Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 5 of 37
Found at i:586440 original size:13 final size:13
Alignment explanation
Indices: 586422--586447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
586412 CATTTTTCTG
586422 TGTATCGATACAT
1 TGTATCGATACAT
586435 TGTATCGATACAT
1 TGTATCGATACAT
586448 CTATTCTTTG
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:586465 original size:34 final size:33
Alignment explanation
Indices: 586402--586468 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
586392 GCCAAGGAAA
*
586402 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
586435 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
586469 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:588979 original size:28 final size:27
Alignment explanation
Indices: 588911--588981 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
588901 TTTCACAATC
588911 GGGGATACTCCAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCA-CA
*
588939 -GGGATACTCCAACCCCGTTATTTC-CGA
1 GGGGATACTCCAACCCCGTTA-ATCAC-A
588966 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
588982 GTGCCTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 1 0.03
27 21 0.54
28 17 0.44
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCACA
Found at i:589042 original size:51 final size:51
Alignment explanation
Indices: 588966--589188 Score: 182
Period size: 52 Copynumber: 4.3 Consensus size: 51
588956 TTATTTCCGA
** * * * *
588966 GGGGATACTCCAACCCGTGCCTTATTCTTAAAATATTGATTTCT-CATAATC
1 GGGGATACTCCAACCCG-GTTTTATTCTTAAAACACTAATTTCTCCACAATC
*
589017 GGGGATACTCCAACCTCGGTTTTATTGC-TAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACC-CGGTTTTATT-CTTAAAACACTAATTTCTCCACAATC
* * **
589069 GGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTT-TCCTTTAATC
1 GGGGATACTCCAA-CCCGGTTTTATTCTTAAAACACTAATTTCTCC-ACAATC
* * * ** * * *
589121 AGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCACAATC
1 GGGGATACTCCAAC-CCGGTTTTA-TTCTTAAAACACTAATTTCTCCACAATC
*
589174 GAGGATACTCCAACC
1 GGGGATACTCCAACC
589189 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
51 37 0.26
52 69 0.49
53 32 0.23
54 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCGGTTTTATTCTTAAAACACTAATTTCTCCACAATC
Found at i:589082 original size:52 final size:52
Alignment explanation
Indices: 589013--589191 Score: 200
Period size: 52 Copynumber: 3.4 Consensus size: 52
589003 GATTTCTCAT
* *
589013 AATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCTCGGTTTTATTCCTAAAACACCAATTTTTCCAC
* ** **
589065 AATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAA-TTTTCCTTT
1 AATCGGGGATACTCCAACCTCGGTTTTATTCCTAAAACACCAATTTTTCC-AC
* * * * *
589117 AATCAGGGATACTCC-AGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCT-CGGTTTTA-TTCCTAAAACACCAATTTTTCCAC
*
589170 AATCGAGGATACTCCAACCTCG
1 AATCGGGGATACTCCAACCTCG
589192 TTATTTCATC
Statistics
Matches: 103, Mismatches: 19, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
51 8 0.08
52 60 0.58
53 27 0.26
54 8 0.08
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCTCGGTTTTATTCCTAAAACACCAATTTTTCCAC
Found at i:589199 original size:31 final size:28
Alignment explanation
Indices: 589171--589247 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
589161 TTTTTTCACA
*
589171 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
589199 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
589227 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
589248 GCTTCATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:591971 original size:21 final size:21
Alignment explanation
Indices: 591923--591980 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
591913 CCGTTAGGCT
*
591923 AATTGTATCAATACAATTACGG
1 AATTGTATCGATAC-ATTACGG
*
591945 -A-TGTATCGATACATTATGG
1 AATTGTATCGATACATTACGG
591964 AATTGTATCGATACATT
1 AATTGTATCGATACATT
591981 TGAAGGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 11 0.34
21 15 0.47
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (21 bp):
AATTGTATCGATACATTACGG
Found at i:592819 original size:20 final size:20
Alignment explanation
Indices: 592794--592831 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
592784 TCCCGTAGCC
592794 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
592814 ATGTATCGATACAATTCA
1 ATGTATCGATACAATTCA
592832 AAACATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:593006 original size:19 final size:20
Alignment explanation
Indices: 592958--593011 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
592948 CTGCCAGTTT
**
592958 CATGTGTCGATACAATTGTC
1 CATGTGTCGATACAATTGAA
592978 CATGTGTCGATACAA-TGAA
1 CATGTGTCGATACAATTGAA
*
592997 CATGTATCGATACAA
1 CATGTGTCGATACAA
593012 AGCATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (20 bp):
CATGTGTCGATACAATTGAA
Found at i:595328 original size:19 final size:18
Alignment explanation
Indices: 595301--595342 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
595291 TCCAACCTTA
*
595301 TTTTT-GCCAACTCTTTTT
1 TTTTTGGCCAAC-CATTTT
595319 TTTTTGGCCAACCATTTT
1 TTTTTGGCCAACCATTTT
595337 TTTTTG
1 TTTTTG
595343 AAATAATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.12, C:0.19, G:0.10, T:0.60
Consensus pattern (18 bp):
TTTTTGGCCAACCATTTT
Found at i:599481 original size:74 final size:74
Alignment explanation
Indices: 599360--599512 Score: 306
Period size: 74 Copynumber: 2.1 Consensus size: 74
599350 CTTAAGTTAC
599360 CTCTTCACCTTCATAACCATATGCACCATGTCTTCAAGCTCAACATAATGATGTAACTCAATCAC
1 CTCTTCACCTTCATAACCATATGCACCATGTCTTCAAGCTCAACATAATGATGTAACTCAATCAC
599425 GTTGGCTAT
66 GTTGGCTAT
599434 CTCTTCACCTTCATAACCATATGCACCATGTCTTCAAGCTCAACATAATGATGTAACTCAATCAC
1 CTCTTCACCTTCATAACCATATGCACCATGTCTTCAAGCTCAACATAATGATGTAACTCAATCAC
599499 GTTGGCTAT
66 GTTGGCTAT
599508 CTCTT
1 CTCTT
599513 GATTCAAGCC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (74 bp):
CTCTTCACCTTCATAACCATATGCACCATGTCTTCAAGCTCAACATAATGATGTAACTCAATCAC
GTTGGCTAT
Found at i:602539 original size:28 final size:28
Alignment explanation
Indices: 602499--602569 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
602489 TTCACCATTG
*
602499 GGGACACTCCAACCCGGTTATTTCCAAA
1 GGGATACTCCAACCCGGTTATTTCCAAA
* * *
602527 GGGATACTCCAACCCTGTTATTTTCAAG
1 GGGATACTCCAACCCGGTTATTTCCAAA
602555 GGGATACTCCAACCC
1 GGGATACTCCAACCC
602570 CAGTTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (28 bp):
GGGATACTCCAACCCGGTTATTTCCAAA
Found at i:602659 original size:79 final size:80
Alignment explanation
Indices: 602527--602965 Score: 539
Period size: 79 Copynumber: 5.6 Consensus size: 80
602517 TATTTCCAAA
*
602527 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCC-AGTTTTATTTTTAAAATATC
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGAGTTTTATTTTTAAAATATC
* *
602591 GATTTTCCACCATTG
66 GATTTTTCACCATCG
** * *
602606 GGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGA-TTCTATTTTTAAAACATC
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGAGTTTTATTTTTAAAATATC
*
602670 GATTTTCCACCATCG
66 GATTTTTCACCATCG
* * * ** * *
602685 AGGATACTCCAGCCCTGTTATTTTTGAGGGGATACTCCAA-CCCTAGTTCTATTTTTAAAATATC
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGAGTTTTATTTTTAAAATATC
*
602749 GATTTTTTACCATCG
66 GATTTTTCACCATCG
* * * **
602764 GGGATACTCTAACCCCATTATTTTCAAGGGGATACTCCAACCCC-ATTTTTATTTCCAAAATATC
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGAGTTTTATTTTTAAAATATC
602828 GATTTTTCACCATCG
66 GATTTTTCACCATCG
* * * * *
602843 GGGATATTCCAAACCCGTTATTTCCAAGGGGATACTCCAACCCTGA-TTTTATTTTCAAAATATC
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGAGTTTTATTTTTAAAATATC
* **
602907 AATTTTTCACCATTA
66 GATTTTTCACCATCG
* * * *
602922 GGGATACTCCAACTCTGTTGTTTT-TAGGGGATACTCCAACCCCG
1 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG
602966 TTTTTATCTC
Statistics
Matches: 313, Mismatches: 43, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
78 22 0.07
79 286 0.91
80 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (80 bp):
GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGAGTTTTATTTTTAAAATATC
GATTTTTCACCATCG
Found at i:602991 original size:158 final size:157
Alignment explanation
Indices: 602527--602983 Score: 612
Period size: 158 Copynumber: 2.9 Consensus size: 157
602517 TATTTCCAAA
*
602527 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCAGTTTTATTTTTAAAATATCG
1 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCTAGTTTTATTTTTAAAATATCG
* * *
602592 ATTTTCCACCATTGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGATTCTA
66 ATTTTTCACCATTGGGGATACTCCAACCCCGTTATTTTT-AGGGGATACTCCAACCCCGTTTTTA
** *
602657 TTTTTAAAACATCGATTTTCCACCATCG
130 TTTCCAAAATATCGATTTTCCACCATCG
* * ** *
602685 AGGATACTCCAGCCCTGTTATTTTTGAGGGGATACTCCAACCCTAGTTCTATTTTTAAAATATCG
1 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCTAGTTTTATTTTTAAAATATCG
* * * * * *
602750 ATTTTTTACCATCGGGGATACTCTAACCCCATTATTTTCAAGGGGATACTCCAACCCCATTTTTA
66 ATTTTTCACCATTGGGGATACTCCAACCCCGTTATTTT-TAGGGGATACTCCAACCCCGTTTTTA
*
602815 TTTCCAAAATATCGATTTTTCACCATCG
130 TTTCCAAAATATCGATTTTCCACCATCG
* * *
602843 GGGATATTCCAAACCC-GTTATTTCCAAGGGGATACTCCAACCCT-GATTTTATTTTCAAAATAT
1 GGGATACTCC-AACCCTGTTATTTTCAAGGGGATACTCCAACCCTAG-TTTTATTTTTAAAATAT
* * * * *
602906 CAATTTTTCACCATTAGGGATACTCCAACTCTGTTGTTTTTAGGGGATACTCCAACCCCGTTTTT
64 CGATTTTTCACCATTGGGGATACTCCAACCCCGTTATTTTTAGGGGATACTCCAACCCCGTTTTT
*
602971 ATCTCCAAAATAT
129 ATTTCCAAAATAT
602984 TAAATTTTCC
Statistics
Matches: 257, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
157 36 0.14
158 217 0.84
159 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (157 bp):
GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCTAGTTTTATTTTTAAAATATCG
ATTTTTCACCATTGGGGATACTCCAACCCCGTTATTTTTAGGGGATACTCCAACCCCGTTTTTAT
TTCCAAAATATCGATTTTCCACCATCG
Found at i:606847 original size:160 final size:160
Alignment explanation
Indices: 606280--607350 Score: 612
Period size: 159 Copynumber: 6.7 Consensus size: 160
606270 AAAATTAATG
* * * *
606280 GAGATTATCACTAA-AATCCA-AGTTTGTCTCACTTAAAAGG-TGAACTTTGATTCTAAGGAAAA
1 GAGATTATTAC-AAGAATCCATA-TTTGTCTCA-TTTAAGGGATGAACTTTGATTCTAAGAAAAA
* * * * * * *
606342 TAGTGGAAA-AAAATCTTTTCTTGCAAAACTAAAGCATCAATATCATGTATCCTATTGAG-GACA
63 TGGTGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCC-AATGAGAAAAA
*** * ** * * * *
606405 -ATGAATTTATTGTGCCCAATCA-TAAAATGAATT
127 CATCTTTTTATCGTGCTTACTCAGGAAAA-GAGTA
* * ** * ** * * * * * * *
606438 GAGATTTTTAAAAGAATCCATGCTTGCCTTGTTTGAGGGATGAACTTTTATTTTGAGGAATATGA
1 GAGATTATTACAAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGG
* * * * * * * * * **
606503 TGCAACGAAAAGCTTTTCTTGCAAAGCTAAAGCATCAAGATCGTGTATCCTAGTGAGGAGTACAT
66 TGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCC-AATGAGAAAAACAT
* ** ** *
606568 GTTTTTAT--TGCCCAAC-CATTAAAAGAATA
130 CTTTTTATCGTG-CTTACTCAGGAAAAGAGTA
** * * * * * * *
606597 GAGATTATTATGAGAATCCATGTTTG-CTCACTTAAGGGATAAACTTTTAATCTTAGGAAAATGG
1 GAGATTATTACAAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGG
* * ** * *
606661 TGCAAAAAAAACAAAGCTAATCTTGCAAAAACAAAGCATCAATATCTCATGTATCCAATGAGAAG
66 TG----GAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATA--TCATGTATCCAATGAGAAA
* * * * * *
