGTGGACCTACCGTAAGGTAGGTAAGGGCTAATCAAACTCT
AATTCATATGATCTAATATTCTGGTAGTCTGATCTGAGTAGGACACTGATAGGTATGTCTAACTG
TTCTGTTTGAGTATATACGTTATATGTATACGAGCATGTTAAGCATGTTAAATCTGTTAATTCTA
TATTCTGTATCTGTGTTTGGGGTGGGATTTGCATATGTGGAGGAAGTGATCTGTACGATGACCTT
TCGCATATATTCTGGCAGCTTGACTGCATATTATTCTGTTATGTGTCGCATCGACACTATATGGT
CTGCTGGGATGGGTGGGTGTTTTTAACCTCACATGATGTGATGGGATGGTCGTAGATGGTGTGTA
GAGGATGGGGGTAGGATTCTGTATATCTGTTCAATTTATTTGATTCTAATATCTATATCTGTTAT
GGACTTGGTCTGAATCTGTATCTGACCATA
Found at i:44684441 original size:14 final size:15
Alignment explanation
Indices: 44684422--44684450 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44684412 ACTTTACGCA
44684422 AACAAAT-GGTTTTT
1 AACAAATGGGTTTTT
44684436 AACAAATGGGTTTTT
1 AACAAATGGGTTTTT
44684451 GGAAACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (15 bp):
AACAAATGGGTTTTT
Found at i:44685590 original size:27 final size:27
Alignment explanation
Indices: 44685559--44685615 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
44685549 TTTTTGTATT
* * *
44685559 ATTTTAAAAAATATA-TAATTTTTAGA
1 ATTTTTAAAAATATATTAAATTTTAAA
*
44685585 ATTTTTATAAATATATTAAATTTTAAA
1 ATTTTTAAAAATATATTAAATTTTAAA
44685612 ATTT
1 ATTT
44685616 ATTTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
ATTTTTAAAAATATATTAAATTTTAAA
Found at i:44685663 original size:21 final size:21
Alignment explanation
Indices: 44685604--44685656 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
44685594 AATATATTAA
*
44685604 ATTTTAAAATTTATTTTTAATT
1 ATTTT-AAATTTATTTTGAATT
*
44685626 -TTTGAAATTTATTTTGAATT
1 ATTTTAAATTTATTTTGAATT
44685646 ATTTTAAATTT
1 ATTTTAAATTT
44685657 TTATTGAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTTAAATTTATTTTGAATT
Found at i:44699894 original size:12 final size:12
Alignment explanation
Indices: 44699879--44699911 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
44699869 CATGAATAAG
44699879 CTCATTTATTGA
1 CTCATTTATTGA
44699891 CTCATTTA-TGA
1 CTCATTTATTGA
*
44699902 CTTATTTATT
1 CTCATTTATT
44699912 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (12 bp):
CTCATTTATTGA
Found at i:44712460 original size:40 final size:40
Alignment explanation
Indices: 44712269--44712453 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
44712259 TTGAATGATG
* * * *
44712269 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
44712309 TCCGGACTAAGAT-CTGAAGGCATTTGCGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44712349 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44712388 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44712429 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44712454 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 80 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44712475 original size:79 final size:79
Alignment explanation
Indices: 44712324--44712486 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
44712314 ACTAAGATCT
* **
44712324 GAAGGCATTTGCGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGCGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
*
44712389 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* * * *
44712403 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGCGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
* *
44712466 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
44712482 GAAGG
