Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 241 of 255
Found at i:78610769 original size:27 final size:27
Alignment explanation
Indices: 78610739--78610804 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
78610729 TTCGACTTGT
78610739 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
* **** * *
78610766 AAAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAGTACCCCCGATTTAC
78610793 AAAATTACCAAA
1 AAAATTACCAAA
78610805 ACAACCCTAT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:78611158 original size:27 final size:27
Alignment explanation
Indices: 78610795--78611160 Score: 421
Period size: 27 Copynumber: 13.6 Consensus size: 27
78610785 CGATTTATAA
* * * *
78610795 AATTACCAAAACAACCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78610822 AATTACCGAAATACCCCTGTAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78610849 AATTACCGAAATACTCGTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
78610876 AATTACCAAAATACCCTTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78610903 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78610930 AATTACTGAAATACTCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78610957 AATTACTGAAATACTCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78610984 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
78611011 AATTATTGAAATA-CCCTGTTA-GGTAG
1 AATTACCGAAATACCCCTG-TAGGGTAG
* *
78611037 AATTATCGAAATAGCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
78611064 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78611091 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78611118 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78611145 AATTACCGAGATACCC
1 AATTACCGAAATACCC
78611161 TCATGGGGTA
Statistics
Matches: 293, Mismatches: 43, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
26 24 0.08
27 269 0.92
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:78611560 original size:22 final size:23
Alignment explanation
Indices: 78611535--78611584 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
78611525 GATGGCTCTA
*
78611535 TGCCAATC-TAAATATGGCTTCG
1 TGCCAATCTTAAATATGCCTTCG
* *
78611557 TGCC-ATCTTGACTATGCCTTCG
1 TGCCAATCTTAAATATGCCTTCG
78611579 TGCCAA
1 TGCCAA
78611585 ACGTATTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 3 0.13
22 19 0.83
23 1 0.04
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (23 bp):
TGCCAATCTTAAATATGCCTTCG
Found at i:78611772 original size:27 final size:27
Alignment explanation
Indices: 78611741--78611805 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
78611731 TATTCTGTTG
*
78611741 AGTGGCTTTGCCAC-ATTATCTGATTCT
1 AGTGGCTTTGCCACAAATATCTG-TTCT
* *
78611768 GGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTTTGCCACAAATATCTGTTCT
*
78611795 AGAGGCTTTGC
1 AGTGGCTTTGC
78611806 TTCAACTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (27 bp):
AGTGGCTTTGCCACAAATATCTGTTCT
Found at i:78611997 original size:6 final size:6
Alignment explanation
Indices: 78611953--78612048 Score: 81
Period size: 6 Copynumber: 15.7 Consensus size: 6
78611943 ATTCACATTT
* * * *
78611953 TGATTT TGATTC TG-TTACC TGATAC TGATTC TAATTC TGATTC TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
*
78612003 TGATTC TGATTC TGATTC TGGTTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
78612049 AATGTTTCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 60 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:78611997 original size:31 final size:31
Alignment explanation
Indices: 78611959--78612028 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
78611949 ATTTTGATTT
*
78611959 TGATTCTGTTACCTGATACTGATTCTAATTC
1 TGATTCTGTCACCTGATACTGATTCTAATTC
* *
78611990 TGATTCTGTCACCTGATTCTGATTCTGATTC
1 TGATTCTGTCACCTGATACTGATTCTAATTC
*
78612021 TGGTTCTG
1 TGATTCTG
78612029 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (31 bp):
TGATTCTGTCACCTGATACTGATTCTAATTC
Found at i:78612798 original size:17 final size:17
Alignment explanation
Indices: 78612773--78612806 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78612763 TGTTTATGGT
* *
78612773 AAAATAATTTTTTATTG
1 AAAAGAATTTTTCATTG
78612790 AAAAGAATTTTTCATTG
1 AAAAGAATTTTTCATTG
78612807 GCCACAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (17 bp):
AAAAGAATTTTTCATTG
Found at i:78612928 original size:29 final size:30
Alignment explanation
Indices: 78612896--78612965 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 30
78612886 TTGATTTAAT
78612896 GTGTAATTGTACAAATGAAAC-TTAATTTG
1 GTGTAATTGTACAAATGAAACTTTAATTTG
* * **
78612925 GTGTAATTATATATGTGAAACTTTAATTTG
1 GTGTAATTGTACAAATGAAACTTTAATTTG
* *
78612955 GTTTAAATGTA
1 GTGTAATTGTA
78612966 TACTTGAACC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (30 bp):
GTGTAATTGTACAAATGAAACTTTAATTTG
Found at i:78619944 original size:6 final size:6
Alignment explanation
Indices: 78619935--78619960 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
78619925 TTTTTTATTT
78619935 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
78619961 TTTATTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:78630128 original size:3 final size:3
Alignment explanation
Indices: 78630120--78630187 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
78630110 GTGAGGTAAG
78630120 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
78630168 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
78630188 AGATGAGTGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:78630366 original size:23 final size:26
Alignment explanation
Indices: 78630340--78630388 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
78630330 TTTGTGGATT
78630340 AATTATTG-ATTGAAAA-GTG-GAAA
1 AATTATTGAATTGAAAATGTGAGAAA
78630363 AATTATTGAATTGAAAATGTGAGAAA
1 AATTATTGAATTGAAAATGTGAGAAA
78630389 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
AATTATTGAATTGAAAATGTGAGAAA
Found at i:78639864 original size:63 final size:63
Alignment explanation
Indices: 78639765--78639893 Score: 258
Period size: 63 Copynumber: 2.0 Consensus size: 63
78639755 AAATTACAAT
78639765 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
1 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
78639828 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
1 ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
78639891 ATT
1 ATT
78639894 ATAAGATAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.29
Consensus pattern (63 bp):
ATTCTGATCAATTAAAAGTTCAAGATAAAGAAATTCTAGGTTAACGAATCAATAAAACTCTAA
Found at i:78642082 original size:21 final size:21
Alignment explanation
Indices: 78642053--78642092 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
78642043 ATGAATAATA
*
78642053 TAATTGTTTTG-CGTTTTAACT
1 TAATGGTTTTGAC-TTTTAACT
78642074 TAATGGTTTTGACTTTTAA
1 TAATGGTTTTGACTTTTAA
78642093 TTTTAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:78652038 original size:13 final size:13
Alignment explanation
Indices: 78652014--78652056 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
78652004 TTAGATTAAA
78652014 ATTATA-TATTTT
1 ATTATATTATTTT
78652026 ATTATATTATTTT
1 ATTATATTATTTT
*
78652039 AATATATTATTTT
1 ATTATATTATTTT
78652052 -TTATA
1 ATTATA
78652057 AATTAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATATTATTTT
Found at i:78653411 original size:3 final size:3
Alignment explanation
Indices: 78653403--78653431 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
78653393 ATAAACAATG
78653403 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
78653432 ACTGCCGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:78683936 original size:46 final size:44
Alignment explanation
Indices: 78683869--78684153 Score: 168
Period size: 46 Copynumber: 6.6 Consensus size: 44
78683859 ATTATACAGG
*
78683869 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA--TCAGA
* * *
78683915 TCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGGAT-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATCAG--A
* * * * * *
78683959 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATCAGA
* * * *
78683998 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-CATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGAATCAGA
* * *
78684039 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAACTTCGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA--TCAGA
* * * * *
78684085 TCTTATCTCCCTGAGATTACAGCGGAGCAAATCGAAG-A-CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATCA-GA
*
78684128 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
78684154 GCGGATTAAA
Statistics
Matches: 185, Mismatches: 35, Indels: 41
0.71 0.13 0.16
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 23 0.12
40 1 0.01
41 28 0.15
42 5 0.03
43 25 0.14
44 29 0.16
45 8 0.04
46 64 0.35
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATCAGA
Found at i:78684238 original size:174 final size:170
Alignment explanation
Indices: 78683865--78684244 Score: 518
Period size: 170 Copynumber: 2.2 Consensus size: 170
78683855 GTTTATTATA
*
78683865 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAACTTCAGATCTTATCTCCCTGAG
* * * *
78683930 ATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAA
66 ATTACAGCGGAGCAAATCAAGGACACTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
*
78683995 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
131 GGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACAT
* *
78684035 CAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAACTTCGGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAACTTCAGATCTTATCTCCCTGAG
*
78684100 ATTACAGCGGAGCAAATCGAA-GACACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTA
