Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 128 of 228
Found at i:38081914 original size:15 final size:15
Alignment explanation
Indices: 38081894--38081956 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
38081884 GTAGTAGCAA
38081894 TAGTAGTAATCGTAG
1 TAGTAGTAATCGTAG
*
38081909 TAGTAGCAA---TAG
1 TAGTAGTAATCGTAG
* *
38081921 CAGTAGTAGTCGTAG
1 TAGTAGTAATCGTAG
* * *
38081936 TAGCAGTAATAGTCG
1 TAGTAGTAATCGTAG
38081951 TAGTAG
1 TAGTAG
38081957 CAGTAGCAAC
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
12 9 0.26
15 26 0.74
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (15 bp):
TAGTAGTAATCGTAG
Found at i:38081937 original size:48 final size:47
Alignment explanation
Indices: 38081841--38082055 Score: 169
Period size: 48 Copynumber: 4.5 Consensus size: 47
38081831 GAGTAGAAGC
* ** * * * *
38081841 AGCAGTAGGAGTAGGAGTAGCAATAGTAGTAGCAGTAGCAGCGGTAGT
1 AGCAGTAGTAGTAATAGTAGCAGTAGCAATAGCAGTAGTAGC-GTAGT
* * *
38081889 AGCAATAGTAGTAATCGTAGTAGTAGCAATAGCAGTAGTAGTCGTAGT
1 AGCAGTAGTAGTAATAGTAGCAGTAGCAATAGCAGTAGTAG-CGTAGT
* ** * * *
38081937 AGCAGTAATAGTCGTAGTAGCAGTAGCAACAGTAGCAGTAGCCGTAGT
1 AGCAGTAGTAGTAATAGTAGCAGTAGCAATAGCAGTAGTAG-CGTAGT
* * * * * * *
38081985 AGCAGTAGTAGCAGTAGCAACAGTAGCAGTAGCCGTAGTAGCAGCAGT
1 AGCAGTAGTAGTAATAGTAGCAGTAGCAATAGCAGTAGTAGC-GTAGT
* *
38082033 AGCAGTAGCAGTAGTAGTAGCAG
1 AGCAGTAGTAGTAATAGTAGCAG
38082056 CAGTAGTAGT
Statistics
Matches: 130, Mismatches: 35, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
47 1 0.01
48 128 0.98
49 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (47 bp):
AGCAGTAGTAGTAATAGTAGCAGTAGCAATAGCAGTAGTAGCGTAGT
Found at i:38081970 original size:15 final size:15
Alignment explanation
Indices: 38081952--38082066 Score: 101
Period size: 15 Copynumber: 7.7 Consensus size: 15
38081942 TAATAGTCGT
*
38081952 AGTAGCAGTAGCAAC
1 AGTAGCAGTAGCAGC
* *
38081967 AGTAGCAGTAGCCGT
1 AGTAGCAGTAGCAGC
*
38081982 AGTAGCAGTAGTAGC
1 AGTAGCAGTAGCAGC
** *
38081997 AGTAGCAACAGTAGC
1 AGTAGCAGTAGCAGC
38082012 AGTAGCCGTAGTAGCAGC
1 AGTAG-C--AGTAGCAGC
38082030 AGTAGCAGT---AGC
1 AGTAGCAGTAGCAGC
*
38082042 AGTAGTAGTAGCAGC
1 AGTAGCAGTAGCAGC
*
38082057 AGTAGTAGTA
1 AGTAGCAGTA
38082067 CGAAGCCTGG
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
12 11 0.13
15 58 0.71
16 1 0.01
17 1 0.01
18 11 0.13
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (15 bp):
AGTAGCAGTAGCAGC
Found at i:38081993 original size:39 final size:39
Alignment explanation
Indices: 38081950--38082042 Score: 177
Period size: 39 Copynumber: 2.4 Consensus size: 39
38081940 AGTAATAGTC
38081950 GTAGTAGCAGTAGCAACAGTAGCAGTAGCCGTAGTAGCA
1 GTAGTAGCAGTAGCAACAGTAGCAGTAGCCGTAGTAGCA
38081989 GTAGTAGCAGTAGCAACAGTAGCAGTAGCCGTAGTAGCA
1 GTAGTAGCAGTAGCAACAGTAGCAGTAGCCGTAGTAGCA
*
38082028 GCAGTAGCAGTAGCA
1 GTAGTAGCAGTAGCA
38082043 GTAGTAGTAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.17
Consensus pattern (39 bp):
GTAGTAGCAGTAGCAACAGTAGCAGTAGCCGTAGTAGCA
Found at i:38082049 original size:39 final size:39
Alignment explanation
Indices: 38081934--38082064 Score: 174
Period size: 39 Copynumber: 3.4 Consensus size: 39
38081924 TAGTAGTCGT
*
38081934 AGTAGCAGTAATAGTC-GTAGTAGCAGTAGCAACAGTAGC
1 AGTAGCAGTAGTAG-CAGTAGTAGCAGTAGCAACAGTAGC
*
38081973 AGTAGCCGTAGTAGCAGTAGTAGCAGTAGCAACAGTAGC
1 AGTAGCAGTAGTAGCAGTAGTAGCAGTAGCAACAGTAGC
* * ** *
38082012 AGTAGCCGTAGTAGCAGCAGTAGCAGTAGCAGTAGTAGT
1 AGTAGCAGTAGTAGCAGTAGTAGCAGTAGCAACAGTAGC
*
38082051 AGCAGCAGTAGTAG
1 AGTAGCAGTAGTAG
38082065 TACGAAGCCT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 82 0.99
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (39 bp):
AGTAGCAGTAGTAGCAGTAGTAGCAGTAGCAACAGTAGC
Found at i:38082058 original size:30 final size:30
Alignment explanation
Indices: 38081832--38082064 Score: 150
Period size: 30 Copynumber: 7.8 Consensus size: 30
38081822 ACCAAAAGAG
* * * *
38081832 AGTAGAAGCAGCAGTAGGAGTAGGAGTAGC
1 AGTAGTAGTAGCAGTAGCAGTAGCAGTAGC
* ** *
38081862 AATAGTAGTAGCAGTAGCAGCGGTAGTAGC
1 AGTAGTAGTAGCAGTAGCAGTAGCAGTAGC
* * * *
38081892 AATAGTAGTAATC-GTAGTAGTAGCAATAGC
1 AGTAGTAGT-AGCAGTAGCAGTAGCAGTAGC
* * ** * *
38081922 AGTAGTAGTCGTAGTAGCAGTAATAGTCGT
1 AGTAGTAGTAGCAGTAGCAGTAGCAGTAGC
*
38081952 AGTAGCAGTAGCA--A-CAGTAGCAGTAGC
1 AGTAGTAGTAGCAGTAGCAGTAGCAGTAGC
* * *
38081979 CGTAGTAGCAGTAGTAGCAGTAGCAACAGTAGC
1 AGTAGTAGTAGCAGTAGCAGTAG---CAGTAGC
** * *
38082012 AGTAGCCGTAGTAGCAGCAGTAGCAGTAGC
1 AGTAGTAGTAGCAGTAGCAGTAGCAGTAGC
* *
38082042 AGTAGTAGTAGCAGCAGTAGTAG
1 AGTAGTAGTAGCAGTAGCAGTAG
38082065 TACGAAGCCT
Statistics
Matches: 152, Mismatches: 43, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
27 18 0.12
28 1 0.01
29 1 0.01
30 105 0.69
31 2 0.01
33 25 0.16
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (30 bp):
AGTAGTAGTAGCAGTAGCAGTAGCAGTAGC
Found at i:38084216 original size:39 final size:39
Alignment explanation
Indices: 38084152--38084264 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
38084142 TGCAAATCAG
* *
38084152 GGGTACCGAAGTACTACA-GGACACGTATGTGCATTCAA
1 GGGTACCGAAGTACAACAGGGGCACGTATGTGCATTCAA
*
38084190 GGGTACCGAAGTACAACAGGGGCACGTATGTGCATTCAG
1 GGGTACCGAAGTACAACAGGGGCACGTATGTGCATTCAA
*
38084229 GGGTACCGAAGTACAATAGGGGCACGTATGTGCATT
1 GGGTACCGAAGTACAACAGGGGCACGTATGTGCATT
38084265 TAGGTATAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
38 17 0.24
39 53 0.76
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.20
Consensus pattern (39 bp):
GGGTACCGAAGTACAACAGGGGCACGTATGTGCATTCAA
Found at i:38084231 original size:20 final size:20
Alignment explanation
Indices: 38084206--38084264 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
38084196 CGAAGTACAA
38084206 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * *
38084226 CAGGGGTACCG-AAGTACAAT
1 CAGGGGCA-CGTATGTGCATT
38084246 -AGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
38084265 TAGGTATAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.07
19 12 0.41
20 13 0.45
21 2 0.07
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:38088333 original size:43 final size:43
Alignment explanation
Indices: 38088285--38088468 Score: 153
Period size: 43 Copynumber: 4.3 Consensus size: 43
38088275 CCGACAGAAT
* * *
38088285 TATACTGGAAGATA-AGTGCATCATTGGGTAAAACCGAAGCAAC
1 TATACTGGAACATACAGTGCATCATTGGGT-AAACCAAAGCAAA
* * *
38088328 TATACT-G-ACAGACAAAGTGCATTA-TGGGATAAACCGAAGC-AA
1 TATACTGGAACATAC--AGTGCATCATTGGG-TAAACCAAAGCAAA
* * * * * *
38088370 TATACTGGCACACACAGAGCATCATCGGATAAACCAAAGGAAA
1 TATACTGGAACATACAGTGCATCATTGGGTAAACCAAAGCAAA
* * *
38088413 TATACTAGCACATACAGTGCATCATTGGGTAAACCAAAGGAAA
1 TATACTGGAACATACAGTGCATCATTGGGTAAACCAAAGCAAA
*
38088456 TATACTGGGACAT
1 TATACTGGAACAT
38088469 TGGAAACACA
Statistics
Matches: 115, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
41 3 0.03
42 24 0.21
43 74 0.64
44 14 0.12
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (43 bp):
TATACTGGAACATACAGTGCATCATTGGGTAAACCAAAGCAAA
Found at i:38093935 original size:27 final size:27
Alignment explanation
Indices: 38093897--38094158 Score: 305
Period size: 27 Copynumber: 9.7 Consensus size: 27
38093887 ATTCATGGGC
38093897 AAATGA-TCGAAATACCCTCGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* * *
38093924 AAATGACTGAAATCCCCTCGAAAGATA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
38093951 AAATGACTGAAATACCCTCAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
38093978 AAATGA-TCGAAATACCCTCGAAGGATA
1 AAATGACT-GAAATACCCTCGAAGGGTA
*
38094005 AAATAACTGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* **
38094032 AAATGATTGAAATACCCTTAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * ** *
38094059 AAAT-AATCGAAAAACCCTAAAAAGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
*
38094086 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * * *
38094113 AAATGATTGAAATACCCCCCAAAGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
38094140 AAATGACTGAAATACCCTC
1 AAATGACTGAAATACCCTC
38094159 ATCTGTTATA
Statistics
Matches: 198, Mismatches: 32, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
26 3 0.02
27 192 0.97
28 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAGGGTA
Found at i:38094034 original size:81 final size:80
Alignment explanation
Indices: 38093897--38094158 Score: 357
Period size: 81 Copynumber: 3.2 Consensus size: 80
38093887 ATTCATGGGC
* * * *
38093897 AAATGATCGAAATACCCTCGAAGGGTAAAATGACTGAAATCCCCTCGAAAGATAAAATGACTGAA
1 AAATGATCGAAATACCCTCGAA-GGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGATTGAA
38093962 ATACCCTCAAAGGGTA
65 ATACCCTCAAAGGGTA
*
38093978 AAATGATCGAAATACCCTCGAAGGATAAAATAACTGAAATACCCTCGAAGGGTAAAATGATTGAA
1 AAATGATCGAAATACCCTCGAAGG-TAAAATGACTGAAATACCCTCGAAGGGTAAAATGATTGAA
*
38094043 ATACCCTTAAAGGGTA
65 ATACCCTCAAAGGGTA
* * ** *
38094059 AAATAATCGAAAAACCCTAAAAAGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATTGAA
1 AAATGATCGAAATACCCT-CGAAGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGATTGAA
*
38094124 ATACCCCCCAAA-GGTA
65 ATA-CCCTCAAAGGGTA
38094140 AAATGA-CTGAAATACCCTC
1 AAATGATC-GAAATACCCTC
38094159 ATCTGTTATA
Statistics
Matches: 160, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.02
81 147 0.92
82 10 0.06
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (80 bp):
AAATGATCGAAATACCCTCGAAGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGATTGAAA
TACCCTCAAAGGGTA
Found at i:38094591 original size:28 final size:28
Alignment explanation
Indices: 38094551--38094617 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
38094541 CCCATATTAC
38094551 ACTGTTACTGCTTAGGGCTAAGGCCTAG
1 ACTGTTACTGCTTAGGGCTAAGGCCTAG
*
38094579 ACTGTTACTGCTTAGGGCTCAGGCCTAG
1 ACTGTTACTGCTTAGGGCTAAGGCCTAG
38094607 ACTGTTACTGC
1 ACTGTTACTGC
38094618 ATGTCGTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGCTTAGGGCTAAGGCCTAG
Found at i:38097495 original size:28 final size:27
Alignment explanation
Indices: 38097455--38097508 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
38097445 ATGGATATAA
38097455 GACACCCTATAGGTTAGTCTTTAGGGAT
1 GACACCCTATAGGTTAGTCTTT-GGGAT
38097483 GACACCCTATAGGTTAGTCTTTGGGA
1 GACACCCTATAGGTTAGTCTTTGGGA
38097509 AAGCCTGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (27 bp):
GACACCCTATAGGTTAGTCTTTGGGAT
Found at i:38099303 original size:18 final size:19
Alignment explanation
Indices: 38099274--38099315 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
38099264 CATGGGGTAT
38099274 AAATTAAGAATAA-AAAATA
1 AAATTAAGAATAATAAAA-A
38099293 AAATTAA-AATAATAAAAA
1 AAATTAAGAATAATAAAAA
38099311 AAATT
1 AAATT
38099316 GGAAGGACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATTAAGAATAATAAAAA
Found at i:38100821 original size:44 final size:45
Alignment explanation
Indices: 38100773--38100884 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 45
38100763 GATTCATCGT
* *
38100773 TTTAATCCGCTCCACTGCAACTTCAAGGAGATATGATTTG-TAGC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAGC
** * * * *
38100817 TTTAATCTATTCCATTGCAACTTTAGGGAGATAAGATTTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAGC
* * *
38100862 TTTAGTCTGCTTCACTACAACTT
1 TTTAATCTGCTCCACTGCAACTT
38100885 TAGGGATAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 33 0.62
45 20 0.38
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAGC
Found at i:38100965 original size:51 final size:51
Alignment explanation
Indices: 38100910--38101009 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
38100900 TGCTTCCAGC
*
38100910 TTTAATATGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTCAAT
1 TTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAAT
* * * *
38100961 TTTAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCGTTGTCTTCA
1 TTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCA
38101010 GTTTGCTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (51 bp):
TTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAAT
Found at i:38101162 original size:51 final size:51
Alignment explanation
Indices: 38101100--38101864 Score: 673
Period size: 51 Copynumber: 15.5 Consensus size: 51
38101090 CATAATTTGT
* *
38101100 AGCTTTAATCTATTCCACTGCAACAGCAGGGAAATAAGATTCGCTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAACAGCAGGGAAATAAGATTCGCTGCCTTC
* * * * ** *
38101151 AGCTTTAATC---T--ACTGTATCACCAGGGAAAAAAGATTAACGGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAGCAGGGAAATAAGATTCGCTGCCTTC
**
38101197 AGCTTTAATCTGTTCCACTGC-A-A-C----AAA-AAGATTTACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAGCAGGGAAATAAGATTCGCTGCCTTC
* * * *
38101240 AGCTTTAATCTATTCCACTGCAACA-CTAAGGAAATAAGGTTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAGC-AGGGAAATAAGATTCGCTGCCTTC
* * * **
38101291 AACTTTAATCTGTTCCACTACAA-TGCCAGGGAAATAAGATTCATTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTC
* * * *
38101342 AGCTTTAATCTGTTCCACTACAAC-GCCCGGGAAAAAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTC
*
38101393 AGCTTTAATCTG-----CTGCAAC-GCCAGGGAAATAAGATTCGCCGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTC
* * * * * *
38101439 AACTTTAATCTGTTCCACTACAATA-CTAAGGAAATAAAATTCGCTGCCTTT
1 AGCTTTAATCTGTTCCACTGCAACAGC-AGGGAAATAAGATTCGCTGCCTTC
* *
38101490 AGCTTTACTCTGTTCCACTGCAAC-GTCAGGGAAATAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTC
* * *
38101541 AGCTTTAATCTGTTCCACTGCAACAGCCGAGAAAAAAGATTCGCTGCCTT-
1 AGCTTTAATCTGTTCCACTGCAACAGCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
38101591 ATGCTTTGATC---T--ACTACAAC-GCCAGGCAAATAAGTTTCGTTGCCTTC
1 A-GCTTTAATCTGTTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTC
* * *
38101638 AGCTTTAATCTGTTCCACTGCAAC-GCTAAGGAAATCAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAGC-AGGGAAATAAGATTCGCTGCCTTC
* * * *
38101689 AGCTTTAATCTGTTCCACTGTAA-TGCCAGAGAAATAAGATT-GCTACCTTC
1 AGCTTTAATCTGTTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTC
* * * * *
38101739 AGCTTTAATCTATTCCACTACAACATCAGGGCAATAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAGCAGGGAAATAAGATTCGCTGCCTTC
* * *
38101790 AGCTTCAATCTGTTCCACTGCAAC-GCCAGGGAAATGAGATTCGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTC
*
38101841 AGCTTTAATCTGCTCCACTGCAAC
1 AGCTTTAATCTGTTCCACTGCAAC
38101865 GCTCGAGGAA
Statistics
Matches: 582, Mismatches: 92, Indels: 80
0.77 0.12 0.11
Matches are distributed among these distances:
43 34 0.06
44 4 0.01
45 3 0.01
46 110 0.19
47 1 0.00
48 3 0.01
49 3 0.01
50 47 0.08
51 373 0.64
52 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACAGCAGGGAAATAAGATTCGCTGCCTTC
Found at i:38101239 original size:43 final size:43
Alignment explanation
Indices: 38101178--38101264 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
38101168 TCACCAGGGA
*
38101178 AAAAAGATTAACGGCCTTCAGCTTTAATCTGTTCCACTGCAAC
1 AAAAAGATTAACGGCCTTCAGCTTTAATCTATTCCACTGCAAC
* *
38101221 AAAAAGATTTACTGCCTTCAGCTTTAATCTATTCCACTGCAAC
1 AAAAAGATTAACGGCCTTCAGCTTTAATCTATTCCACTGCAAC
38101264 A
1 A
38101265 CTAAGGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (43 bp):
AAAAAGATTAACGGCCTTCAGCTTTAATCTATTCCACTGCAAC
Found at i:38101456 original size:148 final size:148
Alignment explanation
Indices: 38101169--38101854 Score: 641
Period size: 148 Copynumber: 4.6 Consensus size: 148
38101159 TCTACTGTAT
* ** *
38101169 CACCAGGGAAAAAAGATTAACGGCCTTCAGCTTTAATCTGTTCCACTGCAA---C----AAA-AA
1 CACCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAA
* * * * * *
38101226 GATTTACTGCCTTCAGCTTTAATCTATTCCACTGCAACACTA-AGGAAATAAGGTTTGCTGCCTT
66 GATTCACTGCCTTCAGCTTTAATC---T--GCTGCAACGCCAGA-GAAATAAGATTCGCTGCCTT
38101290 CAACTTTAATCTGTTCCACTACAA
125 CAACTTTAATCTGTTCCACTACAA
** ** * * *
38101314 TGCCAGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTTCCACTACAACGCCCGGGAAAAAA
1 CACCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAA
* *
38101379 GATTCACTGCCTTCAGCTTTAATCTGCTGCAACGCCAGGGAAATAAGATTCGCCGCCTTCAACTT
66 GATTCACTGCCTTCAGCTTTAATCTGCTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAACTT
38101444 TAATCTGTTCCACTACAA
131 TAATCTGTTCCACTACAA
* * * * * * *
38101462 TACTAAGGAAATAAAATTCGCTGCCTTTAGCTTTACTCTGTTCCACTGCAACGTCAGGGAAATAA
1 CACCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAA
*
38101527 GATTCACTGCCTTCAGCTTTAATCTGTTCCACTGCAACAGCC-GAGAAAAAAGATTCGCTGCCTT
66 GATTCACTGCCTTCAGCTTTAATCTG-----CTGCAAC-GCCAGAGAAATAAGATTCGCTGCCTT
* *
38101591 -ATGCTTTGATC---T--ACTACAA
125 CA-ACTTTAATCTGTTCCACTACAA
* * * * * * *
38101610 CGCCAGGCAAATAAGTTTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATCA
1 CACCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAA
** * * *
38101675 GATTTGCTGCCTTCAGCTTTAATCTGTTCCACTGTAATGCCAGAGAAATAAGATT-GCTACCTTC
66 GATTCACTGCCTTCAGCTTTAATCTG-----CTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* *
38101739 AGCTTTAATCTATTCCACTACAA
126 AACTTTAATCTGTTCCACTACAA
* * * * *
38101762 CATCAGGGCAATAAGATTTGCTGCCTTCAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAATGA
1 CACCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAA
**
38101827 GATTCGTTGCCTTCAGCTTTAATCTGCT
66 GATTCACTGCCTTCAGCTTTAATCTGCT
38101855 CCACTGCAAC
Statistics
Matches: 452, Mismatches: 66, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
145 44 0.10
147 20 0.04
148 235 0.52
150 3 0.01
152 89 0.20
153 58 0.13
154 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (148 bp):
CACCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAA
GATTCACTGCCTTCAGCTTTAATCTGCTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAACTT
TAATCTGTTCCACTACAA
Found at i:38101504 original size:199 final size:197
Alignment explanation
Indices: 38101100--38101881 Score: 814
Period size: 199 Copynumber: 3.9 Consensus size: 197
38101090 CATAATTTGT
* * * * **
38101100 AGCTTTAATCTATTCCACTGCAACAG-CAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCTAC
1 AGCTTTAATCTGTTCCACTGCAA-TGCCAGGGAAATAAGATTC-ATGCCTTCAGCTTTAATCTGT
** * * * * * *
38101164 TGTA-T-C-AC-CAGGGAAAAAAGATTAACGGCCTTCAGCTTTAATCTG-TTCCACTG-CA-ACA
64 TCCACTACAACGCCGGGAAAAAAGATTCACTGCCTTCAGCTTTAATCTGCTGCAAC-GCCAGGCA
** * *
38101222 AA-AAGATTTACTGCCTTCAGCTTTAATCTATTCCACTGCAACACTAAGGAAATAAGGTTTGCTG
128 AATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACACTAAGGAAATAAGATTTGCTG
38101286 CCTTC
193 CCTTC
* *
38101291 AACTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCATTGCCTTCAGCTTTAATCTGTT
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCA-TGCCTTCAGCTTTAATCTGTT
*
38101356 CCACTACAACGCCCGGGAAAAAAGATTCACTGCCTTCAGCTTTAATCTGCTGCAACGCCAGGGAA
65 CCACTACAACG-CCGGGAAAAAAGATTCACTGCCTTCAGCTTTAATCTGCTGCAACGCCAGGCAA
* * * * * *
38101421 ATAAGATTCGCCGCCTTCAACTTTAATCTGTTCCACTACAATACTAAGGAAATAAAATTCGCTGC
129 ATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACACTAAGGAAATAAGATTTGCTGC
*
38101486 CTTT
194 CTTC
* * *
38101490 AGCTTTACTCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTGCCTTCAGCTTTAATCTGTT
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCA-TGCCTTCAGCTTTAATCTGTT
* * * * * *
38101555 CCACTGCAACAGCCGAGAAAAAAGATTCGCTGCCTT-ATGCTTTGATCTACTACAACGCCAGGCA
65 CCACTACAAC-GCCGGGAAAAAAGATTCACTGCCTTCA-GCTTTAATCTGCTGCAACGCCAGGCA
* * * *
38101619 AATAAGTTTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATCAGATTTGCTG
128 AATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACACTAAGGAAATAAGATTTGCTG
38101684 CCTTC
193 CCTTC
* * * *
38101689 AGCTTTAATCTGTTCCACTGTAATGCCAGAGAAATAAGATTGC-TACCTTCAGCTTTAATCTATT
1 AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATT-CATGCCTTCAGCTTTAATCTGTT
* * * * ** *
38101753 CCACTACAACATCAGGGCAATAAGATTTGCTGCCTTCAGCTTCAATCTGTTCCACTGCAACGCCA
65 CCACTACAAC-GCCGGGAAAAAAGATTCACTGCCTTCAGCTTTAATCTG-----CTGCAACGCCA
* * * * * *
38101818 GGGAAATGAGATTCGTTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCTCGAGGAAA-AAGATT
124 GGCAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACACT-AAGGAAATAAGATT
38101882 CACTATTTTG
Statistics
Matches: 494, Mismatches: 76, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
190 1 0.00
191 55 0.11
192 1 0.00
193 1 0.00
194 2 0.00
196 35 0.07
197 6 0.01
198 60 0.12
199 264 0.53
200 2 0.00
203 61 0.12
204 6 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (197 bp):
AGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCATGCCTTCAGCTTTAATCTGTTC
CACTACAACGCCGGGAAAAAAGATTCACTGCCTTCAGCTTTAATCTGCTGCAACGCCAGGCAAAT
AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACACTAAGGAAATAAGATTTGCTGCCT
TC
Found at i:38101865 original size:51 final size:51
Alignment explanation
Indices: 38101232--38101882 Score: 693
Period size: 51 Copynumber: 13.0 Consensus size: 51
38101222 AAAAGATTTA
* * * * * *
38101232 CTGCCTTCAGCTTTAATCTATTCCACTGCAACACTAAGGAAATAAGGTTTG
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* * * *
38101283 CTGCCTTCAACTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCA
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* * * * *
38101334 TTGCCTTCAGCTTTAATCTGTTCCACTACAACGCCCGGGAAAAAAGATTCA
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
38101385 CTGCCTTCAGCTTTAATCTG-----CTGCAACGCCAGGGAAATAAGATTCG
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* * * ** * * *
38101431 CCGCCTTCAACTTTAATCTGTTCCACTACAATACTAAGGAAATAAAATTCG
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* * * *
38101482 CTGCCTTTAGCTTTACTCTGTTCCACTGCAACGTCAGGGAAATAAGATTCA
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* *
38101533 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACAGCC-GAGAAAAAAGATTCG
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAAC-GCCAGGGAAATAAGATTCG
* * * *
38101584 CTGCCTT-ATGCTTTGATC---T--ACTACAACGCCAGGCAAATAAGTTTCG
1 CTGCCTTCA-GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* * * * *
38101630 TTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATCAGATTTG
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* * *
38101681 CTGCCTTCAGCTTTAATCTGTTCCACTGTAATGCCAGAGAAATAAGATT-G
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* * * ** * *