1 GAAGG
44712487 TACGTGATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
GAAGGCATTTGCGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:44713937 original size:12 final size:12
Alignment explanation
Indices: 44713912--44713945 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44713902 CACTAGTTTA
* *
44713912 GACACGGGCTAG
1 GACACAGGCAAG
44713924 GACACAGGCAAG
1 GACACAGGCAAG
44713936 GACACAGGCA
1 GACACAGGCA
44713946 TGTGGTCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.26, G:0.35, T:0.03
Consensus pattern (12 bp):
GACACAGGCAAG
Found at i:44723081 original size:25 final size:25
Alignment explanation
Indices: 44723051--44723111 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
44723041 AATTCCAGCT
44723051 TATGAGCTTACCGATACTCAGCTTG
1 TATGAGCTTACCGATACTCAGCTTG
* *
44723076 TATGAGCTTACCGATATTTAGCTTG
1 TATGAGCTTACCGATACTCAGCTTG
* *
44723101 GAGGAGCTTAC
1 TATGAGCTTAC
44723112 TTTTTATCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (25 bp):
TATGAGCTTACCGATACTCAGCTTG
Found at i:44728683 original size:5 final size:5
Alignment explanation
Indices: 44728673--44728716 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
44728663 AGACAACCTA
*
44728673 ATTTT ATTTT ATTTT ATTTT A-TTT A-TAT ATTTT ATTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT
44728717 CTATTTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 7 0.20
5 23 0.66
6 5 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:44728721 original size:18 final size:16
Alignment explanation
Indices: 44728673--44728723 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 16
44728663 AGACAACCTA
44728673 ATTTTA-TTTTATTTT
1 ATTTTATTTTTATTTT
44728688 ATTTTATTTATATATTTT
1 ATTTTATTT-T-TATTTT
44728706 ATTTTTATTTTCTATTTT
1 A-TTTTATTTT-TATTTT
44728724 CTATTTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 6 0.19
16 2 0.06
17 1 0.03
18 14 0.45
19 8 0.26
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:44728730 original size:14 final size:13
Alignment explanation
Indices: 44728684--44728732 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
44728674 TTTTATTTTA
44728684 TTTTA-TTT-TAT
1 TTTTATTTTCTAT
*
44728695 TTATATATTT-TAT
1 TTTTAT-TTTCTAT
44728708 TTTTATTTTCTAT
1 TTTTATTTTCTAT
44728721 TTTCTATTTTCT
1 TTT-TATTTTCT
44728733 TTAGTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.12
12 3 0.09
13 17 0.53
14 8 0.25
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTCTAT
Found at i:44732815 original size:40 final size:38
Alignment explanation
Indices: 44732770--44732856 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
44732760 ATGTTATACT
* * *
44732770 TTCTGTTTGACGTGATTCGGGTGGATCAACTCTTACGAGC
1 TTCTG-TTGACATG-TTCGGGAGGACCAACTCTTACGAGC
* *
44732810 TTCTGTTGGCATGTTCGGGAGGACCAACTCTTATGAGC
1 TTCTGTTGACATGTTCGGGAGGACCAACTCTTACGAGC
*
44732848 TTCTATTGA
1 TTCTGTTGA
44732857 TGGTGTACTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 29 0.73
39 6 0.15
40 5 0.12
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (38 bp):
TTCTGTTGACATGTTCGGGAGGACCAACTCTTACGAGC
Found at i:44750194 original size:20 final size:20
Alignment explanation
Indices: 44750151--44750195 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44750141 TAAACTTTAG
* * *
44750151 AAAAATATCAAATAAATTTC
1 AAAAATATCAAAAAAAATTA
*
44750171 AAAAATTTCAAAAAAAATTA
