Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold339
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: 1314099
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 6 of 9
Found at i:747241 original size:21 final size:21
Alignment explanation
Indices: 747215--747306 Score: 72
Period size: 21 Copynumber: 4.5 Consensus size: 21
747205 CGAAATGATG
747215 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
*
747236 GGCATGGGCATGGAATAAAAAATGAA
1 GGCAT-GGAAT---AT-AAAAATGAA
*
747262 GGCAT--AATAT---GATG--
1 GGCATGGAATATAAAAATGAA
747276 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
747297 GGCATGGAAT
1 GGCATGGAAT
747307 GATGGGTATG
Statistics
Matches: 55, Mismatches: 4, Indels: 24
0.66 0.05 0.29
Matches are distributed among these distances:
14 5 0.09
16 8 0.15
19 3 0.05
20 2 0.04
21 15 0.27
22 4 0.07
23 2 0.04
25 2 0.04
26 14 0.25
ACGTcount: A:0.46, C:0.07, G:0.28, T:0.20
Consensus pattern (21 bp):
GGCATGGAATATAAAAATGAA
Found at i:747247 original size:27 final size:28
Alignment explanation
Indices: 747212--747361 Score: 126
Period size: 35 Copynumber: 4.9 Consensus size: 28
747202 ACACGAAATG
747212 ATGGGCATGGAATATAAAAATGAAGGC-
1 ATGGGCATGGAATATAAAAATGAAGGCA
747239 ATGGGCATGGAATA-AAAAATGAAGGCATAATA
1 ATGGGCATGGAATATAAAAATGAAGGC-----A
747271 TGATGGGCATGGAATATAAAAATGAAGGCATGGAA
1 --ATGGGCATGGAATATAAAAATGAAGGC-----A
*
747306 TGATGGGTATGGAATATAAAAATGAAGGC-
1 --ATGGGCATGGAATATAAAAATGAAGGCA
*
747335 ATGGGCATGGAATAAAAAAAATGAAGG
1 ATGGGCATGGAAT-ATAAAAATGAAGG
747362 TATAATATGA
Statistics
Matches: 107, Mismatches: 6, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
26 12 0.11
27 26 0.24
28 12 0.11
34 14 0.13
35 43 0.40
ACGTcount: A:0.46, C:0.05, G:0.29, T:0.19
Consensus pattern (28 bp):
ATGGGCATGGAATATAAAAATGAAGGCA
Found at i:747299 original size:35 final size:33
Alignment explanation
Indices: 747239--747408 Score: 165
Period size: 35 Copynumber: 5.1 Consensus size: 33
747229 AAATGAAGGC
747239 ATGGGCATGGAATAAAAAATGAAGGCATAATATG
1 ATGGGCATGGAATAAAAAATGAAGGCATAA-ATG
*
747273 ATGGGCATGGAATATAAAAATGAAGGCATGGAATG
1 ATGGGCATGGAATA-AAAAATGAAGGCAT-AAATG
*
747308 ATGGGTATGGAATATAAAAATGAAGGC-------
1 ATGGGCATGGAATA-AAAAATGAAGGCATAAATG
*
747335 ATGGGCATGGAATAAAAAAAATGAAGGTATAATATG
1 ATGGGCATGGAAT--AAAAAATGAAGGCATAA-ATG
* * *
747371 ATGGGCATGGAATAAAAATTAAAGGCATGGAATG
1 ATGGGCATGGAATAAAAAATGAAGGCAT-AAATG
747405 ATGG
1 ATGG
747409 ATAGAAAGGA
Statistics
Matches: 115, Mismatches: 8, Indels: 26
0.77 0.05 0.17
Matches are distributed among these distances:
27 12 0.10
28 11 0.10
29 1 0.01
34 33 0.29
35 44 0.38
36 14 0.12
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.21
Consensus pattern (33 bp):
ATGGGCATGGAATAAAAAATGAAGGCATAAATG
Found at i:747386 original size:96 final size:97
Alignment explanation
Indices: 747208--747408 Score: 336
Period size: 96 Copynumber: 2.1 Consensus size: 97
747198 AAAAACACGA
747208 AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGGCATAATATG
1 AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGGCATAATATG
*
747273 ATGGGCATGGAATATAAAAA-TGAAGGCATGG
66 ATGGGCATGGAATATAAAAATTAAAGGCATGG
* *
747304 AATGATGGGTATGGAATATAAAAATGAAGGCATGGGCATGGAATAAAAAAAATGAAGGTATAATA
1 AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATGGAAT--AAAAAATGAAGGCATAATA
747369 TGATGGGCATGG-A-ATAAAAATTAAAGGCATGG
64 TGATGGGCATGGAATATAAAAATTAAAGGCATGG
747401 AATGATGG
1 AATGATGG
747409 ATAGAAAGGA
Statistics
Matches: 99, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
96 50 0.51
97 19 0.19
98 30 0.30
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.21
Consensus pattern (97 bp):
AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGGCATAATATG
ATGGGCATGGAATATAAAAATTAAAGGCATGG
Found at i:747396 original size:62 final size:62
Alignment explanation
Indices: 747273--747400 Score: 170
Period size: 63 Copynumber: 2.1 Consensus size: 62
747263 GCATAATATG
* * * *
747273 ATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGTATGGAATATAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGCATGAAATGATGGGCATGGAATATAAAAATAAAGGC
* *
747335 ATGGGCATGGAATAAAAAAAATGAAGGTAT-AATATGATGGGCATGGAATA-AAAATTAAAGGC
1 ATGGGCATGGAAT-AAAAAAATGAAGGCATGAA-ATGATGGGCATGGAATATAAAAATAAAGGC
747397 ATGG
1 ATGG
747401 AATGATGGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
62 28 0.48
63 30 0.52
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.21
Consensus pattern (62 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGAAATGATGGGCATGGAATATAAAAATAAAGGC
Found at i:748751 original size:79 final size:79
Alignment explanation
Indices: 748618--749204 Score: 967
Period size: 79 Copynumber: 7.4 Consensus size: 79
748608 GTTAAGTTTC
* * *
748618 TCAATTTTTCAAAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
748683 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * * *
748697 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
748762 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
748776 TCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
748841 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
748855 CCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCACGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
748920 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * *
748934 TTAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
748999 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
749013 TCAATTTTTCATAATCGGGGATACTCCAATCCTGTTATTTCCGAGGGGACACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
749078 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
749092 CCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
749157 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
749171 TCAATTTTTCATAATCGGGGATACTCTAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
749205 ATTTTATTTT
Statistics
Matches: 474, Mismatches: 34, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 474 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:749212 original size:51 final size:52
Alignment explanation
Indices: 749136--749256 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 52
749126 TTATTTCCGA
* *
749136 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACA-TCAATTTTTCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACT-AATTTTTCATAATC
* * **
749187 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACTGTTTTTTCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACTAATTTTTCATAATC
*
749239 GGGGATACTTTAACCCCG
1 GGGGATACTCTAACCCCG
749257 TTATTATCTC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 22 0.36
52 38 0.62
53 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACTAATTTTTCATAATC
Found at i:757413 original size:28 final size:28
Alignment explanation
Indices: 757353--757434 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
757343 TTTTGGAGAT
**
757353 AATAACGGGGTTGGAGTATCCCTTA-GA
1 AATAACGGGGTTGGAGTATCCCCGATGA
757380 AGATAACGGGGTTGGAGTATCCCCGATGA
1 A-ATAACGGGGTTGGAGTATCCCCGATGA
* * * *
757409 AATAATGAGGTTAGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
757435 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.02
28 43 0.91
29 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:757565 original size:51 final size:51
Alignment explanation
Indices: 757417--757636 Score: 208
Period size: 51 Copynumber: 4.3 Consensus size: 51
757407 GAAATAATGA
* * * **
757417 GGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATG-TTTTAGAAATAAAATCGG
* * * * **
757469 AGTTGGAGTATCTCCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAATGTTTTAG-AAATAAAATCGG
* * * *
757521 GGTTGCAATATCCCCGATTGTGAAAAATTAATGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAATCGG
* * * * ** *
757572 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGA
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAATCGG
757623 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
757637 TTCGGAAATA
Statistics
Matches: 139, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
51 81 0.58
52 47 0.34
53 11 0.08
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAATCGG
Found at i:757663 original size:79 final size:79
Alignment explanation
Indices: 757569--757747 Score: 297
Period size: 79 Copynumber: 2.3 Consensus size: 79
757559 GAAATAAAAC
* *
757569 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTT-GGAAATAAAGCCGAGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAG-AATAAAGCAGAGGTTGGAGTA
*
757633 TCCCTTCGGAAATAA
65 TCCCCTCGGAAATAA
* *
757648 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGTAGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGAGGTTGGAGTAT
757713 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
757727 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
757748 GATTAACGGG
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 93 0.99
80 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGAGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:757762 original size:27 final size:28
Alignment explanation
Indices: 757700--757774 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
757690 GAATAAAGTA
***
757700 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
757728 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
757755 GGGGTTGGAGTATCTCCGAT
1 GGGGTTGGAGTATCCCCGAT
757775 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:757845 original size:54 final size:51
Alignment explanation
Indices: 757758--757880 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
757748 GATTAACGGG
* * *
757758 GTTGGAGTATCTCCGATTGTGAAAAATTGGTGTTTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG---TTTTGAAAATAAAATCGGA
757812 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
* *