606726 AA-A-GTATTTATCGTGCTGAGTTATGAAAAGAGTA
125 AACATCTTTTTATCGTGCTTACTCAGGAAAAGAGTA
** * *
606760 GTTATTATTACAAGAATTCATATTTGTCTCATTTGAGGGATGAACTTTGATTCTAAGAAAAATGG
1 GAGATTATTACAAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGG
* * * *
606825 TGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATATATAATCGACGAGAAAAACA
66 TGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTAT--CCAATGAGAAAAACA
* * *
606890 TCTTTTTATC--ACTTTCTCAGGAAAAGAGTG
129 TCTTTTTATCGTGCTTACTCAGGAAAAGAGTA
* * * * * * * * *
606920 GAGATTTTTACTAGAATCTATGTTTTTCTTATTTGAGTGATGAATTTTGATTCTAAGAAAAATGG
1 GAGATTATTACAAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGG
* * ** * * *
606985 TGGAAAGAAAAGCATTTCTTGTGAAACCAAAGCATCAATATCAAGTACCCTGATGAGAAAAACAT
66 TGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCC-AATGAGAAAAACAT
* * * *
607050 CTTTTTATCAT--TTTCTCAGGAAAATAGTG
130 CTTTTTATCGTGCTTACTCAGGAAAAGAGTA
* * * * *
607079 GAGATCATTACTAGAATCCATATTTTTCTCATTTAAGGGATGAACTTTGATTCCAAGGAAAATGG
1 GAGATTATTACAAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGG
* * * *
607144 TGGAAAGAAAAGCTTTTCTTGCGAAACCAAACCATCAATATCATGTATCCCAATGA-AGATAACA
66 TGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTAT-CCAATGAGA-AAAACA
* * ** * * *
607208 --TGTTTATAGTGCACAATCATGGAAAA-AATG
129 TCTTTTTATCGTGCTTACTCA-GGAAAAGAGTA
* * **
607238 GAGATTATTACCAA-AATCCATATTTGTCTCTTTTAAGTGACAAACTTTGATTCTAAGAAAAATG
1 GAGATTATTA-CAAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATG
*** **
607302 GT-G---G-AAAGCTTTTCTTATGAAACCAAAGCATCAATATTGTGTATCCAAT
65 GTGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCAAT
607351 TAAGGGATGA
Statistics
Matches: 723, Mismatches: 159, Indels: 67
0.76 0.17 0.07
Matches are distributed among these distances:
153 5 0.01
154 35 0.05
155 1 0.00
157 14 0.02
158 82 0.11
159 281 0.39
160 169 0.23
161 16 0.02
162 38 0.05
163 40 0.06
164 42 0.06
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (160 bp):
GAGATTATTACAAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGG
TGGAAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCAATGAGAAAAACATC
TTTTTATCGTGCTTACTCAGGAAAAGAGTA
Found at i:607107 original size:159 final size:157
Alignment explanation
Indices: 606763--607338 Score: 621
Period size: 159 Copynumber: 3.7 Consensus size: 157
606753 AAGAGTAGTT
* * *
606763 ATTATTACAAGAATTCATATTTGTCTCATTTGAGGGATGAACTTTGATTCTAAGAAAAATGGTGG
1 ATTATTACTAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGGTGG
* * *** *
606828 AAAGCAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATA-TATAATCGACGAGAAAAACATC
66 AAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATATCA-AGTACCCT-GATGAGAAAAACATC
606892 TTTTTATCACTTTCTCAGGAAAAGAGTGGAG
129 TTTTTATCA-TTTCTCAGGAAAA-AGTGGAG
* * * * * * * *
606923 ATTTTTACTAGAATCTATGTTTTTCTTATTTGAGTGATGAATTTTGATTCTAAGAAAAATGGTGG
1 ATTATTACTAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGGTGG
* *
606988 AAAGAAAAGCATTTCTTGTGAAACCAAAGCATCAATATCAAGTACCCTGATGAGAAAAACATCTT
66 AAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATATCAAGTACCCTGATGAGAAAAACATCTT
607053 TTTATCATTTTCTCAGGAAAATAGTGGAG
131 TTTATCA-TTTCTCAGGAAAA-AGTGGAG
* * * *
607082 ATCATTACTAGAATCCATATTTTTCTCATTTAAGGGATGAACTTTGATTCCAAGGAAAATGGTGG
1 ATTATTACTAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGGTGG
* * * * *
607147 AAAGAAAAGCTTTTCTTGCGAAACCAAACCATCAATATCATGTATCCC-AATGA-AGATAACATG
66 AAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATATCAAGTA-CCCTGATGAGA-AAAACATC
* *** *
607210 TTTATAGTGCA-CAATCATGGAAAAAATGGAG
129 TTTTTA-T-CATTTCTCA-GGAAAAAGTGGAG
* * * * **
607241 ATTATTACCAAAATCCATATTTGTCTCTTTTAAGTGACAAACTTTGATTCTAAGAAAAATGGT-G
1 ATTATTACTAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGGTGG
**
607305 ---G-AAAGCTTTTCTTATGAAACCAAAGCATCAATAT
66 AAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATAT
607339 TGTGTATCCA
Statistics
Matches: 356, Mismatches: 54, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
154 30 0.08
155 1 0.00
158 2 0.01
159 216 0.61
160 105 0.29
161 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (157 bp):
ATTATTACTAGAATCCATATTTGTCTCATTTAAGGGATGAACTTTGATTCTAAGAAAAATGGTGG
AAAGAAAAGCTTTTCTTGCGAAACCAAAGCATCAATATCAAGTACCCTGATGAGAAAAACATCTT
TTTATCATTTCTCAGGAAAAAGTGGAG
Found at i:620915 original size:8 final size:8
Alignment explanation
Indices: 620902--620935 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
620892 ATTTGATTAA
620902 ATTTTGTG
1 ATTTTGTG
620910 ATTTTGTG
1 ATTTTGTG
620918 ATTTTGTG
1 ATTTTGTG
*
620926 ATTTTTTG
1 ATTTTGTG
620934 AT
1 AT
620936 GAATGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.65
Consensus pattern (8 bp):
ATTTTGTG
Found at i:621616 original size:20 final size:22
Alignment explanation
Indices: 621591--621635 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
621581 GTAGCACTCA
621591 CCAGGTCACAACC-GGCA-CCC
1 CCAGGTCACAACCGGGCAGCCC
*
621611 CCAGGTCGCAACCGGGCAGCCC
1 CCAGGTCACAACCGGGCAGCCC
621633 CCA
1 CCA
621636 CACTCACAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.22, C:0.49, G:0.24, T:0.04
Consensus pattern (22 bp):
CCAGGTCACAACCGGGCAGCCC
Found at i:623750 original size:13 final size:13
Alignment explanation
Indices: 623732--623757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
623722 GCACACAAAG
623732 ATGTATCGATACA
1 ATGTATCGATACA
623745 ATGTATCGATACA
1 ATGTATCGATACA
623758 TCCCAAAATG
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:623769 original size:33 final size:33
Alignment explanation
Indices: 623713--623777 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
623703 CTTAATTGTT
*
623713 TGTATCGATGCACACAAAGATGTATCGATACAA
1 TGTATCGATACACACAAAGATGTATCGATACAA
*
623746 TGTATCGATACATCCCAAA-ATGTATCGATACA
1 TGTATCGATACA-CACAAAGATGTATCGATACA
623778 TTGGATTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (33 bp):
TGTATCGATACACACAAAGATGTATCGATACAA
Found at i:626210 original size:153 final size:153
Alignment explanation
Indices: 625867--626248 Score: 439
Period size: 157 Copynumber: 2.5 Consensus size: 153
625857 TGCCCATTTG
* * ** **
625867 GAAAATAATGGAGATTATTATGAGAATCTGTGTTTGTCTCATTTGAAAGACAAACTTTGATTCTA
1 GAAAAGAATGGAGATTATTACGAGAATCAATGTTTGTCTCATTTGAGGGACAAACTTTGATTCTA
* * * * *
625932 AGGAAAATGGTAGAAAGAAATGCTTTTCGTGCAACCAAATCATCACTATCATGTATTTCAATAAG
66 AGGAAAATGGTAGAAAGAAAAGCTTTTCATGAAACAAAAGCATCACTATCATGTA-TTCAAT-A-
*
625997 GAGAAAGTATTTATGATGCCCAATATT
128 -AGAAAGCATTTATGATGCCCAATATT
* * * **
626024 GAAAAGAATGGATATTATTACCAGAATCAATGTTTGCCTCATTTGAGGGATGAACTTTGATTCTA
1 GAAAAGAATGGAGATTATTACGAGAATCAATGTTTGTCTCATTTGAGGGACAAACTTTGATTCTA
* **
626089 AGGAAAATGGTAGAAAGAAAAGCTTTCCTTATGAAACAAAAGCATCACTATCATGTA-TCCCT-A
66 AGGAAAATGGTAGAAAGAAAAGCTTT--TCATGAAACAAAAGCATCACTATCATGTATTCAATAA
*
626152 GAAAGCATTTATGGTGCCCAATCA-T
129 GAAAGCATTTATGATGCCCAAT-ATT
* * * * *
626177 GAAAAGAATGGAGATAATTACGAGAATCCATG-TTGTCTCATTTAAGGGACAAATTTTGATTTTA
1 GAAAAGAATGGAGATTATTACGAGAATCAATGTTTGTCTCATTTGAGGGACAAACTTTGATTCTA
626241 AGGAAAAT
66 AGGAAAAT
626249 TGATGTCAGA
Statistics
Matches: 191, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
152 34 0.18
153 50 0.26
154 1 0.01
157 82 0.43
159 24 0.13
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (153 bp):
GAAAAGAATGGAGATTATTACGAGAATCAATGTTTGTCTCATTTGAGGGACAAACTTTGATTCTA
AGGAAAATGGTAGAAAGAAAAGCTTTTCATGAAACAAAAGCATCACTATCATGTATTCAATAAGA
AAGCATTTATGATGCCCAATATT
Found at i:626451 original size:37 final size:37
Alignment explanation
Indices: 626407--626477 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
626397 GGGAATATAG
626407 AAATACACCACCAC-AAGGATATAATTAAGGGATACAA
1 AAATACACCACC-CTAAGGATATAATTAAGGGATACAA
* *
626444 AAATACACTACCCTAAGGATATAATTTAGGGATA
1 AAATACACCACCCTAAGGATATAATTAAGGGATA
626478 AAGAAATCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (37 bp):
AAATACACCACCCTAAGGATATAATTAAGGGATACAA
Found at i:627072 original size:28 final size:28
Alignment explanation
Indices: 627039--627101 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
627029 AAGAAAGATC
* *
627039 AAGGAAGTGAACTCAA-CAAGAAATATAA
1 AAGGAAGTGAAAT-AAGCAAGAAATAGAA
* *
627067 AAGGAAATGAAATAAGCAAGAAATAGCA
1 AAGGAAGTGAAATAAGCAAGAAATAGAA
627095 AAGGAAG
1 AAGGAAG
627102 AGAGATCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.59, C:0.08, G:0.22, T:0.11
Consensus pattern (28 bp):
AAGGAAGTGAAATAAGCAAGAAATAGAA
Found at i:632998 original size:16 final size:17
Alignment explanation
Indices: 632958--632995 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
632948 GAAGTTCTAG
632958 TTTAATTCCTTTCAGTT
1 TTTAATTCCTTTCAGTT
* *
632975 TTTAATTCTTTTCATTT
1 TTTAATTCCTTTCAGTT
632992 TTTA
1 TTTA
632996 TTCATGTTTT
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:0.18, C:0.13, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTAATTCCTTTCAGTT
Found at i:633056 original size:32 final size:32
Alignment explanation
Indices: 633014--633076 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
633004 TTAATTCTTT
* **
633014 TTTATGTTTTAGTTAGCTTTTAATTCATTAGC
1 TTTATATTTTAGGGAGCTTTTAATTCATTAGC
* *
633046 TTTATATTTTAGGGAGCTTTTTATTCCTTAG
1 TTTATATTTTAGGGAGCTTTTAATTCATTAG
633077 TTTTCAAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.56
Consensus pattern (32 bp):
TTTATATTTTAGGGAGCTTTTAATTCATTAGC
Found at i:636360 original size:50 final size:50
Alignment explanation
Indices: 636206--636605 Score: 324
Period size: 50 Copynumber: 7.9 Consensus size: 50
636196 CATCCAATTA
* * * * * *
636206 AAGTCCACCTTAGTTGGCTCCTACATAGAAAGGTTAAGCCCTATAGAGTCT-
1 AAGTCCACATTAGCTAGCACCTATATAGGAAGG-TAAGCCCTATAGAGT-TG
* * *
636257 ATGTCCACATTAGCTGGCAATCTATATAAGG-AGGTGAAGCCCTATAGAGTTG
1 AAGTCCACATTAGCTAGC-ACCTATAT-AGGAAGGT-AAGCCCTATAGAGTTG
* * *
636309 AAGTCCACATTAGCTAGCACCTATATAGGAAGGTCAGTCCTATAAAGTTG
1 AAGTCCACATTAGCTAGCACCTATATAGGAAGGTAAGCCCTATAGAGTTG
* ** * * *
636359 AAGTCTATGTTAACTGGCACCCATATAGGAAGGTCAAGCCCTATAGAGTTG
1 AAGTCCACATTAGCTAGCACCTATATAGGAAGGT-AAGCCCTATAGAGTTG
* * *
636410 -AGTCCACAATAGCTAACACCCATATAGGAAGGTCAAGCCCTATAGAGTTG
1 AAGTCCACATTAGCTAGCACCTATATAGGAAGGT-AAGCCCTATAGAGTTG
* * * * * *
636460 -AGTCCACAATAGCTAACACCCATATAGGAAGGTTAAGTCTTATAAAGTTG
1 AAGTCCACATTAGCTAGCACCTATATAGGAAGG-TAAGCCCTATAGAGTTG
* * * * * * * *
636510 AAATTCACATTAGTTGGCACCCT-CATAGGGAGGTTAAGCCTTATAGAGTTA
1 AAGTCCACATTAGCTAGCA-CCTATATAGGAAGG-TAAGCCCTATAGAGTTG
* **
636561 AAGTCCACTTTAATTAGCACCTATATAGGAAGGTTAAGCCCTATA
1 AAGTCCACATTAGCTAGCACCTATATAGGAAGG-TAAGCCCTATA
636606 AGGTCAAAAT
Statistics
Matches: 287, Mismatches: 52, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
50 135 0.47
51 110 0.38
52 40 0.14
53 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (50 bp):
AAGTCCACATTAGCTAGCACCTATATAGGAAGGTAAGCCCTATAGAGTTG
Found at i:636504 original size:151 final size:150
Alignment explanation
Indices: 636229--636605 Score: 420
Period size: 151 Copynumber: 2.5 Consensus size: 150
636219 TTGGCTCCTA
* * * *
636229 CATAGAAAGGTTAAGCCCTATAGAGTCTATGTCCACATTAGCTGGCAATCTATATAAGG-AGGTG
1 CATAGGAAGGTTAAGCCCTATAGAGT-TA-GTCCACATTAGCTAGC-ACCTATAT-AGGAAGGTC
* * * *
636293 AAGCCCTATAGAGTTGAAGTCCACATTAGCTAGCACCTATATAGGAAGGTCAGTCCTATAAAGTT