1 AAAAATATCAAAAAAAATTA
44750191 AAAAA
1 AAAAA
44750196 ATTAATTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATATCAAAAAAAATTA
Found at i:44750620 original size:20 final size:20
Alignment explanation
Indices: 44750592--44750634 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
44750582 AAAAACTGCT
44750592 CCTTACAAAAAGTATCGATA
1 CCTTACAAAAAGTATCGATA
* *
44750612 CCTTTCAAAAAGTATTGATA
1 CCTTACAAAAAGTATCGATA
44750632 CCT
1 CCT
44750635 ATTGTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (20 bp):
CCTTACAAAAAGTATCGATA
Found at i:44751015 original size:20 final size:18
Alignment explanation
Indices: 44750968--44751074 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
44750958 CAAGATAAAC
44750968 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
44750985 ATTAAGA-TAATCAGTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
44751005 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
44751024 ATT-AATATAAGTATTTAAT
1 ATTAAAT-TAA-TATTTAAT
* * *
44751043 -TTAATTTAATATTAAACC
1 ATTAAATTAATATTTAA-T
*
44751061 ATTAAAATAATATT
1 ATTAAATTAATATT
44751075 ATTTTTGGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
17 14 0.21
18 9 0.13
19 28 0.41
20 17 0.25
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:44751525 original size:19 final size:19
Alignment explanation
Indices: 44751487--44751526 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44751477 AAAATATCAA
* *
44751487 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
44751506 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
44751525 AT
1 AT
44751527 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:44752286 original size:15 final size:15
Alignment explanation
Indices: 44752266--44752301 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
44752256 TATATCAAAG
44752266 CACATGAGTTGCATA
1 CACATGAGTTGCATA
44752281 CACATGAGTTGCATA
1 CACATGAGTTGCATA
44752296 CACATG
1 CACATG
44752302 GCCAATTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (15 bp):
CACATGAGTTGCATA
Found at i:44768087 original size:9 final size:9
Alignment explanation
Indices: 44768073--44768107 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
44768063 GTGAACTCAA
44768073 CTCCTTGCC
1 CTCCTTGCC
44768082 CTCCTTGCC
1 CTCCTTGCC
44768091 CTCCTTGCC
1 CTCCTTGCC
44768100 CTCCTTGC
1 CTCCTTGC
44768108 ATTTACCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.54, G:0.11, T:0.34
Consensus pattern (9 bp):
CTCCTTGCC
Found at i:44773676 original size:20 final size:21
Alignment explanation
Indices: 44773636--44773676 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
44773626 AAAAAGTTTT
* *
44773636 TTTCTTTGTAAAAATATTAAA
1 TTTCTTTGTAAAAAAAATAAA
44773657 TTTCTTT-TAAAAAAAATAAA
1 TTTCTTTGTAAAAAAAATAAA
44773677 AAATGAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTCTTTGTAAAAAAAATAAA
Found at i:44781390 original size:531 final size:531
Alignment explanation
Indices: 44780387--44781444 Score: 2044
Period size: 531 Copynumber: 2.0 Consensus size: 531
44780377 GACATTATAA
44780387 ATAATTTAATATTCACCCAAATAATTCCAACCCAAAGATAATTAGCTTATGGGTTAGGCAATGAA
1 ATAATTTAATATTCACCCAAATAATTCCAACCCAAAGATAATTAGCTTATGGGTTAGGCAATGAA
44780452 ATCCAAAATTAAATCATTCATCTACATTCTTCAAGTTTTACAAATCACAAAAATCAAAACCAAGA
66 ATCCAAAATTAAATCATTCATCTACATTCTTCAAGTTTTACAAATCACAAAAATCAAAACCAAGA
*
