Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 231 of 320
Found at i:76559951 original size:42 final size:42
Alignment explanation
Indices: 76559871--76559954 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
76559861 CCGACAACAA
76559871 GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
1 GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
76559913 GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
1 GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
76559955 AACCAGATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (42 bp):
GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
Found at i:76561241 original size:18 final size:18
Alignment explanation
Indices: 76561209--76561254 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
76561199 GTATTAAGCG
*
76561209 TTCAATTTAA-ATTAGTT
1 TTCAATTTAATTTTAGTT
*
76561226 TTTAATTTAATTTTAGTT
1 TTCAATTTAATTTTAGTT
76561244 TTCAATTTAAT
1 TTCAATTTAAT
76561255 AAAAAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
TTCAATTTAATTTTAGTT
Found at i:76561861 original size:27 final size:30
Alignment explanation
Indices: 76561809--76561884 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 30
76561799 CGATATACTA
* * *
76561809 AATTCATATATTACTAATACATAAAA-AAT
1 AATTAATATATAACTATTACATAAAATAAT
76561838 -A-TAATATATAACTATTAC-TGAAAATAAT
1 AATTAATATATAACTATTACAT-AAAATAAT
* *
76561866 AATTCACATATAACTATTA
1 AATTAATATATAACTATTA
76561885 TTATAACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 18 0.47
28 4 0.11
29 1 0.03
30 14 0.37
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.36
Consensus pattern (30 bp):
AATTAATATATAACTATTACATAAAATAAT
Found at i:76562691 original size:24 final size:26
Alignment explanation
Indices: 76562637--76562692 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
76562627 ATTTTCATTG
*
76562637 TATAAAAATAAAATGACTTATTACAT
1 TATAAAAATAAAATGACTTATAACAT
*
76562663 T-TAAAAATAAAAT-ATTTATAAC-T
1 TATAAAAATAAAATGACTTATAACAT
76562686 TATAAAA
1 TATAAAA
76562693 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 12 0.44
25 12 0.44
26 1 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAAAATAAAATGACTTATAACAT
Found at i:76564672 original size:60 final size:60
Alignment explanation
Indices: 76564599--76564718 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
76564589 AATCCTTTTA
* *
76564599 CTTTTAATTCTAAAAATTTAATATTTTTACTAATTTATTTTAATGATTAAAGTCCAATTG
1 CTTTTAATTCTAAAAAATTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
76564659 CTTTTAATTCTAAAAAATTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
1 CTTTTAATTCTAAAAAATTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
76564719 ATAATGTTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (60 bp):
CTTTTAATTCTAAAAAATTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
Found at i:76565457 original size:13 final size:13
Alignment explanation
Indices: 76565436--76565467 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
76565426 ATTATAAATC
*
76565436 TTTAAAAAAATAA
1 TTTATAAAAATAA
76565449 TTTATAAAAATAA
1 TTTATAAAAATAA
76565462 TTTATA
1 TTTATA
76565468 TGTATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTATAAAAATAA
Found at i:76570201 original size:20 final size:21
Alignment explanation
Indices: 76570176--76570220 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
76570166 TGCCAAATTC
76570176 ACAAATG-AAAAA-TATATATA
1 ACAAATGAAAAAATTA-ATATA
*
76570196 ACAAATTAAAAAATTAATATA
1 ACAAATGAAAAAATTAATATA
76570217 ACAA
1 ACAA
76570221 CAAAAAGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 14 0.64
22 2 0.09
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (21 bp):
ACAAATGAAAAAATTAATATA
Found at i:76572262 original size:13 final size:14
Alignment explanation
Indices: 76572246--76572281 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
76572236 CAATCTCATA
76572246 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
76572259 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
76572272 TCTC-ATTTCA
1 TCTCAATTTCA
76572282 TTCAATAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:76572271 original size:18 final size:19
Alignment explanation
Indices: 76572233--76572273 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
76572223 TGGTTCATGT
76572233 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
76572252 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
76572270 TTTC
1 TTTC
76572274 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:76572462 original size:39 final size:38
Alignment explanation
Indices: 76572395--76572529 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
76572385 ACCAATATGG
* * *
76572395 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
76572434 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
76572472 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
76572513 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
76572530 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:76572795 original size:18 final size:19
Alignment explanation
Indices: 76572769--76572807 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
76572759 TTTCAATTCA
76572769 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
76572788 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
76572806 AT
1 AT
76572808 ATATCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:76574134 original size:5 final size:5
Alignment explanation
Indices: 76574124--76574180 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
76574114 TTACTTATTT
* *
76574124 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
76574172 ATAT- ATATA
1 ATATA ATATA
76574181 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:76574140 original size:12 final size:12
Alignment explanation
Indices: 76574123--76574178 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
76574113 TTTACTTATT
76574123 TATATAATATAA