66 ATTACAGCGGAGCAAATC-AAGGACACTAATCCTATCTCCCTGAGA-TTACAATGGAGCGGA-T-
* * *
78684162 AAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCAT
127 ---TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACAT
* *
78684209 C-GAGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGAC
1 CAG-GTCTTATCTCCCTG-AGATTACAGTGGAACAGAC
78684245 TGAAAACAAT
Statistics
Matches: 186, Mismatches: 15, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
168 1 0.01
169 28 0.15
170 84 0.45
171 2 0.01
173 1 0.01
174 67 0.36
175 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (170 bp):
CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAACTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAAATCAAGGACACTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
GGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACAT
Found at i:78686068 original size:18 final size:18
Alignment explanation
Indices: 78686036--78686100 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
78686026 TTATAACTAT
*
78686036 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
78686055 TTATTATATATTTATATC
1 TTATTATATATTTATATC
78686073 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
78686093 TTTTTATA
1 TTATTATA
78686101 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:78686279 original size:30 final size:30
Alignment explanation
Indices: 78686207--78686279 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
78686197 TACATCTATT
* *
78686207 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
78686237 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
78686267 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
78686280 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:78687764 original size:14 final size:14
Alignment explanation
Indices: 78687745--78687772 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78687735 CAAATTTTGG
78687745 ATATTATAATTATT
1 ATATTATAATTATT
78687759 ATATTATAATTATT
1 ATATTATAATTATT
78687773 TAACTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTATAATTATT
Found at i:78692136 original size:44 final size:44
Alignment explanation
Indices: 78692073--78692611 Score: 335
Period size: 44 Copynumber: 11.6 Consensus size: 44
78692063 CATTGTGGCG
* *
78692073 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTAAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * * * * *
78692117 AATCTTATCTCCCTAAAGTTACAATGGAGTAGTTTAAAGATAGCG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTA-CA
* * *
78692162 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-T-----TA-AAGTTACA
* * *
78692213 AATCTTATTTCCCTAAAGTTGGAGTGGAACAGATTAAAGATTGAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG--T-----TACA
*** *
78692264 AATCTTATCTCCCTGGGGTTGCAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * * * * * * **
78692308 AATCTTATCTCCCTGAACTTACAGCGGAGTAAATTGAAGCGACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * * *
78692352 AATCCTATAC-CTCTGAAGTTGCAGTGGATCAGATTAAA-TCTACCATAA
1 AATCTTAT-CTCCCTAAAGTTGCAGTGGAGCAGATTAAAGT-TA-C---A
* * *
78692400 CAAGTCTTATTTCCCTAAAGTTGCAGTGGAATAGACTAAAGTTACAAGCTACA
1 -AA-TCTTATCTCCCTAAAGTTGCAGTGG---AG-C-AGA-TTA-AAGTTACA
* * * *
78692453 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * * *
78692497 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * * ** *
78692541 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCGATA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTACA
* * *
78692585 AATCTTATATCTCTAAAATTGCAGTGG
1 AATCTTATCTCCCTAAAGTTGCAGTGG
78692612 GTTAGAATGA
Statistics
Matches: 387, Mismatches: 76, Indels: 64
0.73 0.14 0.12
Matches are distributed among these distances:
44 210 0.54
45 33 0.09
46 4 0.01
47 1 0.00
48 3 0.01
49 3 0.01
50 21 0.05
51 92 0.24
52 7 0.02
53 2 0.01
54 1 0.00
55 2 0.01
56 4 0.01
57 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTACA
Found at i:78692239 original size:51 final size:51
Alignment explanation
Indices: 78692162--78692535 Score: 202
Period size: 51 Copynumber: 7.8 Consensus size: 51
78692152 AAAGATAGCG
* * *
78692162 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCTACA
* **
78692213 AATCTTATTTCCCTAAAGTTGGAGTGGAACAGATTAAAGATTGAAGCTACA
1 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCTACA
* *** * *
78692264 AATCTTATCTCCCTGGGGTTGCAGTGGAGCAGATT---G----AAGTTACA
1 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCTACA
* * * * * ** *
78692308 AATCTTATCTCCCTGAACTTACAGCGG---AG--T-AA-ATTGAAGCGACA
1 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCTACA
* * * * ** *
78692352 AATCCTA-TACCTCTGAAGTTGCAGTGGATCAGATTAAATCTACCA--TAACA
1 AATCTTATTTCC-CTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCT-ACA
* * * *
78692402 AGTCTTATTTCCCTAAAGTTGCAGTGGAATAGACTAAAGTTACAAGCTACA
1 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCTACA
* * * * *
78692453 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA-AT------TACA
1 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCTACA
* * * *
78692497 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAG
78692536 CTATAAATCT
Statistics
Matches: 253, Mismatches: 51, Indels: 44
0.73 0.15 0.13
Matches are distributed among these distances:
39 1 0.00
41 2 0.01
43 2 0.01
44 92 0.36
47 2 0.01
48 1 0.00
49 1 0.00
50 37 0.15
51 114 0.45
52 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (51 bp):
AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGATACAAGCTACA
Found at i:78692562 original size:189 final size:190
Alignment explanation
Indices: 78692076--78692568 Score: 598
Period size: 189 Copynumber: 2.6 Consensus size: 190
78692066 TGTGGCGAAT
* * * * *
78692076 CTTATCTCCCTAAAGTTGTAGTGGAGCAAATTAAAGTTACAAATCTTATCTCCCTAAAGTTACAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAG
* * * * *
78692141 TGGAGTAGTTTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACA
66 TGGAGTAGATTAAAGCTA-CAAATCTCATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACA
* * * * *
78692206 AGTTACAAATCTTATTTCCCTAAAGTTGGAGTGGAACAGATTAAAGATTGAAGCTACAAAT
130 AGTAACAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGACTAAAGATTCAAGCTACAAAC
** * *
78692267 CTTATCTCCCTGGGGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAACTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAG
* * * * * * *
78692332 CGGAGTAAATTGAAGCGACAAATC-CTATAC-CTCTGAAGTTGCAGTGGATCAGATTAAATCTAC
66 TGGAGTAGATTAAAGCTACAAATCTC-AT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * *
78692395 CA-TAACAAGTCTTATTTCCCTAAAGTTGCAGTGGAATAGACTAAAG-TTACAAGCTACAAAC
129 AAGTAACAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGACTAAAGATT-CAAGCTACAAAC
* * * *
78692456 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAG
* * *
78692521 TGGAGCAGATTAAAGCTATAAATCTCATCTCCCTAAAGTTGCAGTGGA
66 TGGAGTAGATTAAAGCTACAAATCTCATCTCCCTGAAGTTGCAGTGGA
78692569 GCAAATTGAA
Statistics
Matches: 252, Mismatches: 45, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
188 3 0.01
189 142 0.56
190 39 0.15
191 68 0.27
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (190 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAG
TGGAGTAGATTAAAGCTACAAATCTCATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAA
GTAACAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGACTAAAGATTCAAGCTACAAAC
Found at i:78697800 original size:4 final size:4
Alignment explanation
Indices: 78697785--78697891 Score: 67
Period size: 4 Copynumber: 25.5 Consensus size: 4
78697775 TATGAGTAGT
* *
78697785 TTTA TCTA TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTCT- TTTA CTTTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA -TTTA
** * *
78697833 TTTA AATA TTTAAA TTTGA TATTA TTTA TATT- TTTG TCTTA TCTA TTTA
1 TTTA TTTA TTT--A TTT-A T-TTA TTTA T-TTA TTTA T-TTA TTTA TTTA
78697882 TTTA TTTA TT
1 TTTA TTTA TT
78697892 CTTTTACTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
3 6 0.07
4 56 0.69
5 13 0.16
6 6 0.07
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:78697861 original size:60 final size:58
Alignment explanation
Indices: 78697794--78698066 Score: 282
Period size: 60 Copynumber: 4.4 Consensus size: 58
78697784 TTTTATCTAT
*
78697794 TTATTTATTTATTTATTTATTTATTATTCTTTTACTTTTTTTAAATATTTAAATTTGATATTA
1 TTATTTATTTATTTATTTATTTATTATTCTTTTAC--TTTTTAAATACTTAAATTT-A-A-TA
* *
78697857 TTTATATTTTTGTCTTATCTATTTATTTATTTATTCTTTTAC-TTTTAAATACTTAAATTTAATA
1 --T-TA--TTTAT-TTATTTATTTATTTA-TTATTCTTTTACTTTTTAAATACTTAAATTTAATA
* * *
78697921 TTACTTGTGTTATCTATTTATTTATTCATTCTTTTACTTTTTAAATACTTAAATTTAATA
1 TTATTTAT-TTATTTATTTATTTATT-ATTCTTTTACTTTTTAAATACTTAAATTTAATA
*
78697981 TTACTTGT-TTTATCTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATA
1 TTA-TT-TATTTATTTATTTATTTA-TTATTCTTTTACTTTTTAAATACTTAAATTTAATA
*
78698041 TTATTTGTTT-TGTCTATTTATTTATT
1 TTATTTATTTAT-T-TATTTATTTATT
78698067 TATTTATTTA
Statistics
Matches: 188, Mismatches: 7, Indels: 32
0.83 0.03 0.14
Matches are distributed among these distances:
58 4 0.02
59 36 0.19
60 86 0.46
61 6 0.03
62 2 0.01
64 2 0.01
65 2 0.01
66 3 0.02
67 17 0.09
68 4 0.02
69 14 0.07
70 12 0.06
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (58 bp):
TTATTTATTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATA
Found at i:78698090 original size:60 final size:60
Alignment explanation
Indices: 78697866--78698070 Score: 358
Period size: 60 Copynumber: 3.4 Consensus size: 60
78697856 ATTTATATTT
*
78697866 TTGTCTTATCTATTTATTTATTTATTCTTTTAC-TTTTAAATACTTAAATTTAATATTAC
1 TTGTTTTATCTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTAC
* *