38101731 CTACCTTCAGCTTTAATCTATTCCACTACAACATCAGGGCAATAAGATTTG
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* *
38101782 CTGCCTTCAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAATGAGATTCG
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
* *
38101833 TTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCTC-GAGGAAA-AAGATTC
1 CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGC-CAG-GGAAATAAGATTC
38101883 ACTATTTTGA
Statistics
Matches: 493, Mismatches: 90, Indels: 34
0.80 0.15 0.06
Matches are distributed among these distances:
45 3 0.01
46 72 0.15
47 1 0.00
48 1 0.00
49 1 0.00
50 42 0.09
51 365 0.74
52 8 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (51 bp):
CTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
Found at i:38103090 original size:46 final size:47
Alignment explanation
Indices: 38102997--38103114 Score: 166
Period size: 46 Copynumber: 2.5 Consensus size: 47
38102987 CCTCATTTTG
*
38102997 CGGGTTTTCACCTTGGCCTCTCCTTTCTTTAGGACTCAAGACGCCCTTTA
1 CGGGTTTTCACCTTGG--TCT-CTTTCTTTAGGACTCAAGACACCCTTTA
*
38103047 CGGGTTTTCACCTTGGTCT-TTTTTTTAGGACTCAAGACACCCTTTA
1 CGGGTTTTCACCTTGGTCTCTTTCTTTAGGACTCAAGACACCCTTTA
**
38103093 CAAGTTTTCACCTTGGTCTCTT
1 CGGGTTTTCACCTTGGTCTCTT
38103115 CTCCTTCTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
46 42 0.67
47 2 0.03
48 3 0.05
50 16 0.25
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.40
Consensus pattern (47 bp):
CGGGTTTTCACCTTGGTCTCTTTCTTTAGGACTCAAGACACCCTTTA
Found at i:38105577 original size:15 final size:14
Alignment explanation
Indices: 38105549--38105584 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
38105539 CTCAAGGCGC
38105549 TCTTTTTTTCCTTT
1 TCTTTTTTTCCTTT
*
38105563 TCTTTCTTTTTCTTT
1 TCTTT-TTTTCCTTT
38105578 TCTTTTT
1 TCTTTTT
38105585 CATAATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TCTTTTTTTCCTTT
Found at i:38108139 original size:19 final size:19
Alignment explanation
Indices: 38108097--38108139 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
38108087 TGGTGACCTT
* *
38108097 TAATGCATATGATGTAATG
1 TAATGCAAATGATGAAATG
38108116 TAATGCAAATGCATGAAATG
1 TAATGCAAATG-ATGAAATG
38108136 -AATG
1 TAATG
38108140 TAAAAAGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (19 bp):
TAATGCAAATGATGAAATG
Found at i:38110569 original size:3 final size:3
Alignment explanation
Indices: 38110549--38110615 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
38110539 ATAACCAAAT
* * *
38110549 ATA AGA ATA AT- ATCA ATA ATA ATA AGA GTA ATA ATA ATAA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* *
38110595 ATA A-A TTA ATA TTA A-A ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
38110616 TAATTTAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 5 0.10
3 39 0.80
4 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:38110572 original size:15 final size:13
Alignment explanation
Indices: 38110545--38110598 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 13
38110535 AAATATAACC
*
38110545 AAAT-ATAAGAAT
1 AAATAATAATAAT
38110557 AATATCAATAATAAT
1 AA-AT-AATAATAAT
38110572 AAGAGTAATAATAAT
1 AA-A-TAATAATAAT
38110587 AAATAATAATAA
1 AAATAATAATAA
38110599 ATTAATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
12 2 0.06
13 11 0.31
14 1 0.03
15 21 0.58
16 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:38123853 original size:27 final size:27
Alignment explanation
Indices: 38123780--38123839 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
38123770 CAAAAGATTA
*
38123780 AATCATAACATCATTCATAGAAAAATC
1 AATCAAAACATCATTCATAGAAAAATC
38123807 AATCAAAACATCATTCATAGAAAAATC
1 AATCAAAACATCATTCATAGAAAAATC
38123834 AATCAA
1 AATCAA
38123840 TCTCATACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.23
Consensus pattern (27 bp):
AATCAAAACATCATTCATAGAAAAATC
Found at i:38127579 original size:8 final size:9
Alignment explanation
Indices: 38127561--38127595 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
38127551 AAACTCTGTA
38127561 AATATTTTT
1 AATATTTTT
38127570 AATA-TTTT
1 AATATTTTT
38127578 AATATTTTT
1 AATATTTTT
38127587 ACATATTTT
1 A-ATATTTT
38127596 ACGGCTCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 9 0.38
10 7 0.29
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:38127583 original size:17 final size:18
Alignment explanation
Indices: 38127561--38127596 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
38127551 AAACTCTGTA
38127561 AATATTTTTA-ATATTTT
1 AATATTTTTACATATTTT
38127578 AATATTTTTACATATTTT
1 AATATTTTTACATATTTT
38127596 A
1 A
38127597 CGGCTCGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
AATATTTTTACATATTTT
Found at i:38140272 original size:40 final size:40
Alignment explanation
Indices: 38140228--38140450 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
38140218 GCTCCTCGTT
* *
38140228 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
* * *
38140268 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
*
38140308 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTAA-TCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAATTCGCA
38140346 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAAT-TCGCA
* * * *
38140385 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AATTCGCA
*
38140426 CAAA-GCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38140451 CTTCATTCAA
Statistics
Matches: 157, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
37 11 0.07
38 22 0.14
39 27 0.17
40 84 0.54
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAATTCGCA
Found at i:38140385 original size:77 final size:80
Alignment explanation
Indices: 38140228--38140450 Score: 312
Period size: 77 Copynumber: 2.8 Consensus size: 80
38140218 GCTCCTCGTT
* * *
38140228 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
38140292 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
38140308 CAAATGCCTTCGGATCTTAGTCCGGAT-TAGTAA-TCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
38140370 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
38140385 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCCG
38140449 GA
65 GA
38140451 CTTCATTCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
77 49 0.38
78 22 0.17
79 19 0.15
80 38 0.30
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:38140450 original size:117 final size:118
Alignment explanation
Indices: 38140228--38140450 Score: 269
Period size: 117 Copynumber: 1.9 Consensus size: 118
38140218 GCTCCTCGTT
*
38140228 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* * **
38140293 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTAGTAATCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGATCTTAACCCGGATTAGTAATCGCA
* **
38140346 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
38140407 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGA-CTTAACCCGGA
63 CGGATATAGTAAC-TAGCACAAATGCCTTC-GGATCTTAACCCGGA
38140451 CTTCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
116 6 0.07
117 59 0.66
118 25 0.28
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (118 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGATCTTAACCCGGATTAGTAATCGCA
Found at i:38148277 original size:79 final size:80
Alignment explanation
Indices: 38148105--38148329 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 80
38148095 ATTCCTCGTT
* * * *
38148105 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
38148168 GGATTTAGTAACTCGCA
64 GGAATTAGTAACTCGCA
38148185 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
38148249 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * *
38148264 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
38148328 GA
65 GA
38148330 CATCATTCAA
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
79 66 0.50
80 63 0.48
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:38148329 original size:40 final size:40
Alignment explanation
Indices: 38148105--38148329 Score: 241
Period size: 40 Copynumber: 5.7 Consensus size: 40
38148095 ATTCCTCGTT
* * *
38148105 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
38148145 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* *
38148185 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
38148225 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
38148264 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
38148305 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38148330 CATCATTCAA
Statistics
Matches: 160, Mismatches: 13, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
38 3 0.02
39 33 0.21
40 107 0.67
41 16 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:38151943 original size:45 final size:45
Alignment explanation
Indices: 38151879--38151965 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
38151869 CAGATACTCG
* *
38151879 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
*
38151924 GTGGAATCAGCATATAGCAACCACCTTACTAATCAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
38151966 TTGGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:38152034 original size:51 final size:50
Alignment explanation
Indices: 38151976--38152162 Score: 182
Period size: 51 Copynumber: 3.7 Consensus size: 50
38151966 TTGGTTCACA
* * *
38151976 TAGTAGCCTGCATATAGTACTACACAGGTGACCATTACCA-TCCGATGCAC
1 TAGTAGCCTGCACATAGTACTACACACGTAACCA-TACCATTCCGATGCAC
* * * * **
38152026 GTAGTAGCCTGCACATAATACTACACACGTGACCGAAACTATTTGGTATGCA-
1 -TAGTAGCCTGCACATAGTACTACACACGTAACC-ATACCATTCCG-ATGCAC
* * * *
38152078 TAGTAGCCTGCACATAGTACTACACATGCAACC-TATCATTCCGGTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGTAACCATACCATTCCGATGCAC
*
38152127 ATAGTACCCTGCACATAGTACTACACACGTAACCAT
1 -TAGTAGCCTGCACATAGTACTACACACGTAACCAT
38152163 CACTTTCACT
Statistics
Matches: 110, Mismatches: 20, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
48 4 0.04
49 5 0.05
50 30 0.27
51 63 0.57
52 3 0.03
53 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTAACCATACCATTCCGATGCAC
Found at i:38152182 original size:101 final size:101
Alignment explanation
Indices: 38151973--38152160 Score: 234
Period size: 101 Copynumber: 1.9 Consensus size: 101
38151963 TGTTTGGTTC
* ** * *
38151973 ACATAGTAGCCTGCATATAGTACTACACAGGTGACCATTACCATCCGATGCACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACAGGCAACCA-TACCATCCGATGCACATAGTACCCTGC
* **
38152038 ACATAATACTACACACGTGACCGAAACTATTTGGTAT
65 ACATAATACTACACACGTAACCGAAACTATTACGTAT
* * * *
38152075 GCATAGTAGCCTGCACATAGTACTACACATGCAACC-TATCATTCCGGTGCACATAGTACCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACAGGCAACCATACCA-TCCGATGCACATAGTACCCTGC
*
38152139 ACATAGTACTACACACGTAACC
65 ACATAATACTACACACGTAACC
38152161 ATCACTTTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
100 4 0.05
101 39 0.53
102 31 0.42
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (101 bp):
ACATAGTAGCCTGCACATAGTACTACACAGGCAACCATACCATCCGATGCACATAGTACCCTGCA
CATAATACTACACACGTAACCGAAACTATTACGTAT
Found at i:38157990 original size:23 final size:23
Alignment explanation