1 TATATAATATAA
76574135 TATATAATATAATA
1 TATATAATAT-A-A
76574149 TACTATAATATAA
1 TA-TATAATATAA
*
76574162 TA-ATAATTTAA
1 TATATAATATAA
76574173 TATATA
1 TATATA
76574179 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:76577325 original size:24 final size:24
Alignment explanation
Indices: 76577293--76577344 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
76577283 TTTAGGAACA
76577293 CTTTTGTAATGCTTGCATGTCCTC
1 CTTTTGTAATGCTTGCATGTCCTC
76577317 CTTTTGTAATGCTTGCATGTCCTC
1 CTTTTGTAATGCTTGCATGTCCTC
76577341 CTTT
1 CTTT
76577345 CCACCCTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.25, G:0.15, T:0.48
Consensus pattern (24 bp):
CTTTTGTAATGCTTGCATGTCCTC
Found at i:76586050 original size:19 final size:19
Alignment explanation
Indices: 76586028--76586078 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
76586018 TAAAAAATTG
76586028 AAAATTATATAAAG-TATAT
1 AAAATTATATAAAGAT-TAT
*
76586047 AAAATTATAAAAAGATTAT
1 AAAATTATATAAAGATTAT
76586066 AAATATATATATA
1 AAA-AT-TATATA
76586079 TAAAAATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 19 0.70
20 3 0.11
21 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAATTATATAAAGATTAT
Found at i:76590154 original size:28 final size:27
Alignment explanation
Indices: 76590106--76590184 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
76590096 ATTTATTCTT
* *
76590106 TTTAAACG-GTTTTGTATATTATTTAG
1 TTTAAACGTTTTTTATATATTATTTAG
* * *
76590132 TTTAGACTTCTTTTTATATATTATTTAT
1 TTTAAACGT-TTTTTATATATTATTTAG
*
76590160 TTTAAACGTTTTTCATATATTATTT
1 TTTAAACGTTTTTTATATATTATTT
76590185 TAAGTTGTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 22 0.51
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (27 bp):
TTTAAACGTTTTTTATATATTATTTAG
Found at i:76590228 original size:26 final size:26
Alignment explanation
Indices: 76590105--76590305 Score: 130
Period size: 26 Copynumber: 7.9 Consensus size: 26
76590095 CATTTATTCT
** *
76590105 TTTTAAACGGTTTTGTATATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
76590131 GTTTAGACTTCTTTTTATATATTATTTA
1 TTTTA-AATT-GTTTTATATATTATTTA
*
76590159 TTTTAAA-CGTTTT-TCATA-TA-TTA
1 TTTTAAATTGTTTTAT-ATATTATTTA
* * * *
76590182 TTTTAAGTTGTCTTATGTATTATTTG
1 TTTTAAATTGTTTTATATATTATTTA
* *
76590208 TTTTAAATTGCTTTGTATATTATTCT-
1 TTTTAAATTGTTTTATATATTATT-TA
* *
76590234 TCTT-AATTGTTTTACATATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* *
76590259 TCTTAAATTG-TTT-TATACTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
76590283 CTTCAAACTGTTTTATATATTAT
1 TTTTAAATTGTTTTATATATTAT
76590306 GTTGTTTTGC
Statistics
Matches: 132, Mismatches: 31, Indels: 24
0.71 0.17 0.13
Matches are distributed among these distances:
23 9 0.07
24 25 0.19
25 36 0.27
26 40 0.30
27 3 0.02
28 19 0.14
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTTAAATTGTTTTATATATTATTTA
Found at i:76590294 original size:24 final size:23
Alignment explanation
Indices: 76590253--76590303 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
76590243 TTTTACATAT
*
76590253 TATTTATCTTAAATTGTTTTATA
1 TATTTATCTTAAACTGTTTTATA
76590276 CTATTTA-CTTCAAACTGTTTTATA
1 -TATTTATCTT-AAACTGTTTTATA
76590300 TATT
1 TATT
76590304 ATGTTGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTTATCTTAAACTGTTTTATA
Found at i:76602404 original size:44 final size:45
Alignment explanation
Indices: 76602356--76602753 Score: 180
Period size: 45 Copynumber: 8.6 Consensus size: 45
76602346 CTTACCTACT
* *
76602356 TGAAGTTGCAGTAGAGCAGATTGAAGCCA-CAAGTCTTATCCCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAGTCTTATCTCCC
* * * * * * *
76602400 TGAAGTTACAGCGAAGCAGACTAAAGACAGCGAA-TCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCCAGC-AAGTCTTATCTCCC
* * *
76602445 TGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAA-TCTTATCTTCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGC--C-----A--GC-AAGTCTTATCTCCC
* * * *
76602499 TGAAGTTG-AGTGAAGCAGATTGAAGCCA-CCAGCCTTATCTTCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAGTCTTATCTCCC
* * * * ** * * * *
76602542 TGAAATTGCAGCGGAGTAGACTGAAGATACCAAATCTCATGTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAGTCTTATCTCCC
* * * *
76602587 TGAAGTTGCAGTTGAACAGATTGAAGCTACAAGTCACAATCATTGTCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGC--C-AG-CA-AGTC-TTATCTCCC
* * * * *
76602638 TGAAGTTGCAGTAGAGCAAATTGAAGCCATC-AGCCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAGTCTTATCTCCC
* * *** * * *
76602682 TGAAGTTGCAGTGGAGCAGGTTAAAATTACCAATTTTTATCT-CC
1 TGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAGTCTTATCTCCC
* *
76602726 TCGAAGTTCCAGTGGAGTAGATTGAAGC
1 T-GAAGTTGCAGTGGAGCAGATTGAAGC
76602754 TACAAATCTC
Statistics
Matches: 259, Mismatches: 73, Indels: 43
0.69 0.19 0.11
Matches are distributed among these distances:
42 1 0.00
43 18 0.07
44 68 0.26
45 89 0.34
46 3 0.01
47 2 0.01
48 2 0.01
49 3 0.01
50 4 0.02
51 31 0.12
52 1 0.00
53 15 0.06
54 22 0.08
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAGTCTTATCTCCC
Found at i:76602563 original size:142 final size:142
Alignment explanation
Indices: 76602334--76602700 Score: 413
Period size: 142 Copynumber: 2.6 Consensus size: 142
76602324 GAATTAAATC
* * * * * *
76602334 ATCATGGTGAATCTTACCTACTTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAGTCTTATCCCC
1 ATCATGGCGAATCTTATCTACCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTAT-CTC
* * * * * *
76602399 CTGAAGTTACAGCGAAGCAGACTAAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAG
65 CTGAAGTTGCAGCGGAGCAGACTAAAGACACCAAATCTCATGTCCCTGAAGTTGCAGTGGAACAG
76602464 ATTAAAGCTACAA
130 ATTAAAGCTACAA
* *
76602477 ATTATGGCGAATCTTATCTTCCTGAAGTTG-AGT-GAAGCAGATTGAAGCCACCAGCCTTATCTT
1 ATCATGGCGAATCTTATCTACCTGAAGTTGCAGTAG-AGCAGATTGAAGCCACCAGCCTTATC-T
* * * * *
76602540 CCTGAAATTGCAGCGGAGTAGACTGAAGATACCAAATCTCATGTCCCTGAAGTTGCAGTTGAACA
64 CCTGAAGTTGCAGCGGAGCAGACTAAAGACACCAAATCTCATGTCCCTGAAGTTGCAGTGGAACA