78697925 TTGTGTTATCTATTTATTTATTCATTCTTTTACTTTTTAAATACTTAAATTTAATATTAC
1 TTGTTTTATCTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTAC
*
78697985 TTGTTTTATCTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTAT
1 TTGTTTTATCTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTAC
*
78698045 TTGTTTTGTCTATTTATTTATTTATT
1 TTGTTTTATCTATTTATTTATTTATT
78698071 TATTTATTAT
Statistics
Matches: 139, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
59 31 0.22
60 108 0.78
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (60 bp):
TTGTTTTATCTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTAC
Found at i:78700748 original size:52 final size:53
Alignment explanation
Indices: 78700629--78700761 Score: 162
Period size: 52 Copynumber: 2.5 Consensus size: 53
78700619 ATATCATACT
* ** *
78700629 GATGCCATATCCCAAATATGGTCTTATACGGAATCACATTATCACATCACACC
1 GATGCCATAACCCAGCTATGGTCTTATACGGAATCACAGTATCACATCACACC
* * **
78700682 GATGCCATAACCCAGCTATGGCCTTATACAGGAA-CAC-GTATCACGTTGCACC
1 GATGCCATAACCCAGCTATGGTCTTATAC-GGAATCACAGTATCACATCACACC
*
78700734 GATGCCATAGCCCAGCTATGGTCTTATA
1 GATGCCATAACCCAGCTATGGTCTTATA
78700762 TGGGCGCACA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 37 0.54
53 28 0.41
54 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (53 bp):
GATGCCATAACCCAGCTATGGTCTTATACGGAATCACAGTATCACATCACACC
Found at i:78708066 original size:53 final size:52
Alignment explanation
Indices: 78707941--78708125 Score: 177
Period size: 52 Copynumber: 3.7 Consensus size: 52
78707931 TCATACATCA
* * * * *
78707941 CACACCGAAGCCATAGCCCTGCCATGGTCTTATAC-GGATCAC--AT---AT
1 CACACCGATGCCATAACCCAGCTATGGTCTTATACTGGAACACGTATCACAT
* * ** *
78707987 CATACCGATGCCATATCCCAAATATGGTCTTATAC-GGAATCACATTATCACAT
1 CACACCGATGCCATAACCCAGCTATGGTCTTATACTGGAA-CAC-GTATCACAT
*
78708040 CACACCGATGTCATAACCCAGCTATGGTCTTATACTGGAACACGTATCACAT
1 CACACCGATGCCATAACCCAGCTATGGTCTTATACTGGAACACGTATCACAT
** *
78708092 TGCACCGATGCCATAGCCCAGCTATGGTCTTATA
1 CACACCGATGCCATAACCCAGCTATGGTCTTATA
78708126 TGGGCGCACA
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
46 31 0.27
47 3 0.03
50 2 0.02
52 38 0.34
53 35 0.31
54 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (52 bp):
CACACCGATGCCATAACCCAGCTATGGTCTTATACTGGAACACGTATCACAT
Found at i:78708112 original size:52 final size:53
Alignment explanation
Indices: 78707985--78708125 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 53
78707975 CGGATCACAT
* * ** *
78707985 ATCATACCGATGCCATATCCCAAATATGGTCTTATACGGAATCACATTATCAC
1 ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACAGTATCAC
*
78708038 ATCACACCGATGTCATAACCCAGCTATGGTCTTATACTGGAA-CAC-GTATCAC
1 ATCACACCGATGCCATAACCCAGCTATGGTCTTATAC-GGAATCACAGTATCAC
** *
78708090 ATTGCACCGATGCCATAGCCCAGCTATGGTCTTATA
1 ATCACACCGATGCCATAACCCAGCTATGGTCTTATA
78708126 TGGGCGCACA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
52 38 0.49
53 35 0.45
54 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACAGTATCAC
Found at i:78709700 original size:23 final size:24
Alignment explanation
Indices: 78709670--78709714 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
78709660 TACGCGGATT
78709670 CAACCCAAACACA-CCAGAATATC
1 CAACCCAAACACACCCAGAATATC
78709693 CAACCCAAACACACCCAGAATA
1 CAACCCAAACACACCCAGAATA
78709715 ATATAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.49, C:0.40, G:0.04, T:0.07
Consensus pattern (24 bp):
CAACCCAAACACACCCAGAATATC
Found at i:78709763 original size:29 final size:30
Alignment explanation
Indices: 78709696--78709763 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
78709686 GAATATCCAA
78709696 CCCAAACACACCCAGAATAATATAAATCCT
1 CCCAAACACACCCAGAATAATATAAATCCT
* *
78709726 -CCATAACACA-TCAGTATAATAT-AA-CCT
1 CCCA-AACACACCCAGAATAATATAAATCCT
78709753 CCCAAACACAC
1 CCCAAACACAC
78709764 TAATAAGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
27 9 0.27
28 5 0.15
29 13 0.39
30 6 0.18
ACGTcount: A:0.46, C:0.34, G:0.03, T:0.18
Consensus pattern (30 bp):
CCCAAACACACCCAGAATAATATAAATCCT
Found at i:78710223 original size:15 final size:15
Alignment explanation
Indices: 78710198--78710255 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
78710188 TCATATATAT
78710198 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
78710214 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
78710229 AATAATTTCAATCAA
1 TATAAATTCAATCAA
78710244 TATAAATTCAAT
1 TATAAATTCAAT
78710256 AAATTTATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:78711213 original size:31 final size:32
Alignment explanation
Indices: 78711155--78711218 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
78711145 CATACATTTG
*
78711155 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
78711187 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
78711218 T
1 T
78711219 TGTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:78711489 original size:18 final size:18
Alignment explanation
Indices: 78711466--78711501 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
78711456 TTCAATTTAT
78711466 TTAATAA-TAATAATATAA
1 TTAATAACTAAT-ATATAA
78711484 TTAATAACTAATATATAA
1 TTAATAACTAATATATAA
78711502 ACCGTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAATAACTAATATATAA
Found at i:78714119 original size:15 final size:15
Alignment explanation
Indices: 78714099--78714145 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
78714089 TTGTGGACTG
78714099 TTTAATTTTTTTGGT
1 TTTAATTTTTTTGGT
78714114 TTTAATTGTTTTTGG-
1 TTTAATT-TTTTTGGT
* *
78714129 GTT-ATGTTTTTGGT
1 TTTAATTTTTTTGGT
78714143 TTT
1 TTT
78714146 GGGCCCCGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 7 0.26
14 4 0.15
15 9 0.33
16 7 0.26
ACGTcount: A:0.11, C:0.00, G:0.19, T:0.70
Consensus pattern (15 bp):
TTTAATTTTTTTGGT
Found at i:78716095 original size:18 final size:18
Alignment explanation
Indices: 78716072--78716106 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
78716062 TAAGTAATAC
78716072 ATAAGTAATAAATAAGTA
1 ATAAGTAATAAATAAGTA
78716090 ATAAGTAATAAATAAGT
1 ATAAGTAATAAATAAGT
78716107 TTAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
ATAAGTAATAAATAAGTA
Found at i:78716106 original size:11 final size:11
Alignment explanation
Indices: 78716062--78716093 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
78716052 CTAACTTTGG
*
78716062 TAAGTAATACA
1 TAAGTAATAAA
78716073 TAAGTAATAAA
1 TAAGTAATAAA
78716084 TAAGTAATAA
1 TAAGTAATAA
78716094 GTAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (11 bp):
TAAGTAATAAA
Found at i:78717733 original size:20 final size:20
Alignment explanation
Indices: 78717696--78717733 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78717686 TGATGGGGAG
*
78717696 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
78717716 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
78717734 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:78719756 original size:46 final size:46
Alignment explanation
Indices: 78719628--78719944 Score: 446
Period size: 46 Copynumber: 7.0 Consensus size: 46
78719618 AGTGTGCTCT
*
78719628 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
78719673 ATAATATGAAATGTGTAA-ACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
78719718 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
78719764 CTGATATGAAATGTGTAAGACCAT-GTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
78719809 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
78719855 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
78719901 AC-GACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
78719945 TCATGTCAAA
Statistics
Matches: 248, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
44 21 0.08
45 82 0.33
46 145 0.58
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:78719816 original size:91 final size:92
Alignment explanation
Indices: 78719628--78719949 Score: 447
Period size: 91 Copynumber: 3.5 Consensus size: 92
78719618 AGTGTGCTCT
* *
78719628 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GCAACATAATATGAAATGTGTAA-
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
78719691 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * *
78719718 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
*
78719783 ACCAT-GTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAAC
* ***
78719809 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
78719874 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
78719901 AC-GACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
78719950 TCAAAGATAA
Statistics
Matches: 207, Mismatches: 20, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
90 38 0.18
91 105 0.51
92 63 0.30
93 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:78719878 original size:137 final size:138
Alignment explanation
Indices: 78719628--78719944 Score: 446
Period size: 137 Copynumber: 2.3 Consensus size: 138
78719618 AGTGTGCTCT
*
78719628 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GCAACATAATATGAAATGTGTAAA
1 CTGAAATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATAATATGAAATGTGTAAA
* ***
78719692 CCATGGTTGAAAGATACCATGGCAACCTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGATACCA
*
78719757 TGGCAGC-
131 TGGCAACA
* * * *
78719764 CTGATATGAAATGTGTAAGACCAT-GTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGAAATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATAATATGAAATGTGTAA-
*
78719828 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTGAAAGATACC
65 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGATACC
78719893 ATGGCAACA
130 ATGGCAACA
* * * *