62 AAGCCCTATAGAGTTGAAGTCCACAATAGCTAACACCCATATAGGAAGGTAAGTCCTATAAAGTT
* **
636358 G-AAGTCTATGTTAACTGGCACCCAT
127 GAAATTC-ACATTAACTGGCACCC-T
* * * *
636383 -ATAGGAAGGTCAAGCCCTATAGAGTTGAGTCCACAATAGCTAACACCCATATAGGAAGGTCAAG
1 CATAGGAAGGTTAAGCCCTATAGAGTT-AGTCCACATTAGCTAGCACCTATATAGGAAGGTCAAG
*
636447 CCCTATAGAGTTG-AGTCCACAATAGCTAACACCCATATAGGAAGGTTAAGTCTTATAAAGTTGA
65 CCCTATAGAGTTGAAGTCCACAATAGCTAACACCCATATAGGAAGG-TAAGTCCTATAAAGTTGA
**
636511 AATTCACATTAGTTGGCACCCT
129 AATTCACATTAACTGGCACCCT
* * * ** *
636533 CATAGGGAGGTTAAGCCTTATAGAGTTAAAGTCCACTTTAATTAGCACCTATATAGGAAGGTTAA
1 CATAGGAAGGTTAAGCCCTATAGAGTT--AGTCCACATTAGCTAGCACCTATATAGGAAGGTCAA
636598 GCCCTATA
64 GCCCTATA
636606 AGGTCAAAAT
Statistics
Matches: 188, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
150 33 0.18
151 76 0.40
152 55 0.29
153 24 0.13
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (150 bp):
CATAGGAAGGTTAAGCCCTATAGAGTTAGTCCACATTAGCTAGCACCTATATAGGAAGGTCAAGC
CCTATAGAGTTGAAGTCCACAATAGCTAACACCCATATAGGAAGGTAAGTCCTATAAAGTTGAAA
TTCACATTAACTGGCACCCT
Found at i:636606 original size:102 final size:100
Alignment explanation
Indices: 636230--636606 Score: 301
Period size: 101 Copynumber: 3.7 Consensus size: 100
636220 TGGCTCCTAC
* * * * * * * * *
636230 ATAGAAAGGTTAAGCCCTATAGAGTCTATGTCCACATTAGCTGGCAATCTATATAAGG-AGGTGA
1 ATAGGAAGGTCAAGCCCTATAGAGT-TAAGTCCACAATAACTAGC-ACCCATAT-AGGAAGGTTA
* * * *
636294 AGCCCTATAGAGTTGAAGTCCACATTAGCTAGCACCTAT
63 AGCCCTATAAAGTTGAA-TCCACAATAGCTAACACCCAT
* * * *** * *
636333 ATAGGAAGGTC-AGTCCTATAAAGTTGAAGTCTATGTTAACTGGCACCCATATAGGAAGGTCAAG
1 ATAGGAAGGTCAAGCCCTATAGAGTT-AAGTCCACAATAACTAGCACCCATATAGGAAGGTTAAG
* *
636397 CCCTATAGAGTTGAGTCCACAATAGCTAACACCCAT
65 CCCTATAAAGTTGAATCCACAATAGCTAACACCCAT
* * * *
636433 ATAGGAAGGTCAAGCCCTATAGAGTTGAGTCCACAATAGCTAACACCCATATAGGAAGGTTAAGT
1 ATAGGAAGGTCAAGCCCTATAGAGTTAAGTCCACAATAACTAGCACCCATATAGGAAGGTTAAGC
* * * * **
636498 CTTATAAAGTTGAAATTCACATTAGTTGGCACCC-T
66 CCTATAAAGTTG-AATCCACAATAGCTAACACCCAT
* * * ** * *
636533 CATAGGGAGGTTAAGCCTTATAGAGTTAAAGTCCACTTTAATTAGCACCTATATAGGAAGGTTAA
1 -ATAGGAAGGTCAAGCCCTATAGAGTT-AAGTCCACAATAACTAGCACCCATATAGGAAGGTTAA
636598 GCCCTATAA
64 GCCCTATAA
636607 GGTCAAAATC
Statistics
Matches: 220, Mismatches: 48, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
100 72 0.33
101 78 0.35
102 61 0.28
103 9 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (100 bp):
ATAGGAAGGTCAAGCCCTATAGAGTTAAGTCCACAATAACTAGCACCCATATAGGAAGGTTAAGC
CCTATAAAGTTGAATCCACAATAGCTAACACCCAT
Found at i:639836 original size:16 final size:16
Alignment explanation
Indices: 639815--639846 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
639805 CTATGGATAC
639815 ATATATCAAGATATTG
1 ATATATCAAGATATTG
*
639831 ATATATCGAGATATTG
1 ATATATCAAGATATTG
639847 GTTTAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
ATATATCAAGATATTG
Found at i:640470 original size:52 final size:52
Alignment explanation
Indices: 640396--640538 Score: 178
Period size: 52 Copynumber: 2.8 Consensus size: 52
640386 TTTGGAATAA
* * * * *
640396 AAATGTATCGATACATTTTTCATTATATTGATACATTCTAGTTTTTTGACCC
1 AAATGTACCAATACATTCTTCATTATATCGATACATTCTAGGTTTTTGACCC
* *
640448 ACATGTACCAATACATTCTTCATTATATCGATAGATTCTAGGTTTTTGACCC
1 AAATGTACCAATACATTCTTCATTATATCGATACATTCTAGGTTTTTGACCC
* * * * *
640500 AAATGTATCGATACATTCTTCATTGTATCAATATATTCT
1 AAATGTACCAATACATTCTTCATTATATCGATACATTCT
640539 TCAATGTATC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (52 bp):
AAATGTACCAATACATTCTTCATTATATCGATACATTCTAGGTTTTTGACCC
Found at i:640528 original size:20 final size:20
Alignment explanation
Indices: 640501--640555 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
640491 TTTTGACCCA
640501 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
* * *
640521 ATTGTATCAATATATTCTTC
1 AATGTATCGATACATTCTTC
*
640541 AATGTATCGACACAT
1 AATGTATCGATACAT
640556 GCAGCCAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:653551 original size:12 final size:11
Alignment explanation
Indices: 653534--653598 Score: 55
Period size: 12 Copynumber: 5.7 Consensus size: 11
653524 AGAAAAAAGG
653534 GATAGGAGGGA
1 GATAGGAGGGA
653545 TGATAGGAGGAGA
1 -GATAGGAGG-GA
*
653558 GATAGTA--GA
1 GATAGGAGGGA
653567 GATAGGAGGGA
1 GATAGGAGGGA
653578 TGATCA-GAGGAGA
1 -GAT-AGGAGG-GA
653591 GATAGGAG
1 GATAGGAG
653599 AGATAATTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
9 8 0.18
11 3 0.07
12 28 0.64
13 5 0.11
ACGTcount: A:0.38, C:0.02, G:0.46, T:0.14
Consensus pattern (11 bp):
GATAGGAGGGA
Found at i:653571 original size:33 final size:33
Alignment explanation
Indices: 653534--653603 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
653524 AGAAAAAAGG
*
653534 GATAGGAGGGATGAT-AGGAGGAGAGATAGTAGA
1 GATAGGAGGGATGATCA-GAGGAGAGATAGGAGA
653567 GATAGGAGGGATGATCAGAGGAGAGATAGGAGA
1 GATAGGAGGGATGATCAGAGGAGAGATAGGAGA
653600 GATA
1 GATA
653604 ATTGAGAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.44, T:0.14
Consensus pattern (33 bp):
GATAGGAGGGATGATCAGAGGAGAGATAGGAGA
Found at i:653598 original size:42 final size:42
Alignment explanation
Indices: 653552--653631 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
653542 GGATGATAGG
* *
653552 AGGAGAGATAGTAGAGATAGGAGGGATGATCAG-AGGAGAGAT
1 AGGAGAGATAATAGAGAGAGGAGGGATGA-CAGTAGGAGAGAT
*
653594 AGGAGAGATAATTGAGAGAGGAGGGATGACAGTAGGAG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGTAGGAG
653632 GAGAGAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 3 0.09
42 31 0.91
ACGTcount: A:0.40, C:0.03, G:0.44, T:0.14
Consensus pattern (42 bp):
AGGAGAGATAATAGAGAGAGGAGGGATGACAGTAGGAGAGAT
Found at i:662030 original size:28 final size:28
Alignment explanation
Indices: 661927--662275 Score: 281
Period size: 28 Copynumber: 12.1 Consensus size: 28
661917 AGTAAAATAA
* *
661927 CTTTCAAAGTCCACAACTCAATGGCACC
1 CTTTTAAAGTCCACAACTCCATGGCACC
* ** *
661955 TTTCTTCAAAGTCCACGGCT-CAGTGACACC
1 CTT-TT-AAAGTCCACAACTCCA-TGGCACC
661985 CTTCTTCAAAGTCCACAACTCCATGGCACC
1 CTT-TT-AAAGTCCACAACTCCATGGCACC
* * ** *
662015 CCTATAATA-TCCACAACTCTGTGGTACC
1 CTTTTAA-AGTCCACAACTCCATGGCACC
662043 CTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTTAAAGTCCACAACTCCATGGCACC
662071 CTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTTAAAGTCCACAACTCCATGGCACC
*
662099 CTTTTCAAAGTCCACAACTCCGA-GGTACC
1 CTTTT-AAAGTCCACAACTCC-ATGGCACC
* * ** *
662128 TTTTTTTAAAATCCACAACTCTGTAGCACC
1 --CTTTTAAAGTCCACAACTCCATGGCACC
* * ** **
662158 CTTTTAAAGCCCATAACTCTGTGAAACC
1 CTTTTAAAGTCCACAACTCCATGGCACC
* * *
662186 CTTTTCAAAGTCCATAACTCCGTGGCACT
1 CTTTT-AAAGTCCACAACTCCATGGCACC
* **
662215 ATTTTCAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAAGTCCACAACTCCATGGCACC
**
662244 CTTTTCAAAGTCCACAACTCCGCGGCACC
1 CTTTT-AAAGTCCACAACTCCATGGCACC
662273 CTT
1 CTT
662276 CTTTCAAAGC
Statistics
Matches: 263, Mismatches: 46, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.00
28 100 0.38
29 96 0.37
30 60 0.23
31 6 0.02
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.27
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCATGGCACC
Found at i:662118 original size:29 final size:29
Alignment explanation
Indices: 661928--662284 Score: 314
Period size: 29 Copynumber: 12.3 Consensus size: 29
661918 GTAAAATAAC
* *
661928 TTTCAAAGTCCACAACTCAATGGCACCTT
1 TTTCAAAGTCCACAACTCCATGGCACCCT
** *
661957 TCTTCAAAGTCCACGGCT-CAGTGACACCCT
1 T-TTCAAAGTCCACAACTCCA-TGGCACCCT
*
661987 TCTTCAAAGTCCACAACTCCATGGCACCCC
1 T-TTCAAAGTCCACAACTCCATGGCACCCT
* ** *
662017 TAT-AATA-TCCACAACTCTGTGGTACCCT
1 TTTCAA-AGTCCACAACTCCATGGCACCCT
662045 TTT-AAAGTCCACAACTCCATGGCACCCT
1 TTTCAAAGTCCACAACTCCATGGCACCCT
662073 TTT-AAAGTCCACAACTCCATGGCACCCT
1 TTTCAAAGTCCACAACTCCATGGCACCCT
* *
662101 TTTCAAAGTCCACAACTCCGA-GGTACCTTT
1 TTTCAAAGTCCACAACTCC-ATGGCACC-CT
* * ** *
662131 TTTTAAAATCCACAACTCTGTAGCACCCT
1 TTTCAAAGTCCACAACTCCATGGCACCCT
* * ** **
662160 TTT-AAAGCCCATAACTCTGTGAAACCCT
1 TTTCAAAGTCCACAACTCCATGGCACCCT
* * **
662188 TTTCAAAGTCCATAACTCCGTGGCACTAT
1 TTTCAAAGTCCACAACTCCATGGCACCCT
**
662217 TTTCAAAGTCCACAACTCTGTGGCACCCT
1 TTTCAAAGTCCACAACTCCATGGCACCCT
**
662246 TTTCAAAGTCCACAACTCCGCGGCACCCTT
1 TTTCAAAGTCCACAACTCCATGGCACCC-T
662276 CTTTCAAAG
1 -TTTCAAAG
662285 CCCATATAAG
Statistics
Matches: 271, Mismatches: 45, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.00
28 94 0.35
29 98 0.36
30 68 0.25
31 10 0.04
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (29 bp):
TTTCAAAGTCCACAACTCCATGGCACCCT
Found at i:662165 original size:87 final size:88
Alignment explanation
Indices: 661928--662284 Score: 352
Period size: 87 Copynumber: 4.1 Consensus size: 88
661918 GTAAAATAAC
* * ** * *
661928 TTTCAAAGTCCACAACT-CAATGGCACCTTTCTTCAAAGTCCACGGCTCAGTGACACCCTTCTTC
1 TTTCAAAGTCCACAACTCCGA-GGCACCTTTTTTCAAAGTCCACAACTCTGTGGCACCCTT-TTC
*
661992 AAAGTCCACAACTCCATGGCACCCC
64 AAAGTCCACAACTCCATGGCACCCT
* * * * * **
662017 TAT-AATA-TCCACAACTCTGTGGTACC-CTTTT-AAAGTCCACAACTCCATGGCACCCTTTT-A
1 TTTCAA-AGTCCACAACTCCGAGGCACCTTTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTCA
662077 AAGTCCACAACTCCATGGCACCCT
65 AAGTCCACAACTCCATGGCACCCT
* * * *
662101 TTTCAAAGTCCACAACTCCGAGGTACCTTTTTTTAAAATCCACAACTCTGTAGCACCCTTTT-AA
1 TTTCAAAGTCCACAACTCCGAGGCACCTTTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTCAA
* * ** **
662165 AGCCCATAACTCTGTGAAACCCT
66 AGTCCACAACTCCATGGCACCCT
* * *
662188 TTTCAAAGTCCATAACTCCGTGGCA-CTATTTTCAAAGTCCACAACTCTGTGGCACCCTTTTCAA
1 TTTCAAAGTCCACAACTCCGAGGCACCTTTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTCAA
**
662252 AGTCCACAACTCCGCGGCACCCTT
66 AGTCCACAACTCCATGGCACCC-T
662276 CTTTCAAAG
1 -TTTCAAAG
662285 CCCATATAAG
Statistics
Matches: 219, Mismatches: 40, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
84 27 0.12
85 21 0.10
86 57 0.26
87 86 0.39
88 17 0.08
89 11 0.05
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (88 bp):
TTTCAAAGTCCACAACTCCGAGGCACCTTTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTCAA
AGTCCACAACTCCATGGCACCCT
Found at i:662315 original size:32 final size:32
Alignment explanation
Indices: 662276--662870 Score: 241
Period size: 32 Copynumber: 19.4 Consensus size: 32
662266 CGGCACCCTT
* * **
662276 CTTTCAAAGCCCATATAAGTTGGTGGCAACCC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
** * *
662308 CTTTCAAAGTGCACACAAATCAGTGGCAAACCT
1 CTTTCAAAGCCCACACAAGTCAGTGGC-AACCC
*
662341 CTTTTAAAGCCCACACAAGTCAGTGGCAACCC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* * * *
662373 CTTTCAATGCCCATATAAGTCGGTGGCAA-CC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* *
662404 CTCTCAAAAGCCCACACAAGTC-GATGGCAAACCT
1 CTTTC-AAAGCCCACACAAGTCAG-TGGC-AACCC
* *
662438 CTTTCAAAG-CC-CATAAGTCAGTGGC-ATCC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
*
662467 TTTTCAAAG-CC-CACAAGTCAGTGGC-ACACC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAAC-CC
* * * *
662497 CTTTCAAAG-CC-CATAGGTTAGTGGC-ACCT
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* * * *
662526 TTTTCAAAG-CC-CACAAGTCAATGAC-A-TC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* * * *
662554 CTTCTTAAAG-CC-CATAAGTCAATGGCAA--T
1 CTT-TCAAAGCCCACACAAGTCAGTGGCAACCC
* *
662583 CTTTCAAAG-CC-CATAAGTCAGTGGCAA--T