*
76602605 GATTGAAGCTACAA
129 GATTAAAGCTACAA
* * * * *
76602619 GTCA---C-AATCATTGTCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCCATCAGCCTTATCTC
1 ATCATGGCGAATC-TTATCTACCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTC
*
76602680 TCTGAAGTTGCAGTGGAGCAG
65 -CTGAAGTTGCAGCGGAGCAG
76602701 GTTAAAATTA
Statistics
Matches: 189, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
138 4 0.02
139 18 0.10
140 44 0.23
141 3 0.02
142 95 0.50
143 25 0.13
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (142 bp):
ATCATGGCGAATCTTATCTACCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCC
TGAAGTTGCAGCGGAGCAGACTAAAGACACCAAATCTCATGTCCCTGAAGTTGCAGTGGAACAGA
TTAAAGCTACAA
Found at i:76604319 original size:26 final size:28
Alignment explanation
Indices: 76604290--76604350 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
76604280 ATTTATTATT
*
76604290 TTTAAAC-T-GTTTTGTATATTATTTAG
1 TTTAAACTTCGTTTTATATATTATTTAG
* * *
76604316 TTTAGACTTCTTTTTATATATTATTTAT
1 TTTAAACTTCGTTTTATATATTATTTAG
76604344 TTTAAAC
1 TTTAAAC
76604351 ATTTTTCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.21
27 1 0.04
28 21 0.75
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTAAACTTCGTTTTATATATTATTTAG
Found at i:76604466 original size:24 final size:23
Alignment explanation
Indices: 76604437--76604487 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
76604427 TTTTACATAT
76604437 TATTTATCTT-AAACCGTTTTATA
1 TATTTA-CTTCAAACCGTTTTATA
*
76604460 CTATTTACTTCAAACTGTTTTATA
1 -TATTTACTTCAAACCGTTTTATA
76604484 TATT
1 TATT
76604488 ATGTTGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.29, C:0.14, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTTACTTCAAACCGTTTTATA
Found at i:76605805 original size:28 final size:28
Alignment explanation
Indices: 76605762--76605817 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
76605752 CAATCACTCA
*
76605762 ACTTTCGAAAACTGACAAAACAGTCATT
1 ACTTTCGAAAACTGACAAAACAATCATT
*
76605790 ACTTTCGAAAAGTGACAAAACAATCATT
1 ACTTTCGAAAACTGACAAAACAATCATT
76605818 TTTATCGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.25
Consensus pattern (28 bp):
ACTTTCGAAAACTGACAAAACAATCATT
Found at i:76607082 original size:21 final size:21
Alignment explanation
Indices: 76607058--76607102 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
76607048 TCTTGGGGCA
* * *
76607058 GCAACTTTTTGGTGAGTTGGG
1 GCAACTTGTTGATAAGTTGGG
76607079 GCAACTTGTTGATAAGTTGGG
1 GCAACTTGTTGATAAGTTGGG
76607100 GCA
1 GCA
76607103 GTTTGTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.11, G:0.36, T:0.33
Consensus pattern (21 bp):
GCAACTTGTTGATAAGTTGGG
Found at i:76607108 original size:21 final size:21
Alignment explanation
Indices: 76607072--76607131 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
76607062 CTTTTTGGTG
*
76607072 AGTTGGGGCAACTTGTTGA-TA
1 AGTTGGGGCAGCTTGTT-ACTA
* *
76607093 AGTTGGGGCAGTTTGTTACTG
1 AGTTGGGGCAGCTTGTTACTA
*
76607114 AGTTGGGGCAGCCTGTTA
1 AGTTGGGGCAGCTTGTTA
76607132 AGTTGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.18, C:0.12, G:0.37, T:0.33
Consensus pattern (21 bp):
AGTTGGGGCAGCTTGTTACTA
Found at i:76607137 original size:18 final size:18
Alignment explanation
Indices: 76607091--76607139 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
76607081 AACTTGTTGA
**
76607091 TAAGTTGGGGCAGTTTGT
1 TAAGTTGGGGCAGCCTGT
76607109 TACTGAGTTGGGGCAGCCTGT
1 TA---AGTTGGGGCAGCCTGT
76607130 TAAGTTGGGG
1 TAAGTTGGGG
76607140 TATTTTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.38
21 16 0.62
ACGTcount: A:0.16, C:0.10, G:0.41, T:0.33
Consensus pattern (18 bp):
TAAGTTGGGGCAGCCTGT
Found at i:76608108 original size:85 final size:85
Alignment explanation
Indices: 76607960--76608115 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 85
76607950 ACAATCACTG
* * * *
76607960 CATGCATATTAAAAAAAACAGTCATACACATACACACACATCTAAAAAATAGCCACTGCATGCAT
1 CATGCATATTAAAAAAAACAGTCATACACATACACACACACCTAAAAAACAGCCAATGAATGCAT
76608025 ATTAAAAAAATAGACAACAA
66 ATTAAAAAAATAGACAACAA
* * * *
76608045 CATGTATATT-AAAAAAA-AGTTATACACATACATACACACACCTAAAAAGCAGTCAATGAATGC
1 CATGCATATTAAAAAAAACAGTCATACACATAC--ACACACACCTAAAAAACAGCCAATGAATGC
76608108 ATATTAAA
64 ATATTAAA
76608116 TAGTCATACA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 13 0.21
84 7 0.11
85 41 0.67
ACGTcount: A:0.52, C:0.19, G:0.08, T:0.21
Consensus pattern (85 bp):
CATGCATATTAAAAAAAACAGTCATACACATACACACACACCTAAAAAACAGCCAATGAATGCAT
ATTAAAAAAATAGACAACAA
Found at i:76608152 original size:63 final size:66
Alignment explanation
Indices: 76608074--76608245 Score: 235
Period size: 63 Copynumber: 2.6 Consensus size: 66
76608064 TTATACACAT
* * *
76608074 ACATACACACACCTAAAAAGCAGTCAATGAATGCATATTAAATAGTCATACACACCAA-AA-AT-
1 ACATACACACCCCTAAAAAACAGTCACTGAATGCATATTAAATAGTCATACACACCAACAACATA
76608136 C
66 C
* * *
76608137 ATATACACACCCCTAAAAAATAGTCACT-AGATGCATATTAAATAGTCATACACACTAACAATCA
1 ACATACACACCCCTAAAAAACAGTCACTGA-ATGCATATTAAATAGTCATACACACCAACAA-CA
76608201 TAC
64 TAC
*
76608204 ACATACACACCCCTAAAAAACAGTCACTGTATGCATATTAAA
1 ACATACACACCCCTAAAAAACAGTCACTGAATGCATATTAAA
76608246 AAGTAGTCAA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.01
63 50 0.53
64 2 0.02
66 2 0.02
67 39 0.41
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (66 bp):
ACATACACACCCCTAAAAAACAGTCACTGAATGCATATTAAATAGTCATACACACCAACAACATA
C
Found at i:76610934 original size:39 final size:39
Alignment explanation
Indices: 76610880--76611010 Score: 217
Period size: 39 Copynumber: 3.4 Consensus size: 39
76610870 GCATCGGTCC
*
76610880 TGTCCAGATATATTTCCAGCATATAGCCTGCGGACCTCA
1 TGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCA
* *
76610919 TGTCCGGATATATTTCCAGCATATAGCTTGCGAACCTCA
1 TGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCA
* *
76610958 TGTCCGGGTATATTCCCAGCATATAGCCTGCGGACCTCA
1 TGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCA
76610997 TGTCCGGATATATT
1 TGTCCGGATATATT
76611011 CCCAATATCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
TGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCA
Found at i:76613302 original size:9 final size:9
Alignment explanation
Indices: 76613281--76613324 Score: 61
Period size: 10 Copynumber: 4.6 Consensus size: 9
76613271 TTGTTTTTAA
76613281 TATTTATTTT
1 TATTTA-TTT
76613291 TATTTATTT
1 TATTTATTT
76613300 TATTTATTT
1 TATTTATTT
76613309 TATTTTATTT
1 TA-TTTATTT
76613319 CTATTT
1 -TATTT
76613325 TTGGAAACGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 14 0.44
10 16 0.50
11 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (9 bp):
TATTTATTT
Found at i:76613303 original size:5 final size:5
Alignment explanation
Indices: 76613283--76613325 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
76613273 GTTTTTAATA
76613283 TTTAT TTT-T ATTTAT TTTA- TTTAT TTTAT TTTAT TTCTAT TTT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TT-TAT TTT
76613326 TGGAAACGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 5 0.15
5 23 0.68
6 6 0.18
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:76615145 original size:25 final size:25
Alignment explanation
Indices: 76615116--76615167 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
76615106 AAAAATAATT
**
76615116 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
76615141 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
76615166 TG
1 TG
76615168 TTAAGCCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:76617732 original size:61 final size:62
Alignment explanation
Indices: 76617656--76617793 Score: 206
Period size: 63 Copynumber: 2.2 Consensus size: 62
76617646 CCATTTTTGT
* *
76617656 CAGACAATAACCAATAC-AAAATAATTTAATATAAACACAATCATTTCTGTCATGCACATAG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATAG
* * * *
76617717 CAGACAATAATCAATACAAAAAATAATTTAGTACAAGCACAACCATTTCTGTCATGCACATGG
1 CAGACAATAACCAATAC-AAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATAG
76617780 CAGACAATAACCAA
1 CAGACAATAACCAA
76617794 ACATTTTAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 16 0.24
63 52 0.76
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (62 bp):
CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATAG
Found at i:76618159 original size:6 final size:6
Alignment explanation
Indices: 76618108--76618141 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
76618098 CCCTAAATTG
76618108 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
76618142 TAGCATCGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:76618171 original size:18 final size:18
Alignment explanation
Indices: 76618102--76618163 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
76618092 AAATAACCCT
76618102 AAATTGAAATCAAAATCA
1 AAATTGAAATCAAAATCA
**
76618120 AAATCAAAATCAAAATCA
1 AAATTGAAATCAAAATCA
* *
76618138 AAATT-AGCATCGAAATCA
1 AAATTGA-AATCAAAATCA
76618156 AAATTGAA
1 AAATTGAA
76618164 GTCGAAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (18 bp):
AAATTGAAATCAAAATCA
Found at i:76618188 original size:16 final size:16
Alignment explanation
Indices: 76618167--76618197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76618157 AATTGAAGTC
*
76618167 GAAATAATCCTAAATT
1 GAAATAACCCTAAATT
76618183 GAAATAACCCTAAAT
1 GAAATAACCCTAAAT
76618198 CCAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (16 bp):
GAAATAACCCTAAATT
Found at i:76624263 original size:44 final size:44
Alignment explanation
Indices: 76624213--76624300 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
76624203 TCATCAATAA
76624213 AAGTTAGCATATAATTAACTTCACCTCTCGAAGGCACTTTGGAT
1 AAGTTAGCATATAATTAACTTCACCTCTCGAAGGCACTTTGGAT
76624257 AAGTTAGCATATAATTAACTTCACCTCTCGAAGGCACTTTGGAT
1 AAGTTAGCATATAATTAACTTCACCTCTCGAAGGCACTTTGGAT
76624301 GGCCCCCACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (44 bp):
AAGTTAGCATATAATTAACTTCACCTCTCGAAGGCACTTTGGAT
Found at i:76629449 original size:22 final size:23
Alignment explanation
Indices: 76629407--76629451 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
76629397 ATTGATTTGG
* *
76629407 ATTTTATATTTTTTTATAATTTT
1 ATTTTATATTTCTTTAAAATTTT
76629430 ATTTTAT-TTTCTTTAAAATTTT
1 ATTTTATATTTCTTTAAAATTTT
76629452 TAATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
ATTTTATATTTCTTTAAAATTTT
Found at i:76629667 original size:18 final size:18
Alignment explanation
Indices: 76629627--76629668 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
76629617 ATTAAAATTT
76629627 AATTAATTAATTTTATAA
1 AATTAATTAATTTTATAA
*
76629645 TATTAATTAATTTTA-AA
1 AATTAATTAATTTTATAA
76629662 CAATTAA
1 -AATTAA
76629669 CATCAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTAATTAATTTTATAA
Found at i:76632274 original size:43 final size:43
Alignment explanation
Indices: 76632221--76632418 Score: 360
Period size: 43 Copynumber: 4.6 Consensus size: 43
76632211 CCGGCATTAC
* *
76632221 GCCTGGTAGGCACGAAGGCCCGAATGCACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
76632264 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
76632307 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
76632350 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
76632393 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
76632419 TAATACCAGC
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 150 1.00
ACGTcount: A:0.30, C:0.34, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:76632524 original size:38 final size:38
Alignment explanation
Indices: 76632416--76632517 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
76632406 GAAGGCCCGA
* * * *
76632416 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCTG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
76632454 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
76632492 ATAT-TTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