78719902 C-GACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGAAATG-AAATGTGTAAGACCATAGTTGAAAGATACCATGGCA
78719945 TCATGTCAAA
Statistics
Matches: 162, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
135 15 0.09
136 44 0.27
137 85 0.52
138 18 0.11
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (138 bp):
CTGAAATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATAATATGAAATGTGTAAA
CCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGATACCA
TGGCAACA
Found at i:78722717 original size:29 final size:28
Alignment explanation
Indices: 78722685--78722740 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
78722675 TTAATTAATT
*
78722685 AGATAAATATTATTTTATTAATATTTATG
1 AGATAAATATTATTATATT-ATATTTATG
***
78722714 AGATGTTTATTATTATATTATATTTAT
1 AGATAAATATTATTATATTATATTTAT
78722741 TTAGTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
AGATAAATATTATTATATTATATTTATG
Found at i:78724967 original size:46 final size:46
Alignment explanation
Indices: 78724836--78725180 Score: 465
Period size: 46 Copynumber: 7.6 Consensus size: 46
78724826 TGCTCTCTGA
78724836 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
78724882 -TAGAAATGTGCT-AGACCA-GGTTGAAAGATACCATGGCAACATAAT
1 AT-GAAATGTG-TAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
78724927 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
78724973 ATGAAATGTGT-AGACCATGG-TGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
78725017 ATGAAATGTGTAAGACCAT-GTTGAAA-ATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* **
78725061 ATGAAATGTGTAA-AACATGGTTGAAAGATACCATGGCAATGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
78725106 ATGAAATGAACAAGACCATGGTTGAATGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
78725152 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
78725181 CACTTGGCAT
Statistics
Matches: 268, Mismatches: 20, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
43 4 0.01
44 73 0.27
45 89 0.33
46 101 0.38
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:78725212 original size:179 final size:180
Alignment explanation
Indices: 78724846--78725212 Score: 417
Period size: 179 Copynumber: 2.0 Consensus size: 180
78724836 ATGAAATGTG
* *
78724846 TAAGACCATGGTTGAAAGATACCATGGCAACATGATTAGAAATGTGCTAGACCAGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATTAGAAATGTGCTAAAACAGGTTGAAAGAT
*** * *
78724911 ACCATGGCAACATAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
66 ACCATGGCAACATAATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* * * ***
78724976 AAATGTGTAGACCATGGTGAAAGATACCATGGCAGCCTGATATGAAATGTG
131 AAATGAGTAGACCATGGTGAAAGACACCATGGCAGCATGATA-GAAATAAA
*
78725027 TAAGACCAT-GTTGAAA-ATACCATGGCAACCTGA-TATGAAATGTG-TAAAACATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATTA-GAAATGTGCTAAAACA-GGTTGAAAG
** * *
78725088 ATACCATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAATGATACCATGGCAACATGACA
64 ATACCATGGCAACATAATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA
* * *
78725153 -GAAAATGAGTAAGACCATAGTTGAAAGACA-CTTGGCATCATG-TCA-AAGATAAA
129 TG-AAATGAGT-AGACCAT-GGTGAAAGACACCATGGCAGCATGAT-AGAA-ATAAA
78725206 TAAGACC
1 TAAGACC
78725213 GTGGATGGGA
Statistics
Matches: 158, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
178 10 0.06
179 106 0.67
180 24 0.15
181 18 0.11
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (180 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATTAGAAATGTGCTAAAACAGGTTGAAAGAT
ACCATGGCAACATAATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
AAATGAGTAGACCATGGTGAAAGACACCATGGCAGCATGATAGAAATAAA
Found at i:78739731 original size:27 final size:27
Alignment explanation
Indices: 78739667--78739731 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
78739657 CCTTAATCGA
* * * *
78739667 TAAAATGACTATTTTGCCCTTATGTGT
1 TAAAATGACTGTTTTACCCTTATATGG
*
78739694 TAAAATAACTGTTTTACCCTTATATGG
1 TAAAATGACTGTTTTACCCTTATATGG
78739721 TAAAATGACTG
1 TAAAATGACTG
78739732 AAATGCCCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTACCCTTATATGG
Found at i:78740107 original size:18 final size:18
Alignment explanation
Indices: 78740084--78740118 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78740074 GGACTTGCAT
78740084 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
*
78740102 ACTGTTTGCTGTTACTG
1 ACTGTTTACTGTTACTG
78740119 TAATAGGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:78741624 original size:12 final size:12
Alignment explanation
Indices: 78741609--78741634 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78741599 ATCATCCTCT
78741609 TCATCAGATTCA
1 TCATCAGATTCA
78741621 TCATCAGATTCA
1 TCATCAGATTCA
78741633 TC
1 TC
78741635 CCTTAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:78743317 original size:9 final size:9
Alignment explanation
Indices: 78743304--78743389 Score: 91
Period size: 9 Copynumber: 9.6 Consensus size: 9
78743294 TTTATGTCAG
78743304 TTATGTAAA
1 TTATGTAAA
* *
78743313 ATATGTAAG
1 TTATGTAAA
*
78743322 TTATGAAAA
1 TTATGTAAA
* *
78743331 TGATGTAAG
1 TTATGTAAA
78743340 TTATGTAAA
1 TTATGTAAA
*
78743349 TTCTGTAAA
1 TTATGTAAA
*
78743358 TTATGTAAG
1 TTATGTAAA
*
78743367 TTGTGTAAA
1 TTATGTAAA
*
78743376 TTATGTAAG
1 TTATGTAAA
78743385 TTATG
1 TTATG
78743390 ACATTTATGA
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (9 bp):
TTATGTAAA
Found at i:78743382 original size:27 final size:27
Alignment explanation
Indices: 78743296--78743530 Score: 111
Period size: 27 Copynumber: 8.6 Consensus size: 27
78743286 GATATTTATT
* * *
78743296 TATGTCAGTTATGTAAAATATGTAAGT
1 TATGTAAGTTATGTAAATTATGTAAAT
* * * *
78743323 TATGAAAATGATGTAAGTTATGTAAAT
1 TATGTAAGTTATGTAAATTATGTAAAT
* * * *
78743350 TCTGTAAATTATGTAAGTTGTGTAAAT
1 TATGTAAGTTATGTAAATTATGTAAAT
* *
78743377 TATGTAAGTTATG-ACATTTATG-ATAT
1 TATGTAAGTTATGTA-AATTATGTAAAT
* * * *
78743403 GATATATATTTATGT--ATTATGTAAGT
1 TATGTA-AGTTATGTAAATTATGTAAAT
* * * *
78743429 TATGTAAGTTATG-ATATGATATATATT
1 TATGTAAGTTATGTAAATTATGTA-AAT
* * **
78743456 TATATAAGTTATGTAAGTTATGTATGT
1 TATGTAAGTTATGTAAATTATGTAAAT
* * *
78743483 TATGTGAGGTATGTAAGTTATGATATGATAT
1 TATGTAAGTTATGTAAATTATG-TA--A-AT
78743514 ATATGTAAGTTATGTAA
1 -TATGTAAGTTATGTAA
78743531 TTTTAAAGAA
Statistics
Matches: 153, Mismatches: 42, Indels: 21
0.71 0.19 0.10
Matches are distributed among these distances:
25 11 0.07
26 20 0.13
27 99 0.65
28 8 0.05
31 1 0.01
32 14 0.09
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.44
Consensus pattern (27 bp):
TATGTAAGTTATGTAAATTATGTAAAT
Found at i:78743429 original size:43 final size:44
Alignment explanation
Indices: 78743374--78743486 Score: 167
Period size: 43 Copynumber: 2.6 Consensus size: 44
78743364 AAGTTGTGTA
* *
78743374 AATTATGTAAGTTATG-ACATTTATGATATGATATATATTTATGT
1 AATTATGTAAGTTATGTA-AGTTATGATATGATATATATTTATAT
78743418 -ATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATAT
1 AATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATAT
*
78743461 AAGTTATGTAAGTTATGTATGTTATG
1 AA-TTATGTAAGTTATGTAAGTTATG
78743487 TGAGGTATGT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
43 39 0.62
44 2 0.03
45 22 0.35
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (44 bp):
AATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATAT
Found at i:78743433 original size:9 final size:9
Alignment explanation
Indices: 78743419--78743504 Score: 84
Period size: 9 Copynumber: 9.6 Consensus size: 9
78743409 TATTTATGTA
78743419 TTATGTAAG
1 TTATGTAAG
78743428 TTATGTAAG
1 TTATGTAAG
*
78743437 TTATGATATG
1 TTATG-TAAG
* * *
78743447 ATATAT-AT
1 TTATGTAAG
*
78743455 TTATATAAG
1 TTATGTAAG
78743464 TTATGTAAG
1 TTATGTAAG
*
78743473 TTATGTATG
1 TTATGTAAG
*
78743482 TTATGTGAG
1 TTATGTAAG
*
78743491 GTATGTAAG
1 TTATGTAAG
78743500 TTATG
1 TTATG
78743505 ATATGATATA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
8 5 0.08
9 50 0.82
10 6 0.10
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:78743476 original size:18 final size:18
Alignment explanation
Indices: 78743295--78743504 Score: 142
Period size: 18 Copynumber: 11.8 Consensus size: 18
78743285 TGATATTTAT
* *
78743295 TTATGTCAGTTATGTAAA
1 TTATGTAAGTTATGTAAG
* * *
78743313 ATATGTAAGTTATGAAAA
1 TTATGTAAGTTATGTAAG
* *
78743331 TGATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAG
* *
78743349 TTCTGTAAATTATGTAAG
1 TTATGTAAGTTATGTAAG
* *
78743367 TTGTGTAAATTATGTAAG
1 TTATGTAAGTTATGTAAG
* *
78743385 TTATG-ACATTTATGATATG
1 TTATGTA-AGTTATG-TAAG
* * *
78743404 ATATAT-ATTTATGT-A-
1 TTATGTAAGTTATGTAAG
78743419 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
* * * *
78743437 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATGTAAG
*
78743455 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
* *
78743473 TTATGTATGTTATGTGAG
1 TTATGTAAGTTATGTAAG
*
78743491 GTATGTAAGTTATG
1 TTATGTAAGTTATG
78743505 ATATGATATA
Statistics
Matches: 150, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
15 4 0.03
16 7 0.05
17 10 0.07
18 116 0.77
19 13 0.09
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAG
Found at i:78744072 original size:39 final size:40
Alignment explanation
Indices: 78744014--78744098 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 40
78744004 TCAAATACAT
78744014 TTAAAACAAATATTAAAACAAAAAACAAA-TAAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
* * * * * *
78744053 TTAAAACAATTTTTTAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
*
78744093 ATAAAA
1 TTAAAA
78744099 ATTAATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 24 0.63
40 14 0.37
ACGTcount: A:0.65, C:0.08, G:0.01, T:0.26
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