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* * * *
662611 CTTTCAAAG-CC-CATAAGTTAATAGC-A-CC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* * * *
662639 CTTTCAAAG--CTCACAAGTTAGT-GCCACCTT
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACC-C
* ** * * * * *
662669 TTTTTTAAGCCTACACAAGTTATTGAC-ACCT
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* ** ** *
662700 TTTTTTAAGCCCACACAAGTTGGTGGCAACCA
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* * *
662732 CTCTCAAAGCCCGCACAAGTCAGTGGCAACCA
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* ** * * *
662764 CTCTCAAAGCCTGCACCAGTCAGTTGCAA-CA
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* **
662795 TTTTCAAAGCCCACACAAGTTGGTGGCAA-CC
1 CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
* * * *
662826 CTCTTAAAAGCCCACACAAATTAGTGGCATCCC
1 CT-TTCAAAGCCCACACAAGTCAGTGGCAACCC
*
662859 CTTT-TAAGCCCA
1 CTTTCAAAGCCCA
662871 ATGTCATTGG
Statistics
Matches: 449, Mismatches: 94, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
27 4 0.01
28 66 0.15
29 70 0.16
30 32 0.07
31 74 0.16
32 160 0.36
33 38 0.08
34 5 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.24
Consensus pattern (32 bp):
CTTTCAAAGCCCACACAAGTCAGTGGCAACCC
Found at i:662378 original size:97 final size:94
Alignment explanation
Indices: 662246--662509 Score: 268
Period size: 97 Copynumber: 2.8 Consensus size: 94
662236 GTGGCACCCT
* * * * * *
662246 TTTCAAAGTCCACAACTCCGCGGCACCCTTCTTTCAAAGCCCATATAAGTTGGTGGCAACCCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC--CTTTCAAAGCCCATATAAGTCGGTGGCAA-CCCTC
**
662311 TC-AAAGTGCACACAAATC-AGTGGCAAACCTC
63 TCAAAAGCCCACACAAATCGA-TGGCAAACCTC
* *
662342 TTTTAAAGCCCACACAAGTCAGTGGCAACCCCTTTCAATGCCCATATAAGTCGGTGGCAACCCTC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACCCCTTTCAAAGCCCATATAAGTCGGTGGCAACCCTC
*
662407 TCAAAAGCCCACACAAGTCGATGGCAAACCTC
63 TCAAAAGCCCACACAAATCGATGGCAAACCTC
* * * * * *
662439 TTTCAAAGCCCATAAGTCAGTGGCATCCTTTTCAAAGCCC--ACAAGTCAGTGGCACACCCTTTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCATATAAGTCGGTGGCA-ACCCTCTC
662502 -AAAGCCCA
65 AAAAGCCCA
662510 TAGGTTAGTG
Statistics
Matches: 143, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
92 20 0.14
93 7 0.05
94 13 0.09
95 13 0.09
96 15 0.10
97 59 0.41
98 12 0.08
99 4 0.03
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.22
Consensus pattern (94 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCATATAAGTCGGTGGCAACCCTCTCA
AAAGCCCACACAAATCGATGGCAAACCTC
Found at i:662399 original size:65 final size:65
Alignment explanation
Indices: 662275--662625 Score: 243
Period size: 65 Copynumber: 5.7 Consensus size: 65
662265 GCGGCACCCT
* * ** ** * * *
662275 TCTTTCAAAGCCCATATAAGTTGGTGGCAACCCCTTTCAAAGTGCACACAAATCAGTGGCAAACC
1 TCTTTCAAAGCCCACACAAGTCAGTGGCAACCCCTTTCAAAGCCCATATAAGTCAGTGGCAAACC
* * *
662340 TCTTTTAAAGCCCACACAAGTCAGTGGCAACCCCTTTCAATGCCCATATAAGTCGGTGGC-AACC
1 TCTTTCAAAGCCCACACAAGTCAGTGGCAACCCCTTTCAAAGCCCATATAAGTCAGTGGCAAACC
* *
662404 -CTCTCAAAAGCCCACACAAGTC-GATGGCAAACCTCTTTCAAAGCCC--ATAAGTCAGTGGC-A
1 TCTTTC-AAAGCCCACACAAGTCAG-TGGC-AACCCCTTTCAAAGCCCATATAAGTCAGTGGCAA
*
662464 TCC
63 ACC
* *
662467 T-TTTCAAAG-CC-CACAAGTCAGTGGC-ACACCCTTTCAAAGCCC--ATAGGTTAGTGGC--AC
1 TCTTTCAAAGCCCACACAAGTCAGTGGCAAC-CCCTTTCAAAGCCCATATAAGTCAGTGGCAAAC
662524 C
65 C
* * * * * *
662525 TTTTTCAAAG-CC-CACAAGTCAATGAC-A-TCCTTCTTAAAGCCC--ATAAGTCAATGGC-AA-
1 TCTTTCAAAGCCCACACAAGTCAGTGGCAACCCCTT-TCAAAGCCCATATAAGTCAGTGGCAAAC
662582 -
65 C
* *
662582 TCTTTCAAAG-CC-CATAAGTCAGTGGCAA--TCTTTCAAAGCCCATA
1 TCTTTCAAAGCCCACACAAGTCAGTGGCAACCCCTTTCAAAGCCCATA
662626 AGTTAATAGC
Statistics
Matches: 238, Mismatches: 36, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
56 8 0.03
57 29 0.12
58 25 0.11
59 48 0.20
60 12 0.05
61 3 0.01
62 4 0.02
63 22 0.09
64 24 0.10
65 63 0.26
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (65 bp):
TCTTTCAAAGCCCACACAAGTCAGTGGCAACCCCTTTCAAAGCCCATATAAGTCAGTGGCAAACC
Found at i:662477 original size:29 final size:29
Alignment explanation
Indices: 662153--662671 Score: 280
Period size: 29 Copynumber: 17.3 Consensus size: 29
662143 CAACTCTGTA
* *
662153 GCACCCTTTT-AAAGCCCATAACTCTGTG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
** * * *
662181 AAACCCTTTTCAAAGTCCATAACTCCGTG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
** * * * *
662210 GCACTATTTTCAAAGTCCACAACTCTGTG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
* * * * *
662239 GCACCCTTTTCAAAGTCCACAACTCCGCG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
**
662268 GCACCCTTCTTTCAAAGCCCATATAAGTTGGTG
1 GCACCC-T-TTTCAAAGCCC--ATAAGTCAGTG
* * * *
662301 GCAACCCCTTTCAAAGTGCACACAAATCAGTG
1 GC-ACCCTTTTCAAA--GCCCATAAGTCAGTG
*
662333 GCAAACCTCTTTT-AAAGCCCACACAAGTCAGTG
1 GC--ACC-CTTTTCAAAG-CC-CATAAGTCAGTG
* * *
662366 GCAACCCCTTTCAATGCCCATATAAGTCGGTG
1 GC-ACCCTTTTCAAAGCCC--ATAAGTCAGTG
* *
662398 GCAACCC-TCTCAAAAGCCCACACAAGTC-GATG
1 GC-ACCCTTTTC-AAAG-CC-CATAAGTCAG-TG
*
662430 GCAAACCTCTTTCAAAGCCCATAAGTCAGTG
1 GC-ACCCT-TTTCAAAGCCCATAAGTCAGTG
* *
662461 GCATCCTTTTCAAAGCCCACAAGTCAGTG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
* * *
662490 GCACACCCTTTCAAAGCCCATAGGTTAGTG
1 GCAC-CCTTTTCAAAGCCCATAAGTCAGTG
* * *
662520 GCACCTTTTTCAAAGCCCACAAGTCAATG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
* * *
662549 ACATCCTTCTT-AAAGCCCATAAGTCAATG
1 GCACCCTT-TTCAAAGCCCATAAGTCAGTG
**
662578 GCAATC-TTTCAAAGCCCATAAGTCAGTG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
** * * *
662606 GCAATC-TTTCAAAGCCCATAAGTTAATA
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
* * *
662634 GCACCC-TTTCAAAGCTCACAAGTTAGTG
1 GCACCCTTTTCAAAGCCCATAAGTCAGTG
* *
662662 CCACCTTTTT
1 GCACCCTTTT
662672 TTTAAGCCTA
Statistics
Matches: 394, Mismatches: 71, Indels: 51
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.01
28 77 0.20
29 141 0.36
30 33 0.08
31 32 0.08
32 60 0.15
33 34 0.09
34 15 0.04
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
GCACCCTTTTCAAAGCCCATAAGTCAGTG
Found at i:662706 original size:31 final size:32
Alignment explanation
Indices: 662650--662720 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
662640 TTTCAAAGCT
* *
662650 CACAAGTTAGTGCCACCTTTTTTTTAAGCCTA
1 CACAAGTTAGTGACACCTTTTTTTTAAGCCCA
*
662682 CACAAGTTATTGACACC-TTTTTTTAAGCCCA
1 CACAAGTTAGTGACACCTTTTTTTTAAGCCCA
662713 CACAAGTT
1 CACAAGTT
662721 GGTGGCAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (32 bp):
CACAAGTTAGTGACACCTTTTTTTTAAGCCCA
Found at i:662995 original size:52 final size:52
Alignment explanation
Indices: 662925--663027 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
662915 CTTTCTCAAG
* * *
662925 TCCAATGTCGCTACCCTTGAATCACCACATTGGCA-CTCTCATCATCTTTAAT
1 TCCAATATCACTACCCTTGAATCACCACATTGGCACCT-TCATAATCTTTAAT
* *
662977 TCCAATATCACTAGCCTTGAATCAGCACATTGGCACCTTCATAATCTTTAA
1 TCCAATATCACTACCCTTGAATCACCACATTGGCACCTTCATAATCTTTAA
663028 AGCTAGTGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
52 43 0.96
53 2 0.04
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (52 bp):
TCCAATATCACTACCCTTGAATCACCACATTGGCACCTTCATAATCTTTAAT
Found at i:663162 original size:164 final size:162
Alignment explanation
Indices: 662879--663177 Score: 354
Period size: 164 Copynumber: 1.8 Consensus size: 162
662869 CAATGTCATT
* *
662879 GGCCTTGAGTCAACACATTGGCACTTGTCAAATCTTCTTTCTCAAGTCCAATGTCGCTACCCTTG
1 GGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCCTTCTCAAGTCCAATGTCGCTACCCTTG
* * * * * *
662944 AATCACCACATTGGCACTCTCATCATCTTTAATTCCAATATCACTAGCCTTGAATCAGC-ACATT
66 AATCACCACATTGGCAATCTCATCATCTTTAAGTCCAACATCACGAGACTTGAATCAACAAC-TT
663008 GGCACCTTCATAATCTTTAAAGCTAGTGTCGTA
130 GGCACCTTCATAATCTTTAAAGCTAGTGTCGTA
* * * **
663041 GGCCTTGAATCGACACATTGGCATATTTGTCAAAAATC-TCCTTCT-AAGTCCAATGTTGCTGGC
1 GGCCTTGAATCAACACATTGGC--ACTTGTC--AAATCTTCCTTCTCAAGTCCAATGTCGCTACC
* ** * *
663104 CTTGAATCAGCACATTGGCAATCTTTTCGTCTTTAAGTCCAACGTCACCGA-ACTTGAATCAACA
62 CTTGAATCACCACATTGGCAATCTCATCATCTTTAAGTCCAACATCA-CGAGACTTGAATCAACA
663168 ACTTGGCACC
126 ACTTGGCACC
663178 CTTATCTCCT
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
162 20 0.18
164 78 0.69
165 10 0.09
166 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (162 bp):
GGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCCTTCTCAAGTCCAATGTCGCTACCCTTG
AATCACCACATTGGCAATCTCATCATCTTTAAGTCCAACATCACGAGACTTGAATCAACAACTTG
GCACCTTCATAATCTTTAAAGCTAGTGTCGTA
Found at i:670487 original size:42 final size:42
Alignment explanation
Indices: 670432--670550 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
670422 CTCTTCTCTC
* *
670432 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
670474 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
670516 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
670551 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:670491 original size:12 final size:11
Alignment explanation
Indices: 670465--670540 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
670455 TCTATTATCT
*
670465 CTCCTGTCTCTC
1 CTCCTATCTC-C
670477 CTCCTATCATCC
1 CTCCTATC-TCC
670489 CTCCTATCT--
1 CTCCTATCTCC
*
670498 CTACTATCT--
1 CTCCTATCTCC
*
670507 CTCCTGTCTCTC
1 CTCCTATCTC-C
670519 CTCCTATCATCC
1 CTCCTATC-TCC
*
670531 CTCCTCTCTC
1 CTCCTATCTC
670541 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:670492 original size:24 final size:24
Alignment explanation
Indices: 670456--670541 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
670446 CCTCCTCTCT
* *
670456 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
670480 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
670501 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
670522 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
670542 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:670516 original size:18 final size:18
Alignment explanation
Indices: 670447--670517 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
670437 CCTGTCATCC
* *
670447 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
670465 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
670487 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
670507 CTCCTGTCTCT
1 CTCCTGTCTCT
670518 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:675612 original size:42 final size:42
Alignment explanation
Indices: 675557--675675 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
675547 TTCTTCTCTC
* *
675557 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
675599 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
675641 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
675676 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:675616 original size:12 final size:11
Alignment explanation
Indices: 675590--675665 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
675580 TCTATTATCT
*
675590 CTCCTGTCTCTC
1 CTCCTATCTC-C
675602 CTCCTATCATCC
1 CTCCTATC-TCC
675614 CTCCTATCT--
1 CTCCTATCTCC
*
675623 CTACTATCT--
1 CTCCTATCTCC
*
675632 CTCCTGTCTCTC
1 CTCCTATCTC-C
675644 CTCCTATCATCC
1 CTCCTATC-TCC
*
675656 CTCCTCTCTC
1 CTCCTATCTC
675666 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:675617 original size:24 final size:24
Alignment explanation