757863 GTAGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
757881 GCGGAGAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 35 0.56
53 1 0.02
54 27 0.43
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:760199 original size:21 final size:21
Alignment explanation
Indices: 760175--760230 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
760165 AAATGCCTGA
760175 ATGTATCGATACAAAGAATAG
1 ATGTATCGATACAAAGAATAG
760196 ATGTATCGATACAAAGAATAG
1 ATGTATCGATACAAAGAATAG
760217 ATGTATCGATACAA
1 ATGTATCGATACAA
760231 TGTATCGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (21 bp):
ATGTATCGATACAAAGAATAG
Found at i:760235 original size:13 final size:13
Alignment explanation
Indices: 760217--760242 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
760207 CAAAGAATAG
760217 ATGTATCGATACA
1 ATGTATCGATACA
760230 ATGTATCGATACA
1 ATGTATCGATACA
760243 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:760344 original size:16 final size:17
Alignment explanation
Indices: 760310--760345 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
760300 GATACAAAAC
760310 TTATGTATCGATAACAT
1 TTATGTATCGATAACAT
760327 TTATGTATCGAT-ACAT
1 TTATGTATCGATAACAT
760343 TTA
1 TTA
760346 CTGAATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (17 bp):
TTATGTATCGATAACAT
Found at i:761930 original size:18 final size:18
Alignment explanation
Indices: 761887--761936 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
761877 TCCATCTTCT
761887 TCTCTCCTC-CTTCTATCA
1 TCTCTCCTCTC-TCTATCA
*
761905 TC-CTTCCTCTCTCTATTA
1 TCTC-TCCTCTCTCTATCA
*
761923 TCTCTCCTATCTCT
1 TCTCTCCTCTCTCT
761937 TCTCCTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.04
18 24 0.89
19 2 0.07
ACGTcount: A:0.10, C:0.42, G:0.00, T:0.48
Consensus pattern (18 bp):
TCTCTCCTCTCTCTATCA
Found at i:762011 original size:42 final size:42
Alignment explanation
Indices: 761880--762000 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
761870 TCACTCTTCC
* * * *
761880 ATCT-TCTTCTCTCCTCCTTCTATCATCCTTCCTCTCTCTATT
1 ATCTCTCTTATCT-CTCCTCCTATCATCCATCCTATCTCTATT
* * * ** *
761922 ATCTCTCCTATCTCTTCTCCTATCATCCCTATTATCTCTACT
1 ATCTCTCTTATCTCTCCTCCTATCATCCATCCTATCTCTATT
*
761964 ATCTCTCTTTTCTCTCCTCCTATCATCCATCCTATCT
1 ATCTCTCTTATCTCTCCTCCTATCATCCATCCTATCT
762001 TTTTTTTCTC
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 57 0.90
43 6 0.10
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.47
Consensus pattern (42 bp):
ATCTCTCTTATCTCTCCTCCTATCATCCATCCTATCTCTATT
Found at i:762792 original size:10 final size:10
Alignment explanation
Indices: 762779--762818 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
762769 TTTTCCTTTC
762779 TTTTT-TATT
1 TTTTTGTATT
762788 TTTTTGTATCT
1 TTTTTGTAT-T
*
762799 TTTTTTTATT
1 TTTTTGTATT
762809 TTTTTGTATT
1 TTTTTGTATT
762819 CTTGAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 5 0.19
10 13 0.48
11 9 0.33
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTTTGTATT
Found at i:766672 original size:3 final size:3
Alignment explanation
Indices: 766666--766709 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
766656 TTATTATTAT
766666 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
766710 ATATTGTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:766944 original size:18 final size:19
Alignment explanation
Indices: 766923--766980 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 19
766913 TTTATGTTAG
766923 TTTATTTTTATATAATT-T
1 TTTATTTTTATATAATTAT
* *
766941 TTTATTTTCTAAATATTTAT
1 TTTATTTT-TATATAATTAT
766961 TATTACTTTTTACTATAATT
1 T-TTA-TTTTTA-TATAATT
766981 GTGATTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 8 0.26
19 7 0.23
20 2 0.06
21 5 0.16
22 9 0.29
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTTATATAATTAT
Found at i:767803 original size:2 final size:2
Alignment explanation
Indices: 767798--767824 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
767788 TGATATATAT
767798 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
767825 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:771948 original size:32 final size:32
Alignment explanation
Indices: 771907--771982 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
771897 CATTTAATAG
771907 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCA
771939 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCA
771971 TGTATCGATACA
1 TGTATCGATACA
771983 AAGATCAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATCTGGGCAAATTTGCCTGCA
Found at i:772006 original size:13 final size:13
Alignment explanation
Indices: 771988--772015 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
771978 ATACAAAGAT
771988 CAATGTATCGATA
1 CAATGTATCGATA
772001 CAATGTATCGATA
1 CAATGTATCGATA
772014 CA
1 CA
772016 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:772095 original size:33 final size:33
Alignment explanation
Indices: 772058--772122 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
772048 TAGCTTAAAA
772058 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
772091 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
772123 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:772096 original size:13 final size:13
Alignment explanation
Indices: 772078--772102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
772068 CAAAAAAATA
772078 TGTATCGATACAT
1 TGTATCGATACAT
772091 TGTATCGATACA
1 TGTATCGATACA
772103 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:774835 original size:5 final size:5
Alignment explanation
Indices: 774819--774864 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
774809 ATTTATACAA
* *
774819 TTTTC TTTT- TTTCTT TTTTC TTTTC TTTTC ATTT- TTTTC TTTTC TT
1 TTTTC TTTTC TTT-TC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
774865 AATATTACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
4 6 0.17
5 26 0.74
6 3 0.09
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:775060 original size:2 final size:2
Alignment explanation
Indices: 775053--775084 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
775043 TAGACAAAAG
775053 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
775085 GTAGGCTTAG
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:776481 original size:14 final size:16
Alignment explanation
Indices: 776462--776493 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
776452 ATTTTAATGT
776462 AAACTAA-AT-AAATA
1 AAACTAATATAAAATA
776476 AAACTAATATAAAATA
1 AAACTAATATAAAATA
776492 AA
1 AA
776494 TTAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (16 bp):
AAACTAATATAAAATA
Found at i:776519 original size:10 final size:10
Alignment explanation
Indices: 776467--776520 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
776457 AATGTAAACT
*
776467 AAATAAATAA
1 AAATAATTAA
*
776477 AACTAA-TATA
1 AAATAATTA-A
776487 AAATAAATTAA
1 AAAT-AATTAA
*
776498 ATATAATTAA
1 AAATAATTAA
776508 AAATAATTAA
1 AAATAATTAA
776518 AAA
1 AAA
776521 CTTCTAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 2 0.05
10 27 0.73
11 6 0.16
12 2 0.05
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATAATTAA
Found at i:779179 original size:23 final size:21
Alignment explanation
Indices: 779136--779184 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
779126 TCATGTGTAC
* *
779136 CTTATTTTTAAATATTTATTA
1 CTTATATTTAAATATTAATTA
*
779157 TTTATATTTAAATAATTAAATTA
1 CTTATATTTAAAT-ATT-AATTA
779180 CTTAT
1 CTTAT
779185 TTAAATTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.50
22 3 0.14
23 8 0.36
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
CTTATATTTAAATATTAATTA
Found at i:779491 original size:106 final size:107
Alignment explanation
Indices: 779349--779606 Score: 242
Period size: 106 Copynumber: 2.4 Consensus size: 107
779339 TAGTATTTAT
* * * * * *
779349 TTAATCAAAATTACATATTTGAATA-AAGAAAGTTTATTAATTTTAAAGT-TGTTTAATATCACG
1 TTAAT-AAAATTATATATTTAAATAGAA-AAATTTTATTAATTTTAAAGTAT-ATGAATATCACA
* * *
779412 TAAACTATAATTTTTTAAT-T-TTTATTATTTTAAATTTAAATTAA
63 TAAACTATAATTTTTAAATATATTTATTAATTTAAATTT-AATAAA
* ** * **
779456 TTAATAAAATTATATATTTAAACAGAAAAATTTTATTAA-CATAAAGTATATGAATATCATATGG
1 TTAATAAAATTATATATTTAAATAGAAAAATTTTATTAATTTTAAAGTATATGAATATCACATAA
* * *
779520 CCTTTTATTTTTAAATATATTTATTAATTTAAATTTAATAAA
66 ACTATAATTTTTAAATATATTTATTAATTTAAATTTAATAAA
* *
779562 TTAATAAAATTATAT-TTTAAATAGGATAACTTTT-TTAATTTTAAA
1 TTAATAAAATTATATATTTAAATA-GAAAAATTTTATTAATTTTAAA
779607 ATTTTAAAAG
Statistics
Matches: 122, Mismatches: 23, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
105 38 0.31
106 61 0.50
107 23 0.19
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (107 bp):
TTAATAAAATTATATATTTAAATAGAAAAATTTTATTAATTTTAAAGTATATGAATATCACATAA
ACTATAATTTTTAAATATATTTATTAATTTAAATTTAATAAA
Found at i:779726 original size:2 final size:2
Alignment explanation
Indices: 779713--779753 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
779703 TGATATTTGC
*
779713 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
779754 CACACACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:780736 original size:2 final size:2
Alignment explanation
Indices: 780729--780754 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
780719 ATGAAGGAAT
780729 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
780755 ATCCAGGTGA
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):
TA
Found at i:783249 original size:20 final size:20
Alignment explanation
Indices: 783206--783253 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
783196 TATGTAATAA
783206 TACATAAA-ATTATTACAAT
1 TACATAAATATTATTACAAT
783225 TACATAAATA-TATTACAAGT
1 TACATAAATATTATTACAA-T
783245 TACATAAAT
1 TACATAAAT
783254 TTTTATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.35
Consensus pattern (20 bp):
TACATAAATATTATTACAAT