Found at i:78744140 original size:23 final size:21
Alignment explanation
Indices: 78744114--78744156 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
78744104 TTATATTAAA
78744114 ATTAAAAATAAAATATAAATATG
1 ATTAAAAATAAAA-A-AAATATG
78744137 ATTAAAAATAAAAAAAATAT
1 ATTAAAAATAAAAAAAATAT
78744157 ATATTTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
ATTAAAAATAAAAAAAATATG
Found at i:78744143 original size:29 final size:27
Alignment explanation
Indices: 78744085--78744159 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
78744075 ACACAAATTG
* *
78744085 AAAATATAATAAAAAT-TAATTATATTA
1 AAAATA-AAAAAAAATATAAATATATTA
*
78744112 AAATTAAAAATAAAATATAAATATGATTA
1 AAAATAAAAA-AAAATATAAATAT-ATTA
78744141 AAAATAAAAAAAATATATA
1 AAAATAAAAAAAA-ATATA
78744160 TTTAGTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 3 0.08
27 10 0.25
28 9 0.22
29 18 0.45
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAATAAAAAAAAATATAAATATATTA
Found at i:78746269 original size:108 final size:108
Alignment explanation
Indices: 78746130--78746345 Score: 342
Period size: 108 Copynumber: 2.0 Consensus size: 108
78746120 AATCGCCGCT
* *
78746130 AATGCCCTACCAAAAACGACGATGTCTCAATTAAAGTAAAATACTTTTTGTGGCGTTTTTTCAAA
1 AATGCCCTACCAAAAACGACGACGTCTCAATTAAAGTAAAATACTTTTTGCGGCGTTTTTTCAAA
* *
78746195 AGTGCCACTAATGGTCGGTCCATTGCGGCATTTTCAACAAAGC
66 AGCGCCACTAATGGTCGATCCATTGCGGCATTTTCAACAAAGC
* * *
78746238 AATGCCCTACCAAAAATGGCGACGTTTCAATTAAAGTAAAATACTTTTTGCGGCGTTTTTTCAAA
1 AATGCCCTACCAAAAACGACGACGTCTCAATTAAAGTAAAATACTTTTTGCGGCGTTTTTTCAAA
* * *
78746303 AGCGCCACTAATGGTCGATCGATTGCGGCGTTTTCTACAAAGC
66 AGCGCCACTAATGGTCGATCCATTGCGGCATTTTCAACAAAGC
78746346 GCCACTAATG
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (108 bp):
AATGCCCTACCAAAAACGACGACGTCTCAATTAAAGTAAAATACTTTTTGCGGCGTTTTTTCAAA
AGCGCCACTAATGGTCGATCCATTGCGGCATTTTCAACAAAGC
Found at i:78746979 original size:30 final size:30
Alignment explanation
Indices: 78746945--78747002 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
78746935 TAAAGCCTAA
* * *
78746945 ACCCTAGATCCTAAACTCTAAATTATATGT
1 ACCCTAAATCCTAAACCCTAAAATATATGT
*
78746975 ACCCTAAATCTTAAACCCTAAAATATAT
1 ACCCTAAATCCTAAACCCTAAAATATAT
78747003 ATCTTAGCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (30 bp):
ACCCTAAATCCTAAACCCTAAAATATATGT
Found at i:78747288 original size:14 final size:14
Alignment explanation
Indices: 78747270--78747317 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
78747260 ATTCTAAATA
78747270 TTAAACCATAAACCC
1 TTAAACCATAAA-CC
* * *
78747285 TAAAATCATAGACC
1 TTAAACCATAAACC
*
78747299 TTAAACCTTAAACC
1 TTAAACCATAAACC
78747313 TTAAA
1 TTAAA
78747318 TCTTAAATTC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (14 bp):
TTAAACCATAAACC
Found at i:78747306 original size:7 final size:7
Alignment explanation
Indices: 78747296--78747338 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
78747286 AAAATCATAG
78747296 ACCTTAA
1 ACCTTAA
78747303 ACCTTAA
1 ACCTTAA
78747310 ACCTTAA
1 ACCTTAA
*
78747317 ATCTTAA
1 ACCTTAA
*
78747324 A-TTCTAA
1 ACCT-TAA
78747331 ACCTTAA
1 ACCTTAA
78747338 A
1 A
78747339 ATACAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.94
8 1 0.03
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (7 bp):
ACCTTAA
Found at i:78747324 original size:21 final size:21
Alignment explanation
Indices: 78747221--78747338 Score: 58
Period size: 21 Copynumber: 5.5 Consensus size: 21
78747211 TCACAAACCA
* * *
78747221 TAAACCATAGATCTTAAAACAC
1 TAAACCTTAAATCTT-AAACTC
* * *
78747243 TAAACCCTAAATCTAAAATTC
1 TAAACCTTAAATCTTAAACTC
** * * *
78747264 TAAATATTAAACCATAAACCC
1 TAAACCTTAAATCTTAAACTC
* * * *
78747285 TAAAATCATAGACCTTAAAC-C
1 T-AAACCTTAAATCTTAAACTC
*
78747306 TTAAACCTTAAATCTTAAATTC
1 -TAAACCTTAAATCTTAAACTC
78747328 TAAACCTTAAA
1 TAAACCTTAAA
78747339 ATACAATTAT
Statistics
Matches: 71, Mismatches: 22, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
21 43 0.61
22 28 0.39
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAACCTTAAATCTTAAACTC
Found at i:78747477 original size:39 final size:39
Alignment explanation
Indices: 78747434--78747561 Score: 116
Period size: 41 Copynumber: 3.2 Consensus size: 39
78747424 TATAGCTTTA
78747434 AACTTTTACGGTGTTTTCCTATTAGTGCCACTAATGTAT
1 AACTTTTACGGTGTTTTCCTATTAGTGCCACTAATGTAT
* * * ** * *
78747473 AACTTTTGCGGCTTTTTTTACC-ATAAACGCCGCT-ATAGCTTT
1 AACTTTTACGG--TGTTTT-CCTATTAGTGCCACTAAT-G-TAT
*
78747515 AAACTTTTACGGTGTTTTCCTATTAGTGCCACTAATGTAC
1 -AACTTTTACGGTGTTTTCCTATTAGTGCCACTAATGTAT
78747555 AACTTTT
1 AACTTTT
78747562 GTGGCTTTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
39 17 0.26
40 5 0.08
41 28 0.42
42 6 0.09
43 10 0.15
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (39 bp):
AACTTTTACGGTGTTTTCCTATTAGTGCCACTAATGTAT
Found at i:78747492 original size:82 final size:82
Alignment explanation
Indices: 78747405--78747573 Score: 311
Period size: 82 Copynumber: 2.1 Consensus size: 82
78747395 TTTTGCAGCA
*
78747405 TTTTTACCATAAACGCTGCTATAGCTTTAAACTTTTACGGTGTTTTCCTATTAGTGCCACTAATG
1 TTTTTACCATAAACGCCGCTATAGCTTTAAACTTTTACGGTGTTTTCCTATTAGTGCCACTAATG
*
78747470 TATAACTTTTGCGGCTT
66 TACAACTTTTGCGGCTT
78747487 TTTTTACCATAAACGCCGCTATAGCTTTAAACTTTTACGGTGTTTTCCTATTAGTGCCACTAATG
1 TTTTTACCATAAACGCCGCTATAGCTTTAAACTTTTACGGTGTTTTCCTATTAGTGCCACTAATG
*
78747552 TACAACTTTTGTGGCTT
66 TACAACTTTTGCGGCTT
78747569 TTTTT
1 TTTTT
78747574 TCCTAAGCGC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (82 bp):
TTTTTACCATAAACGCCGCTATAGCTTTAAACTTTTACGGTGTTTTCCTATTAGTGCCACTAATG
TACAACTTTTGCGGCTT
Found at i:78752041 original size:20 final size:21
Alignment explanation
Indices: 78751990--78752055 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
78751980 TTGTATTAGT
** *
78751990 TTACTAAATTAAATTATAAATA
1 TTACTAAATTCTA-TATAAAAA
78752012 TTACTAAATT-TATCATAAAAA
1 TTACTAAATTCTAT-ATAAAAA
*
78752033 TTA-TAAATTCTATAAAAAAA
1 TTACTAAATTCTATATAAAAA
78752053 TTA
1 TTA
78752056 AATTTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 16 0.41
21 13 0.33
22 10 0.26
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (21 bp):
TTACTAAATTCTATATAAAAA
Found at i:78755703 original size:20 final size:21
Alignment explanation
Indices: 78755674--78755719 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
78755664 TAATTGAAGT
*
78755674 AAATGTGATATTGAG-TTATG
1 AAATGCGATATTGAGATTATG
78755694 AAATGCGATATTGAGATTATG
1 AAATGCGATATTGAGATTATG
78755715 AAATG
1 AAATG
78755720 TGATTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (21 bp):
AAATGCGATATTGAGATTATG
Found at i:78755921 original size:74 final size:75
Alignment explanation
Indices: 78755763--78755929 Score: 176
Period size: 74 Copynumber: 2.2 Consensus size: 75
78755753 TTGTCGATTC
* * * * * * *
78755763 ATCCGACTAGAGCTGGGCTCACTATTTATTTCGTCGGTTTATCCGACTAGCGCTGGGGGCAAATA
1 ATCCGACTAGAGCTGGGCTCACTAATTATTTCATCGATATATCCAACTAGCGCTGAGCGCAAATA
*
78755828 TCGATGGTTT
66 TCGATAGTTT
* * * * *
78755838 ATCCAACTAGAGTTGGGCTCACTAATTA-TTCATCGATATATCCAACTAGCGTTGAGCGCAACTT
1 ATCCGACTAGAGCTGGGCTCACTAATTATTTCATCGATATATCCAACTAGCGCTGAGCGCAAATA
78755902 TC-ATCAGTTT
66 TCGAT-AGTTT
* *
78755912 ATCTGACTAGTGCTGGGC
1 ATCCGACTAGAGCTGGGC
78755930 AAACATTTGT
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
73 2 0.03
74 47 0.64
75 25 0.34
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (75 bp):
ATCCGACTAGAGCTGGGCTCACTAATTATTTCATCGATATATCCAACTAGCGCTGAGCGCAAATA
TCGATAGTTT
Found at i:78768890 original size:22 final size:21
Alignment explanation
Indices: 78768841--78768895 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
78768831 GATGAAAAAA
*
78768841 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
*
78768862 AATATGTGTATAATATAGTATTT
1 AA-ATGTATATAATATAGTA-TT
78768885 AAATGTATATA
1 AAATGTATATA
78768896 CATAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:78769806 original size:11 final size:11
Alignment explanation
Indices: 78769792--78769816 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78769782 TTTTCTCTTC
78769792 TTTTTTATTTA
1 TTTTTTATTTA
78769803 TTTTTTATTTA
1 TTTTTTATTTA
78769814 TTT
1 TTT
78769817 AATATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:78771099 original size:35 final size:34
Alignment explanation
Indices: 78771060--78771183 Score: 85
Period size: 35 Copynumber: 3.5 Consensus size: 34
78771050 GAATTGGTTC
78771060 AATTTAATTCCTTTAATTTGAAGTTTTAAAATTGT
1 AATTTAATT-CTTTAATTTGAAGTTTTAAAATTGT
** ** *
78771095 AATTTTGGTAT-TTTAATTTGGTCGATTTT--AATTCT
1 AA-TTTAAT-TCTTTAATTT-GAAG-TTTTAAAATTGT
*
78771130 TATTTAATTCTTGTAATTTGAAGTTTTAAAATTGT
1 AATTTAATTCTT-TAATTTGAAGTTTTAAAATTGT
*
78771165 AGTCTTAATAT-TTTAATTT
1 AAT-TTAAT-TCTTTAATTT
78771184 AGTCAATTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
33 5 0.08
34 8 0.12
35 34 0.52
36 13 0.20
37 6 0.09
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (34 bp):
AATTTAATTCTTTAATTTGAAGTTTTAAAATTGT
Found at i:78771147 original size:70 final size:70
Alignment explanation
Indices: 78771061--78771194 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 70
78771051 AATTGGTTCA
* ** * *
78771061 ATTTAATTCCTTTAATTTGAAGTTTTAAAATTGTAATTTTGGTATTTTAATTTGGTCGATTTTAA
1 ATTTAATTCCTTTAATTTGAAGTTTTAAAATTGTAATCTTAATATTTTAATTTAGTCAATTTTAA
78771126 TTCTT
66 TTCTT
*
78771131 ATTTAATT-CTTGTAATTTGAAGTTTTAAAATTGTAGTCTTAATATTTTAATTTAGTCAATTTTA
1 ATTTAATTCCTT-TAATTTGAAGTTTTAAAATTGTAATCTTAATATTTTAATTTAGTCAATTTTA
78771195 GTTTCTATAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 3 0.05
70 54 0.95
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.54
Consensus pattern (70 bp):