76632518 TCTTTAAGCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
37 21 0.36
38 38 0.64
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:76633867 original size:23 final size:23
Alignment explanation
Indices: 76633841--76633907 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
76633831 ACGGATTTCC
76633841 ACCCAAACACACCAGAATATCCA
1 ACCCAAACACACCAGAATATCCA
76633864 ACCCAAACACACCAGAATATCCA
1 ACCCAAACACACCAGAATATCCA
76633887 ACCCAAACACACCCAGAATAT
1 ACCCAAACACA-CCAGAATAT
76633908 TGTAAATCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 34 0.79
24 9 0.21
ACGTcount: A:0.48, C:0.39, G:0.04, T:0.09
Consensus pattern (23 bp):
ACCCAAACACACCAGAATATCCA
Found at i:76635363 original size:21 final size:23
Alignment explanation
Indices: 76635339--76635382 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
76635329 AAACCCTATT
*
76635339 TCCCCT-TTTCTT-TCTTTTTTC
1 TCCCCTGTTTCTTCTCTGTTTTC
76635360 TCCCCTGTTTCTTCTCTGTTTTC
1 TCCCCTGTTTCTTCTCTGTTTTC
76635383 GTTTTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.00, C:0.34, G:0.05, T:0.61
Consensus pattern (23 bp):
TCCCCTGTTTCTTCTCTGTTTTC
Found at i:76639062 original size:48 final size:48
Alignment explanation
Indices: 76639002--76639104 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
76638992 GTCCAACTAT
* * * * * *
76639002 GGTCTTATACTAGCTCTGCTCT-GCCCGTGCTGATGCCTATTCCTGATA
1 GGTCTTACACTAGCACT-CACTGGCCCGTGCCGATGCCTATCCCAGATA
* *
76639050 GGTCTTACACTAGCACTCACTGGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAGCACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
76639098 GGTCTTA
1 GGTCTTA
76639105 AGCTTAGCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 3 0.07
48 43 0.93
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.31
Consensus pattern (48 bp):
GGTCTTACACTAGCACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
Found at i:76640798 original size:43 final size:43
Alignment explanation
Indices: 76640737--76640891 Score: 292
Period size: 43 Copynumber: 3.6 Consensus size: 43
76640727 CGGGCATTAC
*
76640737 GCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
76640780 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
76640823 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
76640866 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
76640892 TAATACCAGC
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.30, C:0.34, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:76640932 original size:38 final size:38
Alignment explanation
Indices: 76640884--76641007 Score: 142
Period size: 38 Copynumber: 3.2 Consensus size: 38
76640874 GGCACGAAGG
* * *
76640884 CCCGAATATAATACCAGCACTAGGCCTGCGGGA-TTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
76640921 TCCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
76640960 CCCGGATATTTTACCAGCACGAAGCTTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
76640999 GCCCGGATA
1 -CCCGGATA
76641008 CACATCAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 57 0.77
39 9 0.12
40 8 0.11
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:76640935 original size:86 final size:85
Alignment explanation
Indices: 76640744--76640912 Score: 270
Period size: 86 Copynumber: 2.0 Consensus size: 85
76640734 TACGCCTGTT
*
76640744 AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 AGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
76640809 ATCACCGGCACGAAGCCTGC
66 ATCACCAGCACGAAGCCTGC
*
76640829 TAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATATA
1 -AGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACA
* *
76640894 -AT-ACCAGCACTAGGCCTGC
65 CATCACCAGCACGAAGCCTGC
76640913 GGGATTAATC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 14 0.18
85 2 0.03
86 62 0.79
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.10
Consensus pattern (85 bp):
AGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAC
ATCACCAGCACGAAGCCTGC
Found at i:76646312 original size:33 final size:33
Alignment explanation
Indices: 76646270--76646335 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
76646260 ATGGATATTG
76646270 AGTTAAATTACAAAATCATTTTGATTTTTTATC
1 AGTTAAATTACAAAATCATTTTGATTTTTTATC
*
76646303 AGTTAAATTACATAATCATTTTGATTTTTTATC
1 AGTTAAATTACAAAATCATTTTGATTTTTTATC
76646336 TCATTTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (33 bp):
AGTTAAATTACAAAATCATTTTGATTTTTTATC
Found at i:76646857 original size:22 final size:22
Alignment explanation
Indices: 76646829--76646884 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
76646819 GACTATTAAA
76646829 ATCGTAAAAATACATTTTTATC
1 ATCGTAAAAATACATTTTTATC
76646851 ATCGTAAAAATACATTTTTATC
1 ATCGTAAAAATACATTTTTATC
*
76646873 ATCATAAAAATA
1 ATCGTAAAAATA
76646885 TACAATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (22 bp):
ATCGTAAAAATACATTTTTATC
Found at i:76648267 original size:19 final size:18
Alignment explanation
Indices: 76648245--76648285 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
76648235 GATTTTATAT
* *
76648245 TTTTTAAATATTTTTTTTA
1 TTTTT-AATAATTTATTTA
76648264 TTTTTAATAATTTATTTA
1 TTTTTAATAATTTATTTA
76648282 TTTT
1 TTTT
76648286 GAACAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTAATAATTTATTTA
Found at i:76649430 original size:16 final size:16
Alignment explanation
Indices: 76649411--76649489 Score: 90
Period size: 16 Copynumber: 4.9 Consensus size: 16
76649401 TCATATTTTA
76649411 ATATAATAATTATTAT
1 ATATAATAATTATTAT
76649427 ATATAATAATTATTAT
1 ATATAATAATTATTAT
*
76649443 ATATAATAATATATAAT
1 ATATAATAAT-TATTAT
* *
76649460 TTAATAA-AATTCTTA-
1 AT-ATAATAATTATTAT
*
76649475 ATATAATTATTATTA
1 ATATAATAATTATTA
76649490 AAATATGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.08
15 7 0.13
16 29 0.55
17 9 0.17
18 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAATTATTAT
Found at i:76649430 original size:24 final size:23
Alignment explanation
Indices: 76649386--76649430 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