Found at i:783330 original size:21 final size:20
Alignment explanation
Indices: 783289--783331 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
783279 TTATCAATAA
*
783289 ATATTATAATTACATATATT
1 ATATTATAATTACATAAATT
* *
783309 ATATTATTGATTACGTAAATT
1 ATATTA-TAATTACATAAATT
783330 AT
1 AT
783332 TATGATTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
ATATTATAATTACATAAATT
Found at i:784130 original size:26 final size:24
Alignment explanation
Indices: 784088--784140 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
784078 ATAATTTTAT
*
784088 TATAAACTAAATAAATAAAATTAA
1 TATAAAATAAATAAATAAAATTAA
*
784112 TATAAAATAAATCAGAATAAATTTAA
1 TATAAAATAAAT-A-AATAAAATTAA
784138 TAT
1 TAT
784141 TATTAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 1 0.04
26 13 0.52
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (24 bp):
TATAAAATAAATAAATAAAATTAA
Found at i:786623 original size:15 final size:15
Alignment explanation
Indices: 786587--786654 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
786577 CTTGAAGTCC
*
786587 TTATTAATTGAAATTT
1 TTATTAATTG-ATTTT
*
786603 CT-TTAATTGATTTT
1 TTATTAATTGATTTT
* *
786617 TTATTAATTCTAAGTTT
1 TTATTAA-T-TGATTTT
786634 TTATTAATT-ATTTCT
1 TTATTAATTGATTT-T
786649 TTATTA
1 TTATTA
786655 TTTTAAGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
14 8 0.19
15 19 0.45
16 3 0.07
17 12 0.29
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (15 bp):
TTATTAATTGATTTT
Found at i:787285 original size:21 final size:20
Alignment explanation
Indices: 787259--787306 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
787249 TAAATATATT
*
787259 TATTACCAAGTTGCATACAAA
1 TATTACCAAGTTACATA-AAA
* *
787280 TATTACAAAGTTATATAAAA
1 TATTACCAAGTTACATAAAA
787300 TATTACC
1 TATTACC
787307 CAAACTGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (20 bp):
TATTACCAAGTTACATAAAA
Found at i:787390 original size:21 final size:22
Alignment explanation
Indices: 787357--787397 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
787347 ATTAAATTTA
787357 ATTTTTACAAAATA-ATTTTTT
1 ATTTTTACAAAATATATTTTTT
**
787378 ATTTTTATTAAATATATTTT
1 ATTTTTACAAAATATATTTT
787398 ATAAGTAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTTTACAAAATATATTTTTT
Found at i:788898 original size:21 final size:22
Alignment explanation
Indices: 788874--788931 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
788864 ATGTAATAAA
*
788874 TTATATAAAAATATTAAC-GAG
1 TTATATAAAAAAATTAACAGAG
* * *
788895 TTATTTATAAACATT-ACAGAG
1 TTATATAAAAAAATTAACAGAG
*
788916 TTACATAAAAAAATTA
1 TTATATAAAAAAATTA
788932 TTAAAAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (22 bp):
TTATATAAAAAAATTAACAGAG
Found at i:790118 original size:16 final size:15
Alignment explanation
Indices: 790087--790133 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
790077 TAAAAGTAGG
790087 ATAAAATAAATTGCA
1 ATAAAATAAATTGCA
*
790102 ATAAAAGTAATTTGCAA
1 ATAAAA-TAAATTGC-A
*
790119 ATAATATAAATTGCA
1 ATAAAATAAATTGCA
790134 TAATAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.26
16 14 0.52
17 6 0.22
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (15 bp):
ATAAAATAAATTGCA
Found at i:795573 original size:13 final size:13
Alignment explanation
Indices: 795555--795580 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
795545 TACACCAAGT
795555 ATGTATCGATACA
1 ATGTATCGATACA
795568 ATGTATCGATACA
1 ATGTATCGATACA
795581 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:795578 original size:32 final size:33
Alignment explanation
Indices: 795537--795600 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
795527 TAGCCAAACT
* **
795537 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
795569 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
795601 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:797834 original size:21 final size:21
Alignment explanation
Indices: 797801--797850 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
797791 TTGCAAGTTG
*
797801 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
797823 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
797844 AAATAAA
1 AAATAAA
797851 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:799668 original size:15 final size:15
Alignment explanation
Indices: 799648--799678 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
799638 TAAAAATGTC
*
799648 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
799663 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
799678 C
1 C
799679 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:801778 original size:13 final size:13
Alignment explanation
Indices: 801760--801797 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
801750 CATTTTTCTT
801760 TGTATCGATACAA
1 TGTATCGATACAA
*
801773 TGTATCGATACAC
1 TGTATCGATACAA
801786 TGTATCGATACA
1 TGTATCGATACA
801798 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:801952 original size:20 final size:20
Alignment explanation
Indices: 801909--801954 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
801899 AAATCTTTTG
801909 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
801930 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
801950 CAAAA
1 CAAAA
801955 CCAGCATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:804363 original size:13 final size:13
Alignment explanation
Indices: 804345--804370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
804335 TACACCAAGT
804345 ATGTATCGATACA
1 ATGTATCGATACA
804358 ATGTATCGATACA
1 ATGTATCGATACA
804371 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:804368 original size:32 final size:33
Alignment explanation
Indices: 804327--804390 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
804317 TAGCCAAACT
* **
804327 TGTATCGATACAC-CAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAATGTATCGATACAA
804359 TGTATCGATACACAAAAAAATGTATCGATACA
1 TGTATCGATACACAAAAAAATGTATCGATACA
804391 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAAAATGTATCGATACAA
Found at i:805252 original size:34 final size:33
Alignment explanation
Indices: 805189--805255 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
805179 GCCAAGGAAA
*
805189 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATTATTCTATGTATCGATACAT
* *
805222 TGTATTGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTATGTATCGATACAT
805256 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATTATTCTATGTATCGATACAT
Found at i:807668 original size:51 final size:53
Alignment explanation
Indices: 807607--807707 Score: 145
Period size: 51 Copynumber: 1.9 Consensus size: 53
807597 CAATTGTTTA
* *
807607 TAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAATTTTCCTT
807659 TAATC-GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTT
807708 TCACAAGCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
51 24 0.55
52 6 0.14
53 14 0.32
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (53 bp):
TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCCTT
Found at i:807847 original size:51 final size:50
Alignment explanation
Indices: 807772--807942 Score: 200
Period size: 51 Copynumber: 3.3 Consensus size: 50
807762 TTACCTCCGA
* * *
807772 GGGGATACTCCAACCTCGGCTTTATTTCCAAAATATCAA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAA-AACAATTTTC-CATAATC
* * * *
807823 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAAAC-AATTTTCCATAATC
* * *
807874 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAAACCAATTTTCCTTTCATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAAA-CAATTTTCC-ATAATC
807926 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
807943 ATTACCTCCG
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.01
51 76 0.75
52 25 0.25
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAAAACAATTTTCCATAATC
Found at i:807994 original size:130 final size:130
Alignment explanation
Indices: 807823--808071 Score: 328
Period size: 130 Copynumber: 1.9 Consensus size: 130
807813 TCTCATAATC
* *
807823 GGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTT-TCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATCTCCAAAACACTAATTTCT-CACAATCGGGGATACTCCAA
* *
807887 CCCCGGTTTTATTTTCAAAAA-ACCAATTTTCCTTTC-ATCGGGGATACTCCAACCCCATTACCT
65 CCCCGGTTTTA-TCTCAAAAACACCAATTTT-C-TACAATCGGGGATACTCCAACCCCATTACCT
807950 CCGA
127 CCGA
* * * *
807954 GGGGATAGTCCAA-CCCGGCTTTATTTCCAAAATA-TCAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATCTCCAAAACACT-AATTTCTCACAATCGGGGATACTCCAA
* *
808017 CCCCGGTTTTATCTCAAAAACACTAATTTTCTACAATCGGGGATACTCTAACCCC
65 CCCCGGTTTTATCTCAAAAACACCAATTTTCTACAATCGGGGATACTCCAACCCC
808072 GGTTTTATTT
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
128 2 0.02
129 29 0.28
130 60 0.58
131 13 0.12
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGGCTTTATCTCCAAAACACTAATTTCTCACAATCGGGGATACTCCAAC
CCCGGTTTTATCTCAAAAACACCAATTTTCTACAATCGGGGATACTCCAACCCCATTACCTCCGA
Found at i:808016 original size:50 final size:50
Alignment explanation
Indices: 807954--808123 Score: 191
Period size: 51 Copynumber: 3.3 Consensus size: 50
807944 TTACCTCCGA
* * *
807954 GGGGATAGTCCAA-CCCGGCTTTATTTCCAAAATATCAA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-CAATTTTCT-ATAATC
* * *
808004 GGGGATACTCCAACCCCGGTTTTATCTCAAAAACACTAATTTTCTACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACAC-AATTTTCTATAATC
* * * *
808055 GGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTCATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-CAATTTT-CTATAATC
808107 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
808124 ATTACCTCCG
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
50 13 0.13
51 61 0.60
52 27 0.27
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACAATTTTCTATAATC
Found at i:808254 original size:182 final size:182
Alignment explanation
Indices: 807737--808567 Score: 1378
Period size: 182 Copynumber: 4.6 Consensus size: 182
807727 AACCTCGTTA
*
807737 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTTCCA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
807802 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTC
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTC
*
807867 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAAAACCAATTTTCC
131 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
*
807919 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATAGTCCAA-CCCGGCTTTATTTCCA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
*
807983 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCAAAAACACTAATTTTC
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTC
* *
808048 TACAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
131 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
808100 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
* * *
808165 AAATATCAATTTCTAATAATCGGGGATCCTTCAACCCCGGTTTTATCTCTAAAACACTAATTTTC
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTC
* **
808230 CACAGTCGCTGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
131 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
* * * * **
808282 TTTTATCAGGGATACTCCAACCCCATTGCCTCCGAGGGAATACTTTAACCCCGGCTTTATTTCCA
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
* *
808347 AAATATCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTT
66 AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTC
808412 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
131 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
* * ** **
808464 TTTCATCGGGGATACTCCAATCCCGTTATTTTTGAGGGGATACTCCAACCCTCGGCTTTA-TTCC
1 TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCC-CGGCTTTATTTCC
**
808528 TAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCC
65 -AAAATATCAATTTCTCATAATCGGGGATACTCCAACCCC
808568 ATTATTTTCG
Statistics
Matches: 601, Mismatches: 45, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
181 175 0.29
182 382 0.64
183 44 0.07
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (182 bp):
TTTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
AAATATCAATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATCTCTAAAACACTAATTTTC
CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
Found at i:808383 original size:51 final size:50
Alignment explanation
Indices: 808328--808488 Score: 196
Period size: 51 Copynumber: 3.1 Consensus size: 50
808318 GGAATACTTT
* *
808328 AACCCCGGCTTTATTTCCAAAATATCAATTTTTCATAATCGGGGATACTCC
1 AACCCCGGTTTTATTTCCAAAACA-CAATTTTTCATAATCGGGGATACTCC
* * *
808379 AACCCCGGTTTTATCTCTAAAACACTAATTTTTCACAATCGGGGATACTCC
1 AACCCCGGTTTTATTTCCAAAACAC-AATTTTTCATAATCGGGGATACTCC
* * * *
808430 AACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTCATCGGGGATACTCC
1 AACCCCGGTTTTATTTCCAAAACA-CAATTTTTC-ATAATCGGGGATACTCC
*
808482 AATCCCG
1 AACCCCG
808489 TTATTTTTGA
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 72 0.77
52 21 0.22
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (50 bp):
AACCCCGGTTTTATTTCCAAAACACAATTTTTCATAATCGGGGATACTCC
Found at i:808652 original size:79 final size:78
Alignment explanation
Indices: 808419--808761 Score: 332
Period size: 79 Copynumber: 4.3 Consensus size: 78
808409 TTTCACAATC
* * * *
808419 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTCATCGGGGATACTCCA
1 GGGGATACTCCAACCCC-GTTTTATTTCT-AAAACATCAATTTTTC-ATAATCGGGGATACTCCA
* **
808483 ATCCCGTTATTTTTGA
63 ACCCCGTTATTTTCAA
* * * ** *
808499 GGGGATACTCCAACCCTCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCC-C-GTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
* *
808564 CCCCATTATTTTCGA
64 CCCCGTTATTTTCAA
* ** *
808579 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGAATACTTTAAT
1 GGGGATACTCCAACCCC-GTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
808644 CCCGTTATTTCCAA
65 CCCGTTATTTTCAA
* * * * * *
808658 GGGGATACTCCAATCCCGATTTCATTTCCT-AATCATCGATTTTTCACT-ACCGGGGATACTTCA
1 GGGGATACTCCAACCCCG-TTTTATTT-CTAAAACATCAATTTTTCA-TAATCGGGGATACTCCA
*
808721 ACCCCGTTATTTTTAA
63 ACCCCGTTATTTTCAA
808737 GGGGATACTCCAACCCCGTTATTAT
1 GGGGATACTCCAACCCCGTT-TTAT
808762 CTCAAAAATT
Statistics
Matches: 218, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
78 3 0.01
79 131 0.60
80 64 0.29
81 19 0.09
82 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCAA
Found at i:812134 original size:16 final size:16
Alignment explanation
Indices: 812115--812185 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
812105 CAGTCAAAGC
812115 ATTATTCTGCTATAGT
1 ATTATTCTGCTATAGT
* **
812131 ATTATTATAGCTAGGGT
1 ATTATTCT-GCTATAGT
* * * *
812148 ATTATCCATTC-AAAGC
1 ATTATTC-TGCTATAGT
812164 ATTATTCTGCTATAGT
1 ATTATTCTGCTATAGT
812180 ATTATT
1 ATTATT
812186 TTATCTTTTG
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
15 2 0.05
16 24 0.62
17 12 0.31
18 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (16 bp):
ATTATTCTGCTATAGT
Found at i:812161 original size:49 final size:49
Alignment explanation
Indices: 812088--812185 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
812078 ACTCATTCGC
812088 ATAGCTAGGGTATTATCCAGTCAAAGCATTATTCTGCTATAGTATTATT
1 ATAGCTAGGGTATTATCCAGTCAAAGCATTATTCTGCTATAGTATTATT
*
812137 ATAGCTAGGGTATTATCCATTCAAAGCATTATTCTGCTATAGTATTATT
1 ATAGCTAGGGTATTATCCAGTCAAAGCATTATTCTGCTATAGTATTATT
812186 TTATCTTTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (49 bp):
ATAGCTAGGGTATTATCCAGTCAAAGCATTATTCTGCTATAGTATTATT
Found at i:814894 original size:2 final size:2
Alignment explanation
Indices: 814887--814919 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
814877 CCTTACACAT
814887 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
814920 ATTAAAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:815978 original size:2 final size:2
Alignment explanation
Indices: 815971--816003 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
815961 TCTTAATCAG
815971 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
816004 TGCTGTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:816061 original size:2 final size:2
Alignment explanation
Indices: 816054--816114 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
816044 TTATGAAACA
*
816054 TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
816096 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
816115 TGGTTCCCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:817292 original size:22 final size:22
Alignment explanation
Indices: 817264--817324 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
817254 TATACACACA
* *
817264 CACACACTCACACACACATAGC
1 CACACACACACACACACAGAGC
*
817286 CACACACACACACACACAGAGG
1 CACACACACACACACACAGAGC
* *
817308 CACACATACAGACACAC
1 CACACACACACACACAC
817325 GCATATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.44, C:0.43, G:0.08, T:0.05
Consensus pattern (22 bp):
CACACACACACACACACAGAGC
Found at i:817311 original size:12 final size:11
Alignment explanation
Indices: 817257--817324 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 11
817247 TTATATCTAT
817257 ACACACA-CAC
1 ACACACAGCAC
*
817267 ACACTCA-CAC
1 ACACACAGCAC
*
817277 ACACATAGCCAC
1 ACACACAG-CAC
817289 ACACACA-CAC
1 ACACACAGCAC
*
817299 ACACAGAGGCAC
1 ACACACA-GCAC
*
817311 ACATACAG-AC
1 ACACACAGCAC
817321 ACAC
1 ACAC
817325 GCATATATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
10 28 0.61
11 1 0.02
12 17 0.37
ACGTcount: A:0.46, C:0.43, G:0.07, T:0.04
Consensus pattern (11 bp):
ACACACAGCAC
Found at i:817313 original size:2 final size:2
Alignment explanation
Indices: 817257--817303 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
817247 TTATATCTAT
* *
817257 AC AC AC AC AC AC AC TC AC AC AC AC AT AGC -C AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A-C AC AC AC AC AC AC AC
817299 AC AC A
1 AC AC A
817304 GAGGCACACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.47, C:0.47, G:0.02, T:0.04
Consensus pattern (2 bp):
AC
Found at i:820911 original size:51 final size:51
Alignment explanation
Indices: 820782--820933 Score: 240
Period size: 51 Copynumber: 3.0 Consensus size: 51
820772 ATATCTAAAG
*
820782 TGCCATTTTAAATAA-TTTTTATTAT-AATATTAATAGGATTTATCAAATT
1 TGCCAATTTAAATAATTTTTTATTATAAATATTAATAGGATTTATCAAATT
*
820831 TTCC-ATTTAAATAATTTTTTATTATAAATATTAAT-GGTATTTATCAAATT
1 TGCCAATTTAAATAATTTTTTATTATAAATATTAATAGG-ATTTATCAAATT
*
820881 TGCCAATTTAAATAATTTTTTATTATAAATATTAATAGGATTTATCCAATT
1 TGCCAATTTAAATAATTTTTTATTATAAATATTAATAGGATTTATCAAATT
820932 TG
1 TG
820934 TAAATAAGAA
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
48 9 0.10
49 15 0.16
50 24 0.26
51 44 0.47
52 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (51 bp):
TGCCAATTTAAATAATTTTTTATTATAAATATTAATAGGATTTATCAAATT
Found at i:834565 original size:15 final size:15
Alignment explanation
Indices: 834545--834577 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
834535 TGTTCTGACC
834545 AATGGCTTGAATAGT
1 AATGGCTTGAATAGT
834560 AATGGCTTGAATAGT
1 AATGGCTTGAATAGT
834575 AAT
1 AAT
834578 ATGTTTCAAG
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:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (15 bp):
AATGGCTTGAATAGT
Found at i:834685 original size:9 final size:9
Alignment explanation
Indices: 834671--834712 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
834661 TATCTTTGTA
834671 TGTTAGGTG
1 TGTTAGGTG
*
834680 TGTTAGATG
1 TGTTAGGTG
834689 -G-T-GGTG
1 TGTTAGGTG
834695 TGTTAGGTG
1 TGTTAGGTG
834704 TGTTAGGTG
1 TGTTAGGTG
834713 AGAATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 3 0.11
7 2 0.07
8 2 0.07
9 21 0.75
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.43