ATTTAATTCCTTTAATTTGAAGTTTTAAAATTGTAATCTTAATATTTTAATTTAGTCAATTTTAA
TTCTT
Found at i:78772389 original size:6 final size:6
Alignment explanation
Indices: 78772378--78772405 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
78772368 ATAATTTAGT
78772378 TGGGGG TGGGGG TGGGGG TGGGGG TGGG
1 TGGGGG TGGGGG TGGGGG TGGGGG TGGG
78772406 TTGGAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.82, T:0.18
Consensus pattern (6 bp):
TGGGGG
Found at i:78777021 original size:20 final size:20
Alignment explanation
Indices: 78776998--78777047 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
78776988 AAATCTAAAT
* *
78776998 TAAAATATTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
78777018 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
78777038 TAAGAATACT
1 TAA-AATACT
78777048 GATATGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:78777425 original size:9 final size:9
Alignment explanation
Indices: 78777411--78777493 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
78777401 CACCCTTCTG
78777411 ATTTTTTTT
1 ATTTTTTTT
*
78777420 ATTTTTTTA
1 ATTTTTTTT
*
78777429 AATTTTTTT
1 ATTTTTTTT
* * *
78777438 -CTTATTTA
1 ATTTTTTTT
* **
78777446 AATTTTTAA
1 ATTTTTTTT
78777455 ATTTTTTCTT
1 ATTTTTT-TT
78777465 ATTTTATTTT
1 ATTTT-TTTT
*
78777475 ATTTATTTT
1 ATTTTTTTT
78777484 ATTTATTTTT
1 ATTT-TTTTT
78777494 TGAAATTAAT
Statistics
Matches: 56, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
8 5 0.09
9 34 0.61
10 15 0.27
11 2 0.04
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:78777426 original size:8 final size:8
Alignment explanation
Indices: 78777413--78777494 Score: 56
Period size: 8 Copynumber: 9.8 Consensus size: 8
78777403 CCCTTCTGAT
78777413 TTTTTTTA
1 TTTTTTTA
78777421 TTTTTTTAAA
1 TTTTTTT--A
*
78777431 TTTTTTTC
1 TTTTTTTA
* *
78777439 TTATTTAA
1 TTTTTTTA
* *
78777447 ATTTTTAA
1 TTTTTTTA
* *
78777455 ATTTTTTC
1 TTTTTTTA
*
78777463 TTATTTTA
1 TTTTTTTA
78777471 TTTTATTTA
1 TTTT-TTTA
78777480 TTTTATTTA
1 TTTT-TTTA
78777489 TTTTTT
1 TTTTTT
78777495 GAAATTAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
8 34 0.58
9 17 0.29
10 8 0.14
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTTA
Found at i:78777436 original size:17 final size:17
Alignment explanation
Indices: 78777414--78777500 Score: 56
Period size: 17 Copynumber: 5.1 Consensus size: 17
78777404 CCTTCTGATT
78777414 TTTTTTATTTTTTTAAA
1 TTTTTTATTTTTTTAAA
*
78777431 TTTTTT-TCTTATTTAAA
1 TTTTTTAT-TTTTTTAAA
* * *
78777448 TTTTTAAATTTTTT--C
1 TTTTTTATTTTTTTAAA
*
78777463 TTATTTTATTTTATTT-AT
1 TT-TTTTATTTT-TTTAAA
*
78777481 TTTATTTATTTTTTGAAA
1 TTT-TTTATTTTTTTAAA
78777499 TT
1 TT
78777501 AATTTTAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
15 2 0.04
16 8 0.15
17 30 0.57
18 13 0.25
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTTTATTTTTTTAAA
Found at i:78777445 original size:25 final size:25
Alignment explanation
Indices: 78777416--78777479 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 25
78777406 TTCTGATTTT
78777416 TTTTATTTTTTTAAATTTTTTTCTTA
1 TTTTATTTTTTTAAA-TTTTTTCTTA
**
78777442 -TTTAAATTTTTAAATTTTTTCTTA
1 TTTTATTTTTTTAAATTTTTTCTTA
78777466 TTTTATTTTATTTA
1 TTTTATTTT-TTTA
78777480 TTTTATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 10 0.31
25 18 0.56
26 4 0.12
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTTTAAATTTTTTCTTA
Found at i:78777474 original size:14 final size:14
Alignment explanation
Indices: 78777463--78777491 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78777453 AAATTTTTTC
78777463 TTATTTTATTTTAT
1 TTATTTTATTTTAT
78777477 TTATTTTA-TTTAT
1 TTATTTTATTTTAT
78777490 TT
1 TT
78777492 TTTGAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:78777483 original size:24 final size:23
Alignment explanation
Indices: 78777423--78777474 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
78777413 TTTTTTTATT
*
78777423 TTTTTAAATTTTTTTCTTATTTAAA
1 TTTTTAAA-TTTTTTCTTATTT-TA
78777448 TTTTTAAATTTTTTCTTATTTTA
1 TTTTTAAATTTTTTCTTATTTTA
78777471 TTTT
1 TTTT
78777475 ATTTATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 13 0.50
25 8 0.31
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTAAATTTTTTCTTATTTTA
Found at i:78777570 original size:22 final size:22
Alignment explanation
Indices: 78777490--78777590 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 22
78777480 TTTTATTTAT
* *
78777490 TTTTTGAAATTAATTTTAAAAA
1 TTTTTAAAATTATTTTTAAAAA
* * *
78777512 -ATTTAAAATGTATATTT-GAAA
1 TTTTTAAAAT-TATTTTTAAAAA
*
78777533 TGTTTTATAATATATTTTTAAAAA
1 T-TTTTAAAAT-TATTTTTAAAAA
* *
78777557 TTTTAAAAATTATTTTTAAATTA
1 TTTTTAAAATTATTTTTAAA-AA
78777580 TTTTTAAAATT
1 TTTTTAAAATT
78777591 TTGAATATTA
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
21 10 0.17
22 15 0.25
23 31 0.52
24 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
TTTTTAAAATTATTTTTAAAAA
Found at i:78777584 original size:12 final size:11
Alignment explanation
Indices: 78777535--78777605 Score: 58
Period size: 11 Copynumber: 6.4 Consensus size: 11
78777525 ATTTGAAATG
78777535 TTTTATAATATAT
1 TTTTA-AAT-TAT
*
78777548 TTTTAAA-AAT
1 TTTTAAATTAT
*
78777558 TTTAAAAATTAT
1 TTT-TAAATTAT
78777570 TTTTAAATTAT
1 TTTTAAATTAT
78777581 TTTTAAA--AT
1 TTTTAAATTAT
*
78777590 TTTGAATATTAT
1 TTTTAA-ATTAT
78777602 TTTT
1 TTTT
78777606 TAAAATATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
9 7 0.15
10 6 0.13
11 17 0.36
12 12 0.26
13 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (11 bp):
TTTTAAATTAT
Found at i:78777584 original size:33 final size:33
Alignment explanation
Indices: 78777535--78777614 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
78777525 ATTTGAAATG
78777535 TTTTATAATATATTTTTAAAAATTTTAAAAATTA-T
1 TTTTA-AAT-TATTTTT-AAAATTTTAAAAATTATT
* *
78777570 TTTTAAATTATTTTTAAAATTTTGAATATTATT
1 TTTTAAATTATTTTTAAAATTTTAAAAATTATT
*
78777603 TTTTAAAATATT
1 TTTTAAATTATT
78777615 AAATATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 14 0.34
33 19 0.46
34 3 0.07
35 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (33 bp):
TTTTAAATTATTTTTAAAATTTTAAAAATTATT
Found at i:78777635 original size:23 final size:22
Alignment explanation
Indices: 78777576--78777644 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
78777566 TTATTTTTAA
* *
78777576 ATTA-TTTTTAAAATTTTGAAT
1 ATTATTTTTTAAAATATTAAAT
78777597 ATTATTTTTTAAAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
*
78777619 A-TATTTTTTTAATAATATAAAAT
1 ATTA-TTTTTTAA-AATATTAAAT
78777642 ATT
1 ATT
78777645 TAAATATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.15
22 24 0.59
23 10 0.24
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:78777712 original size:19 final size:20
Alignment explanation
Indices: 78777688--78777725 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
78777678 TTATTAGTTT
78777688 TTTAATATTTTA-AATATTA
1 TTTAATATTTTATAATATTA
*
78777707 TTTAATTTTTTATAATATT
1 TTTAATATTTTATAATATT
78777726 TTAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATATTTTATAATATTA
Found at i:78777733 original size:27 final size:26
Alignment explanation
Indices: 78777676--78777758 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 26
78777666 CTTTCAAATT
* *
78777676 TATTATTAGTTTTTTAATATTTTAAA
1 TATTATAATTTTTTTAATATTTTAAA
78777702 TATTATTTAATTTTTTATAATATTTT-AA
1 TATTA--TAATTTTTT-TAATATTTTAAA
*
78777730 -ATTATAA-TTTTTAAATTATTTTTAAA
1 TATTATAATTTTTTTAA-TA-TTTTAAA
78777756 TAT
1 TAT
78777759 ATTCGGCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
23 2 0.04
24 7 0.15
25 7 0.15
26 7 0.15
27 6 0.13
28 9 0.19
29 9 0.19
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (26 bp):
TATTATAATTTTTTTAATATTTTAAA
Found at i:78777743 original size:14 final size:15
Alignment explanation
Indices: 78777716--78777748 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
78777706 ATTTAATTTT
78777716 TTATAATATTTTAAA
1 TTATAATATTTTAAA
78777731 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
78777745 TTAT
1 TTAT
78777749 TTTTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:78777761 original size:12 final size:12
Alignment explanation
Indices: 78777724--78777761 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
78777714 TTTTATAATA
78777724 TTTTAAATTATAAT
1 TTTTAAA-TAT-AT
78777738 TTTTAAAT-TAT
1 TTTTAAATATAT
78777749 TTTTAAATATAT
1 TTTTAAATATAT
78777761 T
1 T
78777762 CGGCTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.43
12 5 0.22
13 1 0.04
14 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAAATATAT
Found at i:78778014 original size:20 final size:19
Alignment explanation
Indices: 78777972--78778014 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
78777962 CTATTTAAAG
* *
78777972 TTAAAAAATAATATTTTAT
1 TTAAAAAATAAAATTTTAA
78777991 TTAAAAAATAAAATTTTGAA
1 TTAAAAAATAAAATTTT-AA
78778011 TTAA
1 TTAA
78778015 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TTAAAAAATAAAATTTTAA
Found at i:78778044 original size:15 final size:16
Alignment explanation
Indices: 78778024--78778059 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
78778014 ATTAAAAAAT
78778024 AAAAAA-TATTTGTTA
1 AAAAAATTATTTGTTA
78778039 AAAAAATTATTTGTTA
1 AAAAAATTATTTGTTA
78778055 AAAAA
1 AAAAA
78778060 TGAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
AAAAAATTATTTGTTA
Found at i:78778060 original size:15 final size:15
Alignment explanation
Indices: 78778023--78778060 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
78778013 AATTAAAAAA
78778023 TAAAAAA-TATTTGT
1 TAAAAAATTATTTGT
78778037 TAAAAAAATTATTTGT
1 T-AAAAAATTATTTGT