76649376 TAATAATAAA
76649386 TAATAAATAATTTTATCATATTT
1 TAATAAATAATTTTATCATATTT
76649409 TAATATAATAATTATTAT-ATAT
1 TAATA-AATAATT-TTATCATAT
76649431 AATAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATAAATAATTTTATCATATTT
Found at i:76649441 original size:19 final size:19
Alignment explanation
Indices: 76649409--76649460 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
76649399 TATCATATTT
76649409 TAAT-ATAATAATTAT-TA
1 TAATAATAATAATTATATA
*
76649426 TATATAATAATTATTATATA
1 TA-ATAATAATAATTATATA
76649446 TAATAATATATAATT
1 TAATAATA-ATAATT
76649461 TAATAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 16 0.55
20 9 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAATAATAATTATATA
Found at i:76649516 original size:64 final size:62
Alignment explanation
Indices: 76649344--76649523 Score: 190
Period size: 64 Copynumber: 2.9 Consensus size: 62
76649334 TATTGTTATT
** * *
76649344 AAATTTTAATAGGATTATTATT-AAATATAATTTAATAATAAATAAT-A-A-ATAATTTTATC
1 AAATTTTAATATAATTATTATTAAAATATAA-TTAATAATAAATAATAATATATAATTTAATA
* * * * *
76649403 ATATTTTAATATAATAATTATTATATATAATAATT-ATTATATATAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTA-AAAT-ATAATTAATAATAAATAATAATATATAATTTAATA
*
76649466 AAATTCTTAATATAATTATTATTAAAATATGAATTAATAAAAAATAATAATATATAAT
1 AAATT-TTAATATAATTATTATTAAAATAT-AATTAATAATAAATAATAATATATAAT
76649524 ATTAGAAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
59 18 0.19
60 10 0.10
61 6 0.06
62 7 0.07
63 20 0.21
64 36 0.37
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (62 bp):
AAATTTTAATATAATTATTATTAAAATATAATTAATAATAAATAATAATATATAATTTAATA
Found at i:76658360 original size:34 final size:34
Alignment explanation
Indices: 76658321--76658391 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
76658311 GAAAAGTATC
76658321 TTTAGAAATTTTCTAAAATAATTTCTTCAGAGAA
1 TTTAGAAATTTTCTAAAATAATTTCTTCAGAGAA
76658355 TTTAGAAATTTTCTAAAATAATTTCTTCAGAGAA
1 TTTAGAAATTTTCTAAAATAATTTCTTCAGAGAA
76658389 TTT
1 TTT
76658392 TCTCTGTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (34 bp):
TTTAGAAATTTTCTAAAATAATTTCTTCAGAGAA
Found at i:76664096 original size:42 final size:42
Alignment explanation
Indices: 76664050--76664137 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
76664040 AATAATTTAT
76664050 TTTACTTTGTGGTTGATTTGACATGTATTTGTATTTTTATAC
1 TTTACTTTGTGGTTGATTTGACATGTATTTGTATTTTTATAC
*
76664092 TTTACTTTGTGGTTGTTTTGACATGTATTTGTATTTTTATAC
1 TTTACTTTGTGGTTGATTTGACATGTATTTGTATTTTTATAC
76664134 TTTA
1 TTTA
76664138 ATTTTATCGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.59
Consensus pattern (42 bp):
TTTACTTTGTGGTTGATTTGACATGTATTTGTATTTTTATAC
Found at i:76676607 original size:36 final size:37
Alignment explanation
Indices: 76676567--76676647 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
76676557 GTGATATGAT
* **
76676567 GAGTACATCTGTGTTGAAAT-CCTCCAAATGATTAAA
1 GAGTACATCTATAATGAAATACCTCCAAATGATTAAA
*
76676603 GAGTACATCTATAATGAAATACCTTCAAATGATTAAA
1 GAGTACATCTATAATGAAATACCTCCAAATGATTAAA
76676640 GAGTACAT
1 GAGTACAT
76676648 ATATGCTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 17 0.43
37 23 0.57
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
GAGTACATCTATAATGAAATACCTCCAAATGATTAAA
Found at i:76679293 original size:35 final size:35
Alignment explanation
Indices: 76679247--76679317 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
76679237 CTTATTTCTT
76679247 ACAAAATTACTAAACACCAATCCCATTTGGTTAAA
1 ACAAAATTACTAAACACCAATCCCATTTGGTTAAA
76679282 ACAAAATTACTAAACACCAATCCCATTTGGTTAAA
1 ACAAAATTACTAAACACCAATCCCATTTGGTTAAA
76679317 A
1 A
76679318 ATGATCCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (35 bp):
ACAAAATTACTAAACACCAATCCCATTTGGTTAAA
Found at i:76686830 original size:15 final size:15
Alignment explanation
Indices: 76686810--76686842 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
76686800 GTTTATGATT
76686810 TGACTCCATTACTCA
1 TGACTCCATTACTCA
*
76686825 TGACTCCATTGCTCA
1 TGACTCCATTACTCA
76686840 TGA
1 TGA
76686843 ATTAACCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (15 bp):
TGACTCCATTACTCA
Found at i:76692305 original size:15 final size:16
Alignment explanation
Indices: 76692285--76692322 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
76692275 TATACGAATG
*
76692285 AATTTAACTCA-ATTT
1 AATTTAACTCATATTC
*
76692300 AATTTAATTCATATTC
1 AATTTAACTCATATTC
76692316 AATTTAA
1 AATTTAA
76692323 TCGAACACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTAACTCATATTC
Found at i:76692321 original size:16 final size:15
Alignment explanation
Indices: 76692285--76692323 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
76692275 TATACGAATG
* *
76692285 AATTTAACTCAATTT
1 AATTTAATTCAATTC
76692300 AATTTAATTCATATTC
1 AATTTAATTCA-ATTC
76692316 AATTTAAT
1 AATTTAAT
76692324 CGAACACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTTAATTCAATTC
Found at i:76699515 original size:25 final size:25
Alignment explanation
Indices: 76699486--76699547 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
76699476 TACGAGCTTT
* *
76699486 GTATCGGGAAGCTCTTGCA-AGCCAA
1 GTATCAGGAAGCTCATG-AGAGCCAA
*
76699511 TTATCAGGAAGCTCATGAGAGCCAA
1 GTATCAGGAAGCTCATGAGAGCCAA
76699536 GTATCAGGAAGC
1 GTATCAGGAAGC
76699548 GCAAGAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
GTATCAGGAAGCTCATGAGAGCCAA
Found at i:76699555 original size:25 final size:25
Alignment explanation
Indices: 76699505--76699555 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
76699495 AGCTCTTGCA
* * *
76699505 AGCCAATTATCAGGAAGCTCATGAG
1 AGCCAAGTATCAGGAAGCGCAAGAG
76699530 AGCCAAGTATCAGGAAGCGCAAGAG
1 AGCCAAGTATCAGGAAGCGCAAGAG
76699555 A
1 A
76699556 ACTGTGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (25 bp):
AGCCAAGTATCAGGAAGCGCAAGAG
Found at i:76702473 original size:61 final size:60
Alignment explanation