44780517 ATTATAGAACAAAGACATAACTGCAAGAAGTTCTCGCTACACTCCAACTTCTTCTCAAGATTTTA
131 AATATAGAACAAAGACATAACTGCAAGAAGTTCTCGCTACACTCCAACTTCTTCTCAAGATTTTA
44780582 CGCAAAACATAGGGCAGATTTCTCTTCCCTTTCTCCGCGACTGTGATCTCCTCTTTTTAATTGCT
196 CGCAAAACATAGGGCAGATTTCTCTTCCCTTTCTCCGCGACTGTGATCTCCTCTTTTTAATTGCT
44780647 ACCCTCTATTTCTCTTCTAAATTTTCCACACAATTTCTCCACAAGATTCTATTGTAGAGAGAGGA
261 ACCCTCTATTTCTCTTCTAAATTTTCCACACAATTTCTCCACAAGATTCTATTGTAGAGAGAGGA
* *
44780712 ACCTCTCTCCTTTTCTTTTCTCCTCACAATCTGTGTGTCCTTCTTTTCTTCTCTCTGCTCCTTTT
326 ACCTCTCTCATTTTCTTTTCTCCTCACAATCTGTGTGCCCTTCTTTTCTTCTCTCTGCTCCTTTT
44780777 ATAGGGTAGATATATCCCACTCACCATACATATTTTGCTCCTCTTTTTTAGGGTGATTTATCTGG
391 ATAGGGTAGATATATCCCACTCACCATACATATTTTGCTCCTCTTTTTTAGGGTGATTTATCTGG
44780842 TACACGTACAACTGGCTGAGAGTGACGTGGATTGAGTGCTGCGTCATCTTCCTAGAATTGCCATG
456 TACACGTACAACTGGCTGAGAGTGACGTGGATTGAGTGCTGCGTCATCTTCCTAGAATTGCCATG
44780907 GCATTTCCTAG
521 GCATTTCCTAG
44780918 ATAATTTAATATTCACCCAAATAATTCCAACCCAAAGATAATTAGCTTATGGGTTAGGCAATGAA
1 ATAATTTAATATTCACCCAAATAATTCCAACCCAAAGATAATTAGCTTATGGGTTAGGCAATGAA
*
44780983 ATCCAAAATTAAATCATTCATCTACATTCTTCAAGTTTTACGAATCACAAAAATCAAAACCAAGA
66 ATCCAAAATTAAATCATTCATCTACATTCTTCAAGTTTTACAAATCACAAAAATCAAAACCAAGA
44781048 AATATAGAACAAAGACATAACTGCAAGAAGTTCTCGCTACACTCCAACTTCTTCTCAAGATTTTA
131 AATATAGAACAAAGACATAACTGCAAGAAGTTCTCGCTACACTCCAACTTCTTCTCAAGATTTTA
* *
44781113 CGCAAAACATAGGGCAGATTTCTCTTCCCTTTCTTCGCGACTGTGATCTCTTCTTTTTAATTGCT
196 CGCAAAACATAGGGCAGATTTCTCTTCCCTTTCTCCGCGACTGTGATCTCCTCTTTTTAATTGCT
*
44781178 ACCCTCTATTTCTCTTCTAAATTTTCCACGCAATTTCTCCACAAGATTCTATTGTAGAGAGAGGA
261 ACCCTCTATTTCTCTTCTAAATTTTCCACACAATTTCTCCACAAGATTCTATTGTAGAGAGAGGA
*
44781243 ACCTCTCTCATTTTCTTTTCTCCTCACAATCTGTGTGCCCTTCTTTTCTTCTCTCTGTTCCTTTT
326 ACCTCTCTCATTTTCTTTTCTCCTCACAATCTGTGTGCCCTTCTTTTCTTCTCTCTGCTCCTTTT
44781308 ATAGGGTAGATATATCCCACTCACCATACATATTTTGCTCCTCTTTTTTAGGGTGATTTATCTGG
391 ATAGGGTAGATATATCCCACTCACCATACATATTTTGCTCCTCTTTTTTAGGGTGATTTATCTGG
44781373 TACACGTACAACTGGCTGAGAGTGACGTGGATTGAGTGCTGCGTCATCTTCCTAGAATTGCCATG
456 TACACGTACAACTGGCTGAGAGTGACGTGGATTGAGTGCTGCGTCATCTTCCTAGAATTGCCATG
44781438 GCATTTC
521 GCATTTC
44781445 AGTTGGCAAT
Statistics
Matches: 519, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
531 519 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (531 bp):
ATAATTTAATATTCACCCAAATAATTCCAACCCAAAGATAATTAGCTTATGGGTTAGGCAATGAA
ATCCAAAATTAAATCATTCATCTACATTCTTCAAGTTTTACAAATCACAAAAATCAAAACCAAGA
AATATAGAACAAAGACATAACTGCAAGAAGTTCTCGCTACACTCCAACTTCTTCTCAAGATTTTA
CGCAAAACATAGGGCAGATTTCTCTTCCCTTTCTCCGCGACTGTGATCTCCTCTTTTTAATTGCT
ACCCTCTATTTCTCTTCTAAATTTTCCACACAATTTCTCCACAAGATTCTATTGTAGAGAGAGGA
ACCTCTCTCATTTTCTTTTCTCCTCACAATCTGTGTGCCCTTCTTTTCTTCTCTCTGCTCCTTTT
ATAGGGTAGATATATCCCACTCACCATACATATTTTGCTCCTCTTTTTTAGGGTGATTTATCTGG
TACACGTACAACTGGCTGAGAGTGACGTGGATTGAGTGCTGCGTCATCTTCCTAGAATTGCCATG
GCATTTCCTAG
Found at i:44784136 original size:9 final size:9
Alignment explanation
Indices: 44784122--44784150 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
44784112 GTAATATCAT
44784122 TTCCATGTA
1 TTCCATGTA
44784131 TTCCATGTA
1 TTCCATGTA
44784140 TTCCATGTA
1 TTCCATGTA
44784149 TT
1 TT
44784151 TACCTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (9 bp):
TTCCATGTA
Found at i:44784358 original size:25 final size:25
Alignment explanation