Consensus pattern (9 bp):
TGTTAGGTG
Found at i:834731 original size:12 final size:12
Alignment explanation
Indices: 834714--834738 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
834704 TGTTAGGTGA
834714 GAATATTAAGTG
1 GAATATTAAGTG
834726 GAATATTAAGTG
1 GAATATTAAGTG
834738 G
1 G
834739 TGCATTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (12 bp):
GAATATTAAGTG
Found at i:837816 original size:33 final size:33
Alignment explanation
Indices: 837740--837816 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
837730 GGTTTAGGTT
*
837740 TTAAGTTTTAGGGTTTTGAATTATAAATTAAGA
1 TTAAGCTTTAGGGTTTTGAATTATAAATTAAGA
** * *
837773 TTTGGGTTTAGGGTTTTGAATTA-ACATATAAGA
1 TTAAGCTTTAGGGTTTTGAATTATAAAT-TAAGA
837806 TTAAGCTTTAG
1 TTAAGCTTTAG
837817 AGTATTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 3 0.08
33 33 0.92
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (33 bp):
TTAAGCTTTAGGGTTTTGAATTATAAATTAAGA
Found at i:837883 original size:21 final size:21
Alignment explanation
Indices: 837834--837890 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
837824 ATATAATTGT
* *
837834 TTAA-GTTTTAAGGTTTAGGA
1 TTAATGTTTTAAGGTTTTGAA
*
837854 TT-TTGGTTTTAAGGTTTTGAA
1 TTAAT-GTTTTAAGGTTTTGAA
837875 TTAATG-TTT-AGGTTTT
1 TTAATGTTTTAAGGTTTT
837891 TAAGGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 7 0.23
20 5 0.17
21 17 0.57
22 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (21 bp):
TTAATGTTTTAAGGTTTTGAA
Found at i:837911 original size:28 final size:27
Alignment explanation
Indices: 837833--837914 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 27
837823 TATATAATTG
* *
837833 TTTAA-GTTTTAAGGTTTAGGATTTTGGT
1 TTTAAGGTTTTAA--TTTAGGGTTTAGGT
**
837861 TTTAAGGTTTTGAA-TTAATGTTTAGGTT
1 TTTAAGGTTTT-AATTTAGGGTTTAGG-T
837889 TTTAAGGTTTTAATTTAGGGTTTAGG
1 TTTAAGGTTTTAATTTAGGGTTTAGG
837915 ATTGAGGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 10 0.23
28 27 0.61
29 5 0.11
30 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.52
Consensus pattern (27 bp):
TTTAAGGTTTTAATTTAGGGTTTAGGT
Found at i:838361 original size:13 final size:14
Alignment explanation
Indices: 838345--838397 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
838335 TTTTGGATAG
838345 AGTTTA-GGTTTTA
1 AGTTTAGGGTTTTA
838358 AGTTTTAGGGTTTTGA
1 AG-TTTAGGGTTTT-A
838374 A--TTAGGG-TTTA
1 AGTTTAGGGTTTTA
*
838385 AGATTAGGGTTTT
1 AGTTTAGGGTTTT
838398 GAATTAGGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
11 2 0.06
12 3 0.09
13 14 0.41
14 7 0.21
15 6 0.18
16 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
AGTTTAGGGTTTTA
Found at i:838398 original size:26 final size:27
Alignment explanation
Indices: 838348--838408 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 27
838338 TGGATAGAGT
* *
838348 TTAGGTTTTAAGTTTTAGGGTTTTGAA
1 TTAGGGTTTAAGTATTAGGGTTTTGAA
838375 TTAGGGTTTAAG-ATTAGGGTTTTGAA
1 TTAGGGTTTAAGTATTAGGGTTTTGAA
838401 TTAGGGTT
1 TTAGGGTT
838409 GGGGATTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.48
Consensus pattern (27 bp):
TTAGGGTTTAAGTATTAGGGTTTTGAA
Found at i:838403 original size:13 final size:13
Alignment explanation
Indices: 838362--838408 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
838352 GTTTTAAGTT
838362 TTAGGGTTTTGAA
1 TTAGGGTTTTGAA
*
838375 TTAGGG-TTTAAGA
1 TTAGGGTTTTGA-A
838388 TTAGGGTTTTGAA
1 TTAGGGTTTTGAA
838401 TTAGGGTT
1 TTAGGGTT
838409 GGGGATTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 4 0.13
13 22 0.73
14 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (13 bp):
TTAGGGTTTTGAA
Found at i:838685 original size:48 final size:48
Alignment explanation
Indices: 838633--838731 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
838623 TGGTTTAAAT
* * *
838633 TTTTAGGGTTTTGGATTAAGGTTTAAGG-TGTT-GGGTTTTGAATTAGTG
1 TTTTAGGGTTTTGAATTAA-GTTT-AGGTTGTTAAGGTTTTGAATTAGGG
*
838681 TTTTAGGGTTTTGAATTAAGTTTAGGTTTTTAAGGTTTTGAATTAGGG
1 TTTTAGGGTTTTGAATTAAGTTTAGGTTGTTAAGGTTTTGAATTAGGG
838729 TTT
1 TTT
838732 AAGATCAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
46 3 0.07
47 7 0.16
48 35 0.78
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (48 bp):
TTTTAGGGTTTTGAATTAAGTTTAGGTTGTTAAGGTTTTGAATTAGGG
Found at i:838711 original size:19 final size:21
Alignment explanation
Indices: 838665--838711 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
838655 TTAAGGTGTT
*
838665 GGGTTTTGAATTAGTGTTTTA
1 GGGTTTTGAATTAGAGTTTTA
838686 GGGTTTTGAATTA-AG-TTTA
1 GGGTTTTGAATTAGAGTTTTA
*
838705 GGTTTTT
1 GGGTTTT
838712 AAGGTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 1 0.04
21 13 0.54
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (21 bp):
GGGTTTTGAATTAGAGTTTTA
Found at i:848833 original size:13 final size:13
Alignment explanation
Indices: 848815--848841 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
848805 ACATTATGCT
848815 TTGTATCGATACA
1 TTGTATCGATACA
848828 TTGTATCGATACA
1 TTGTATCGATACA
848841 T
1 T
848842 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:848871 original size:20 final size:19
Alignment explanation
Indices: 848825--848881 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
848815 TTGTATCGAT
*
848825 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
848844 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
848863 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
848882 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:848935 original size:20 final size:19
Alignment explanation
Indices: 848910--848963 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
848900 CTACCACTGT
848910 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
848930 TTGTATAGATACATGATGAA
1 TTGTATCGATACATGA-GAA
848950 TTGTATCGATACAT
1 TTGTATCGATACAT
848964 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:850408 original size:21 final size:21
Alignment explanation
Indices: 850361--850408 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
850351 AAATTTCTAG
850361 AAGAAAAGAAAAGAAAAAGTA
1 AAGAAAAGAAAAGAAAAAGTA
*
850382 AGGAAAA-ACAAAG-AAAAGCTA
1 AAGAAAAGA-AAAGAAAAAG-TA
850403 AAGAAA
1 AAGAAA
850409 GATAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (21 bp):
AAGAAAAGAAAAGAAAAAGTA
Found at i:850986 original size:20 final size:20
Alignment explanation
Indices: 850961--851035 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
850951 TTTTCACAAT
850961 TTGTATCGATACATTGTT-CA
1 TTGTATCGATACATT-TTACA
**
850981 TTGTATCGATACATTTTGTA
1 TTGTATCGATACATTTTACA
851001 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTTTACA
* *
851021 ATGTATGGATACATT
1 TTGTATCGATACATT
851036 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
19 2 0.04
20 47 0.96
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTTTACA
Found at i:853396 original size:51 final size:51
Alignment explanation
Indices: 853329--853926 Score: 211
Period size: 51 Copynumber: 11.5 Consensus size: 51
853319 AAATTTCTAG
* * *
853329 ATTTTTCAT-CTCGGGGATACTCCAA-TCCCGGTTCTATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCA
* * * *
853379 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
** ** *
853430 ATTTACCGCAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* * * *
853481 ATTTTTCATAATTGGGGATACTACAAC-CC--TGTTATTTCATCGAGAACACTCCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTC--C-AAAACA-T-CA
* * ** * * * *
853534 ACCCCGTTATTT-TTGA--GGGGATACTCCAAC-CTCGGCTTTATATCTAAAAATATTGA
1 A-----TT-TTTCATAATCGGGGATACTCCAACTC-CGATTTTATTTC-CAAAACA-TCA
* * * * * * ** *
853590 TTTTTTTATAATCGGGGGTACTCTAACCCCGTTATTTCA-TTGGAGATAC-TCCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCG--ATTTTATTTCCA-AAACAT-CA
** ** * * * *
853643 ATCCCGTT-ATTTTCGAGGGGATACTCCAAC-CTTGATTTTATTTCTAAAATACCA
1 AT--TTTTCATAATC--GGGGATACTCCAACTC-CGATTTTATTTCCAAAACATCA
* * * *
853697 ATTTTTCACAATCGGGGATACTCAAACTCCGATTTTATTTCCAAAATATTA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* * ** * * * *
853748 ATTTCTCATAATC-GAGATACTTTAAC-CTCGACTTTATTTCTAAATCATCG
1 ATTTTTCATAATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAACATCA
* ** * * * **
853798 ATTTTTCACAATCAAGGTTACTCCAACTCTGATTTTATTTCCAAAATATTG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* * * *** * * *
853849 ATTTCTCATAATCGAGGATACTTCAAC-CCTGGCCTTATTTCTAAATCATCG
1 ATTTTTCATAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACATCA
*
853900 ATTTTTCACAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
853927 CTTGTTTTTT
Statistics
Matches: 397, Mismatches: 114, Indels: 73
0.68 0.20 0.12
Matches are distributed among these distances:
48 8 0.02
49 1 0.00
50 52 0.13
51 231 0.58
52 6 0.02
53 23 0.06
54 19 0.05
55 9 0.02
56 28 0.07
57 6 0.02
58 5 0.01
59 9 0.02
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
Found at i:853683 original size:109 final size:109
Alignment explanation
Indices: 853482--853718 Score: 284
Period size: 109 Copynumber: 2.2 Consensus size: 109
853472 AAAACACCAA
* *
853482 TTTTTCATAATTGGGGATACTACAACCCTGTTATTTCATCGAGAACACTCCAACCCCGTTATTTT
1 TTTTTCATAATCGGGGATACTACAACCCCGTTATTTCATCGAGAACACTCCAACCCCGTTATTTT
* *
853547 TGAGGGGATACTCCAACCTCGGCTTTATATCTAAAAATATTGAT
66 CGAGGGGATACTCCAACCTCGACTTTATATCTAAAAATATTGAT
* * * * *
853591 TTTTTTATAATCGGGGGTACT-CTAACCCCGTTATTTCATTG-GAGATACTCCAATCCCGTTATT
1 TTTTTCATAATCGGGGATACTAC-AACCCCGTTATTTCATCGAGA-ACACTCCAACCCCGTTATT
* * * ** *
853654 TTCGAGGGGATACTCCAACCTTGATTTTATTTCT-AAAATA-CCAA
64 TTCGAGGGGATACTCCAACCTCGACTTTATATCTAAAAATATTGAT
*
853698 TTTTTCACAATCGGGGATACT
1 TTTTTCATAATCGGGGATACT
853719 CAAACTCCGA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
107 19 0.18
108 9 0.08
109 80 0.74
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (109 bp):
TTTTTCATAATCGGGGATACTACAACCCCGTTATTTCATCGAGAACACTCCAACCCCGTTATTTT