78778053 TAAAAAAT
1 TAAAAAAT
78778061 GAAATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
TAAAAAATTATTTGT
Found at i:78778628 original size:12 final size:14
Alignment explanation
Indices: 78778609--78778645 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
78778599 TATATATTTA
78778609 ATATTTAAAAA-AT
1 ATATTTAAAAATAT
78778622 A-ATTTAAAAATAT
1 ATATTTAAAAATAT
78778635 ATATTATAAAA
1 ATATT-TAAAA
78778646 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
13 4 0.19
14 3 0.14
15 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATTTAAAAATAT
Found at i:78778711 original size:12 final size:13
Alignment explanation
Indices: 78778688--78778720 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
78778678 TTAATAACAA
78778688 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
78778702 -AAATAAATAAAT
1 AAAATAAATAAAT
78778714 AAAATAA
1 AAAATAA
78778721 GAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:78793955 original size:13 final size:13
Alignment explanation
Indices: 78793915--78793961 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
78793905 TTCTAATTTC
78793915 CTTTTTTTTCT-T
1 CTTTTTTTTCTCT
78793927 CTTTTTTTTCATTCT
1 CTTTTTTTTC--TCT
*
78793942 CTTTTATTTCTCT
1 CTTTTTTTTCTCT
78793955 CTATTTT
1 CT-TTTT
78793962 CCTCCCTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 10 0.34
13 5 0.17
14 4 0.14
15 10 0.34
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTTTTTCTCT
Found at i:78797426 original size:3 final size:3
Alignment explanation
Indices: 78797418--78797442 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
78797408 TTTGCTTTGC
78797418 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
78797443 TCTCTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:78800337 original size:14 final size:14
Alignment explanation
Indices: 78800318--78800348 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78800308 TACAACCACC
*
78800318 TTAACTACTAATTG
1 TTAACTACTAACTG
78800332 TTAACTACTAACTG
1 TTAACTACTAACTG
78800346 TTA
1 TTA
78800349 TAACGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (14 bp):
TTAACTACTAACTG
Found at i:78819079 original size:13 final size:13
Alignment explanation
Indices: 78819063--78819087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78819053 ACCCAATCCA
78819063 ACCCAACCCAATT
1 ACCCAACCCAATT
78819076 ACCCAACCCAAT
1 ACCCAACCCAAT
78819088 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:78819153 original size:20 final size:20
Alignment explanation
Indices: 78819115--78819154 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
78819105 CTTTAATAAA
**
78819115 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
78819135 TAAAAGTAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
78819155 ATATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:78819210 original size:27 final size:27
Alignment explanation
Indices: 78819172--78819231 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
78819162 TTTATACAAA
* * *
78819172 TAATTCGGTTAATTTGGGTAATTCGGG
1 TAATTTGGTTAATTCGAGTAATTCGGG
* *
78819199 TAATTTGGTTAATTCGATTAATTCGGT
1 TAATTTGGTTAATTCGAGTAATTCGGG
78819226 TAATTT
1 TAATTT
78819232 TATACTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.47
Consensus pattern (27 bp):
TAATTTGGTTAATTCGAGTAATTCGGG
Found at i:78819226 original size:18 final size:18
Alignment explanation
Indices: 78819172--78819230 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
78819162 TTTATACAAA
*
78819172 TAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTTGGT
*
78819190 TAATTCGGGTAATTTGGT
1 TAATTCGGTTAATTTGGT
* *
78819208 TAATTCGATTAATTCGGT
1 TAATTCGGTTAATTTGGT
78819226 TAATT
1 TAATT
78819231 TTATACTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGT
Found at i:78821298 original size:3 final size:3
Alignment explanation
Indices: 78821292--78821322 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
78821282 TTTTACAATC
*
78821292 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
78821323 ATCTGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:78821546 original size:30 final size:31
Alignment explanation
Indices: 78821481--78821548 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
78821471 ACTATTAATC
* * *
78821481 AGTGACTATTTTGTCGGTTTTTTATAATGTT
1 AGTGACTATTTTGTCGATTTTTCATAAAGTT
*
78821512 AGTGACTATTTTGT-TATTTTTCA-AAAGTT
1 AGTGACTATTTTGTCGATTTTTCATAAAGTT
78821541 GAGTGACT
1 -AGTGACT
78821549 GAAATGAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.16
30 13 0.41
31 14 0.44
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (31 bp):
AGTGACTATTTTGTCGATTTTTCATAAAGTT
Found at i:78824540 original size:42 final size:42
Alignment explanation
Indices: 78824473--78824565 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
78824463 AGCTGGAGGG
* * * * *
78824473 GGAGAAGCAACGAAGTTATTTGGGCCATCA-GCACCGACAGGA
1 GGAGGAGCAACCAAGGTATTCGGGCCATCACG-ACCGACAGAA
78824515 GGAGGAGCAACCAAGGTATTCGGGCCATCACGACCGACAGAA
1 GGAGGAGCAACCAAGGTATTCGGGCCATCACGACCGACAGAA
78824557 GGAGGAGCA
1 GGAGGAGCA
78824566 CGAGAAACCA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.33, T:0.11
Consensus pattern (42 bp):
GGAGGAGCAACCAAGGTATTCGGGCCATCACGACCGACAGAA
Found at i:78829794 original size:23 final size:22
Alignment explanation
Indices: 78829762--78829807 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
78829752 TTAATTCTCT
*
78829762 ATTATCATTTACCATAAATTTCA
1 ATTATCATTT-CCATAAATATCA
* *
78829785 ATTATTATTTTCATAAATATCA
1 ATTATCATTTCCATAAATATCA
78829807 A
1 A
78829808 GTCATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTATCATTTCCATAAATATCA
Found at i:78831399 original size:23 final size:23
Alignment explanation
Indices: 78831373--78831466 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
78831363 AAGTTAGAAG
78831373 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
78831396 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
78831419 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
78831442 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
78831465 AG
1 AG
78831467 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:78835905 original size:23 final size:23
Alignment explanation
Indices: 78835879--78835972 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
78835869 AAGTTAGAAG
78835879 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
78835902 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
78835925 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
78835948 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
78835971 AG
1 AG
78835973 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:78836840 original size:3 final size:3
Alignment explanation
Indices: 78836834--78836902 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
78836824 CAACAACGAA
*
78836834 AGG AGG AGG AGG -GG AGG -GG AACG AGG AGG AGG AGG AGG AGG -GG
1 AGG AGG AGG AGG AGG AGG AGG -AGG AGG AGG AGG AGG AGG AGG AGG
** * *
78836877 AACC ACG ACG AGG AGG AGG AGG AGG A
1 -AGG AGG AGG AGG AGG AGG AGG AGG A
78836903 AGAAGGGAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 48 0.87
4 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.59, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:78836878 original size:24 final size:24
Alignment explanation
Indices: 78836834--78836903 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
78836824 CAACAACGAA
*
78836834 AGGAGGAGGAGG-GGAGGGGAACG
1 AGGAGGAGGAGGAGGAGGGGAACC
78836857 AGGAGGAGGAGGAGGAGGGGAACC
1 AGGAGGAGGAGGAGGAGGGGAACC
* *
78836881 ACGACGAGGAGGAGGAGGAGGAA
1 AGGAGGAGGAGGAGGAGG-GGAA
78836904 GAAGGGAACG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
23 12 0.29
24 26 0.62
25 4 0.10
ACGTcount: A:0.34, C:0.07, G:0.59, T:0.00
Consensus pattern (24 bp):
AGGAGGAGGAGGAGGAGGGGAACC
Found at i:78842307 original size:591 final size:592
Alignment explanation
Indices: 78841185--78842345 Score: 1664
Period size: 591 Copynumber: 2.0 Consensus size: 592
78841175 TATAACAATG
* * * * * *
78841185 AACATAAAGGGTATCACTGTCTCACACGAGATGGTAAGGTTATTATGTCTCGTCATGTTATTTTT
1 AACATAAAGGGTATCACTATCTCACACCAGATGGTAAGGTCATTATATCACGTCATGTTACTTTT
* * * *
78841250 TATAAACGAAAATTTTTGTTTACTTCATCTACTATAGTCTCGGTTGATAATAGCCCGACAGTTTC
66 GATAAACGAAAATTTTTATTCACTTCATCTACTATAGTCTCAGTTGATAATAGCCCGACAGTTTC
* * * * *
78841315 TAGGTATATTCCTCTAGTTAATGCTAGTATTCCATGTTCTGTTGCCACAAGGGTGGGAACAGTAA
131 CAGGTATATTCCTCTAATTAAGGCTAGTATTCCATGTTCTATTGCCACAAGGGTGGGAACAATAA
* * *
78841380 ATAATATACCATCTCAGCCTTGCTCTACTTCCGTTCTATCCATGTCAAGAGATCCTAGCTCTTCG
196 ATAATATACCATCTCAGCCTTGCTCTACTTCCGTCCCATCCATGTCAAGAGATCCTAGCCCTTCG
* * ** * *
78841445 GTCACGTTAGAGACTACTCATGAGGGTCTTTGTCTCTCGGGTTCCATAGATGATGGTGGTTGTTC
261 GTCACATTAGAGACTACTCATGAGGGTCTTCGTCTCTCAAGTTCCATAGATGATGGTGGCTATTC
* * * *
78841510 TGCTAAGGGACCTGCTTCGGGTCTGTGTTACTCAGTTCCTAGACCTATTCTAACGGGTAACACTC
326 TACTAAGGGACCTGCTTCGAGTCTATGTTACTCAGTTCCTACACCTATTCTAACGGGTAACACTC
*
78841575 ATAATATGATAACTAGATCTAAGGCTGGGATTTTTAAACCCAATGCTCTAACGGCTAAGATTCTT
391 ATAATATGATAACTAGATCTAAGGCTGGGATTTTTAAACCCAAGGCTCTAACGGCTAAGATTCTT
* ** * * ***
78841640 AACTATGAATCACGTACAGTTGACGGGGCATTAGCTGATATAGAATGGAAGTGTGTTGTTCAAGC
456 AACTATGAACCACGTACAGTTGACGAAGCATTAGCTGATACAGAATGGAAGTATACCGTTCAAGC
* *
78841705 AGAGTTTGATGCGCTTATGGCTAATTCCACTTGGAAACTTGTTCTTCTGCATATTTTTGGGATAT
521 AAAGTTTGATGCGCTTATGGCTAATTCCACTTGGAAACTTGTTCCTCTGCATATTTTTGGGATAT
78841770 AGCACCC
586 AGCACCC
*
78841777 AACATAAAGGGTATCACTATCTCACACCAGATGGTAAGGTCATTGTATCACGTCATGTTACTTTT
1 AACATAAAGGGTATCACTATCTCACACCAGATGGTAAGGTCATTATATCACGTCATGTTACTTTT
* *** * ** *