Indices: 38157946--38157990 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38157936 GATTTAATCA
*
38157946 CAATATAATCACATATTAACATT
1 CAATATAATCACAAATTAACATT
*
38157969 CAATTTAATCA-AAATTATACAT
1 CAATATAATCACAAATTA-ACAT
38157991 AATACAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (23 bp):
CAATATAATCACAAATTAACATT
Found at i:38159475 original size:87 final size:87
Alignment explanation
Indices: 38159329--38159490 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
38159319 CTCCAAATAG
*
38159329 TAGCTCCATCAGATTTTTCAAAAACACAACCCCTTGTACATCTAGCGAGACATTCCTATACAGTC
1 TAGCTCCATCAGATTTGTCAAAAACACAACCCCTTGTACATCTAGCGAGACATTCCTATACAGTC
38159394 TGTTTACCCGAACCGATTGACC
66 TGTTTACCCGAACCGATTGACC
* * * * *
38159416 TAGCTCCATCAGATTTGTCAAAAACACAACCCCTTGTACTTTTGGCG-GTACATTTCTATATAGT
1 TAGCTCCATCAGATTTGTCAAAAACACAACCCCTTGTACATCTAGCGAG-ACATTCCTATACAGT
38159480 CTGTTTACCCG
65 CTGTTTACCCG
38159491 TAATCACATC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
86 1 0.01
87 67 0.99
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (87 bp):
TAGCTCCATCAGATTTGTCAAAAACACAACCCCTTGTACATCTAGCGAGACATTCCTATACAGTC
TGTTTACCCGAACCGATTGACC
Found at i:38160213 original size:15 final size:15
Alignment explanation
Indices: 38160193--38160221 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38160183 TTTTGGTTTA
38160193 TTTATTTTATTATTG
1 TTTATTTTATTATTG
38160208 TTTATTTTATTATT
1 TTTATTTTATTATT
38160222 TATCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTATTG
Found at i:38160259 original size:9 final size:9
Alignment explanation
Indices: 38160247--38160276 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38160237 TAATTTAAAT
38160247 ATATTAATA
1 ATATTAATA
38160256 ATATTAATA
1 ATATTAATA
38160265 ATA-TAATA
1 ATATTAATA
38160273 ATAT
1 ATAT
38160277 ATAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATATTAATA
Found at i:38160264 original size:17 final size:17
Alignment explanation
Indices: 38160226--38160276 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
38160216 ATTATTTATC
38160226 ATTAA-AATAT-ATAAT
1 ATTAATAATATAATAAT
38160241 -TTAA-ATATATTAATAAT
1 ATTAATA-ATA-TAATAAT
38160258 ATTAATAATATAATAAT
1 ATTAATAATATAATAAT
38160275 AT
1 AT
38160277 ATAAAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 1 0.03
17 14 0.45
18 7 0.23
19 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAATAATATAATAAT
Found at i:38161547 original size:20 final size:20
Alignment explanation
Indices: 38161522--38161561 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38161512 CGTAAAATGA
*
38161522 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
38161542 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
38161562 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:38161551 original size:34 final size:35
Alignment explanation
Indices: 38161507--38161573 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
38161497 CAGTAAAATA
*
38161507 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
38161541 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
38161574 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:38161577 original size:14 final size:15
Alignment explanation
Indices: 38161501--38161577 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
38161491 GATTGCCAGT
* *
38161501 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
38161515 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
38161529 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
38161549 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
38161564 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
38161578 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:38167214 original size:37 final size:37
Alignment explanation
Indices: 38167152--38167230 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
38167142 TTATTACGAA
* * *
38167152 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
*
38167189 GTCTTACCCAGACAAAAT-TCTCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCTC-CACACGAAGTCATCGG
38167226 GTCTT
1 GTCTT
38167231 TAGAGCTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 2 0.05
37 35 0.95
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:38167427 original size:47 final size:47
Alignment explanation
Indices: 38167349--38167652 Score: 482
Period size: 47 Copynumber: 6.5 Consensus size: 47
38167339 CCCTTCGGGA
* * * * * * *
38167349 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38167396 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38167443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38167490 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38167537 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38167584 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38167631 CTTATCACACATATACACTTTC
1 CTTATCACATATATACACTTTC
38167653 GGCTATTAGG
Statistics
Matches: 244, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 244 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38167510 original size:94 final size:94
Alignment explanation
Indices: 38167349--38167875 Score: 785
Period size: 94 Copynumber: 5.7 Consensus size: 94
38167339 CCCTTCGGGA
* * * * * * * * *
38167349 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38167414 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
38167443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38167508 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* *
38167537 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38167602 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* * *
38167631 CTTATCACACATAT--A----CAC--T--T----TCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38167682 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
38167711 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38167776 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCTATTAGGC
*
38167807 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38167872 TTTC
66 TTTC
38167876 TTGGCTGAAT
Statistics
Matches: 398, Mismatches: 19, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
80 67 0.17
82 5 0.01
84 2 0.01
86 1 0.00
88 6 0.02
90 1 0.00
92 2 0.01
94 249 0.63
96 65 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:38167655 original size:33 final size:33
Alignment explanation
Indices: 38167618--38167685 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
38167608 ATTCATCACA
38167618 TCGGCTATTAGGCCTTATCACACATATACACTT
1 TCGGCTATTAGGCCTTATCACACATATACACTT
38167651 TCGGCTATTAGGCCTTATCACACATATACACTT
1 TCGGCTATTAGGCCTTATCACACATATACACTT
38167684 TC
1 TC
38167686 ACATTCATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (33 bp):
TCGGCTATTAGGCCTTATCACACATATACACTT
Found at i:38167659 original size:80 final size:81
Alignment explanation
Indices: 38167571--38167734 Score: 294
Period size: 80 Copynumber: 2.0 Consensus size: 81
38167561 ATTCATCACA
*
38167571 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
38167636 CAC-ACATATACACTT
66 CACAACATATACACTT
38167651 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
38167716 CACATATATATACACTT
66 CACA-ACATATACACTT
38167733 TC
1 TC
38167735 ACATTCATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
80 67 0.84
82 13 0.16
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (81 bp):
TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACAACATATACACTT
Found at i:38167689 original size:47 final size:47
Alignment explanation
Indices: 38167651--38167875 Score: 396
Period size: 47 Copynumber: 4.7 Consensus size: 47
38167641 ATATACACTT
* *
38167651 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
38167698 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
38167747 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
38167794 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
38167841 TCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCGGCCATTAGGCCTTATCACATATATACACTTTC
38167876 TTGGCTGAAT
Statistics
Matches: 170, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
47 124 0.73
49 46 0.27
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
Found at i:38167738 original size:96 final size:94
Alignment explanation
Indices: 38167651--38167875 Score: 396
Period size: 96 Copynumber: 2.4 Consensus size: 94
38167641 ATATACACTT
* *
38167651 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
38167716 CACATATATATACACTTTCACATTCATCACA
66 CAC--ACATATACACTTTCACATTCATCACA
*
38167747 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
38167812 CACACATATACACTTTCACATTCATCACA
66 CACACATATACACTTTCACATTCATCACA
38167841 TCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCGGCCATTAGGCCTTATCACATATATACACTTTC
38167876 TTGGCTGAAT
Statistics
Matches: 125, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
94 60 0.48
96 65 0.52
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (94 bp):
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACACATATACACTTTCACATTCATCACA
Found at i:38167789 original size:176 final size:174
Alignment explanation
Indices: 38167477--38167828 Score: 641
Period size: 176 Copynumber: 2.0 Consensus size: 174
38167467 ATTCATCACA
* *
38167477 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
38167542 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCA
66 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCA
38167607 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
131 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
*
38167651 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
38167716 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
66 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTT
38167781 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
129 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
38167827 TC
1 TC
38167829 ACATTCATCA
Statistics
Matches: 171, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
174 65 0.38
176 106 0.62
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (174 bp):
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCA
CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
Found at i:38167822 original size:223 final size:221
Alignment explanation
Indices: 38167430--38167875 Score: 829
Period size: 223 Copynumber: 2.0 Consensus size: 221
38167420 ATTCATCACA
*
38167430 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
38167495 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
66 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
*
38167560 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTA
131 CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
38167625 TTAGGCCTTATCACACATATACACTT
196 TTAGGCCTTATCACACATATACACTT
*
38167651 TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
38167716 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
66 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
38167781 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGC
129 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGC
*
38167846 CATTAGGCCTTATCACATATATACACTT
194 CATTAGGCCTTATCACACATATACACTT
38167874 TC
1 TC
38167876 TTGGCTGAAT
Statistics
Matches: 218, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
221 66 0.30
223 152 0.70
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (221 bp):
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACACATATACACTT
Found at i:38184345 original size:27 final size:27
Alignment explanation
Indices: 38184308--38184403 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 27
38184298 CTAGAATAGC
*
38184308 AAACACAGGATAGTCCGTCGGGACAGT
1 AAACACGGGATAGTCCGTCGGGACAGT
* * * **
38184335 TATCACGGGATAGTCTGTCGAAACAGT
1 AAACACGGGATAGTCCGTCGGGACAGT
* *
38184362 AAACACGGGATAGCCCGTCGGGACAAT
1 AAACACGGGATAGTCCGTCGGGACAGT
* *
38184389 AAACATGGGGTAGTC
1 AAACACGGGATAGTC
38184404 TGCTAGGATA
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (27 bp):
AAACACGGGATAGTCCGTCGGGACAGT
Found at i:38184417 original size:54 final size:54
Alignment explanation
Indices: 38184289--38184426 Score: 152
Period size: 54 Copynumber: 2.6 Consensus size: 54
38184279 GAGAACATAA
* * * * * *
38184289 GATAGTTTGCTAGAATAGCAAACACAGGATAGTCCGTCGGGACAGTTATCACGG
1 GATAGTCTGCTAGAATAGTAAACACAGGATAGCCCGTCGGGACAATAAACACGG
* * * *
38184343 GATAGTCTG-TCGAAACAGTAAACACGGGATAGCCCGTCGGGACAATAAACATGG
1 GATAGTCTGCTAG-AATAGTAAACACAGGATAGCCCGTCGGGACAATAAACACGG
* *
38184397 GGTAGTCTGCTAGGATAGTAAACACAGGAT
1 GATAGTCTGCTAGAATAGTAAACACAGGAT
38184427 GTAAGGGGAG
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
53 2 0.03
54 63 0.94
55 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.20
Consensus pattern (54 bp):
GATAGTCTGCTAGAATAGTAAACACAGGATAGCCCGTCGGGACAATAAACACGG
Found at i:38190414 original size:18 final size:19
Alignment explanation
Indices: 38190391--38190426 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38190381 TATAATTTGA
*
38190391 TTTATTTGGTT-TTAATAG
1 TTTATTCGGTTCTTAATAG
38190409 TTTATTCGGTTCTTAATA
1 TTTATTCGGTTCTTAATA
38190427 TATAAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (19 bp):
TTTATTCGGTTCTTAATAG
Found at i:38194519 original size:19 final size:19
Alignment explanation
Indices: 38194481--38194519 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
38194471 AATACTTTTA
* *
38194481 AAATAATTTTTTTATTTTT
1 AAATAATTTTTTAATGTTT
38194500 AAATAATTTTTTAATGTTT
1 AAATAATTTTTTAATGTTT
38194519 A
1 A
38194520 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
AAATAATTTTTTAATGTTT
Found at i:38196764 original size:8 final size:8
Alignment explanation
Indices: 38196751--38196777 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
38196741 GCTTTTATCT
38196751 TGTAATTC
1 TGTAATTC
38196759 TGTAATTC
1 TGTAATTC
38196767 TGTAATTC
1 TGTAATTC
38196775 TGT
1 TGT
38196778 TTCATAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (8 bp):
TGTAATTC
Found at i:38204493 original size:28 final size:28
Alignment explanation
Indices: 38204453--38204508 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38204443 GGACATAATG
38204453 CCAACAAGGGTAAATCCACCCACTTAAA
1 CCAACAAGGGTAAATCCACCCACTTAAA
38204481 CCAACAAGGGTAAATCCACCCACTTAAA
1 CCAACAAGGGTAAATCCACCCACTTAAA
38204509 TGATGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.32, G:0.11, T:0.14
Consensus pattern (28 bp):
CCAACAAGGGTAAATCCACCCACTTAAA
Found at i:38222042 original size:25 final size:25
Alignment explanation
Indices: 38222008--38222060 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
38221998 CTATACATGT
*
38222008 ATGCTCACACGAGCTGTGAATCAGA
1 ATGCCCACACGAGCTGTGAATCAGA
*
38222033 ATGCCCACACGAGCTGTGGATCAGA
1 ATGCCCACACGAGCTGTGAATCAGA
38222058 ATG
1 ATG
38222061 TAGCTACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (25 bp):
ATGCCCACACGAGCTGTGAATCAGA
Found at i:38244410 original size:47 final size:47
Alignment explanation
Indices: 38244332--38244721 Score: 528
Period size: 47 Copynumber: 8.1 Consensus size: 47
38244322 CCCTTCGGGA
* * * * * * *
38244332 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
38244379 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38244426 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38244473 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38244520 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38244567 CTTATCAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCA---C--AT-----ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38244624 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38244671 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38244718 CTTA
1 CTTA
38244722 CTATCATTTC
Statistics
Matches: 313, Mismatches: 20, Indels: 20
0.89 0.06 0.06
Matches are distributed among these distances:
47 265 0.85
50 1 0.00
52 2 0.01
54 1 0.00
57 44 0.14
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38244696 original size:151 final size:151
Alignment explanation
Indices: 38244422--38244721 Score: 555
Period size: 151 Copynumber: 2.0 Consensus size: 151
38244412 ATCGGCCATT
* * *
38244422 AGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
38244487 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCA
*
38244552 CATCGGCTATTAGGCCTTATC
131 CATCGGCCATTAGGCCTTATC
*
38244573 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATAT
1 AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
38244638 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCA
38244703 CATCGGCCATTAGGCCTTA
131 CATCGGCCATTAGGCCTTA
38244722 CTATCATTTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 144 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (151 bp):
AGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAT
ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATC
Found at i:38256822 original size:44 final size:44
Alignment explanation
Indices: 38256772--38256858 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
38256762 GATAAATGAA
38256772 TCGAAAGTATAACATTAAAGAAAAAGATTGATTTGTATTAAGAT
1 TCGAAAGTATAACATTAAAGAAAAAGATTGATTTGTATTAAGAT
*
38256816 TCGAAAGTATAACATTAAATAAAAAGATTGATTTGTATTAAGA
1 TCGAAAGTATAACATTAAAGAAAAAGATTGATTTGTATTAAGA
38256859 ATGAACGCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (44 bp):
TCGAAAGTATAACATTAAAGAAAAAGATTGATTTGTATTAAGAT
Found at i:38269948 original size:25 final size:26
Alignment explanation
Indices: 38269919--38269971 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
38269909 AAATGAAGGT
38269919 GAAAATG-GAGGGTTTA-TGAATGA-GA
1 GAAAATGAGA-GG-TTAGTGAATGATGA
38269944 GAAAATGAGAGGTTAGTGAATGATGA
1 GAAAATGAGAGGTTAGTGAATGATGA
38269970 GA
1 GA
38269972 GGAAATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 3 0.12
25 16 0.64
26 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.23
Consensus pattern (26 bp):
GAAAATGAGAGGTTAGTGAATGATGA
Found at i:38270004 original size:7 final size:7
Alignment explanation
Indices: 38269994--38270018 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38269984 TGAATGTTAA
38269994 ATGAGGG
1 ATGAGGG
38270001 ATGAGGG
1 ATGAGGG
38270008 ATGAGGG
1 ATGAGGG
38270015 ATGA
1 ATGA
38270019 TTTGAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (7 bp):
ATGAGGG
Found at i:38272619 original size:30 final size:30
Alignment explanation
Indices: 38272583--38272654 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
38272573 TGAAGAGTCC
38272583 CCATGGTGTGAACATGGCTGAACCGAACAG
1 CCATGGTGTGAACATGGCTGAACCGAACAG
38272613 CCATGGTGTGAACATGGCTGAACCGAACAG
1 CCATGGTGTGAACATGGCTGAACCGAACAG
38272643 CCATGGTGTGAA
1 CCATGGTGTGAA
38272655 TAGCCTTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (30 bp):
CCATGGTGTGAACATGGCTGAACCGAACAG
Found at i:38276497 original size:12 final size:13
Alignment explanation
Indices: 38276474--38276499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38276464 CTAGACCGTA
38276474 TGCAATTTTTTTT
1 TGCAATTTTTTTT
38276487 TGCAATTTTTTTT
1 TGCAATTTTTTTT
38276500 CCTTCTTTTT
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:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
TGCAATTTTTTTT
Found at i:38289914 original size:16 final size:17
Alignment explanation
Indices: 38289877--38289914 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
38289867 TAAACTAAGC
38289877 ATCAATTTAACATAAAA
1 ATCAATTTAACATAAAA
38289894 ATCAATTTAACA-AAAA
1 ATCAATTTAACATAAAA
*
38289910 TTCAA
1 ATCAA
38289915 AAAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
ATCAATTTAACATAAAA
Found at i:38297840 original size:11 final size:9
Alignment explanation
Indices: 38297812--38297841 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
38297802 GAAAATCAAC
38297812 AGTCCAGAG
1 AGTCCAGAG
38297821 AGTCCAGAG
1 AGTCCAGAG
38297830 AGTCCAGAG
1 AGTCCAGAG
38297839 AGT
1 AGT
38297842 GCTGAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.13
Consensus pattern (9 bp):
AGTCCAGAG
Found at i:38308790 original size:18 final size:19
Alignment explanation
Indices: 38308754--38308793 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
38308744 TCTCTAGCAC
38308754 TCTTTCTGAATTTCCTTTT
1 TCTTTCTGAATTTCCTTTT
* *
38308773 TCTTT-TGACTTTCTTTTT
1 TCTTTCTGAATTTCCTTTT
38308791 TCT
1 TCT
38308794 CAACTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (19 bp):
TCTTTCTGAATTTCCTTTT
Found at i:38310899 original size:25 final size:24
Alignment explanation
Indices: 38310856--38310937 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
38310846 TATGCTCATA
* *
38310856 CGAGCTGTA-AACGGTAAGCTCTTT
1 CGAGCTGAATAACGATAAGCTC-TT
*
38310880 CGAGCTGAATAACGATAAGCTCCT
1 CGAGCTGAATAACGATAAGCTCTT
*
38310904 CTGAGCTGAATAAC-AGTAAGCTCATA
1 C-GAGCTGAATAACGA-TAAGCTC-TT
38310930 CGAGCTGA
1 CGAGCTGA
38310938 GTGCTCGTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
24 11 0.22
25 37 0.76
26 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (24 bp):
CGAGCTGAATAACGATAAGCTCTT
Found at i:38313359 original size:19 final size:19
Alignment explanation
Indices: 38313337--38313383 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
38313327 GTATAAGATC
38313337 TATTTTCCTTTTTTATTTT
1 TATTTTCCTTTTTTATTTT
* *
38313356 TATTTTTC-TCTTTATTTT
1 TATTTTCCTTTTTTATTTT
*
38313374 T-TCTTCCTTT
1 TATTTTCCTTT
38313384 CAAAACTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TATTTTCCTTTTTTATTTT
Found at i:38313985 original size:3 final size:3
Alignment explanation
Indices: 38313977--38314016 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
38313967 TATTTTAGTG
*
38313977 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
38314017 GTTTCATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:38320069 original size:51 final size:54
Alignment explanation
Indices: 38320009--38320125 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 54
38319999 TCCAACACCG
* *
38320009 TGTAACTCACTCACTTGGGTCACACGGCC-A-CACGC-CCATGTGACTAGCCCC
1 TGTAACTCACTCACTTGGGTCACACGGCCAACCACACACCATCTGACTAGCCCC
* * *
38320060 TGTAACTCACTCACTTGGGTCATACGGCCAACCACACATCCGTCTGACTAGCCCG