Indices: 44784330--44784453 Score: 105
Period size: 25 Copynumber: 4.9 Consensus size: 25
44784320 CGCCAGTTGT
44784330 GAATCGGTAAGCTCATACGAGCTG-A
1 GAATCGGTAAGCTC-TACGAGCTGCA
* *
44784355 GAATCAGTAAGCTCTCACGAACTGCA
1 GAATCGGTAAGCTCT-ACGAGCTGCA
*
44784381 -AATCGGTAAGCTCGCACGAG-TGGCA
1 GAATCGGTAAGCTC-TACGAGCT-GCA
44784406 -AATCGGTAAGCTCTCACGAGCTGCA
1 GAATCGGTAAGCTCT-ACGAGCTGCA
* * *
44784431 -AACCAGTAAGCTCATATGAGCTG
1 GAATCGGTAAGCTC-TACGAGCTG
44784454 TGGTGTGTCC
Statistics
Matches: 83, Mismatches: 9, Indels: 14
0.78 0.08 0.13
Matches are distributed among these distances:
24 2 0.02
25 78 0.94
26 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.19
Consensus pattern (25 bp):
GAATCGGTAAGCTCTACGAGCTGCA
Found at i:44784385 original size:50 final size:50
Alignment explanation
Indices: 44784331--44784453 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
44784321 GCCAGTTGTG
44784331 AATCGGTAAGCTCATACGAGCT-GAGAATCAGTAAGCTCTCACGAACTGCA
1 AATCGGTAAGCTCATACGAGCTGGA-AATCAGTAAGCTCTCACGAACTGCA
** * *
44784381 AATCGGTAAGCTCGCACGAG-TGGCAAATCGGTAAGCTCTCACGAGCTGCA
1 AATCGGTAAGCTCATACGAGCTGG-AAATCAGTAAGCTCTCACGAACTGCA
* * *
44784431 AACCAGTAAGCTCATATGAGCTG
1 AATCGGTAAGCTCATACGAGCTG
44784454 TGGTGTGTCC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.02
50 57 0.93
51 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (50 bp):
AATCGGTAAGCTCATACGAGCTGGAAATCAGTAAGCTCTCACGAACTGCA
Found at i:44790697 original size:21 final size:21
Alignment explanation
Indices: 44790634--44790709 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 21
44790624 CAGAAATCTC
*
44790634 CCCTCGTTCTTACTGGTTTCT
1 CCCTCGTTTTTACTGGTTTCT
* *
44790655 CCCT--TGTTTACTGGTTTGT
1 CCCTCGTTTTTACTGGTTTCT
* *
44790674 CCCTCGTTTTTGCTAGTTTCT
1 CCCTCGTTTTTACTGGTTTCT
*
44790695 CCCCTCTTTTTTACT
1 -CCCTCGTTTTTACT
44790710 TTGTTCTTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 16 0.37
21 15 0.35
22 12 0.28
ACGTcount: A:0.05, C:0.30, G:0.13, T:0.51
Consensus pattern (21 bp):
CCCTCGTTTTTACTGGTTTCT
Found at i:44793224 original size:6 final size:6
Alignment explanation
Indices: 44793213--44793274 Score: 106
Period size: 6 Copynumber: 10.0 Consensus size: 6
44793203 TATTGTTGAT
44793213 AATGGG AATGGG AATGGG AAATGGG AATGGG AATGGG AATGGG AATGGG
1 AATGGG AATGGG AATGGG -AATGGG AATGGG AATGGG AATGGG AATGGG
44793262 AAATGGG AATGGG
1 -AATGGG AATGGG
44793275 TATTGCATGG
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
6 42 0.78
7 12 0.22
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
AATGGG
Found at i:44793247 original size:25 final size:25
Alignment explanation
Indices: 44793213--44793274 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
44793203 TATTGTTGAT
44793213 AATGGGAATGGGAATGGGAAATGGG
1 AATGGGAATGGGAATGGGAAATGGG
44793238 AATGGGAATGGGAATGGG-AATGGG
1 AATGGGAATGGGAATGGGAAATGGG
44793262 AAATGGGAATGGG
1 -AATGGGAATGGG
44793275 TATTGCATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (25 bp):
AATGGGAATGGGAATGGGAAATGGG
Found at i:44793251 original size:31 final size:31
Alignment explanation
Indices: 44793213--44793299 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 31
44793203 TATTGTTGAT
44793213 AATGGGAATGGGAATGGGAAATGGGAATGGG
1 AATGGGAATGGGAATGGGAAATGGGAATGGG
44793244 AATGGGAATGGGAATGGGAAATGGGAATGGG
1 AATGGGAATGGGAATGGGAAATGGGAATGGG