Indices: 675581--675666 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
675571 CCTCCTCTCT
* *
675581 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
675605 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
675626 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
675647 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
675667 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:675641 original size:18 final size:18
Alignment explanation
Indices: 675572--675642 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
675562 CCTGTCATCC
* *
675572 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
675590 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
675612 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
675632 CTCCTGTCTCT
1 CTCCTGTCTCT
675643 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:679848 original size:28 final size:28
Alignment explanation
Indices: 679814--679895 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
679804 TTCCTCTCCA
679814 TTGATTTCTCTTCCTTTGATATTTCTTG
1 TTGATTTCTCTTCCTTTGATATTTCTTG
*
679842 CTT-ATTTCAT-TTCCTTTCATATTTCTTG
1 -TTGATTTC-TCTTCCTTTGATATTTCTTG
* *
679870 TTGATTTCACTTCC-TTGATCTTTCTT
1 TTGATTTCTCTTCCTTTGATATTTCTT
679896 ATTTATTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 12 0.26
28 31 0.67
29 3 0.07
ACGTcount: A:0.12, C:0.21, G:0.07, T:0.60
Consensus pattern (28 bp):
TTGATTTCTCTTCCTTTGATATTTCTTG
Found at i:683150 original size:24 final size:24
Alignment explanation
Indices: 683122--683180 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
683112 AAGAGAAAGA
* *
683122 AGAGATGGGAGGGATGAAAGGAGG
1 AGAGATAGGAGGGATGAAAGGAAG
*
683146 AGAGATAGGAGGGATGATAGGAAG
1 AGAGATAGGAGGGATGAAAGGAAG
*
683170 AGAGATCGGAG
1 AGAGATAGGAG
683181 AGATAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.02, G:0.49, T:0.10
Consensus pattern (24 bp):
AGAGATAGGAGGGATGAAAGGAAG
Found at i:683155 original size:12 final size:12
Alignment explanation
Indices: 683122--683180 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
683112 AAGAGAAAGA
*
683122 AGAGATGGGAGG
1 AGAGATAGGAGG
*
683134 -GATGAAAGGAGG
1 AGA-GATAGGAGG
683146 AGAGATAGGAGG
1 AGAGATAGGAGG
*
683158 -GATGATAGGAAG
1 AGA-GATAGGAGG
*
683170 AGAGATCGGAG
1 AGAGATAGGAG
683181 AGATAATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 4 0.11
12 29 0.78
13 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.49, T:0.10
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:688955 original size:12 final size:11
Alignment explanation
Indices: 688933--689008 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
688923 AGAGAAAGAA
*
688933 GAGAGAGGAGG
1 GAGATAGGAGG
688944 GATGATAGGAGG
1 GA-GATAGGAGG
*
688956 AGAGACAGGA--
1 -GAGATAGGAGG
*
688966 GAGATAGTA--
1 GAGATAGGAGG
688975 GAGATAGGAGG
1 GAGATAGGAGG
688986 GATGATAGGAGG
1 GA-GATAGGAGG
*
688998 AGAGACAGGAG
1 -GAGATAGGAG
689009 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:688965 original size:24 final size:24
Alignment explanation
Indices: 688932--689017 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
688922 AAGAGAAAGA
*
688932 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
688956 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
688974 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
688998 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
689018 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:688984 original size:42 final size:42
Alignment explanation
Indices: 688923--689041 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
688913 TAGCCCTCAA
* *
688923 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
688965 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
689007 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
689042 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:700081 original size:12 final size:12
Alignment explanation
Indices: 700061--700095 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
700051 AAAAAAAAGA
700061 AGAGATAGGAGG
1 AGAGATAGGAGG
700073 -GATGATAGGAGG
1 AGA-GATAGGAGG
700085 AGAGATAGGAG
1 AGAGATAGGAG
700096 AGATAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:700104 original size:12 final size:12
Alignment explanation
Indices: 700064--700109 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
700054 AAAAAGAAGA
*
700064 GATAGGAGGGAT
1 GATAGGAGAGAT
700076 GATAGGAGGAGA-
1 GATAGGA-GAGAT
700088 GATAGGAGAGAT
1 GATAGGAGAGAT
*
700100 AATA-GAGAGA
1 GATAGGAGAGA
700110 GGAGGGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 17 0.57
13 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:708011 original size:42 final size:42
Alignment explanation
Indices: 707956--708074 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
707946 TTCTTCTCTC
* *
707956 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
707998 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
708040 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
708075 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:708015 original size:12 final size:11
Alignment explanation
Indices: 707989--708064 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
707979 TCTATTATCT
*
707989 CTCCTGTCTCTC
1 CTCCTATCTC-C
708001 CTCCTATCATCC
1 CTCCTATC-TCC
708013 CTCCTATCT--
1 CTCCTATCTCC
*
708022 CTACTATCT--
1 CTCCTATCTCC
*
708031 CTCCTGTCTCTC
1 CTCCTATCTC-C
708043 CTCCTATCATCC
1 CTCCTATC-TCC
*
708055 CTCCTCTCTC
1 CTCCTATCTC
708065 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:708016 original size:24 final size:24
Alignment explanation
Indices: 707980--708065 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
707970 CCTCCTCTCT
* *
707980 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
708004 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
708025 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
708046 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
708066 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:708040 original size:18 final size:18
Alignment explanation
Indices: 707971--708041 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
707961 CCTGTCATCC
* *
707971 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
707989 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
708011 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
708031 CTCCTGTCTCT
1 CTCCTGTCTCT
708042 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:713131 original size:42 final size:42
Alignment explanation
Indices: 713076--713194 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
713066 TTCTTCTCTC
* *
713076 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
713118 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
713160 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
713195 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:713135 original size:12 final size:11
Alignment explanation
Indices: 713109--713184 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
713099 TCTATTATCT
*
713109 CTCCTGTCTCTC
1 CTCCTATCTC-C
713121 CTCCTATCATCC
1 CTCCTATC-TCC
713133 CTCCTATCT--
1 CTCCTATCTCC
*
713142 CTACTATCT--
1 CTCCTATCTCC
*
713151 CTCCTGTCTCTC
1 CTCCTATCTC-C
713163 CTCCTATCATCC
1 CTCCTATC-TCC
*
713175 CTCCTCTCTC
1 CTCCTATCTC
713185 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:713136 original size:24 final size:24
Alignment explanation
Indices: 713100--713185 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
713090 CCTCCTCTCT
* *
713100 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
713124 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
713145 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
713166 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
713186 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:713160 original size:18 final size:18
Alignment explanation
Indices: 713091--713161 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
713081 CCTGTCATCC
* *
713091 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
713109 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
713131 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
713151 CTCCTGTCTCT
1 CTCCTGTCTCT
713162 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:722729 original size:42 final size:42
Alignment explanation
Indices: 722674--722792 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
722664 TTCTTCTCTC
* *
722674 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
722716 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
722758 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
722793 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:722733 original size:12 final size:11
Alignment explanation
Indices: 722707--722782 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
722697 TCTATTATCT
*
722707 CTCCTGTCTCTC
1 CTCCTATCTC-C
722719 CTCCTATCATCC
1 CTCCTATC-TCC
722731 CTCCTATCT--
1 CTCCTATCTCC
*
722740 CTACTATCT--
1 CTCCTATCTCC
*
722749 CTCCTGTCTCTC
1 CTCCTATCTC-C
722761 CTCCTATCATCC
1 CTCCTATC-TCC
*
722773 CTCCTCTCTC
1 CTCCTATCTC
722783 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:722734 original size:24 final size:24
Alignment explanation
Indices: 722698--722783 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
722688 CCTCCTCTCT
* *
722698 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
722722 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
722743 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
722764 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
722784 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:722758 original size:18 final size:18
Alignment explanation
Indices: 722689--722759 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
722679 CCTGTCATCC
* *
722689 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
722707 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
722729 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
722749 CTCCTGTCTCT
1 CTCCTGTCTCT
722760 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:724681 original size:333 final size:333
Alignment explanation
Indices: 724075--724694 Score: 1231
Period size: 333 Copynumber: 1.9 Consensus size: 333
724065 CCCTAAGGGG
724075 CTTATTATGCTAACAAGCCCAACTCTTACTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAG
1 CTTATTATGCTAACAAGCCCAACTCTTACTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAG
*
724140 CCCAAAGCAAGTCACAACCAGCAGGCCCTTTGTTACAAAATAACCCAAGTCCTAATTCAATCCAT
66 CCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAATAACCCAAGTCCTAATTCAATCCAT
724205 TGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGT
131 TGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGT
724270 CTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCT
196 CTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCT
724335 CGTTATTGGTCCTTGAAATCCTTCCAACACCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGT
261 CGTTATTGGTCCTTGAAATCCTTCCAACACCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGT
724400 TTTCATCA
326 TTTCATCA
724408 CTTATTATGCTAACAAGCCCAACTCTTACTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAG
1 CTTATTATGCTAACAAGCCCAACTCTTACTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAG
724473 CCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAATAACCCAAGTCCTAATTCAATCCAT
66 CCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAATAACCCAAGTCCTAATTCAATCCAT
724538 TGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGT
131 TGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGT
724603 CTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCT
196 CTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCT
724668 CGTTATTGGTCCTTGAAATCCTTCCAA
261 CGTTATTGGTCCTTGAAATCCTTCCAA
724695 TCTTCAATGG
Statistics
Matches: 286, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
333 286 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (333 bp):
CTTATTATGCTAACAAGCCCAACTCTTACTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAG
CCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTACAAAATAACCCAAGTCCTAATTCAATCCAT
TGGAGCCCATATCTTCCAAATATATGCAATTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGT
CTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCT
CGTTATTGGTCCTTGAAATCCTTCCAACACCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGT
TTTCATCA
Found at i:733216 original size:12 final size:12
Alignment explanation
Indices: 733201--733235 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
733191 TCTATTATCT
733201 CTCCTATCTCTC
1 CTCCTATCTCTC
733213 CTCCTATCATC-C
1 CTCCTATC-TCTC
733225 CTCCTATCTCT
1 CTCCTATCTCT
733236 ACTATCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:733223 original size:42 final size:42
Alignment explanation
Indices: 733168--733286 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
733158 TTCTTCTCTC
* *
733168 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* * *
733210 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCTTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* *
733252 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
733287 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.09, C:0.45, G:0.02, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
Found at i:733228 original size:24 final size:24
Alignment explanation
Indices: 733192--733277 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
733182 CCTCCTCTCT
* *
733192 CTATTATCTCTCCTATCTCTCCTC
1 CTATCATCCCTCCTATCTCTCCTC
*
733216 CTATCATCCCTCCTA--TCT-CTA
1 CTATCATCCCTCCTATCTCTCCTC
* *
733237 CTATC-T--CTCTTGTCTCTCCTC
1 CTATCATCCCTCCTATCTCTCCTC
*
733258 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTATCTCT
733278 TCTTTCTCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
18 4 0.08
20 4 0.08
21 14 0.29
22 4 0.08
24 22 0.46
ACGTcount: A:0.12, C:0.44, G:0.01, T:0.43
Consensus pattern (24 bp):
CTATCATCCCTCCTATCTCTCCTC
Found at i:734627 original size:234 final size:234
Alignment explanation
Indices: 734218--734683 Score: 914
Period size: 234 Copynumber: 2.0 Consensus size: 234
734208 CAACCATGAA
734218 CCAAGGTTGCCTAAATTTTGATCTTGAGATGGATTTCTAAAAATAAACAGAATTATTGATGCAAG
1 CCAAGGTTGCCTAAATTTTGATCTTGAGATGGATTTCTAAAAATAAACAGAATTATTGATGCAAG
*
734283 AACAGAAATTGTAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAGAGATGAAGGATGGCGC
66 AACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAGAGATGAAGGATGGCGC
*
734348 CACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGA
131 CACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTCTTGGCCTCTTGATAAGA
734413 TCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCAAT
196 TCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCAAT
734452 CCAAGGTTGCCTAAATTTTGATCTTGAGATGGATTTCTAAAAATAAACAGAATTATTGATGCAAG
1 CCAAGGTTGCCTAAATTTTGATCTTGAGATGGATTTCTAAAAATAAACAGAATTATTGATGCAAG
734517 AACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAGAGATGAAGGATGGCGC
66 AACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAGAGATGAAGGATGGCGC
734582 CACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTCTTGGCCTCTTGATAAGA
131 CACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTCTTGGCCTCTTGATAAGA
734647 TCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCA
196 TCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCA
734684 CTCTCACACA
Statistics
Matches: 230, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 230 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (234 bp):
CCAAGGTTGCCTAAATTTTGATCTTGAGATGGATTTCTAAAAATAAACAGAATTATTGATGCAAG
AACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAGAGATGAAGGATGGCGC
CACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTCTTGGCCTCTTGATAAGA
TCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCAAT
Found at i:736279 original size:12 final size:11
Alignment explanation
Indices: 736257--736332 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
736247 AGAGAAAGAA
*
736257 GAGAGAGGAGG
1 GAGATAGGAGG
736268 GATGATAGGAGG
1 GA-GATAGGAGG
*
736280 AGAGACAGGA--
1 -GAGATAGGAGG
*
736290 GAGATAGTA--
1 GAGATAGGAGG
736299 GAGATAGGAGG
1 GAGATAGGAGG
736310 GATGATAGGAGG
1 GA-GATAGGAGG
*
736322 AGAGACAGGAG
1 -GAGATAGGAG
736333 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:736308 original size:42 final size:42
Alignment explanation
Indices: 736247--736365 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
736237 TAGCCCTCAA
* *
736247 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
736289 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
736331 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
736366 GAGAGAAGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:736349 original size:18 final size:18
Alignment explanation
Indices: 736322--736371 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
736312 TGATAGGAGG
*
736322 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
736340 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
736358 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
736372 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:743067 original size:9 final size:9
Alignment explanation
Indices: 743055--743124 Score: 65
Period size: 9 Copynumber: 7.8 Consensus size: 9
743045 AAGAGAAAGA
743055 AGAGATAGG
1 AGAGATAGG
743064 AGAGAT--G
1 AGAGATAGG
* *
743071 ATAG-GAGG
1 AGAGATAGG
743079 AGAGATAGG
1 AGAGATAGG
*
743088 AGAGATAGT
1 AGAGATAGG
743097 AGAGATAGGAGG
1 AGAGAT---AGG
743109 AGAGATAGG
1 AGAGATAGG
743118 AGAGATA
1 AGAGATA
743125 ATAGAGAGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 4 0.08
8 4 0.08
9 33 0.67
12 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGAGATAGG
Found at i:743106 original size:30 final size:30
Alignment explanation
Indices: 743070--743138 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
743060 TAGGAGAGAT
*
743070 GATAGGAGGAGAGATAGGAGAGATAGTAGA
1 GATAGGAGGAGAGATAGGAGAGATAATAGA
743100 GATAGGAGGAGAGATAGGAGAGATAATAGA
1 GATAGGAGGAGAGATAGGAGAGATAATAGA
*
743130 GAGAGGAGG
1 GATAGGAGG
743139 GATGACAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.45, T:0.12
Consensus pattern (30 bp):
GATAGGAGGAGAGATAGGAGAGATAATAGA
Found at i:743114 original size:12 final size:12
Alignment explanation
Indices: 743055--743119 Score: 63
Period size: 12 Copynumber: 5.9 Consensus size: 12
743045 AAGAGAAAGA
743055 AGAGATAGGA-G
1 AGAGATAGGAGG
743066 AGATGATAGGAGG
1 AGA-GATAGGAGG
743079 AGAGAT---AGG
1 AGAGATAGGAGG
*
743088 AGAGAT---AGT
1 AGAGATAGGAGG
743097 AGAGATAGGAGG
1 AGAGATAGGAGG
743109 AGAGATAGGAG
1 AGAGATAGGAG
743120 AGATAATAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
9 17 0.36
11 3 0.06
12 23 0.49
13 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.45, T:0.12
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:743128 original size:12 final size:10
Alignment explanation
Indices: 743046--743122 Score: 54
Period size: 9 Copynumber: 7.5 Consensus size: 10
743036 TAGCCCTCAA
*
743046 AGAGAA-AGA
1 AGAGAATAGG
743055 AGAG-ATAGG
1 AGAGAATAGG
743064 AGAGATGATAGG
1 AGAGA--ATAGG
743076 AGGAGAGATAGG
1 A-GAGA-ATAGG
*
743088 AGAG-ATAGT
1 AGAGAATAGG
743097 AGAG-ATAGG
1 AGAGAATAGG
743106 AGGAGAGATAGG
1 A-GAGA-ATAGG
743118 AGAGA
1 AGAGA
743123 TAATAGAGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
8 1 0.02
9 23 0.40
10 3 0.05
11 7 0.12
12 19 0.33
13 4 0.07
ACGTcount: A:0.47, C:0.00, G:0.43, T:0.10
Consensus pattern (10 bp):
AGAGAATAGG
Found at i:743149 original size:30 final size:30
Alignment explanation
Indices: 743073--743149 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
743063 GAGAGATGAT
* * *
743073 AGGAGGAGAGATAGGAGAGATAGTAGAGAT
1 AGGAGGAGAGACAGGAGAGATAATAGAGAG
*
743103 AGGAGGAGAGATAGGAGAGATAATAGAGAG
1 AGGAGGAGAGACAGGAGAGATAATAGAGAG
743133 AGGAGG-GATGACAGGAG
1 AGGAGGAGA-GACAGGAG
743150 GATGAGAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 2 0.05
30 41 0.95
ACGTcount: A:0.43, C:0.01, G:0.45, T:0.10
Consensus pattern (30 bp):
AGGAGGAGAGACAGGAGAGATAATAGAGAG
Found at i:743773 original size:11 final size:12
Alignment explanation
Indices: 743746--743778 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
743736 TACAACTCTA
*
743746 AAGGATGGAAGG
1 AAGGAGGGAAGG
743758 AAGGAGGGAA-G
1 AAGGAGGGAAGG
743769 AAGGAGGGAA
1 AAGGAGGGAA
743779 CTTCAGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.03
Consensus pattern (12 bp):
AAGGAGGGAAGG
Found at i:755857 original size:12 final size:10
Alignment explanation
Indices: 755835--755902 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 10
755825 AGAGAAAGAA
*
755835 GAGAGAGGAGG
1 GAGATAGGA-G
755846 GATGATAGGAG
1 GA-GATAGGAG
755857 GAGGGATAGGA-
1 GA--GATAGGAG
*
755868 GAGATAGTA-
1 GAGATAGGAG
755877 GAGATAGGAGG
1 GAGATAGGA-G
755888 GATGATAGGAG
1 GA-GATAGGAG
755899 GAGA
1 GAGA
755903 GACAGGAGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
9 14 0.29
10 2 0.04
11 12 0.25
12 20 0.42
ACGTcount: A:0.38, C:0.00, G:0.50, T:0.12
Consensus pattern (10 bp):
GAGATAGGAG
Found at i:755886 original size:42 final size:42
Alignment explanation
Indices: 755825--755944 Score: 177
Period size: 42 Copynumber: 2.9 Consensus size: 42
755815 TAGCCCTCAA
* * *
755825 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGGGATAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGGGACAGG
* *
755867 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGGGACAGG
* *
755909 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGG
755945 AGAGAAGAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.42, C:0.02, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGGGACAGG
Found at i:760783 original size:9 final size:9
Alignment explanation
Indices: 760754--760785 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
760744 TTGTCATCAC
760754 CTCCTATCT
1 CTCCTATCT
*
760763 CTACTATCT
1 CTCCTATCT
760772 CTCCTATCT
1 CTCCTATCT
760781 CTCCT
1 CTCCT
760786 CCTATCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (9 bp):
CTCCTATCT
Found at i:760789 original size:12 final size:12
Alignment explanation
Indices: 760772--760806 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
760762 TCTACTATCT
760772 CTCCTATCTCTC
1 CTCCTATCTCTC
760784 CTCCTATCATC-C
1 CTCCTATC-TCTC
760796 CTCCTATCTCT
1 CTCCTATCTCT
760807 TCTTTCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:764186 original size:28 final size:29