1 TGTAACTCACTCACTTGGGTCACACGGCCAACCACACA-CCATCTGACTAGCCCC
38320115 TGTAACTCACT
1 TGTAACTCACT
38320126 AACCTGGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 28 0.49
52 1 0.02
53 4 0.07
55 24 0.42
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (54 bp):
TGTAACTCACTCACTTGGGTCACACGGCCAACCACACACCATCTGACTAGCCCC
Found at i:38329354 original size:80 final size:80
Alignment explanation
Indices: 38329238--38329423 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
38329228 AGTAACTCAT
* * * *
38329238 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCACACAAATGCCTTC-GGATCTTAACCCG
*
38329302 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
38329317 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCACACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCACACAAATGCCTTCGGATCTTAACCC
38329381 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
38329398 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
38329424 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 71 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:38329383 original size:40 final size:40
Alignment explanation
Indices: 38329203--38329423 Score: 195
Period size: 40 Copynumber: 5.5 Consensus size: 40
38329193 CTCGTTCAAG
* * *
38329203 TGCCTTCGGGACATAGCCCGG--TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCACACAAA
* * *
38329242 TGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAATAACTCACACAAA
* * *
38329282 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
*
38329322 GGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
** * * *
38329362 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGAAT-TAATAACTCA-CACAAA
*
38329403 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
38329424 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.22
40 106 0.69
41 10 0.07
42 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
Found at i:38336819 original size:79 final size:80
Alignment explanation
Indices: 38336734--38336901 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
38336724 CTCGTTCAAG
* * * * * *
38336734 TGCCTTCGGGACATAGCTCGG-TTATAGTAACTCATAC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
38336797 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
38336813 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
38336878 AATAACTCGCACAAA
66 AATAACTCGCACAAA
38336893 TGCCTTCGG
1 TGCCTTCGG
38336902 ATCTTAGTCC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 32 0.42
80 44 0.58
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:38336914 original size:40 final size:40
Alignment explanation
Indices: 38336771--38336901 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
38336761 TAACTCATAC
* *
38336771 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
38336811 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
38336851 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
38336891 AATGCCTTCGG
1 AATGCCTTCGG
38336902 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:38336944 original size:80 final size:80
Alignment explanation
Indices: 38336780--38336947 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
38336770 CAATGCCTTC
* *
38336780 GGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATTAGTATCT
1 GGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTATCT
* **
38336845 CGCACAAAGGCCTTC
66 AGCACAAAGGCCTAA
**
38336860 GGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTC
1 GGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAAT-TAGT-
38336922 A-CTTAGCACAAA-GCCTAA
62 ATC-TAGCACAAAGGCCTAA
38336940 GGGACTTA
1 GGGACTTA
38336948 GTCCGGACAT
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
79 9 0.12
80 58 0.76
81 9 0.12
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (80 bp):
GGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTATCT
AGCACAAAGGCCTAA
Found at i:38341121 original size:27 final size:28
Alignment explanation
Indices: 38341037--38341134 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
38341027 CATGAGATTG
* * * *
38341037 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
38341066 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
38341094 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38341121 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
38341135 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38341145 original size:27 final size:27
Alignment explanation
Indices: 38341065--38341147 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
38341055 TAAATTGTAC
* *
38341065 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
38341093 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
38341120 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
38341147 A
1 A
38341148 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:38341148 original size:29 final size:27
Alignment explanation
Indices: 38341037--38341148 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
38341027 CATGAGATTG
** * *
38341037 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
38341066 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
38341094 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
38341121 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
38341149 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:38349110 original size:29 final size:28
Alignment explanation
Indices: 38349068--38349165 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
38349058 CATGAGATTG
* *
38349068 GCACTAAGTGTGCGGGTATAAATTGTACA
1 GCACTAAGTGTGCGAGT-TAAATTATACA
** *
38349097 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAAATTATACA
* *
38349125 GCACTAAGTGTGCGAGTT-GATTATATA
1 GCACTAAGTGTGCGAGTTAAATTATACA
*
38349152 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
38349166 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 25 0.40
29 16 0.25
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAAATTATACA
Found at i:38349136 original size:28 final size:28
Alignment explanation
Indices: 38349068--38349165 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
38349058 CATGAGATTG
* ** * *
38349068 GCACTAAGTGTGCGGGTATAAATTGTACA
1 GCACTAAGTGTGCGAGT-TTGATTATATA
38349097 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
38349125 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38349152 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
38349166 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 23 0.37
29 16 0.25
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38349176 original size:27 final size:27
Alignment explanation
Indices: 38349096--38349178 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
38349086 TAAATTGTAC
* *
38349096 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
38349124 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
38349151 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
38349178 A
1 A
38349179 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:38349179 original size:29 final size:27
Alignment explanation
Indices: 38349068--38349179 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
38349058 CATGAGATTG
** * *
38349068 GCACTAAGTGTGCGGGTATAAATTGTACA
1 GCACTAAGTGTGCGACT-T-AATTATATA
* *
38349097 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
38349125 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
38349152 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
38349180 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.32
28 27 0.38
29 20 0.28
30 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:38353658 original size:21 final size:21
Alignment explanation
Indices: 38353633--38353678 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
38353623 AAGTCATTAG
*
38353633 AGATTGCTTGAAATCAGCTTT
1 AGATTGCTTGAAATCAGCTTC
*
38353654 AGATTGTTTGAAATCAGCTTC
1 AGATTGCTTGAAATCAGCTTC
38353675 AGAT
1 AGAT
38353679 AGACAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (21 bp):
AGATTGCTTGAAATCAGCTTC
Found at i:38355359 original size:50 final size:52
Alignment explanation
Indices: 38355254--38355432 Score: 168
Period size: 50 Copynumber: 3.4 Consensus size: 52
38355244 GGGATGAGAC
* **
38355254 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGTTTATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGG-A-TACCGAG--TATGAGAGGT
*
38355310 CCCACGTAAGACCATGTCTGGGACATGGCGTTGG-TACCGAG-ATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGATACCGAGTATGAGAGGT
* * * * * **
38355360 CCCCCGTAAGACTATGTCTGGGACACGGCATGGGA-ACTGA-TATGAGAACT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGATACCGAGTATGAGAGGT
* * *
38355410 CTCATGTAAGACCATATCTGGGA
1 CCCACGTAAGACCATGTCTGGGA
38355433 TATAGTATCT
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
50 67 0.64
53 5 0.05
56 32 0.31
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (52 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGATACCGAGTATGAGAGGT
Found at i:38355723 original size:20 final size:20
Alignment explanation
Indices: 38355698--38355736 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38355688 CGAGTTATTT
38355698 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
38355718 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
38355737 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:38367845 original size:7 final size:7
Alignment explanation
Indices: 38367828--38367863 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
38367818 GGTTGAACCC
38367828 ATCTC-T
1 ATCTCAT
38367834 ATCTCAT
1 ATCTCAT
38367841 ATCTCAT
1 ATCTCAT
38367848 ATCTCAT
1 ATCTCAT
38367855 ATCTCAT
1 ATCTCAT
38367862 AT
1 AT
38367864 AGATGCTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
ATCTCAT
Found at i:38369521 original size:7 final size:7
Alignment explanation
Indices: 38369509--38369543 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
38369499 TTTTTCAATT
38369509 ATCCCTC
1 ATCCCTC
38369516 ATCCCTC
1 ATCCCTC
38369523 ATCCCTC
1 ATCCCTC
38369530 ATCCCTC
1 ATCCCTC
38369537 ATCCCTC
1 ATCCCTC
38369544 TCATCTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.57, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCCCTC
Found at i:38375551 original size:46 final size:46
Alignment explanation
Indices: 38375499--38375592 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
38375489 ATAGTGTGGC
*
38375499 GTTCATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
38375545 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
38375591 GT
1 GT
38375593 CTTTTCTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 44 0.96
47 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:38375928 original size:13 final size:12
Alignment explanation
Indices: 38375910--38375953 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
38375900 TAGTTTCTCG
*
38375910 AAAAAAAACTCA
1 AAAAAAAATTCA
38375922 AAAAAAAATTCGA
1 AAAAAAAATTC-A
*
38375935 AAAAAAAATTCG
1 AAAAAAAATTCA
38375947 AAAAAAA
1 AAAAAAA