* * * *
44793275 TAT-TGCATGGGAATAGGAAATGGGA
1 AATGGGAATGGGAATGGGAAATGGGA
44793300 GGAGGGCACG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 19 0.37
31 33 0.63
ACGTcount: A:0.36, C:0.01, G:0.45, T:0.18
Consensus pattern (31 bp):
AATGGGAATGGGAATGGGAAATGGGAATGGG
Found at i:44793354 original size:60 final size:59
Alignment explanation
Indices: 44793281--44793465 Score: 225
Period size: 60 Copynumber: 3.1 Consensus size: 59
44793271 TGGGTATTGC
44793281 ATGGGAATAGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATCGATGGAAGAGGGGAG
1 ATGGGAATAGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAAT-GATGGAAGAGGGGAG
* * * * * * * *
44793341 ATGGGAATGGGAAATGAGAGGACGACACGGTGGAA-TGGGAAAT--TGGAA-TGGGTATTG
1 ATGGGAATAGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGA--G
*
44793398 CATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
1 -ATGGGAATAGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
44793458 ATGGGAAT
1 ATGGGAAT
44793466 GGAGAAATTG
Statistics
Matches: 101, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
55 4 0.04
56 5 0.05
57 1 0.01
58 30 0.30
59 20 0.20
60 32 0.32
61 5 0.05
62 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.48, T:0.14
Consensus pattern (59 bp):
ATGGGAATAGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGAATGATGGAAGAGGGGAG
Found at i:44793412 original size:58 final size:58
Alignment explanation
Indices: 44793254--44793433 Score: 197
Period size: 58 Copynumber: 3.1 Consensus size: 58
44793244 AATGGGAATG
* *
44793254 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGCACGGT
1 GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGACACGGT
* * * * * * *
44793312 GGAAGAGGGGAATCGATGGAAGAGGGGA--G-ATGGGAATGGGAAATGAGAGGACGACACGGT
1 GGAA-TGGGAAAT---TGGAA-TGGGTATTGCATGGGAATAGGAAATGGGAGGAGGACACGGT
44793372 GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGA-ACGGT
1 GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGA-GGACACGGT
44793430 GGAA
1 GGAA
44793434 GAGGGGAATG
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
55 4 0.04
56 5 0.05
57 1 0.01
58 33 0.34
59 14 0.14
60 31 0.32
61 1 0.01
62 4 0.04
63 4 0.04
ACGTcount: A:0.33, C:0.05, G:0.47, T:0.15
Consensus pattern (58 bp):
GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGACACGGT
Found at i:44793431 original size:118 final size:118
Alignment explanation
Indices: 44793254--44793473 Score: 406
Period size: 118 Copynumber: 1.9 Consensus size: 118
44793244 AATGGGAATG
*
44793254 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGCACGGTGGAAGAG
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
44793319 GGGAATCGATGGAAGAGGGGAGATGGGAATGG-GAAATGAGAGGACGACACGGT
66 GGGAAT-GATGGAAGAGGGGAGATGGGAATGGAGAAATGAGAGGACGACACGGT
*
44793372 GGAATGGGAAATTGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
1 GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
44793437 GGGAATGATGGAAGAGGGGAGATGGGAATGGAGAAAT
66 GGGAATGATGGAAGAGGGGAGATGGGAATGGAGAAAT
44793474 TGCATTGTAT
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
117 25 0.25
118 74 0.75
ACGTcount: A:0.34, C:0.04, G:0.47, T:0.15
Consensus pattern (118 bp):
GGAATGGGAAATGGGAATGGGTATTGCATGGGAATAGGAAATGGGAGGAGGGAACGGTGGAAGAG
GGGAATGATGGAAGAGGGGAGATGGGAATGGAGAAATGAGAGGACGACACGGT
Found at i:44797111 original size:21 final size:22
Alignment explanation