Alignment explanation
Indices: 764141--764222 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
764131 ATTAATAAAT
*
764141 AAGAAAGATC-AAGGAAGTGAAATCAA-C
1 AAGAAATATCAAAGGAAGTGAAATCAAGC
* **
764168 AAGAAATATGATGGGAAGTGAAAT-AAGC
1 AAGAAATATCAAAGGAAGTGAAATCAAGC
*
764196 AAGAAATATCAAAGGAAGAGAAATCAA
1 AAGAAATATCAAAGGAAGTGAAATCAA
764223 TGAAGAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 10 0.23
28 32 0.73
29 2 0.05
ACGTcount: A:0.56, C:0.07, G:0.23, T:0.13
Consensus pattern (29 bp):
AAGAAATATCAAAGGAAGTGAAATCAAGC
Found at i:777268 original size:13 final size:13
Alignment explanation
Indices: 777250--777293 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
777240 CATGGGACAT
777250 TGTATCGATACAA
1 TGTATCGATACAA
777263 TGTATCGAT----
1 TGTATCGATACAA
777272 TGTATCGATACAA
1 TGTATCGATACAA
777285 TGTATCGAT
1 TGTATCGAT
777294 TGTATCGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 9 0.33
13 18 0.67
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:777276 original size:22 final size:22
Alignment explanation
Indices: 777248--777305 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
777238 TACATGGGAC
777248 ATTGTATCGATACAATGTATCG
1 ATTGTATCGATACAATGTATCG
777270 ATTGTATCGATACAATGTATCG
1 ATTGTATCGATACAATGTATCG
777292 ATTGTATCGATACA
1 ATTGTATCGATACA
777306 TAGTGAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (22 bp):
ATTGTATCGATACAATGTATCG
Found at i:777381 original size:43 final size:42
Alignment explanation
Indices: 777319--777412 Score: 179
Period size: 43 Copynumber: 2.2 Consensus size: 42
777309 TGAAAAGTTT
777319 TGATACATTATGCCCAACGGCTATAAATTTCAAATGCATGTA
1 TGATACATTATGCCCAACGGCTATAAATTTCAAATGCATGTA
777361 TCGATACATTATGCCCAACGGCTATAAATTTCAAATGCATGTA
1 T-GATACATTATGCCCAACGGCTATAAATTTCAAATGCATGTA
777404 TGATACATT
1 TGATACATT
777413 GTGAAAAGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 9 0.18
43 42 0.82
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (42 bp):
TGATACATTATGCCCAACGGCTATAAATTTCAAATGCATGTA
Found at i:780046 original size:106 final size:106
Alignment explanation
Indices: 779920--780134 Score: 430
Period size: 106 Copynumber: 2.0 Consensus size: 106
779910 CAAAAGTATT
779920 AAACACTTATGAAAAAGGATCCAAGAAAATTTGGGTACCTAAAACCAAGACTTGATTCTTGTGCT
1 AAACACTTATGAAAAAGGATCCAAGAAAATTTGGGTACCTAAAACCAAGACTTGATTCTTGTGCT
779985 TGTAGGAGGTAGAGCATTGCTACAAGGCAAAGGAATCAAAG
66 TGTAGGAGGTAGAGCATTGCTACAAGGCAAAGGAATCAAAG
780026 AAACACTTATGAAAAAGGATCCAAGAAAATTTGGGTACCTAAAACCAAGACTTGATTCTTGTGCT
1 AAACACTTATGAAAAAGGATCCAAGAAAATTTGGGTACCTAAAACCAAGACTTGATTCTTGTGCT
780091 TGTAGGAGGTAGAGCATTGCTACAAGGCAAAGGAATCAAAG
66 TGTAGGAGGTAGAGCATTGCTACAAGGCAAAGGAATCAAAG
780132 AAA
1 AAA
780135 AATTTTTGGT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (106 bp):
AAACACTTATGAAAAAGGATCCAAGAAAATTTGGGTACCTAAAACCAAGACTTGATTCTTGTGCT
TGTAGGAGGTAGAGCATTGCTACAAGGCAAAGGAATCAAAG
Found at i:791628 original size:18 final size:18
Alignment explanation
Indices: 791607--791677 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
791597 CCTGTCATCC
791607 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATTATCT
* *
791625 CTCCTGTCTCTCCTCCTATCATCC
1 CT-C---CTCT-CT-CTATTATCT
*
791649 CTCCTATCTCTATTATCT
1 CTCCTCTCTCTATTATCT
791667 CTCCTCTCTCT
1 CTCCTCTCTCT
791678 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 19 0.46
19 3 0.07
20 3 0.07
22 4 0.10
23 3 0.07
24 9 0.22
ACGTcount: A:0.10, C:0.44, G:0.01, T:0.45
Consensus pattern (18 bp):
CTCCTCTCTCTATTATCT
Found at i:791652 original size:24 final size:24
Alignment explanation
Indices: 791586--791701 Score: 94
Period size: 24 Copynumber: 5.3 Consensus size: 24
791576 TCCATCTTCT
*
791586 TCTCTCCTCCTCCTGTCATCCCTCC
1 TCTCT-CTCCTCCTATCATCCCTCC
*
791611 TCTCTCT-AT--TATC-T--CTCC
1 TCTCTCTCCTCCTATCATCCCTCC
*
791629 TGTCTCTCCTCCTATCATCCCTCC
1 TCTCTCTCCTCCTATCATCCCTCC
* *
791653 TATCTCT-AT--TATC-T--CTCC
1 TCTCTCTCCTCCTATCATCCCTCC
791671 TCTCTCTCCTCCTATCATCCCTCC
1 TCTCTCTCCTCCTATCATCCCTCC
791695 TCTCTCT
1 TCTCTCT
791702 TCTTTCTCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 25
0.68 0.08 0.24
Matches are distributed among these distances:
18 20 0.28
19 2 0.03
20 2 0.03
21 15 0.21
22 2 0.03
23 2 0.03
24 23 0.32
25 5 0.07
ACGTcount: A:0.09, C:0.47, G:0.02, T:0.42
Consensus pattern (24 bp):
TCTCTCTCCTCCTATCATCCCTCC
Found at i:791710 original size:42 final size:42
Alignment explanation
Indices: 791586--791701 Score: 196
Period size: 42 Copynumber: 2.7 Consensus size: 42
791576 TCCATCTTCT
*
791586 TCTCTCCTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCC
1 TCTCT-CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCC
* *
791629 TGTCTCTCCTCCTATCATCCCTCCTATCTCTATTATCTCTCC
1 TCTCTCTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCC
791671 TCTCTCTCCTCCTATCATCCCTCCTCTCTCT
1 TCTCTCTCCTCCTATCATCCCTCCTCTCTCT
791702 TCTTTCTCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 64 0.94
43 4 0.06
ACGTcount: A:0.09, C:0.47, G:0.02, T:0.42
Consensus pattern (42 bp):
TCTCTCTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCC
Found at i:799868 original size:18 final size:18
Alignment explanation
Indices: 799845--799909 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
799835 ATCTTCTTCT
799845 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
799863 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
799884 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
799905 CTCCT
1 CTCCT
799910 ATCTCTACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
17 3 0.08
18 12 0.32
19 2 0.05
20 2 0.05
21 4 0.11
22 2 0.05
23 2 0.05
24 7 0.19
25 3 0.08
ACGTcount: A:0.09, C:0.49, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:799900 original size:42 final size:42
Alignment explanation
Indices: 799848--799966 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
799838 TTCTTCTCTC
*
799848 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
799890 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* * *
799932 CTCCTCCTATCATCCGTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
799967 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:799932 original size:18 final size:18
Alignment explanation
Indices: 799863--799933 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
799853 CCTATCATCC
* *
799863 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
799881 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
799903 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
799923 CTCCTGTCTCT
1 CTCCTGTCTCT
799934 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:806989 original size:42 final size:41
Alignment explanation
Indices: 806928--807045 Score: 182
Period size: 42 Copynumber: 2.9 Consensus size: 41
806918 TAGCCCTCAA
* *
806928 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACA-G
*
806970 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAG
* *
807011 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
807046 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 33 0.47
42 37 0.53
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (41 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAG
Found at i:807030 original size:41 final size:42
Alignment explanation
Indices: 806937--807045 Score: 184
Period size: 41 Copynumber: 2.6 Consensus size: 42
806927 AAGAGAAAGA
*
806937 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
806979 AGAGATAGGAGGGATGATAGGAGGAGAGACA-GAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
807020 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
807046 GAGAGAAGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 33 0.52
42 30 0.48
ACGTcount: A:0.41, C:0.03, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:817258 original size:22 final size:22
Alignment explanation
Indices: 817228--817326 Score: 101
Period size: 22 Copynumber: 4.4 Consensus size: 22
817218 ATAAAAGAAT
* *
817228 ATATACATATGACTGTAATTGA
1 ATATACATATGACTATAATAGA
* *
817250 ATATGCATATGACTATAACAGA
1 ATATACATATGACTATAATAGA
*
817272 ATGTACATATGACTATAATAGCA
1 ATATACATATGACTATAATAG-A
* *
817295 TATATATATATGACTTTAACTA-A
1 -ATATACATATGACTATAA-TAGA
817318 ATATACATA
1 ATATACATA
817327 AAATAAAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
22 44 0.70
23 2 0.03
24 15 0.24
25 2 0.03
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (22 bp):
ATATACATATGACTATAATAGA
Found at i:817325 original size:46 final size:44
Alignment explanation
Indices: 817228--817326 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 44
817218 ATAAAAGAAT
* * *
817228 ATATACATATGACTGTAATTGAATATGCATATGACTATAACAGA
1 ATATACATATGACTATAATAGAATATACATATGACTATAACAGA
* * *
817272 ATGTACATATGACTATAATAGCATATATATATATGACTTTAACTA-A
1 ATATACATATGACTATAATAG-A-ATATACATATGACTATAAC-AGA
817318 ATATACATA
1 ATATACATA
817327 AAATAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
44 18 0.40
45 1 0.02
46 25 0.56
47 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (44 bp):
ATATACATATGACTATAATAGAATATACATATGACTATAACAGA
Found at i:817536 original size:22 final size:22
Alignment explanation
Indices: 817468--817541 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
817458 GAAAAATATG
817468 TACATATG-AC-TAAACTAAATA
1 TACATATGAACAT-AACTAAATA
* *
817489 TACATATGAACAT-ACTAGTATG
1 TACATATGAACATAACTA-AATA
*
817511 TACATAT-AACTTTAACTAAATA
1 TACATATGAAC-ATAACTAAATA
*
817533 TACACATGA
1 TACATATGA
817542 CTTAAACTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
21 15 0.37
22 20 0.49
23 6 0.15
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (22 bp):
TACATATGAACATAACTAAATA
Found at i:817772 original size:45 final size:46
Alignment explanation
Indices: 817723--817867 Score: 159
Period size: 45 Copynumber: 3.0 Consensus size: 46
817713 ACCTTAAAAT
*
817723 ATTTTTTAACTTTTTTATTATTTTTAAATAGTAATTCAA-ATATAA
1 ATTTTTTAACATTTTTATTATTTTTAAATAGTAATTCAATATATAA
*
817768 A-TTTTTAAAATTTTTATTATTTTTTAAATAGTAATTCAAAATTTATTATAAA
1 ATTTTTTAACATTTTTATTA-TTTTTAAATAGTAATTC--AA--TA-TAT-AA
* *
817820 ATATATTTTTACATTTTTATTATTTTTAAATAGTAATTCAAGATATAA
1 AT-T-TTTTAACATTTTTATTATTTTTAAATAGTAATTCAATATATAA
817868 TATTAAATAT
Statistics
Matches: 84, Mismatches: 5, Indels: 19
0.78 0.05 0.18
Matches are distributed among these distances:
44 16 0.19
45 18 0.21
47 2 0.02
48 2 0.02
49 3 0.04
50 2 0.02
51 3 0.04
52 5 0.06
54 18 0.21
55 15 0.18
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (46 bp):
ATTTTTTAACATTTTTATTATTTTTAAATAGTAATTCAATATATAA
Found at i:817781 original size:54 final size:51
Alignment explanation
Indices: 817723--817881 Score: 138
Period size: 54 Copynumber: 3.1 Consensus size: 51
817713 ACCTTAAAAT
*
817723 ATTTTTTAACTTTTTTATTATTTTTAAATAGTAATTCAAATATAAATTTTTAAA
1 ATTTTTT-AC-TTTTTATTATTTTTAAATAGTAATTCAAATATAAA-TTATAAA
**
817777 A-TTTTTA----TTA-T-TTTTTAAATAGTAATTCAAA-ATTTATTATAAAA
1 ATTTTTTACTTTTTATTATTTTTAAATAGTAATTCAAATATAAATTAT-AAA
*
817821 TATATTTTTACATTTTTATTATTTTTAAATAGTAATTCAAGATATAATATTA-AAT
1 -AT-TTTTTAC-TTTTTATTATTTTTAAATAGTAATTCAA-ATATAA-ATTATAAA
817876 ATTTTT
1 ATTTTT
817882 ATTGTTTTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
43 3 0.04
44 6 0.07