78841842 GATGAACGTCGATTTTTATTCGCTTTGTCTACTGTAGTCTCAGTTGATAATAGCCCGACAGTTTC
66 GATAAACGAAAATTTTTATTCACTTCATCTACTATAGTCTCAGTTGATAATAGCCCGACAGTTTC
* * *
78841907 CATGTATATTCCTCTAATTAAGGCTAGTGTTCCATGTTCTATTGGCACAAGGGTGGGAACAATAA
131 CAGGTATATTCCTCTAATTAAGGCTAGTATTCCATGTTCTATTGCCACAAGGGTGGGAACAATAA
* * *
78841972 ATAATATACCATCTCAGCCTTGCTCTACTTCCGTCCCATCTAT-TCAAGAGATCTTGGCCCTTCG
196 ATAATATACCATCTCAGCCTTGCTCTACTTCCGTCCCATCCATGTCAAGAGATCCTAGCCCTTCG
* *
78842036 GTCACATTAGAGACTACTTAT-AGGGATCTTCGTCTTTCAAGTTCCATAGATGATGGTGGCTATT
261 GTCACATTAGAGACTACTCATGAGGG-TCTTCGTCTCTCAAGTTCCATAGATGATGGTGGCTATT
* * * * * *
78842100 CTACTTAGGGACTTGCCTT-GAGTCTATGTTCCTCGGTTCTTACACCTATTCTGACGGGTAACAC
325 CTACTAAGGGACCTG-CTTCGAGTCTATGTTACTCAGTTCCTACACCTATTCTAACGGGTAACAC
* *
78842164 TTATAATATGATAACTAGATCTAAGGCTAGGG-TTTTTAAACCCAAGGCTCTAACGGCTGAGATT
389 TCATAATATGATAACTAGATCTAAGGCT-GGGATTTTTAAACCCAAGGCTCTAACGGCTAAGATT
* * *
78842228 CTTGACTATGAACCACGTACAGTTGATGAAGCATTAGCTGATCCAGAATGGAAGTATACCGTTCA
453 CTTAACTATGAACCACGTACAGTTGACGAAGCATTAGCTGATACAGAATGGAAGTATACCGTTCA
78842293 AGCAAAGTTTGATGCGCTTATGGCTAATTCCACTTGGAAACTTGTTCCTCTGC
518 AGCAAAGTTTGATGCGCTTATGGCTAATTCCACTTGGAAACTTGTTCCTCTGC
78842346 CTCATGGTCG
Statistics
Matches: 499, Mismatches: 67, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
590 4 0.01
591 281 0.56
592 214 0.43
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (592 bp):
AACATAAAGGGTATCACTATCTCACACCAGATGGTAAGGTCATTATATCACGTCATGTTACTTTT
GATAAACGAAAATTTTTATTCACTTCATCTACTATAGTCTCAGTTGATAATAGCCCGACAGTTTC
CAGGTATATTCCTCTAATTAAGGCTAGTATTCCATGTTCTATTGCCACAAGGGTGGGAACAATAA
ATAATATACCATCTCAGCCTTGCTCTACTTCCGTCCCATCCATGTCAAGAGATCCTAGCCCTTCG
GTCACATTAGAGACTACTCATGAGGGTCTTCGTCTCTCAAGTTCCATAGATGATGGTGGCTATTC
TACTAAGGGACCTGCTTCGAGTCTATGTTACTCAGTTCCTACACCTATTCTAACGGGTAACACTC
ATAATATGATAACTAGATCTAAGGCTGGGATTTTTAAACCCAAGGCTCTAACGGCTAAGATTCTT
AACTATGAACCACGTACAGTTGACGAAGCATTAGCTGATACAGAATGGAAGTATACCGTTCAAGC
AAAGTTTGATGCGCTTATGGCTAATTCCACTTGGAAACTTGTTCCTCTGCATATTTTTGGGATAT
AGCACCC
Found at i:78856340 original size:42 final size:42
Alignment explanation
Indices: 78856281--78856362 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
78856271 CATAGCGAGC
*
78856281 TGTTCTTGATCCCGAATTTGAAGCCTCTGTAATTCTTGTAGA
1 TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTAGA
78856323 TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTA
1 TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTA
78856363 TCTGTCTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (42 bp):
TGTTCTTGATCCCGAATTTGAAGCCTCTGCAATTCTTGTAGA
Found at i:78858860 original size:29 final size:28
Alignment explanation
Indices: 78858798--78858862 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
78858788 GTAGGGGCCC
78858798 TAACCCCCTAAAGAGGATAATTATGCTT
1 TAACCCCCTAAAGAGGATAATTATGCTT
*
78858826 TAACCCCCTAAATAGGATAATTATGCTT
1 TAACCCCCTAAAGAGGATAATTATGCTT
78858854 TAAACCCCC
1 T-AACCCCC
78858863 ACAAATCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (28 bp):
TAACCCCCTAAAGAGGATAATTATGCTT
Found at i:78863051 original size:16 final size:16
Alignment explanation
Indices: 78863026--78863067 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
78863016 TATATAATAT
*
78863026 AATAAT-AAACTAATG
1 AATAATAAAACAAATG
*
78863041 TATAATAAAACAAATG
1 AATAATAAAACAAATG
78863057 AATAAGTAAAA
1 AATAA-TAAAA
78863068 GAAAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (16 bp):
AATAATAAAACAAATG
Found at i:78863106 original size:9 final size:9
Alignment explanation
Indices: 78863065--78863134 Score: 56
Period size: 9 Copynumber: 7.8 Consensus size: 9
78863055 TGAATAAGTA
78863065 AAAGAAAAAG
1 AAAG-AAAAG
78863075 AAAGATAAA-
1 AAAGA-AAAG
*
78863084 AACGAAACAG
1 AAAGAAA-AG
*
78863094 AAAGGAAAG
1 AAAGAAAAG
78863103 AAAGAAAAG
1 AAAGAAAAG
**
78863112 AAA-AAGGG
1 AAAGAAAAG
78863120 AAAGAAAAG
1 AAAGAAAAG
78863129 -AAGAAA
1 AAAGAAA
78863135 GAAGAAGACG
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 14 0.29
9 22 0.46
10 12 0.25
ACGTcount: A:0.73, C:0.03, G:0.23, T:0.01
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:78863124 original size:17 final size:18
Alignment explanation
Indices: 78863102--78863135 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
78863092 AGAAAGGAAA
78863102 GAAAGAAAAGAA-AAAGG
1 GAAAGAAAAGAAGAAAGG
78863119 GAAAGAAAAGAAGAAAG
1 GAAAGAAAAGAAGAAAG
78863136 AAGAAGACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAGAAGAAAGG
Found at i:78864594 original size:17 final size:17
Alignment explanation
Indices: 78864572--78864607 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
78864562 CAATCCCGAA
78864572 CTCAAATGTGGTAATGT
1 CTCAAATGTGGTAATGT
78864589 CTCAAATGTGGTAATGT
1 CTCAAATGTGGTAATGT
78864606 CT
1 CT
78864608 ATCTTTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (17 bp):
CTCAAATGTGGTAATGT
Found at i:78866820 original size:18 final size:20
Alignment explanation
Indices: 78866780--78866830 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
78866770 AAAATTAGAA
*
78866780 AAAAGTTCAAAATAATTT-T
1 AAAATTTCAAAATAATTTAT
*
78866799 TAAATTTCAAAAT-ATTTAT
1 AAAATTTCAAAATAATTTAT
78866818 AAAATTTCAAAAT
1 AAAATTTCAAAAT
78866831 TTATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATTTCAAAATAATTTAT
Found at i:78868825 original size:18 final size:19
Alignment explanation
Indices: 78868775--78868847 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 19
78868765 ATGATTTCAT
*
78868775 AAAAAATTATAAAAAAATA
1 AAAAAATTATATAAAAATA
*
78868794 GAAAAATT-TATAAAAATA
1 AAAAAATTATATAAAAATA
*
78868812 AAAAAATTAT-TAAATAT-
1 AAAAAATTATATAAAAATA
* *
78868829 TAAAAATATATATGAAAAT
1 AAAAAAT-TATATAAAAAT
78868848 TGATATAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
17 6 0.14
18 25 0.57
19 13 0.30
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAAATTATATAAAAATA
Found at i:78868847 original size:37 final size:37
Alignment explanation
Indices: 78868775--78868847 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
78868765 ATGATTTCAT
*
78868775 AAAAAATTATAAAAAAATAGAAAAATTTATAAAAATA
1 AAAAAATTATAAAAAAATAGAAAAATATATAAAAATA
* * * *
78868812 AAAAAATTATTAAATATTA-AAAATATATATGAAAAT
1 AAAAAATTATAAAAAAATAGAAAA-ATATATAAAAAT
78868848 TGATATAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 4 0.13
37 26 0.87
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (37 bp):
AAAAAATTATAAAAAAATAGAAAAATATATAAAAATA
Found at i:78868883 original size:11 final size:10
Alignment explanation
Indices: 78868773--78868886 Score: 78
Period size: 10 Copynumber: 11.7 Consensus size: 10
78868763 AAATGATTTC
78868773 ATAAAAAATT
1 ATAAAAAATT
*
78868783 ATAAAAAAAT
1 ATAAAAAATT
* *
78868793 AGAAAAATTT
1 ATAAAAAATT
78868803 AT-AAAAA-T
1 ATAAAAAATT
78868811 A-AAAAAATT
1 ATAAAAAATT
* *
78868820 ATTAAATATT
1 ATAAAAAATT
*
78868830 A-AAAATA-T
1 ATAAAAAATT
*
78868838 ATATGAAAATT
1 ATA-AAAAATT
* *
78868849 GATATAAACTT
1 -ATAAAAAATT
78868860 AT-AAAAATT
1 ATAAAAAATT
78868869 ATAAAAAATT
1 ATAAAAAATT
78868879 CATAAAAA
1 -ATAAAAA
78868887 CTTAAACTAG
Statistics
Matches: 80, Mismatches: 15, Indels: 17
0.71 0.13 0.15
Matches are distributed among these distances:
8 9 0.11
9 19 0.24
10 36 0.45
11 13 0.16
12 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:78869437 original size:29 final size:29
Alignment explanation
Indices: 78869405--78869461 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
78869395 TTTATTAGTG
78869405 TTATAAAACTTTT-TTTATATTTATTATAT
1 TTATAAAA-TTTTATTTATATTTATTATAT
* * *
78869434 TTATTATATTTTATTTATATTTTTTATA
1 TTATAAAATTTTATTTATATTTATTATA
78869462 ATTTTTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
TTATAAAATTTTATTTATATTTATTATAT
Found at i:78869448 original size:23 final size:21
Alignment explanation
Indices: 78869415--78869489 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
78869405 TTATAAAACT
78869415 TTTTTTAT-A-TTTA-TTATA
1 TTTTTTATAATTTTATTTATA
*
78869433 TTTATTAT-ATTTTATTTATA
1 TTTTTTATAATTTTATTTATA
*
78869453 TTTTTTATAATTTT-TAATATAA
1 TTTTTTATAATTTTAT-TTAT-A
*
78869475 TTTTTTATAGTTTTA
1 TTTTTTATAATTTTA
78869490 ATAATTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 8 0.17
19 4 0.09
20 13 0.28
21 8 0.17
22 14 0.30
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (21 bp):
TTTTTTATAATTTTATTTATA
Found at i:78869453 original size:11 final size:10
Alignment explanation
Indices: 78869414--78869499 Score: 65
Period size: 9 Copynumber: 8.6 Consensus size: 10
78869404 GTTATAAAAC
*
78869414 TTTTTTTATA
1 TTTTATTATA
78869424 -TTTATTATA
1 TTTTATTATA
78869433 -TTTATTATA
1 TTTTATTATA
78869442 TTTTATTTATA
1 TTTTA-TTATA
78869453 TTTT-TTATAA
1 TTTTATTAT-A
*
78869463 TTTTTAATATAA
1 -TTTTATTAT-A
78869475 TTTT-TTATA
1 TTTTATTATA
*
78869484 GTTTTAATA-A
1 -TTTTATTATA
78869494 TTTTAT
1 TTTTAT
78869500 ATCAATTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
9 27 0.42
10 13 0.20
11 19 0.30
12 5 0.08
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTATTATA
Found at i:78869498 original size:30 final size:31
Alignment explanation
Indices: 78869433--78869510 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
78869423 ATTTATTATA
* * * *
78869433 TTTATTATATTTTATTTATATTTTTTATAATT
1 TTTAATATAATTT-TTTATAGTTTTAATAATT
78869465 TTTAATATAATTTTTTATAGTTTTAATAA-T
1 TTTAATATAATTTTTTATAGTTTTAATAATT
78869495 TTT-ATATCAATTTTTT
1 TTTAATAT-AATTTTTT
78869511 TCTTGTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 4 0.10
30 12 0.29
31 14 0.34
32 11 0.27
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (31 bp):
TTTAATATAATTTTTTATAGTTTTAATAATT
Done.