CGAGGGGATACTCCAACCTCGACTTTATATCTAAAAATATTGAT
Found at i:853786 original size:101 final size:102
Alignment explanation
Indices: 853661--853922 Score: 359
Period size: 101 Copynumber: 2.6 Consensus size: 102
853651 ATTTTCGAGG
* * * * *
853661 GGATACTCCAACCTTGATTTTATTTCTAAAAT-ACCAATTTTTCACAATCGGGGATACTCAAACT
1 GGATACTTCAACCTCGACTTTATTTCT-AAATCATCGATTTTTCACAATCGGGGATACTCAAACT
853725 CCGATTTTATTTCCAAAATATTAATTTCTCATAATCGA
65 CCGATTTTATTTCCAAAATATTAATTTCTCATAATCGA
* ** * *
853763 -GATACTTTAACCTCGACTTTATTTCTAAATCATCGATTTTTCACAATCAAGGTTACTCCAACTC
1 GGATACTTCAACCTCGACTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCAAACTC
* *
853827 TGATTTTATTTCCAAAATATTGATTTCTCATAATCGA
66 CGATTTTATTTCCAAAATATTAATTTCTCATAATCGA
* *
853864 GGATACTTCAACC-CTGGCCTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTC
1 GGATACTTCAACCTC-GACTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTC
853923 CAACCTTGTT
Statistics
Matches: 139, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
100 4 0.03
101 85 0.61
102 50 0.36
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (102 bp):
GGATACTTCAACCTCGACTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCAAACTC
CGATTTTATTTCCAAAATATTAATTTCTCATAATCGA
Found at i:866501 original size:14 final size:14
Alignment explanation
Indices: 866482--866519 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
866472 ATTCTTTTAA
866482 AAAAAAACAACAAC
1 AAAAAAACAACAAC
*
866496 AAAAAAAAAACAAC
1 AAAAAAACAACAAC
866510 AAAAAAACAA
1 AAAAAAACAA
866520 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAACAAC
Found at i:866502 original size:17 final size:16
Alignment explanation
Indices: 866480--866522 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
866470 ACATTCTTTT
866480 AAAAAAAAACAACAACA
1 AAAAAAAAACAACAA-A
866497 AAAAAAAAACAACAAA
1 AAAAAAAAACAACAAA
866513 AAAACAAAAA
1 AAAA-AAAAA
866523 AGAAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAACAAA
Found at i:867679 original size:55 final size:54
Alignment explanation
Indices: 867614--867911 Score: 393
Period size: 55 Copynumber: 5.4 Consensus size: 54
867604 CTCCTTTCAC
867614 CCTTT-AGTCCTCAAAGAGTCAGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAG-CAGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
867668 CCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCA-GATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* **
867723 TTTCTTT-AGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --CCTTTCAGTCCTCAAAGAGC-AGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
867779 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCA-GATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * * *
867834 TTTTTTTAGTCCTCAAAGAGCAGCATGACTTTTAAAGTCCATACAAGTTGGTGGCA
1 -CCTTTCAGTCCTCAAAGAGCAG-ATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
867890 CCTTCCAGTCCTCAAAGAGCAG
1 CCTTTCAGTCCTCAAAGAGCAG
867912 GACGTCTTTC
Statistics
Matches: 216, Mismatches: 19, Indels: 17
0.86 0.08 0.07
Matches are distributed among these distances:
54 11 0.05
55 111 0.51
56 89 0.41
57 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (54 bp):
CCTTTCAGTCCTCAAAGAGCAGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:867760 original size:56 final size:54
Alignment explanation
Indices: 867614--867966 Score: 368
Period size: 55 Copynumber: 6.3 Consensus size: 54
867604 CTCCTTTCAC
*
867614 CCTTTAGTCCTCAAAGAGTC-AGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAG-CAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
867668 CCTTTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
867723 TTTCTTTAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --CCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
867779 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * * *
867834 TTTTTTTAGTCCTCAAAGAGC-AGCATGACTTTTAAAGTCCATACAAGTTGGTGGCA
1 --CCTTTAGTCCTCAAAGAGCAAG-ACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
867890 CCTTCCAGTCCTCAAAGAGCAGGACGTCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGTA
1 CCTT-TAGTCCTCAAAGAGCAAGACG-----CC-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
867951 CTTTTTAGTGCTCAAA
1 C-CTTTAGTCCTCAAA
867967 AAGTAGGACG
Statistics
Matches: 250, Mismatches: 32, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
54 11 0.04
55 110 0.44
56 87 0.35
57 7 0.03
60 1 0.00
61 32 0.13
62 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:867781 original size:29 final size:29
Alignment explanation
Indices: 867748--867833 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
867738 AAGAGCAAGA
867748 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
* * * **
867777 CACCTTTC--AGTCCTCA-AAG-AGCAGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
*
867802 ACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 -CACCTTTCAAAGCCCACACAAGTTGGTGG
867832 CA
1 CA
867834 TTTTTTTAGT
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.08
26 10 0.25
27 6 0.15
28 6 0.15
29 12 0.30
30 3 0.08
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:867809 original size:111 final size:110
Alignment explanation
Indices: 867615--867966 Score: 474
Period size: 111 Copynumber: 3.1 Consensus size: 110
867605 TCCTTTCACC
**
867615 CTTTAGTCCTCAAAGAGTCAGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
1 CTTTAGTCCTCAAAGAG-CAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* *
867680 CAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
65 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
867726 CTTTAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
1 CTTTAGTCCTCAAAGAGC-AGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
867791 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
65 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* * * * * *
867837 TTTTAGTCCTCAAAGAGCAG-CATGACTTTTAAAGTCCATACAAGTTGGTGGCACCTTCCAGTCC
1 CTTTAGTCCTCAAAGAGCAGACA--CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * *
867901 TCAAAGAGCAGGACGTCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGTACTT
64 TCAAAGAGCAGGACG-----CC-TTTCAAAGCCCACACAAGTTGGTGGCATTT
*
867954 -TTTAGTGCTCAAA
1 CTTTAGTCCTCAAA
867967 AAGTAGGACG
Statistics
Matches: 218, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
109 2 0.01
110 3 0.01
111 172 0.79
116 14 0.06
117 27 0.12
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (110 bp):
CTTTAGTCCTCAAAGAGCAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
Found at i:868023 original size:42 final size:42
Alignment explanation
Indices: 867961--868146 Score: 160
Period size: 42 Copynumber: 4.3 Consensus size: 42
867951 CTTTTTAGTG
867961 CTCAAAAAGTAGGACGCACTTTATTTTCCTCTTTCCTTTGTC
1 CTCAAAAAGTAGGACGCACTTTATTTTCCTCTTTCCTTTGTC
* * * *
868003 CTCAAAAAATAGGACACACTTCA-TTCCCTTCTTTTCTCTTTTGTC
1 CTCAAAAAGTAGGACGCACTTTATTTTCC-TC-TTTC-C-TTTGTC
* * * * *
868048 CTCAAAGAGCAGGACGTACTTTATTTTCCTCTTTCTTTTATC
1 CTCAAAAAGTAGGACGCACTTTATTTTCCTCTTTCCTTTGTC
* * * * * *
868090 CTCGAAGAGCAGGACGCA-TTTCGTTTTCCTTTTTTCCTTTATC
1 CTCAAAAAGTAGGACGCACTTT-ATTTTCC-TCTTTCCTTTGTC
*
868133 CTCGAAAAGTAGGA
1 CTCAAAAAGTAGGA
868147 GGTACTCTTT
Statistics
Matches: 117, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
41 7 0.06
42 49 0.42
43 27 0.23
44 5 0.04
45 25 0.21
46 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (42 bp):
CTCAAAAAGTAGGACGCACTTTATTTTCCTCTTTCCTTTGTC
Found at i:868197 original size:41 final size:41
Alignment explanation
Indices: 868151--868253 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
868141 GTAGGAGGTA
* *
868151 CTCTTTTTCACTTTGTCCTCAAGAAGCAGGACAT-TTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACATATTTCATT
* * *
868192 TTCTTTTTTCCTTTGTCCTCAAGGAGCAAGACCTATTTCATT
1 CTC-TTTTTCCTTTGTCCTCAAGAAGCAAGACATATTTCATT
868234 CTC-TTTTCCTTTGTCCTCAA
1 CTCTTTTTCCTTTGTCCTCAA
868254 AAAGTGGGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 17 0.31
41 23 0.43
42 14 0.26
ACGTcount: A:0.17, C:0.27, G:0.11, T:0.45
Consensus pattern (41 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACATATTTCATT
Found at i:868865 original size:20 final size:20
Alignment explanation
Indices: 868840--868944 Score: 91
Period size: 20 Copynumber: 5.6 Consensus size: 20
868830 TCACAATTTA
*
868840 TATCGACACATTGTTCATTG
1 TATCGATACATTGTTCATTG
*
868860 TATCGATAAATTGTTCATTG
1 TATCGATACATTGTTCATTG
868880 TATCGAT--A-----CATTG
1 TATCGATACATTGTTCATTG
*
868893 TATCGATACATTGCTCATTG
1 TATCGATACATTGTTCATTG
* *
868913 TATCAATACATT-TTACAATG
1 TATCGATACATTGTT-CATTG
*
868933 TATCGTTACATT
1 TATCGATACATT
868945 CAGGCATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
13 12 0.17
15 1 0.01
18 1 0.01
19 1 0.01
20 55 0.79
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTGTTCATTG
Found at i:868897 original size:33 final size:33
Alignment explanation
Indices: 868855--868924 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
868845 ACACATTGTT
* *
868855 CATTGTATCGATAAATTGTTCATTGTATCGATA
1 CATTGTATCGATAAATTGCTCATTGTATCAATA
*
868888 CATTGTATCGATACATTGCTCATTGTATCAATA
1 CATTGTATCGATAAATTGCTCATTGTATCAATA
868921 CATT
1 CATT
868925 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATAAATTGCTCATTGTATCAATA
Found at i:868904 original size:53 final size:53
Alignment explanation
Indices: 868840--868944 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
868830 TCACAATTTA
* * *
868840 TATCGACACATTGTTCATTGTATCGATAAATTGTT-CATTGTATCGATACATTG
1 TATCGACACATTGCTCATTGTATCAATAAATT-TTACAATGTATCGATACATTG
* * *
868893 TATCGATACATTGCTCATTGTATCAATACATTTTACAATGTATCGTTACATT
1 TATCGACACATTGCTCATTGTATCAATAAATTTTACAATGTATCGATACATT
868945 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.04
53 43 0.96
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (53 bp):