Indices: 44797070--44797111 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44797060 TTATCATTGT
**
44797070 TATAAAAAAATTTAATTATAAC
1 TATAAAAAAATTTAAAAATAAC
44797092 TATAAAAAAA-TTAAAAATAA
1 TATAAAAAAATTTAAAAATAA
44797112 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TATAAAAAAATTTAAAAATAAC
Found at i:44797383 original size:21 final size:21
Alignment explanation
Indices: 44797357--44797405 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
44797347 ATTTCTAATA
*
44797357 TCACCGCTACAGTACCCAATC
1 TCACCGCTACAGTAACCAATC
*
44797378 TCACCGCTACAGTAACTAATC
1 TCACCGCTACAGTAACCAATC
44797399 TCACCGC
1 TCACCGC
44797406 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.41, G:0.10, T:0.20
Consensus pattern (21 bp):
TCACCGCTACAGTAACCAATC
Found at i:44797538 original size:2 final size:2
Alignment explanation
Indices: 44797531--44797556 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44797521 TATCATATTC
44797531 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
44797557 GGAAGTCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44799228 original size:8 final size:9
Alignment explanation
Indices: 44799178--44799271 Score: 55
Period size: 10 Copynumber: 9.9 Consensus size: 9
44799168 GTTTTTTTAA
*
44799178 ATAATATTT
1 ATAATTTTT
44799187 ATAATTTTT
1 ATAATTTTT
* *
44799196 TTCACTTTTT
1 AT-AATTTTT
44799206 ATATATTTTT
1 ATA-ATTTTT
44799216 ATAATTTTTT
1 ATAA-TTTTT
***
44799226 AATAATTGCA
1 -ATAATTTTT
*
44799236 AT-GTTTTT
1 ATAATTTTT
44799244 ATAATCTTTT
1 ATAAT-TTTT
*
44799254 ATGAAATTTT
1 AT-AATTTTT
44799264 ATAATTTT
1 ATAATTTT
44799272 GCAATGATAT
Statistics
Matches: 63, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
8 4 0.06
9 19 0.30
10 34 0.54
11 6 0.10
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:44799230 original size:11 final size:10
Alignment explanation
Indices: 44799129--44799232 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 10
44799119 TAAAATTGTA
44799129 AATTTTTTAT
1 AATTTTTTAT
*
44799139 AATTTTTTTGT
1 AA-TTTTTTAT
* *
44799150 AATCTTATAT
1 AATTTTTTAT
*
44799160 AATTTTTTGT
1 AATTTTTTAT
44799170 --TTTTTTA-
1 AATTTTTTAT
*
44799177 AATAATATTTAT
1 AAT--TTTTTAT
44799189 AATTTTTT-T
1 AATTTTTTAT
* *
44799198 CACTTTTTAT
1 AATTTTTTAT
44799208 -ATATTTTTAT
1 AAT-TTTTTAT
44799218 AATTTTTTAAT
1 AATTTTTT-AT
44799229 AATT
1 AATT
44799233 GCAATGTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.08
9 9 0.13
10 31 0.44
11 22 0.31
12 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:44808893 original size:12 final size:13
Alignment explanation
Indices: 44808871--44808902 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
44808861 GCTGTTTGCA
44808871 TTTCTTTTCTTTC
1 TTTCTTTTCTTTC
44808884 TTTC-TTTCTTTC
1 TTTCTTTTCTTTC
44808896 TTT-TTTT
1 TTTCTTTT
44808903 AAATTTTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTCTTTC
Found at i:44810825 original size:18 final size:19
Alignment explanation
Indices: 44810795--44810836 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
44810785 CAATAATTAA
44810795 ATAAATAATT-AAAAATTT
1 ATAAATAATTAAAAAATTT
44810813 ATAAA-AATCTAAAAAATTT
1 ATAAATAAT-TAAAAAATTT
44810832 A-AAAT
1 ATAAAT
44810837 CGATTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 9 0.43
19 9 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATTAAAAAATTT
Done.