38375954 CTAGTTTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 17 0.59
13 12 0.41
ACGTcount: A:0.75, C:0.09, G:0.05, T:0.11
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:38376015 original size:14 final size:14
Alignment explanation
Indices: 38375992--38376031 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
38375982 GATATCAAGT
*
38375992 TGAAAAAAAATTTTCG
1 TGAAAAAAAA--TTCA
38376008 TGAAAAAAAATTCA
1 TGAAAAAAAATTCA
38376022 TGAAAAAAAA
1 TGAAAAAAAA
38376032 AGAAGCTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
16 10 0.43
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (14 bp):
TGAAAAAAAATTCA
Found at i:38379247 original size:28 final size:28
Alignment explanation
Indices: 38379207--38379262 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38379197 TAACAGAATA
38379207 GGCCTGCTAGTCTGGTGGATAAGTGGAG
1 GGCCTGCTAGTCTGGTGGATAAGTGGAG
38379235 GGCCTGCTAGTCTGGTGGATAAGTGGAG
1 GGCCTGCTAGTCTGGTGGATAAGTGGAG
38379263 TGTTGGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.14, G:0.43, T:0.25
Consensus pattern (28 bp):
GGCCTGCTAGTCTGGTGGATAAGTGGAG
Found at i:38392530 original size:25 final size:26
Alignment explanation
Indices: 38392488--38392541 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
38392478 TTCTACTAAA
*
38392488 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
38392514 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
38392539 TTT
1 TTT
38392542 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:38397510 original size:19 final size:19
Alignment explanation
Indices: 38397451--38397511 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
38397441 GACTATGCCT
38397451 TTGTTTTGATATGAACTAA
1 TTGTTTTGATATGAACTAA
* * *
38397470 TCGTTTAT-TTAT-AAC-CA
1 TTGTTT-TGATATGAACTAA
38397487 TTGTTTTGATATGAACTAA
1 TTGTTTTGATATGAACTAA
38397506 TTGTTT
1 TTGTTT
38397512 ATTTATGCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 6 0.19
19 15 0.47
20 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (19 bp):
TTGTTTTGATATGAACTAA
Found at i:38397518 original size:19 final size:19
Alignment explanation
Indices: 38397460--38397518 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
38397450 TTTGTTTTGA
*
38397460 TATGAACTAATCGTTTATT
1 TATGAACTAATTGTTTATT
* *
38397479 TAT-AAC-CATTGTTT-TGA
1 TATGAACTAATTGTTTAT-T
38397496 TATGAACTAATTGTTTATT
1 TATGAACTAATTGTTTATT
38397515 TATG
1 TATG
38397519 CTTTTTGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 6 0.19
19 14 0.45
20 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (19 bp):
TATGAACTAATTGTTTATT
Found at i:38401834 original size:32 final size:32
Alignment explanation
Indices: 38401793--38401855 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
38401783 TACCATCTTT
38401793 CTTTGGCACCAATAAGACAGGAACAGCACAAA
1 CTTTGGCACCAATAAGACAGGAACAGCACAAA
38401825 CTTTGGCACCAATAAGACAGGAACAGCACAA
1 CTTTGGCACCAATAAGACAGGAACAGCACAA
38401856 GGACTTAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.13
Consensus pattern (32 bp):
CTTTGGCACCAATAAGACAGGAACAGCACAAA
Found at i:38406889 original size:39 final size:39
Alignment explanation
Indices: 38406846--38406923 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
38406836 TTAAACGTTG
*
38406846 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
*
38406885 AGGTTAGCATTTGGGTTGTTCAATATGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
38406924 TTAGGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:38408594 original size:47 final size:47
Alignment explanation
Indices: 38408540--38409186 Score: 961
Period size: 47 Copynumber: 13.6 Consensus size: 47
38408530 TTAAACCCAT
* *
38408540 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
38408587 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38408636 ATGTGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTG-ATAAGGCCTAATGGCCGATGTGATGA
* *
38408684 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38408731 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38408780 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38408827 ATGTGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTG-ATAAGGCCTAATGGCCGATGTGATGA
* *
38408875 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38408922 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38408971 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
38409018 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
38409067 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
38409114 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
38409161 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
38409187 TCCCGAAGGG
Statistics
Matches: 546, Mismatches: 44, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
47 281 0.51
48 88 0.16
49 177 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:38408804 original size:96 final size:94
Alignment explanation
Indices: 38408540--38409186 Score: 1015
Period size: 96 Copynumber: 6.8 Consensus size: 94
38408530 TTAAACCCAT
* * *
38408540 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* *
38408605 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 GTGTGATAAGGCCTAATAGCCGATGTGATGA
*
38408636 ATGTGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 ATGTGAAAGTGTATATATGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
38408701 TGTGATAAGGCCTAATAGCCGATGTGATGA
65 TGTGATAAGGCCTAATAGCCGATGTGATGA
38408731 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
38408796 GTGTGATAAGGCCTAATGGCCGATGTGATGA
64 GTGTGATAAGGCCTAATAGCCGATGTGATGA
*
38408827 ATGTGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 ATGTGAAAGTGTATATATGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
38408892 TGTGATAAGGCCTAATAGCCGATGTGATGA
65 TGTGATAAGGCCTAATAGCCGATGTGATGA
38408922 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
38408987 GTGTGATAAGGCCTAATAGCCGATGTGATGA
64 GTGTGATAAGGCCTAATAGCCGATGTGATGA
38409018 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
38409083 GCGTGATAAGGCTTAATGGCCGATGTGATGA
64 GTGTGATAAGGCCTAATAGCCGATGTGATGA
* * ** * * * * **
38409114 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
38409179 GTGATAAG
66 GTGATAAG
38409187 TCCCGAAGGG
Statistics
Matches: 520, Mismatches: 25, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
94 61 0.12
95 127 0.24
96 278 0.53
97 54 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
GTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:38408864 original size:191 final size:189
Alignment explanation
Indices: 38408540--38409186 Score: 1044
Period size: 191 Copynumber: 3.4 Consensus size: 189
38408530 TTAAACCCAT
* *
38408540 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
38408605 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCTTAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCTTAAT
38408670 GGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
129 GGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
*
38408731 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
38408796 GTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCTTAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCTTAAT
38408861 GGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
129 GGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
*
38408922 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
38408987 GTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTG-ATAAGGCTTA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAATAGGGCTTA
* * *
38409051 ATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
127 ATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
* * * * * * * *
38409114 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
38409179 GTGATAAG
66 GTGATAAG
38409187 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
190 52 0.12
191 247 0.57
192 80 0.18
193 54 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (189 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:38409361 original size:37 final size:37
Alignment explanation
Indices: 38409307--38409382 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
38409297 GAGTTCTAAG
* * *
38409307 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
38409344 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
38409381 GA
1 GA
38409383 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:38412027 original size:75 final size:75
Alignment explanation
Indices: 38411938--38412079 Score: 191
Period size: 75 Copynumber: 1.9 Consensus size: 75
38411928 TATTAATTAA
* * * *
38411938 TTTTGGGAAAAATATAATTC-CTTTTTCTAAC-TTTCTATTTGTCTTCTCTATTAATAAGGGAAT
1 TTTTGGGAAAAATATAATTCTC-CTTTCTAACTTTTC-ATTTGCCTTCTATATTAATAAGAGAAT
38412001 AATCTTATATTC
64 AATCTTATATTC
*
38412013 TTTT-GGAAAGAATATAATTCTCCTTTCTAACTTTTCATTTGCCTTTTATATTAATAAGAGAATA
1 TTTTGGGAAA-AATATAATTCTCCTTTCTAACTTTTCATTTGCCTTCTATATTAATAAGAGAATA
38412077 ATC
65 ATC
38412080 ATGGTTTTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
74 5 0.08
75 49 0.83
76 5 0.08
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.46
Consensus pattern (75 bp):
TTTTGGGAAAAATATAATTCTCCTTTCTAACTTTTCATTTGCCTTCTATATTAATAAGAGAATAA
TCTTATATTC
Found at i:38415882 original size:50 final size:50
Alignment explanation
Indices: 38415828--38415934 Score: 162
Period size: 50 Copynumber: 2.1 Consensus size: 50
38415818 ACATTGGAGT
* *
38415828 TCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACAG-GGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC-GTGGGACC
* *
38415878 TCTCATCTCGGTGTCAACGCCATGTCCCAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACC
38415928 TCTCATA
1 TCTCATA
38415935 ACCTCAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 1 0.02
50 50 0.98
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACC
Found at i:38415968 original size:56 final size:50
Alignment explanation
Indices: 38415844--38415976 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
38415834 ATCGGTGCCC
** *
38415844 ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGTCA
1 ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAATATCA
*
38415894 ACGCCATGTCCCAGACATGGTCTTAC-GTGGGACCTCTCATAACCTCAATAATGCTA
1 ATGCCATGTCCCAGACATGGTCTTACAG-GGGACCTCTCAT---CTCAAT-AT-C-A
*
38415950 ATGCCATGTCCCAAACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
38415977 ATGGGGTCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
49 1 0.01
50 37 0.54
53 4 0.06
54 1 0.01
55 1 0.01
56 25 0.36
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAATATCA
Found at i:38420852 original size:32 final size:32
Alignment explanation
Indices: 38420641--38420858 Score: 177
Period size: 32 Copynumber: 6.7 Consensus size: 32
38420631 ATATAAATAC
* * * ** *
38420641 ATATACAAATGAATTCAGCAATAGGGGTATAC
1 ATATACAATTCAATTCGGCAATAGAAGTATAT
* * * * *
38420673 CTATACAGTTTAATTCGACAATATAAGTATAT
1 ATATACAATTCAATTCGGCAATAGAAGTATAT
*** *
38420705 ATATACAATTCAATTCAATAATATAAGTATAT
1 ATATACAATTCAATTCGGCAATAGAAGTATAT