Indices: 76702397--76702549 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 60
76702387 CCTATTCAGA
* * *
76702397 AATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC
1 AATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCAATAGCCCTATTAC
*
76702456 AGTATCAGAGTATACTGGGCC-TAGCCCATATCAATATCAATCTTGGCAATAGCCCTATTAC
1 A--ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCTGGGCAATAGCCCTATTAC
*
76702517 AAGTC-GAGATATATTGGGCCTT-GCCCATATCAA
1 AA-TCAGAG-TATACTGGGCCTTAGCCCATATCAA
76702550 CACAGTTGGG
Statistics
Matches: 82, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
59 5 0.06
60 54 0.66
61 22 0.27
62 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (60 bp):
AATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCTGGGCAATAGCCCTATTAC
Found at i:76704719 original size:21 final size:18
Alignment explanation
Indices: 76704692--76704741 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 18
76704682 AACTTATCTC
*
76704692 TTTCTTTCTTCTCTCATTTT
1 TTTCTTTCTTCTC-C-TTCT
76704712 TTCTCTTTCTTCTCCTTCT
1 TT-TCTTTCTTCTCCTTCT
76704731 TTTCTTTCTTC
1 TTTCTTTCTTC
76704742 CTTTCCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 5 0.18
20 3 0.11
21 11 0.39
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCTTTCTTCTCCTTCT
Found at i:76704730 original size:9 final size:9
Alignment explanation
Indices: 76704688--76704751 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
76704678 CCGGAACTTA
76704688 TCTCTTTCT
1 TCTCTTTCT
76704697 T-TC-TTC-
1 TCTCTTTCT
*
76704703 TCTCATTTTT
1 TCTC-TTTCT
76704713 TCTCTTTCT
1 TCTCTTTCT
*
76704722 TCTCCTTCT
1 TCTCTTTCT
*
76704731 TTTCTTTCT
1 TCTCTTTCT
76704740 TC-CTTTCCT
1 TCTCTTT-CT
76704749 TCT
1 TCT
76704752 TGGCCTTCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
6 1 0.02
7 5 0.12
8 6 0.14
9 27 0.63
10 4 0.09
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (9 bp):
TCTCTTTCT
Found at i:76704748 original size:21 final size:20
Alignment explanation
Indices: 76704692--76704752 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
76704682 AACTTATCTC
* *
76704692 TTTCTTTCTTCTCTCATT-T
1 TTTCTTTCTTCTTTCCTTCT
*
76704711 TTTCTCT-TTCTTCTCCTTCT
1 TTTCTTTCTTCTT-TCCTTCT
76704731 TTTCTTTCTTCCTTTCCTTCT
1 TTTCTTTCTT-CTTTCCTTCT
76704752 T
1 T
76704753 GGCCTTCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.12
19 10 0.29
20 7 0.21
21 10 0.29
22 3 0.09
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTTCTTCTTTCCTTCT
Found at i:76707068 original size:46 final size:45
Alignment explanation
Indices: 76707018--76707164 Score: 170
Period size: 46 Copynumber: 3.2 Consensus size: 45
76707008 CGAGGGCTAT
* *
76707018 TGTAAGACATGTTTGGGATATGCATCGACCTCGAGATGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGA-CTCGAGATGTAAGCCAG
* *
76707064 TGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG-ATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACT-CGAGATGTA-AGCCAG
* * *
76707110 TGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATGTAAGCCAG
*
76707157 TTTAAGAC
1 TGTAAGAC
76707165 CGTATCTAAG
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
45 3 0.03
46 45 0.52
47 30 0.35
48 8 0.09
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGACTCGAGATGTAAGCCAG
Found at i:76712678 original size:24 final size:24
Alignment explanation
Indices: 76712646--76712692 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
76712636 TCCTTTTATA
76712646 CTTAAT-AAATAAATAATAAAATAT
1 CTTAATAAAAT-AATAATAAAATAT
* *
76712670 CTTATTAAAATATTAATAAAATA
1 CTTAATAAAATAATAATAAAATA
76712693 ATATTTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (24 bp):
CTTAATAAAATAATAATAAAATAT
Found at i:76712691 original size:11 final size:12
Alignment explanation
Indices: 76712643--76712692 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
76712633 CCTTCCTTTT
76712643 ATACTTAAT-AA
1 ATACTTAATAAA
**
76712654 ATAAATAATAAA
1 ATACTTAATAAA
*
76712666 ATATCTTATTAAA
1 ATA-CTTAATAAA
76712679 ATA-TTAATAAA
1 ATACTTAATAAA
76712690 ATA
1 ATA
76712693 ATATTTATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 17 0.55
12 5 0.16
13 9 0.29
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (12 bp):
ATACTTAATAAA
Found at i:76713534 original size:29 final size:30
Alignment explanation
Indices: 76713478--76713534 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
76713468 TTGGGCCTTC
* * **
76713478 CCACACGGGCTGGGCACATGGCTGTGTGAG
1 CCACACAGGCTGGCCACATGGCCATGTGAG
76713508 CCACACAGGCT-GCCACATGGCCATGTG
1 CCACACAGGCTGGCCACATGGCCATGTG
76713535 CTACATCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.19, C:0.32, G:0.33, T:0.16
Consensus pattern (30 bp):
CCACACAGGCTGGCCACATGGCCATGTGAG
Found at i:76715551 original size:15 final size:15
Alignment explanation
Indices: 76715527--76715557 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76715517 ATGGCAAATT
76715527 TCACTGTACTAAGGA
1 TCACTGTACTAAGGA
*
76715542 TCACTTTACTAAGGA
1 TCACTGTACTAAGGA
76715557 T
1 T
76715558 TTTCATGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (15 bp):
TCACTGTACTAAGGA
Found at i:76716807 original size:30 final size:30
Alignment explanation
Indices: 76716771--76716830 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
76716761 ATTTAATACG
* *
76716771 AACTTTTTCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
*
76716801 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
76716831 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:76722856 original size:17 final size:17
Alignment explanation
Indices: 76722831--76722872 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
76722821 ATATTTTCAA
*
76722831 AATATTTATAACAT-TCC
1 AATAGTTATAA-ATGTCC
76722848 AATAGTTATAAATGTCC
1 AATAGTTATAAATGTCC
*
76722865 AAAAGTTA
1 AATAGTTA
76722873 CTCATTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (17 bp):
AATAGTTATAAATGTCC
Found at i:76725685 original size:21 final size:21
Alignment explanation