TATCGACACATTGCTCATTGTATCAATAAATTTTACAATGTATCGATACATTG
Found at i:868924 original size:13 final size:13
Alignment explanation
Indices: 868875--868905 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
868865 ATAAATTGTT
868875 CATTGTATCGATA
1 CATTGTATCGATA
868888 CATTGTATCGATA
1 CATTGTATCGATA
868901 CATTG
1 CATTG
868906 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:871467 original size:28 final size:27
Alignment explanation
Indices: 871420--871479 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 27
871410 GGATACTACC
871420 ACCCCGTTATTTCATTGGGGACACTCCA
1 ACCCCGTTATTTCA-TGGGGACACTCCA
*
871448 ACCCCGTTATTTTCGA-GGGGATACTCCA
1 ACCCCGTTA-TTTC-ATGGGGACACTCCA
871476 ACCC
1 ACCC
871480 GACTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 24 0.83
29 4 0.14
30 1 0.03
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (27 bp):
ACCCCGTTATTTCATGGGGACACTCCA
Found at i:871637 original size:51 final size:50
Alignment explanation
Indices: 871582--871763 Score: 195
Period size: 51 Copynumber: 3.6 Consensus size: 50
871572 CCAAAATATT
*
871582 GATTTGTCATAATCGGGGATACTTCAACCCCGGCCTTATTTCTAAATCATC
1 GATTT-TCATAATCGGGGATACTCCAACCCCGGCCTTATTTCTAAATCATC
* * *** * *
871633 GATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAT-ATT
1 GATTTT-CATAATCGGGGATACTCCAACCCCGGCCTTA-TTTCTAAATCATC
* * * *
871684 GATTTCTCATAATCAGAGATATTTCAACCCCGGCCTTATTTCTAAATCATC
1 GATTT-TCATAATCGGGGATACTCCAACCCCGGCCTTATTTCTAAATCATC
*
871735 TATTTTTCATAATCGGGGATACTCCAACC
1 GA-TTTTCATAATCGGGGATACTCCAACC
871764 TCGTTATTTT
Statistics
Matches: 102, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
50 9 0.09
51 81 0.79
52 12 0.12
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (50 bp):
GATTTTCATAATCGGGGATACTCCAACCCCGGCCTTATTTCTAAATCATC
Found at i:871725 original size:102 final size:102
Alignment explanation
Indices: 871541--871762 Score: 336
Period size: 102 Copynumber: 2.2 Consensus size: 102
871531 CCGTTATTTC
* * * * * *
871541 ATCGGGGAATACTCAAACTTCGATTTTGTTTCCAAAATATTGATTTGTCATAATCGGGGATACTT
1 ATCGGGG-ATACTCCAACTCCGATTTTATTTCCAAAATATTGATTTCTCATAATCAGAGATACTT
871606 CAACCCCGGCCTTATTTCTAAATCATCGATTTTCCACA
65 CAACCCCGGCCTTATTTCTAAATCATCGATTTTCCACA
* *
871644 ATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATATTGATTTCTCATAATCAGAGATATTTC
1 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATATTGATTTCTCATAATCAGAGATACTTC
* * *
871709 AACCCCGGCCTTATTTCTAAATCATCTATTTTTCATA
66 AACCCCGGCCTTATTTCTAAATCATCGATTTTCCACA
871746 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
871763 CTCGTTATTT
Statistics
Matches: 108, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 101 0.94
103 7 0.06
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (102 bp):
ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATATTGATTTCTCATAATCAGAGATACTTC
AACCCCGGCCTTATTTCTAAATCATCGATTTTCCACA
Found at i:882301 original size:52 final size:49
Alignment explanation
Indices: 882220--882410 Score: 170
Period size: 52 Copynumber: 3.8 Consensus size: 49
882210 TGACCAGGTT
* * *
882220 CCAATATGTTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAAAAGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAAGTG
* *
882272 CCAATATGGTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGTG
** * *
882320 CCAATGCGCTAATTCAAGGCCAGCGATATTGGACTTAAGAAAGA-AAAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---AAAGATGAAAG-TG
* * * *
882372 CCAATGTGTTGATTCAAGGACCAACTGATATTGGGCTTA
1 CCAATATGCTGATTCAAGG-CCAGC-GATATTGGACTTA
882411 GAAGGTTTAC
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
48 37 0.32
51 9 0.08
52 56 0.48
53 4 0.03
54 11 0.09
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGTG
Found at i:882340 original size:48 final size:49
Alignment explanation
Indices: 882231--882359 Score: 161
Period size: 48 Copynumber: 2.6 Consensus size: 49
882221 CAATATGTTG
* * * * *
882231 ATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAAAAGTGCCAATATGGTG
1 ATTCAAGGCCAGCGATATTGGACTT-AAGATG-C-AAAGTGCCAATACGCTA
* *
882283 ATTCAAGGCCAGCGATATTGGACTTAAGATG-AAGGTGCCAATGCGCTA
1 ATTCAAGGCCAGCGATATTGGACTTAAGATGCAAAGTGCCAATACGCTA
882331 ATTCAAGGCCAGCGATATTGGACTTAAGA
1 ATTCAAGGCCAGCGATATTGGACTTAAGA
882360 AAGAAAAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 41 0.59
51 5 0.07
52 24 0.34
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
ATTCAAGGCCAGCGATATTGGACTTAAGATGCAAAGTGCCAATACGCTA
Found at i:882465 original size:30 final size:28
Alignment explanation
Indices: 882439--882525 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 28
882429 TATGTGGGCT
882439 TTAAAGGGAGGTGCCATGGAGTTGTGGAC
1 TTAAAGGG-GGTGCCATGGAGTTGTGGAC
* *
882468 TTAAA-AGGGTGCTATGGAGTTGTGGAC
1 TTAAAGGGGGTGCCATGGAGTTGTGGAC
**
882495 TTAAA--GGGTGCCACAGAGTTGTGGAC
1 TTAAAGGGGGTGCCATGGAGTTGTGGAC
882521 TTAAA
1 TTAAA
882526 AGGAAAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.43
27 24 0.45
28 1 0.02
29 5 0.09
ACGTcount: A:0.28, C:0.10, G:0.36, T:0.26
Consensus pattern (28 bp):
TTAAAGGGGGTGCCATGGAGTTGTGGAC
Found at i:882486 original size:27 final size:27
Alignment explanation
Indices: 882448--882528 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
882438 TTTAAAGGGA
882448 GGTGCCATGGAGTTGTGGACTTAAAAG
1 GGTGCCATGGAGTTGTGGACTTAAAAG
*
882475 GGTGCTATGGAGTTGTGGACTT-AAAG
1 GGTGCCATGGAGTTGTGGACTTAAAAG
**
882501 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCATGGAGTTGTGGACTTAAAAG
882528 G
1 G
882529 AAAATGTGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 23 0.47
27 26 0.53
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.26
Consensus pattern (27 bp):
GGTGCCATGGAGTTGTGGACTTAAAAG
Found at i:882513 original size:26 final size:26
Alignment explanation
Indices: 882448--882525 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
882438 TTTAAAGGGA
882448 GGTGCCATGGAGTTGTGGACTTAAAAG
1 GGTGCCATGGAGTTGTGGACTT-AAAG
*
882475 GGTGCTATGGAGTTGTGGACTTAAAG
1 GGTGCCATGGAGTTGTGGACTTAAAG
**
882501 GGTGCCACAGAGTTGTGGACTTAAA
1 GGTGCCATGGAGTTGTGGACTTAAA
882526 AGGAAAATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 26 0.55
27 21 0.45
ACGTcount: A:0.26, C:0.12, G:0.36, T:0.27
Consensus pattern (26 bp):
GGTGCCATGGAGTTGTGGACTTAAAG
Found at i:882546 original size:32 final size:27
Alignment explanation
Indices: 882448--882560 Score: 120
Period size: 27 Copynumber: 4.0 Consensus size: 27
882438 TTTAAAGGGA
*
882448 GGTGCCATGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
882475 GGTGCTATGGAGTTGTGGACTT-AAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
882501 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
882528 GAAAATGTGCCACGGAGTTATGGGCTTAAAAG
1 G-----GTGCCACGGAGTTGTGGACTTAAAAG
882560 G
1 G
882561 AAAAGGCTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 23 0.32
27 26 0.36
32 24 0.33
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:882561 original size:32 final size:32
Alignment explanation
Indices: 882502--882564 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
882492 GACTTAAAGG
*
882502 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAT
1 GTGCCACAGAGTTATGGACTTAAAAGGAAAAT
* *
882534 GTGCCACGGAGTTATGGGCTTAAAAGGAAAA
1 GTGCCACAGAGTTATGGACTTAAAAGGAAAA
882565 GGCTTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (32 bp):
GTGCCACAGAGTTATGGACTTAAAAGGAAAAT
Found at i:882615 original size:27 final size:26
Alignment explanation
Indices: 882577--882674 Score: 79
Period size: 27 Copynumber: 3.5 Consensus size: 26
882567 CTTTGAAAAG
*
882577 AAAAAAGTGCCACAGAATTATGGACTT
1 AAAAGAGTGCCAC-GAATTATGGACTT
* * *
882604 AAAAGAGTGCCATGGAGTTGTGGACTT
1 AAAAGAGTGCCA-CGAATTATGGACTT
882631 AAAAAGAAAAGGTGCCACGAAATTATGGACTT
1 -AAAAG---A-GTGCCACG-AATTATGGACTT
*
882663 AAAAGGGTGCCA
1 AAAAGAGTGCCA
882675 TGGAGTTGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
27 28 0.50
28 5 0.09
31 7 0.12
32 16 0.29
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (26 bp):
AAAAGAGTGCCACGAATTATGGACTT
Found at i:882647 original size:32 final size:32
Alignment explanation
Indices: 882604--882819 Score: 183
Period size: 32 Copynumber: 6.8 Consensus size: 32
882594 TTATGGACTT
*
882604 AAAAGAGTGCCATGGAGTTGTGGACTTAAAAAG
1 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAAG
* * *
882637 AAAAGGTGCCACGAAATTATGGACTT-AAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
882668 ----GGTGCCATGGAGTTGTGGGCTTTGAAAAG
1 AAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
* * * *
882697 AAAAAGGCGCCACAGAGTTGTAGACTT-AAAGG
1 -AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
882729 AAAAGATGCCACGGAGTTGTGGACTTAACAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
882761 AAAAAAGTGCCACAGAGTTGTGGACTTAAAAGG
1 -AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
882794 AAAAGGTGCCACGAAGTTGTAGACTT
1 AAAAGGTGCCACGGAGTTGTGGACTT
882820 TGAAGAAAAA
Statistics
Matches: 146, Mismatches: 28, Indels: 19
0.76 0.15 0.10
Matches are distributed among these distances:
27 15 0.10
28 2 0.01
29 5 0.03
31 27 0.18
32 47 0.32
33 35 0.24
34 15 0.10
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
Found at i:882665 original size:59 final size:61
Alignment explanation
Indices: 882567--882792 Score: 235
Period size: 59 Copynumber: 3.7 Consensus size: 61
882557 AAGGAAAAGG
* *
882567 CTTTGAAAAGAAAAAAGTGCCACAGAATTATGGACTTAAAAGAGTGCCATGGAGTTGTGGA
1 CTTTAAAAAGAAAAAGGTGCCACAGAATTATGGACTTAAAAGAGTGCCATGGAGTTGTGGA
* *
882628 C-TTAAAAAG-AAAAGGTGCCAC-GAAATTATGGACTTAAAAGGGTGCCATGGAGTTGTGGG
1 CTTTAAAAAGAAAAAGGTGCCACAG-AATTATGGACTTAAAAGAGTGCCATGGAGTTGTGGA
* * * * * * *
882687 CTTTGAAAAGAAAAAGGCGCCACAGAGTTGTAGACTTAAAGGAAAAGATGCCACGGAGTTGTGGA
1 CTTTAAAAAGAAAAAGGTGCCACAGAATTATGGACTT-AA--AAGAG-TGCCATGGAGTTGTGGA
* * * * *
882752 C-TTAACAGGAAAAAAGTGCCACAGAGTTGTGGACTTAAAAG