45 21 0.25
46 1 0.01
47 9 0.11
52 4 0.05
53 10 0.12
54 22 0.26
55 3 0.04
56 2 0.02
57 4 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (51 bp):
ATTTTTTACTTTTTATTATTTTTAAATAGTAATTCAAATATAAATTATAAA
Found at i:817792 original size:99 final size:99
Alignment explanation
Indices: 817671--817928 Score: 276
Period size: 99 Copynumber: 2.6 Consensus size: 99
817661 TATAAAATAT
** ** *
817671 TTTTTAATTTTTTTATTA-TTTTTAAATAAAAATTTGAGATTTACCT-TAAAATAT-TTTTTAAC
1 TTTTTAAAATTTTTATTATTTTTTAAATAAAAATTCAAAATTTA-CTATAAAATATATTTTT-AC
*
817733 TTTTTTATTATTTTTAAATAGTAATTCAA-ATATAAA
64 ATTTTTATTATTTTTAAATAGTAATTCAAGATAT-AA
** *
817769 TTTTTAAAATTTTTATTATTTTTTAAATAGTAATTCAAAATTTATTATAAAATATATTTTTACAT
1 TTTTTAAAATTTTTATTATTTTTTAAATAAAAATTCAAAATTTACTATAAAATATATTTTTACAT
817834 TTTTATTATTTTTAAATAGTAATTCAAGATATAA
66 TTTTATTATTTTTAAATAGTAATTCAAGATATAA
* * ** ** * * *
817868 -TATTAAATATTTTTATTGTTTTCAAAATAGTAGTTCAAGATTTAATATAAAATAT-TTTTTA
1 TTTTTAAA-ATTTTTATTATTTTTTAAATAAAAATTCAAAATTTACTATAAAATATATTTTTA
817929 TTTTTTAAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
98 29 0.21
99 101 0.73
100 9 0.06
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (99 bp):
TTTTTAAAATTTTTATTATTTTTTAAATAAAAATTCAAAATTTACTATAAAATATATTTTTACAT
TTTTATTATTTTTAAATAGTAATTCAAGATATAA
Found at i:817896 original size:45 final size:43
Alignment explanation
Indices: 817832--817937 Score: 140
Period size: 45 Copynumber: 2.4 Consensus size: 43
817822 ATATTTTTAC
* *
817832 ATTTTTATTATTTTTAAATAGTAATTCAAGATATAATATTAAAT
1 ATTTTTATT-TTTTAAAATAGTAATTCAAGATATAATATAAAAT
* *
817876 ATTTTTATTGTTTTCAAAATAGTAGTTCAAGATTTAATATAAAAT
1 ATTTTTATT-TTTT-AAAATAGTAATTCAAGATATAATATAAAAT
817921 ATTTTTTATTTTTTAAA
1 A-TTTTTATTTTTTAAA
817938 TAATAACTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 16 0.29
45 31 0.56
46 8 0.15
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.52
Consensus pattern (43 bp):
ATTTTTATTTTTTAAAATAGTAATTCAAGATATAATATAAAAT
Found at i:818055 original size:45 final size:44
Alignment explanation
Indices: 817832--818188 Score: 227
Period size: 43 Copynumber: 8.1 Consensus size: 44
817822 ATATTTTTAC
* * *
817832 ATTTTTATTATTTTTAAATAGTAATTCAAGATATAATATTAAAT
1 ATTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAAT
* * * *
817876 ATTTTTATTGTTTTCAAAATAGTAGTTCAAGATTTAATATAAAAT
1 ATTTTTATTATTTT-TAAATAGTAATTTAAGATTTAATATAAAAT
* * ** *
817921 A-TTTT-TTATTTTTTAAATAATAACTTGGGGTTTAATATAAAAT
1 ATTTTTATTA-TTTTTAAATAGTAATTTAAGATTTAATATAAAAT
** * * * **
817964 ATTTTTAAAATTTTT--AT-GTTAA-ATAAAATTT-AT-TTATTT
1 ATTTTTATTATTTTTAAATAG-TAATTTAAGATTTAATATAAAAT
* *
818003 AATTTTTATTATCTTTTAAATATTAATTTAAAATTTAATATAAAGTATTT
1 -ATTTTTATTAT-TTTTAAATAGTAATTTAAGATTTAATATAAA--A--T
* * *
818053 TTATTTTATTATTTTTTAAATTGTAATTCAAGATTTTAATATAAAAT
1 AT-TTTTATTA-TTTTTAAATAGTAATTTAAGA-TTTAATATAAAAT
* *
818100 A-TTTT-TTATTTTTAAACAGTAATTT-GGATTTAATAT-AAAT
1 ATTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAAT
* * * * * *
818140 TTTTTTTTTATTTTTAAACAGTAATTT-GGGTTTAATAGAAAAT
1 ATTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAAT
818183 ATTTTT
1 ATTTTT
818189 TAATAGAAAA
Statistics
Matches: 244, Mismatches: 46, Indels: 47
0.72 0.14 0.14
Matches are distributed among these distances:
39 3 0.01
40 15 0.06
41 20 0.08
42 36 0.15
43 53 0.22
44 41 0.17
45 34 0.14
46 2 0.01
47 1 0.00
49 2 0.01
50 25 0.10
51 12 0.05
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (44 bp):
ATTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAAT
Found at i:818096 original size:51 final size:51
Alignment explanation
Indices: 818006--818111 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 51
817996 TTTATTTAAT
* *
818006 TTTTATTATCTTTTAAATATTAATTTAAAATTTAATATAAAGTA-TTTTTA
1 TTTTATTATCTTTTAAATATTAATTCAAAATTTAATATAAAATATTTTTTA
* *
818056 TTTTATTATTTTTTAAAT-TGTAATTCAAGATTTTAATATAAAATATTTTTTA
1 TTTTATTATCTTTTAAATAT-TAATTCAA-AATTTAATATAAAATATTTTTTA
818108 TTTT
1 TTTT
818112 TAAACAGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 1 0.02
50 24 0.49
51 14 0.29
52 10 0.20
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (51 bp):
TTTTATTATCTTTTAAATATTAATTCAAAATTTAATATAAAATATTTTTTA
Found at i:818122 original size:43 final size:40
Alignment explanation
Indices: 818054--818190 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 40
818044 AAAGTATTTT
**
818054 TATTTTATTATTTTTTAAATTGTAATTCAAGATTTTAATATAAAA
1 TATTTT-TTA-TTTTTAAACAGTAATT--AGA-TTTAATATAAAA
* *
818099 TATTTTTTATTTTTAAACAGTAATTTGGATTTAATATAAATT
1 TATTTTTTATTTTTAAACAGTAA-TTAGATTTAATATAAA-A
* * * *
818141 TTTTTTTTATTTTTAAACAGTAATTTGGGTTTAATAGAAAA
1 TATTTTTTATTTTTAAACAGTAA-TTAGATTTAATATAAAA
818182 TATTTTTTA
1 TATTTTTTA
818191 ATAGAAAATT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
41 19 0.23
42 39 0.48
43 12 0.15
44 5 0.06
45 6 0.07
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (40 bp):
TATTTTTTATTTTTAAACAGTAATTAGATTTAATATAAAA
Found at i:818148 original size:42 final size:41
Alignment explanation
Indices: 818087--818190 Score: 163
Period size: 42 Copynumber: 2.5 Consensus size: 41
818077 AATTCAAGAT
818087 TTTAATATAAAATATTTTTTATTTTTAAACAGTAATTTGGA
1 TTTAATATAAAATATTTTTTATTTTTAAACAGTAATTTGGA
* * *
818128 TTTAATATAAATTTTTTTTTTATTTTTAAACAGTAATTTGGG
1 TTTAATATAAA-ATATTTTTTATTTTTAAACAGTAATTTGGA
*
818170 TTTAATAGAAAATATTTTTTA
1 TTTAATATAAAATATTTTTTA
818191 ATAGAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 19 0.34
42 37 0.66
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (41 bp):
TTTAATATAAAATATTTTTTATTTTTAAACAGTAATTTGGA
Found at i:832095 original size:21 final size:21
Alignment explanation
Indices: 832070--832109 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
832060 GAAACTCAGC
* *
832070 AAAAAAAATAGAGAAAAAATT
1 AAAAAAAAGAGAAAAAAAATT
832091 AAAAAAAAGAGAAAAAAAA
1 AAAAAAAAGAGAAAAAAAA
832110 AGAAAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (21 bp):
AAAAAAAAGAGAAAAAAAATT
Found at i:832115 original size:19 final size:20
Alignment explanation
Indices: 832070--832117 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
832060 GAAACTCAGC
832070 AAAAAAAATAGAGAAAAAAT
1 AAAAAAAATAGAGAAAAAAT
*
832090 TAAAAAAA-AGAGAAAAAA-
1 AAAAAAAATAGAGAAAAAAT
832108 AAAGAAAAAT
1 AAA-AAAAAT
832118 GGAAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAAAAATAGAGAAAAAAT
Found at i:832115 original size:21 final size:21
Alignment explanation
Indices: 832070--832116 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
832060 GAAACTCAGC
* * **
832070 AAAAAAAATAGAGAAAAAATT
1 AAAAAAAAGAGAAAAAAAAAG
832091 AAAAAAAAGAGAAAAAAAAAG
1 AAAAAAAAGAGAAAAAAAAAG
832112 AAAAA
1 AAAAA
832117 TGGAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (21 bp):
AAAAAAAAGAGAAAAAAAAAG
Found at i:833957 original size:154 final size:153
Alignment explanation
Indices: 833519--833998 Score: 557
Period size: 155 Copynumber: 3.1 Consensus size: 153
833509 TTCCCTCGCA
* * * * * * *
833519 TTTTTAAATCCTTTAGAGGTACCAAATACTTCTACATCAAAGGTATCTTTTAGGGGCATTTTTAT
1 TTTTTAAGTCTTTTAGGGGTATCAAATACTTCTACGTCAAAGGTATC-CTTAGGGGCATTTTTGT
* * * * *** * * *
833584 AATTTCTCTAAAATTAACTTTTAGGTTGTCACCGGGTTTGCTTTTATGTCGAAGGTGGGTATTGA
65 AATTTTTC-AGAACTAACTCTTAGGTTGTCACC-GGTCCACTTTTATGCCGAAGGTGGATATTTA
* * *
833649 GGGTATGTTCATCCCATTTAAAATCT
128 GGATAGGTTCATCCCATTTAAAATCC
* ** * *
833675 TTTTTAAGTCTTTTAGGGATATCAGGTACTTTTACGTCAAAGGTATCCCTTAGAGGCATTTTTGT
1 TTTTTAAGTCTTTTAGGGGTATCAAATACTTCTACGTCAAAGGTAT-CCTTAGGGGCATTTTTGT
* * * *
833740 AATTTTTTAGAACCAACTCTTAGGTTGTCACCAGGTCCTCTTTTATGCCAAAGGTGGATATTTAG
65 AATTTTTCAGAACTAACTCTTAGGTTGTCACC-GGTCCACTTTTATGCCGAAGGTGGATATTTAG
*
833805 GATAGGTTCATCCCTTTTAAAATCC
129 GATAGGTTCATCCCATTTAAAATCC
* * *
833830 TTTTTAAGTCATTTAGGGGTATCAAATACTTCTACGTCAAAGGTATCCTCAGGGGCATCTTTGTA
1 TTTTTAAGTCTTTTAGGGGTATCAAATACTTCTACGTCAAAGGTATCCTTAGGGGCATTTTTGTA
* *
833895 ATTTTTCAGAACTAACTCCTAGGTTGTCAGCGGATCCACTTTTATGCCGAAGGTGGATATTTAGG
66 ATTTTTCAGAACTAACTCTTAGGTTGTCACCGG-TCCACTTTTATGCCGAAGGTGGATATTTAGG
* * *
833960 ATAGGTTCATCTCATCTATAAT-C
130 ATAGGTTCATCCCATTTAAAATCC
833983 TTTTTAAGTCTTTTAG
1 TTTTTAAGTCTTTTAG
833999 AATTACTAAG
Statistics
Matches: 273, Mismatches: 49, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
153 18 0.07
154 90 0.33
155 107 0.39
156 57 0.21
157 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (153 bp):
TTTTTAAGTCTTTTAGGGGTATCAAATACTTCTACGTCAAAGGTATCCTTAGGGGCATTTTTGTA
ATTTTTCAGAACTAACTCTTAGGTTGTCACCGGTCCACTTTTATGCCGAAGGTGGATATTTAGGA
TAGGTTCATCCCATTTAAAATCC
Found at i:834027 original size:154 final size:153
Alignment explanation
Indices: 833605--834029 Score: 478
Period size: 154 Copynumber: 2.7 Consensus size: 153
833595 AATTAACTTT
* *** * * * * *
833605 TAGGTTGTCACCGGGTTTGCTTTTATGTCGAAGGTGGGTATTGAGGGTATGTTCATCCCATTTAA
1 TAGGTTGTCACCAGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCATTTAA
* * * *
833670 AATCTTTTTTAAGTCTTTTAGGGATATCAGGTACTTTTACGTCAAAGGTATCCCTTAGAGGCATT
66 AATC-TTTTTAAGTCTTTTA-GGATATAAGATACTTTTACGTCAAAGGTATCCCTCAGAGGCATC
* *
833735 TTTGTAATTTTTTAGAACCAACTCT
129 TTTGTAATTTTTCAGAACCAACTCC
* * *
833760 TAGGTTGTCACCAGGTCCTCTTTTATGCCAAAGGTGGATATTTAGGATAGGTTCATCCCTTTTAA
1 TAGGTTGTCACCAGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCATTTAA
* * * *
833825 AATCCTTTTTAAGTCATTTAGGGGTATCAA-ATACTTCTACGTCAAAGGTAT-CCTCAGGGGCAT
66 AAT-CTTTTTAAGTCTTTTA-GGATAT-AAGATACTTTTACGTCAAAGGTATCCCTCAGAGGCAT
*
833888 CTTTGTAATTTTTCAGAACTAACTCC
128 CTTTGTAATTTTTCAGAACCAACTCC
* * *
833914 TAGGTTGTCAGC-GGATCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCTCATCTA
1 TAGGTTGTCACCAGG-TCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCATTTA
* * * * *
833978 TAATCTTTTTAAGTCTTTTAGAATTACTAAGATAGTTTTATGTCGAAGGTAT
65 AAATCTTTTTAAGTCTTTTAGGA-TA-TAAGATACTTTTACGTCAAAGGTAT
834030 ACCTATAAGG
Statistics
Matches: 228, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
152 1 0.00
153 21 0.09
154 108 0.47
155 96 0.42
156 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (153 bp):
TAGGTTGTCACCAGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCATTTAA
AATCTTTTTAAGTCTTTTAGGATATAAGATACTTTTACGTCAAAGGTATCCCTCAGAGGCATCTT
TGTAATTTTTCAGAACCAACTCC
Found at i:834730 original size:129 final size:129
Alignment explanation
Indices: 834500--834741 Score: 457
Period size: 129 Copynumber: 1.9 Consensus size: 129
834490 ATGACTCAAA
834500 GGTAGTGACAGTTTGTTGCTCCATGACTAATGCCCTTTACTGAACACTAAACCAAAAACCAATTG
1 GGTAGTGACAGTTTGTTGCTCCATGACTAATGCCCTTTACTGAACACTAAACCAAAAACCAATTG
834565 TCCTGCGATGATGATGATCATGATGAAATGCATGCATGTATCAAACAACTAAGTGAATAACAAG
66 TCCTGCGATGATGATGATCATGATGAAATGCATGCATGTATCAAACAACTAAGTGAATAACAAG
* * *
834629 GGTAGTGATAGTTTGTTGCTTCATGACTAATGCCCTTTGCTGAACACTAAACCAAAAACCAATTG
1 GGTAGTGACAGTTTGTTGCTCCATGACTAATGCCCTTTACTGAACACTAAACCAAAAACCAATTG
834694 TCCTGCGATGATGATGATCATGATGAAATGCATGCATGTATCAAACAA
66 TCCTGCGATGATGATGATCATGATGAAATGCATGCATGTATCAAACAA
834742 AAACAAGTAG
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 110 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (129 bp):
GGTAGTGACAGTTTGTTGCTCCATGACTAATGCCCTTTACTGAACACTAAACCAAAAACCAATTG
TCCTGCGATGATGATGATCATGATGAAATGCATGCATGTATCAAACAACTAAGTGAATAACAAG
Done.