*
38420737 ATATACAATTCAATTCAGCAATAGATGTAAGTATAT
1 ATATACAATTCAATTCGGCAAT--A-G-AAGTATAT
* * * *
38420773 ATTTACAATT-TAGTCGGCAATATAAGTATAT
1 ATATACAATTCAATTCGGCAATAGAAGTATAT
** *
38420804 ATATACAATTCAATTCGGCAATAGGTGTATAC
1 ATATACAATTCAATTCGGCAATAGAAGTATAT
*
38420836 CTATACAATTCAATTCGGCAATA
1 ATATACAATTCAATTCGGCAATA
38420859 AATAAAACAT
Statistics
Matches: 150, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
31 17 0.11
32 106 0.71
33 1 0.01
34 1 0.01
35 8 0.05
36 17 0.11
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (32 bp):
ATATACAATTCAATTCGGCAATAGAAGTATAT
Found at i:38428159 original size:32 final size:31
Alignment explanation
Indices: 38428123--38428206 Score: 73
Period size: 32 Copynumber: 2.7 Consensus size: 31
38428113 ATCAAATCAA
38428123 CAATATATAAATACATATACAAGCCAATTCAG
1 CAATATATAAATACATATACAAGCCAATTC-G
* ** * **
38428155 CAATAGATGTATACCTATACAATTCAATTCG
1 CAATATATAAATACATATACAAGCCAATTCG
*
38428186 -AGA-ATATAAATATATATACAA
1 CA-ATATATAAATACATATACAA
38428207 TTCAGTTCGG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
30 14 0.35
31 2 0.05
32 24 0.60
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (31 bp):
CAATATATAAATACATATACAAGCCAATTCG
Found at i:38428206 original size:30 final size:29
Alignment explanation
Indices: 38428170--38428345 Score: 121
Period size: 30 Copynumber: 5.9 Consensus size: 29
38428160 GATGTATACC
38428170 TATACAATTCAATTCGAGAATATAAATATA
1 TATACAATTCAATTCG-GAATATAAATATA
* *
38428200 TATACAATTCAGTTCGGCAATATAAGTATA
1 TATACAATTCAATTCGG-AATATAAATATA
* ** **
38428230 TATATAATTCAATTCGGCAATAGGTGTATACC
1 TATACAATTCAATTCGG-AATA--TAAATATA
* *
38428262 TATACAATTCAATTTGGCA-AT--ATATA
1 TATACAATTCAATTCGGAATATAAATATA
*
38428288 TAT--AATTCAATTCGACAATATAAGTATATATA
1 TATACAATTCAATTCG-GAATAT-A--A-ATATA
*
38428320 TATACAATTCAATTCGGCA-ATAAATA
1 TATACAATTCAATTCGGAATATAAATA
38428346 ACCATATATG
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
24 10 0.09
25 1 0.01
26 8 0.07
28 4 0.04
29 2 0.02
30 47 0.41
31 2 0.02
32 28 0.25
33 1 0.01
34 11 0.10
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (29 bp):
TATACAATTCAATTCGGAATATAAATATA
Found at i:38428229 original size:62 final size:60
Alignment explanation
Indices: 38428127--38428245 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 60
38428117 AATCAACAAT
*
38428127 ATATAAATACATATACAAGCCAATTCAGCAATAGATGTATACCTATACAATTCAATTCGAGA
1 ATATAAATACATATACAAGCCAATTCAGCAATAGAAGTATA--TATACAATTCAATTCGAGA
* ** * * * *
38428189 ATATAAATATATATACAATTCAGTTCGGCAATATAAGTATATATATAATTCAATTCG
1 ATATAAATACATATACAAGCCAATTCAGCAATAGAAGTATATATACAATTCAATTCG
38428246 GCAATAGGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 15 0.31
62 34 0.69
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (60 bp):
ATATAAATACATATACAAGCCAATTCAGCAATAGAAGTATATATACAATTCAATTCGAGA
Found at i:38428243 original size:92 final size:85
Alignment explanation
Indices: 38428147--38428330 Score: 242
Period size: 92 Copynumber: 2.1 Consensus size: 85
38428137 ATATACAAGC
*
38428147 CAATTCAGCAATAGATGTATACCTATACAATTCAATTCGAGAATATAAATATATATACAATTCAG
1 CAATTCAGCAATAGATGTATACCTATACAATTCAATTCG-GAA-AT--ATATATAT--AATTCAA
* *
38428212 TTCGGCAATATAAGTATATATATAATT
60 TTCGACAATATAAGTATATATAT-ATA
* * * *
38428239 CAATTCGGCAATAGGTGTATACCTATACAATTCAATTTGGCAATATATATATAATTCAATTCGAC
1 CAATTCAGCAATAGATGTATACCTATACAATTCAATTCGGAAATATATATATAATTCAATTCGAC
38428304 AATATAAGTATATATATATA
66 AATATAAGTATATATATATA
38428324 CAATTCA
1 CAATTCA
38428331 ATTCGGCAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
85 8 0.10
86 28 0.33
88 8 0.10
90 2 0.02
91 2 0.02
92 36 0.43
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (85 bp):
CAATTCAGCAATAGATGTATACCTATACAATTCAATTCGGAAATATATATATAATTCAATTCGAC
AATATAAGTATATATATATA
Found at i:38428281 original size:32 final size:32
Alignment explanation
Indices: 38428133--38428283 Score: 141
Period size: 30 Copynumber: 4.8 Consensus size: 32
38428123 CAATATATAA
* ** *
38428133 ATACATATACAAGCCAATTCAGCAATAGATGT
1 ATACCTATACAATTCAATTCGGCAATAGATGT
* **
38428165 ATACCTATACAATTCAATTCGAG-AATATAAAT
1 ATACCTATACAATTCAATTCG-GCAATAGATGT
* * *
38428197 ATA--TATACAATTCAGTTCGGCAATATAAGT
1 ATACCTATACAATTCAATTCGGCAATAGATGT
* *
38428227 ATA--TATATAATTCAATTCGGCAATAGGTGT
1 ATACCTATACAATTCAATTCGGCAATAGATGT
*
38428257 ATACCTATACAATTCAATTTGGCAATA
1 ATACCTATACAATTCAATTCGGCAATA
38428284 TATATATAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.01
30 51 0.52
32 46 0.46
33 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (32 bp):
ATACCTATACAATTCAATTCGGCAATAGATGT
Found at i:38428287 original size:56 final size:58
Alignment explanation
Indices: 38428170--38428341 Score: 167
Period size: 58 Copynumber: 3.0 Consensus size: 58
38428160 GATGTATACC
* * *
38428170 TATACAATTCAATTCGAGAATATAA--ATAT--ATATACAATTCAGTTCGGCAATATAAGTATA
1 TATATAATTCAATTCGACAATATAAGTATATACATATACAATTCAATTCGGC-----AA-TATA
* * * * *
38428230 TATATAATTCAATTCGGC-A-ATAGGTGTATACCTATACAATTCAATTTGGCAATATA
1 TATATAATTCAATTCGACAATATAAGTATATACATATACAATTCAATTCGGCAATATA
*
38428286 TATATAATTCAATTCGACAATATAAGTATATATATATACAATTCAATTCGGCAATA
1 TATATAATTCAATTCGACAATATAAGTATATACATATACAATTCAATTCGGCAATA
38428342 AATAACCATA
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
56 21 0.23
57 3 0.03
58 33 0.36
59 1 0.01
60 18 0.20
62 16 0.17
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (58 bp):
TATATAATTCAATTCGACAATATAAGTATATACATATACAATTCAATTCGGCAATATA
Found at i:38428315 original size:24 final size:24
Alignment explanation
Indices: 38428262--38428309 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38428252 GGTGTATACC
* * *
38428262 TATACAATTCAATTTGGCAATATA
1 TATATAATTCAATTCGACAATATA
38428286 TATATAATTCAATTCGACAATATA
1 TATATAATTCAATTCGACAATATA
38428310 AGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (24 bp):
TATATAATTCAATTCGACAATATA
Found at i:38428353 original size:32 final size:31
Alignment explanation
Indices: 38428283--38428387 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 31
38428273 ATTTGGCAAT
* * *
38428283 ATATATATAATTCAATTCGACAATATAAGTATAT
1 ATATATACAATTCAATTCGGCAATA-AA-TA-AC
38428317 ATATATACAATTCAATTCGGCAATAAATAACC
1 ATATATACAATTCAATTCGGCAATAAATAA-C
* *
38428349 ATATAT-GAA-TCAAATTCGGCAATATATAAAAC
1 ATATATACAATTC-AATTCGGCAATA-A-ATAAC
38428381 ATATATA
1 ATATATA
38428388 TATTTATATT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
30 2 0.03
31 15 0.25
32 16 0.26
33 5 0.08
34 23 0.38
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (31 bp):
ATATATACAATTCAATTCGGCAATAAATAAC
Found at i:38436532 original size:436 final size:436
Alignment explanation
Indices: 38435659--38436515 Score: 1238
Period size: 436 Copynumber: 2.0 Consensus size: 436
38435649 GACACCAAAA
*
38435659 TGTCATCTATGAAAACAACCATAAATTGATCCAAGTACAAATGGAATACTCGATTTATTAGATAC
1 TGTCATCTATGAAAACAACCACAAATTGATCCAAGTACAAATGGAATACTCGATTTATTAGATAC
* * * **
38435724 ATGAACACGGCGGGAGCATTAGTTAAATCGAACGTCATGACCAAAAACTCATAATGCCCATACTG
66 ATGAACACGGAGGGAGCATTAGTTAAACCGAACATCATGACCAAAAACTCATAATGCCCATACCA
** * * * *
38435789 AGTTTTAAAAGCAATTTTTAAGATGTCAGACTCCTTCACCTTCAACTGATAATACCTAGATCTTA
131 AGTCCTAAAAGCAATTTTTAAGATGTCAAACTCCTTCACCTTAAACTGATAATACCCAAATCTTA
* * * *
38435854 GATCAATCTTCAAAAACATTGTTGCACATTGAAACTGATCAAACAAGTCATCAGTTTGAGGCAAA
196 GATCAATCTTCAAAAACACTGTTGCACATCGAAACTGATCAAACAAGTCATCAATTTAAGGCAAA
** *
38435919 AGATACTTGTTCTTGATGGTCAACTTATTCAACTATCGATAATCAATACACAACCATATCGTACC
261 AGATACTTGTTCTTGATGGTCAACTTATTCAACTAAAGATAACCAATACACAACCATATCGTACC
* * * *
38435984 ATCCTTCTTCTTCACAAACAAAACTGGTGCACCCCACGGAGATACACTCTGTTGAATGAACCTTC
326 ATCCTTCTTCTTCACAAACAAAACTGGTGCACCCCACGGAGATACACTCGGTCGAATAAACCCTC
*
38436049 CATCAAGCAACTCATGCAACTGAATCTTTAACTCTTTGAACTCTTT
391 CATCAAGCAACTCATGCAACTAAATCTTTAACTCTTTGAACTCTTT
* * *
38436095 TGTCATCTATGAAGACAACCACAAATTGATCCAAGTACGAATGGAATACTC-AGTTTATTAGATC
1 TGTCATCTATGAAAACAACCACAAATTGATCCAAGTACAAATGGAATACTCGA-TTTATTAGATA
* *
38436159 CATGAACACGGTAGGG-TCATTAGTTAAACCGAGCATCATGACCAAAAACTCATAATGCCCATAC
65 CATGAACACGG-AGGGAGCATTAGTTAAACCGAACATCATGACCAAAAACTCATAATGCCCATAC
*
38436223 CAAGTCCTAAAAGCAATTTTTAAGATGTCAAACTCCTTCATCTTAAACTGATAATACCCAAATCT
129 CAAGTCCTAAAAGCAATTTTTAAGATGTCAAACTCCTTCACCTTAAACTGATAATACCCAAATCT
* * ** *
38436288 TATATCAATCTTCAAAAACACTGTTGCACCTCGAAACTGATCAAACAAGTTGTCAATTTAAGGTA
194 TAGATCAATCTTCAAAAACACTGTTGCACATCGAAACTGATCAAACAAGTCATCAATTTAAGGCA
* * * *
38436353 AAGGATAGTTGTTCTTGATGGTCAACTTATTCAACTAAATATAACCAATACACAA-CTTCATCGT
259 AAAGATACTTGTTCTTGATGGTCAACTTATTCAACTAAAGATAACCAATACACAACCAT-ATCGT
* *
38436417 ACCATCCTTCTTCTTCACAAACAAAA-TCGGTGCACCCCATGGAGATGCACTCGGTCGAATAAAC
323 ACCATCCTTCTTCTTCACAAACAAAACT-GGTGCACCCCACGGAGATACACTCGGTCGAATAAAC
** *
38436481 CCTCTGTTAAGCAACT-ATTGCAACTAAATCTTTAA
387 CCTCCATCAAGCAACTCA-TGCAACTAAATCTTTAA
38436516 TTTTGTTAGC
Statistics
Matches: 372, Mismatches: 44, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
435 5 0.01
436 364 0.98
437 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (436 bp):
TGTCATCTATGAAAACAACCACAAATTGATCCAAGTACAAATGGAATACTCGATTTATTAGATAC
ATGAACACGGAGGGAGCATTAGTTAAACCGAACATCATGACCAAAAACTCATAATGCCCATACCA
AGTCCTAAAAGCAATTTTTAAGATGTCAAACTCCTTCACCTTAAACTGATAATACCCAAATCTTA
GATCAATCTTCAAAAACACTGTTGCACATCGAAACTGATCAAACAAGTCATCAATTTAAGGCAAA
AGATACTTGTTCTTGATGGTCAACTTATTCAACTAAAGATAACCAATACACAACCATATCGTACC
ATCCTTCTTCTTCACAAACAAAACTGGTGCACCCCACGGAGATACACTCGGTCGAATAAACCCTC
CATCAAGCAACTCATGCAACTAAATCTTTAACTCTTTGAACTCTTT
Found at i:38438702 original size:82 final size:81
Alignment explanation
Indices: 38438586--38438736 Score: 212
Period size: 82 Copynumber: 1.9 Consensus size: 81
38438576 AAATTGTACA
* * * *
38438586 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGACCATGCGGCACTAAGTGT
1 GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCACTAAGTGT
38438651 GCGAAATGACCATGCG
66 GCGAAATGACCATGCG
** ** *
38438667 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCACTAAGTG
38438732 TGCGA
65 TGCGA
38438737 GTTGATTGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 15 0.25
82 45 0.75
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGACCACGCGGCACTAAGTGT
GCGAAATGACCATGCG
Found at i:38438743 original size:27 final size:27
Alignment explanation
Indices: 38438586--38438741 Score: 168
Period size: 27 Copynumber: 5.7 Consensus size: 27
38438576 AAATTGTACA
* *
38438586 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
38438613 GCACTAAGTGTGCGAAATGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
38438640 GCACTAAGTGTGCGAAATGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
38438667 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
38438695 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
38438722 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
38438742 TTGTATAGCA
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 89 0.80
28 22 0.20
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Done.