1 CTTTAAAAAGAAAAAGGTGCCACAGAATTATGGACTTAAAAG
882793 GAAAAGGTGC
Statistics
Matches: 137, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
58 1 0.01
59 46 0.34
60 14 0.10
61 23 0.17
62 3 0.02
63 2 0.01
64 32 0.23
65 16 0.12
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (61 bp):
CTTTAAAAAGAAAAAGGTGCCACAGAATTATGGACTTAAAAGAGTGCCATGGAGTTGTGGA
Found at i:882766 original size:65 final size:65
Alignment explanation
Indices: 882696--882819 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 65
882686 GCTTTGAAAA
* * *
882696 GAAAAAGGCGCCACAGAGTTGTAGACTT-AAAGGAAAAGATGCCACGGAGTTGTGGACTTAACAG
1 GAAAAAAGCGCCACAGAGTTGTAGACTTAAAAGGAAAAGATGCCACGAAGTTGTAGACTTAACAG
* * *
882760 GAAAAAAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTAGACTT
1 GAAAAAAGCGCCACAGAGTTGTAGACTTAAAAGGAAAAGATGCCACGAAGTTGTAGACTT
882820 TGAAGAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
64 25 0.47
65 28 0.53
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.19
Consensus pattern (65 bp):
GAAAAAAGCGCCACAGAGTTGTAGACTTAAAAGGAAAAGATGCCACGAAGTTGTAGACTTAACAG
Found at i:882779 original size:33 final size:32
Alignment explanation
Indices: 882677--882971 Score: 161
Period size: 32 Copynumber: 9.3 Consensus size: 32
882667 GGGTGCCATG
* * * *
882677 GAGTTGTGGGCTTTGAAAAGAAAAAGGCGCCACA
1 GAGTTGTGGAC-TT-AAAGGAAAAAAGTGCCACA
* * *
882711 GAGTTGTAGACTTAAAGGAAAAGA-TGCCACG
1 GAGTTGTGGACTTAAAGGAAAAAAGTGCCACA
882742 GAGTTGTGGACTTAACAGGAAAAAAGTGCCACA
1 GAGTTGTGGACTTAA-AGGAAAAAAGTGCCACA
*
882775 GAGTTGTGGACTTAAAAGG-AAAAGGTGCCAC-
1 GAGTTGTGGACTT-AAAGGAAAAAAGTGCCACA
* *
882806 GAAGTTGTAGACTTTGAA-GAAAAAAGATGCCACTA
1 G-AGTTGTGGAC-TTAAAGGAAAAAAG-TGCCAC-A
* ** * **
882841 -AGTCGTGGACTTGGA-GAAGAAA-TGCCATT
1 GAGTTGTGGACTTAAAGGAAAAAAGTGCCACA
882870 GAGTTGTGGACTTGGAAA--AAAAAAGATGCCACTA
1 GAGTTGTGGACTT--AAAGGAAAAAAG-TGCCAC-A
* ** *
882904 -AGTCGTGGACTTGGA-GAAAAAA-TGCCACT
1 GAGTTGTGGACTTAAAGGAAAAAAGTGCCACA
* *
882933 GAGTCGTGGACTTGAAA--AAAAAA-TGCCACT
1 GAGTTGTGGACTT-AAAGGAAAAAAGTGCCACA
*
882963 GAGTCGTGG
1 GAGTTGTGG
882972 GCTTGGAGAA
Statistics
Matches: 211, Mismatches: 32, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
30 56 0.27
31 28 0.13
32 60 0.28
33 56 0.27
34 11 0.05
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (32 bp):
GAGTTGTGGACTTAAAGGAAAAAAGTGCCACA
Found at i:882830 original size:65 final size:63
Alignment explanation
Indices: 882574--882971 Score: 231
Period size: 63 Copynumber: 6.4 Consensus size: 63
882564 AGGCTTTGAA
* * * *
882574 AAGAAAAAAGTGCCACAGAATTATGGACTT-AA--AAGA-GTGCCATGGAGTTGTGGAC-TT-
1 AAGAAAAAAGTGCCACAGAGTTGTGGACTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTG
* * * * * *
882631 AAAAAGAAAAGGTGCCAC-GAAATTATGGACTT--A--AAAGGGTGCCATGGAGTTGTGGGCTTT
1 AAGAA-AAAA-GTGCCACAG-AGTTGTGGACTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTT
882691 G
63 G
* * * * *
882692 AAAAGAAAAAGGCGCCACAGAGTTGTAGACTTAAAGGAAAAGATGCCACGGAGTTGTGGAC-TTA
1 --AAGAAAAAAGTGCCACAGAGTTGTGGACTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTG
* *
882756 ACAGGAAAAAAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGAAGTTGTAGACTTT
1 A-A-GAAAAAAGTGCCACAGAGTTGTGGACTT-AAAGGAAAAGGTGCCACGGAGTTGTGGACTTT
882821 G
63 G
* ** * ** *
882822 AAGAAAAAAGATGCCACTA-AGTCGTGGACTTGGA-GAAGAA-ATGCCATTGAGTTGTGGACTTG
1 AAGAAAAAAG-TGCCAC-AGAGTTGTGGACTTAAAGGAA-AAGGTGCCACGGAGTTGTGGACTTT
882884 G
63 G
* * ** ** * *
882885 AAAAAAAAAGATGCCACTA-AGTCGTGGACTTGGA-GAAAAAATGCCACTGAGTCGTGGAC-TTG
1 AAGAAAAAAG-TGCCAC-AGAGTTGTGGACTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTG
* * *
882947 AA-AAAAAAATGCCACTGAGTCGTGG
1 AAGAAAAAAGTGCCACAGAGTTGTGG
882972 GCTTGGAGAA
Statistics
Matches: 282, Mismatches: 37, Indels: 41
0.78 0.10 0.11
Matches are distributed among these distances:
57 4 0.01
58 8 0.03
59 37 0.13
60 16 0.06
61 21 0.07
62 11 0.04
63 79 0.28
64 38 0.13
65 64 0.23
66 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (63 bp):
AAGAAAAAAGTGCCACAGAGTTGTGGACTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTG
Found at i:882879 original size:30 final size:30
Alignment explanation
Indices: 882826--883113 Score: 288
Period size: 30 Copynumber: 9.2 Consensus size: 30
882816 ACTTTGAAGA
*
882826 AAAAAGATGCCACTAAGTCGTGGACTTGGAG
1 AAAAA-ATGCCACTGAGTCGTGGACTTGGAG
* * * *
882857 AAGAAATGCCATTGAGTTGTGGACTTGGAAAA
1 AAAAAATGCCACTGAGTCGTGGACTTGG--AG
*
882889 AAAAAGATGCCACTAAGTCGTGGACTTGGAG
1 AAAAA-ATGCCACTGAGTCGTGGACTTGGAG
* *
882920 AAAAAATGCCACTGAGTCGTGGACTTGAAA
1 AAAAAATGCCACTGAGTCGTGGACTTGGAG
*
882950 AAAAAATGCCACTGAGTCGTGGGCTTGGAG
1 AAAAAATGCCACTGAGTCGTGGACTTGGAG
* *
882980 AAGAAATGCCACTGAGTCTTGGACTTTGGGAG
1 AAAAAATGCCACTGAGTCGTGGAC-TT-GGAG
* *
883012 AAAAAGGATGCCACTCAATCGTGGACTTGGAAG
1 AAAAA--ATGCCACTGAGTCGTGGACTTGG-AG
* * *
883045 AAAAAGGATGCAACTAAGTCGTGGACTTGAAG
1 AAAAA--ATGCCACTGAGTCGTGGACTTGGAG
* * *
883077 AAGAAATGTCACTGAGTTGTGGACTTTGGGAG
1 AAAAAATGCCACTGAGTCGTGGAC-TT-GGAG
883109 AAAAA
1 AAAAA
883114 GGGGACCATT
Statistics
Matches: 213, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
30 105 0.49
31 14 0.07
32 28 0.13
33 50 0.23
34 16 0.08
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (30 bp):
AAAAAATGCCACTGAGTCGTGGACTTGGAG
Found at i:882882 original size:63 final size:63
Alignment explanation
Indices: 882800--883078 Score: 320
Period size: 63 Copynumber: 4.4 Consensus size: 63
882790 AAGGAAAAGG
*
882800 TGCCAC-GAAGTTGTAGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAGAAGAAA
1 TGCCACTG-AGTTGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAGAAGAAA
* * * *
882863 TGCCATTGAGTTGTGGACTTGGAAAAAAAAAGATGCCACTAAGTCGTGGACTTGGAGAAAAAA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAGAAGAAA
* * *
882926 TGCCACTGAGTCGTGGAC-TTGAA-AAAAAA-ATGCCACTGAGTCGTGGGCTTGGAGAAGAAA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAGAAGAAA
* * *
882986 TGCCACTGAGTCT-TGGACTTTGGGAGAAAAAGGATGCCACTCAA-TCGTGGACTTGGAAGAAAA
1 TGCCACTGAGT-TGTGGACTTT-GAAGAAAAAAGATGCCACT-AAGTCGTGGACTTGG-AGAAGA
883049 AGGA
62 A--A
* * *
883053 TGCAACTAAGTCGTGGAC-TTGAAGAA
1 TGCCACTGAGTTGTGGACTTTGAAGAA
883079 GAAATGTCAC
Statistics
Matches: 184, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
60 44 0.24
61 8 0.04
62 6 0.03
63 77 0.42
64 20 0.11
65 12 0.07
66 2 0.01
67 15 0.08
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (63 bp):
TGCCACTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAGAAGAAA
Found at i:883136 original size:97 final size:94
Alignment explanation
Indices: 882815--883115 Score: 265
Period size: 97 Copynumber: 3.2 Consensus size: 94
882805 CGAAGTTGTA
* * * * * * * * * *
882815 GACTTT-GAAGAAAAAAGATGCCACT-AAGTCGTGGACTTGGAGAAGAAATGCCATTGAGTTGTG
1 GACTTTGGGAGAAAAAGGAGGCCACTCAA-TCGTGGACTTGAAAAAAAAATGCAACTAAGTCGTG
* * * *
882878 GACTTGGAAAAAAAAAGATGCCACTAAGTCGTG
65 GACTT-G-AAGAAGAA-ATGCCACTGAGTCTTG
* * * * *
882911 GAC-TT-GGAGAAAAA--ATGCCACTGAGTCGTGGACTTGAAAAAAAAATGCCACTGAGTCGTGG
1 GACTTTGGGAGAAAAAGGAGGCCACTCAATCGTGGACTTGAAAAAAAAATGCAACTAAGTCGTGG
* *
882972 GCTTGGAGAAGAAATGCCACTGAGTCTTG
66 ACTTGAAGAAGAAATGCCACTGAGTCTTG
* *
883001 GACTTTGGGAGAAAAAGGATGCCACTCAATCGTGGACTTGGAAGAAAAAGGATGCAACTAAGTCG
1 GACTTTGGGAGAAAAAGGAGGCCACTCAATCGTGGACTT-GAA-AAAAA-AATGCAACTAAGTCG
*
883066 TGGACTTGAAGAAGAAATGTCACTGAGT-TGTG
63 TGGACTTGAAGAAGAAATGCCACTGAGTCT-TG
883098 GACTTTGGGAGAAAAAGG
1 GACTTTGGGAGAAAAAGG
883116 GGACCATTAA
Statistics
Matches: 175, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
90 17 0.10
91 7 0.04
92 10 0.06
93 42 0.24
94 20 0.11
95 13 0.07
96 9 0.05
97 57 0.33
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (94 bp):
GACTTTGGGAGAAAAAGGAGGCCACTCAATCGTGGACTTGAAAAAAAAATGCAACTAAGTCGTGG
ACTTGAAGAAGAAATGCCACTGAGTCTTG
Found at i:884303 original size:9 final size:9
Alignment explanation
Indices: 884289--884346 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
884279 GTTGCCCCCA
884289 TTTTTTTTG
1 TTTTTTTTG
884298 --TTTTTTG
1 TTTTTTTTG
**
884305 CATTTTTT-
1 TTTTTTTTG
*
884313 ATTTTTTTG
1 TTTTTTTTG
*
884322 TGTTTTTTG
1 TTTTTTTTG
*
884331 TGTTTTTTG
1 TTTTTTTTG
884340 TTTTTTT
1 TTTTTTT
884347 CTTTTGACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
7 7 0.17
8 6 0.15
9 28 0.68
ACGTcount: A:0.03, C:0.02, G:0.12, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:884308 original size:18 final size:18
Alignment explanation
Indices: 884287--884339 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
884277 ACGTTGCCCC
*
884287 CATTTTTTTTGTTTTTTG
1 CATTTTTTATGTTTTTTG
884305 CATTTTTTAT-TTTTTTG
1 CATTTTTTATGTTTTTTG
** *
884322 TGTTTTTTGTGTTTTTTG
1 CATTTTTTATGTTTTTTG
884340 TTTTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.06, C:0.04, G:0.13, T:0.77
Consensus pattern (18 bp):
CATTTTTTATGTTTTTTG
Found at i:884318 original size:26 final size:26
Alignment explanation
Indices: 884288--884346 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
884278 CGTTGCCCCC
884288 ATTTTTTT-TGTTTTTTGCATTTTTT
1 ATTTTTTTGTGTTTTTTGCATTTTTT
**
884313 ATTTTTTTGTGTTTTTTGTGTTTTTT
1 ATTTTTTTGTGTTTTTTGCATTTTTT
*
884339 GTTTTTTT
1 ATTTTTTT
884347 CTTTTGACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 8 0.27
26 22 0.73
ACGTcount: A:0.05, C:0.02, G:0.12, T:0.81
Consensus pattern (26 bp):
ATTTTTTTGTGTTTTTTGCATTTTTT
Found at i:891454 original size:19 final size:20
Alignment explanation
Indices: 891432--891485 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
891422 ACCGATATAT
891432 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
* ** *
891451 TGTATAGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
891472 TGTATCGATACAAA
1 TGTATCGATACAAA
891486 TGGTAGAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 12 0.46
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Done.