Indices: 76725646--76725686 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
76725636 TCAAGTTATC
76725646 AATTAAAAACTAAAATGAACTA
1 AATTAAAAACT-AAATGAACTA
76725668 AATTAAATAACT-AATGAAC
1 AATTAAA-AACTAAATGAAC
76725687 ACGACAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.61, C:0.10, G:0.05, T:0.24
Consensus pattern (21 bp):
AATTAAAAACTAAATGAACTA
Found at i:76726918 original size:4 final size:4
Alignment explanation
Indices: 76726909--76726934 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
76726899 ATGGATTAAT
76726909 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
76726935 TAAGCCCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:76730629 original size:21 final size:22
Alignment explanation
Indices: 76730603--76730643 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
76730593 GACTAAACCA
*
76730603 AAAAATTG-AAAAAGATTTATT
1 AAAAATAGTAAAAAGATTTATT
*
76730624 AAAAATAGTAAAAATATTTA
1 AAAAATAGTAAAAAGATTTA
76730644 AATTATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAAATAGTAAAAAGATTTATT
Found at i:76730666 original size:9 final size:9
Alignment explanation
Indices: 76730620--76730784 Score: 50
Period size: 9 Copynumber: 17.1 Consensus size: 9
76730610 GAAAAAGATT
76730620 TATTAAAAA
1 TATTAAAAA
*
76730629 TAGTAAAAA
1 TATTAAAAA
* *
76730638 TATTTAAAT
1 TATTAAAAA
*
76730647 TATTTAGAAA
1 TA-TTAAAAA
76730657 TATTAAAAA
1 TATTAAAAA
76730666 T-TGTAAAAAAA
1 TAT-T--AAAAA
76730677 TATTGTAAAAAA
1 TA-T-T-AAAAA
*
76730689 TTATTAAATA
1 -TATTAAAAA
* * *
76730699 TTTTTAAAT
1 TATTAAAAA
* *
76730708 TGTAAAAAAA
1 TAT-TAAAAA
*
76730718 TTATTAAAAT
1 -TATTAAAAA
*
76730728 TATAAAAAA
1 TATTAAAAA
*
76730737 T-TTAAAAG
1 TATTAAAAA
76730745 T-TGTAAAAA
1 TAT-TAAAAA
76730754 TTATTAAAAA
1 -TATTAAAAA
76730764 T-TGTAAAAA
1 TAT-TAAAAA
76730773 TTATTTAAAAA
1 -TA-TTAAAAA
76730784 T
1 T
76730785 TGAAAATAAA
Statistics
Matches: 115, Mismatches: 25, Indels: 31
0.67 0.15 0.18
Matches are distributed among these distances:
8 9 0.08
9 51 0.44
10 26 0.23
11 16 0.14
12 8 0.07
13 5 0.04
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (9 bp):
TATTAAAAA
Found at i:76730677 original size:20 final size:19
Alignment explanation
Indices: 76730620--76730818 Score: 133
Period size: 20 Copynumber: 10.3 Consensus size: 19
76730610 GAAAAAGATT
*
76730620 TATTAAAAATAGT-AAAAA
1 TATTAAAAATTGTAAAAAA
* *
76730638 TATTTAAATTATT-T-AGAAA
1 TA-TTAAA-AATTGTAAAAAA
76730657 TATTAAAAATTGTAAAAAAA
1 TATTAAAAATTGT-AAAAAA
* **
76730677 TATTGTAAAAAAT-TATTAAA
1 TA-T-TAAAAATTGTAAAAAA
**
76730697 TATTTTTAAATTGTAAAAAA
1 TA-TTAAAAATTGTAAAAAA
*
76730717 -ATTATTAAAATTATAAAAAA
1 TATTA--AAAATTGTAAAAAA
* *
76730737 T-TTAAAAGTTGTAAAAAT
1 TATTAAAAATTGTAAAAAA
*
76730755 TATTAAAAATTGTAAAAAT
1 TATTAAAAATTGTAAAAAA
*
76730774 TATTTAAAAATTGAAAATAAA
1 TA-TTAAAAATTGTAAA-AAA
76730795 TATTAAAAAATTGTAAAAAA
1 TATT-AAAAATTGTAAAAAA
76730815 -ATTA
1 TATTA
76730819 TTTAATCAGA
Statistics
Matches: 143, Mismatches: 23, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.02
18 23 0.16
19 39 0.27
20 54 0.38
21 17 0.12
22 7 0.05
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
TATTAAAAATTGTAAAAAA
Found at i:76730686 original size:12 final size:13
Alignment explanation
Indices: 76730661--76730693 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
76730651 TAGAAATATT
76730661 AAAA-ATTGTAAA
1 AAAATATTGTAAA
76730673 AAAATATTGTAAA
1 AAAATATTGTAAA
*
76730686 AAATTATT
1 AAAATATT
76730694 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
AAAATATTGTAAA
Found at i:76730742 original size:29 final size:29
Alignment explanation
Indices: 76730673--76730743 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
76730663 AAATTGTAAA
76730673 AAAATATTGT-AAAAAATTATTAAATATTT
1 AAAA-ATTGTAAAAAAATTATTAAATATTT
**
76730702 TTAAATTGTAAAAAAATTATTAAA-ATTAT
1 AAAAATTGTAAAAAAATTATTAAATATT-T
76730731 AAAAAATT-TAAAA
1 -AAAAATTGTAAAA
76730744 GTTGTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 8 0.23
29 22 0.63
30 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAAATTGTAAAAAAATTATTAAATATTT
Found at i:76730795 original size:98 final size:98
Alignment explanation
Indices: 76730602--76730820 Score: 245
Period size: 98 Copynumber: 2.2 Consensus size: 98
76730592 TGACTAAACC
* *
76730602 AAAAAATTG-AAAAAGATTTATTAAAAATAGTAAAAATATTTAAATTATTTAGAAATATTAAAAA
1 AAAAAATTGTAAAAA-AATTATTAAAAATAGTAAAAATATTTAAA-TATTTAAAAATATTAAAAA
*
76730666 TTGTAAAAAAATATTGTAAAAAATTATTAAATATT
64 TTGTAAAAAAATATTGTAAAAAATTAATAAATATT
*** *
76730701 TTTAAATTGTAAAAAAATTATTAAAATTA-TAAAAA-ATTTAAA-AGTTGTAAAAATTATTAAAA
1 AAAAAATTGTAAAAAAATTATTAAAAATAGTAAAAATATTTAAATA-TT-TAAAAA-TATTAAAA
*
76730763 ATTGT-AAAAATTATT-T-AAAAATTGAAAATAAATATT
63 ATTGTAAAAAAATATTGTAAAAAATT---AATAAATATT
76730799 AAAAAATTGTAAAAAAATTATT
1 AAAAAATTGTAAAAAAATTATT
76730821 TAATCAGAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
95 8 0.08
96 3 0.03
97 21 0.21
98 47 0.46
99 18 0.18
100 5 0.05
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (98 bp):
AAAAAATTGTAAAAAAATTATTAAAAATAGTAAAAATATTTAAATATTTAAAAATATTAAAAATT
GTAAAAAAATATTGTAAAAAATTAATAAATATT
Found at i:76730818 original size:19 final size:19
Alignment explanation
Indices: 76730704--76730818 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 19
76730694 AAATATTTTT
*
76730704 AAATTGTAAAAAAATTATTA
1 AAATTGTAAAAAAATTA-AA
* *
76730724 AAATTAT-AAAAAATTTAA
1 AAATTGTAAAAAAATTAAA
* *
76730742 AAGTTGTAAAAATTATT-AA
1 AAATTGTAAAAA-AATTAAA
* *
76730761 AAATTGTAAAAATTATTTAA
1 AAATTGTAAAAA-AATTAAA
*
76730781 AAATTGAAAATAAATATTAAA
1 AAATTGTAAA-AAA-ATTAAA
76730802 AAATTGTAAAAAAATTA
1 AAATTGTAAAAAAATTA
76730819 TTTAATCAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
18 6 0.08
19 34 0.43
20 23 0.29
21 16 0.20
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATTGTAAAAAAATTAAA
Found at i:76730890 original size:20 final size:19
Alignment explanation
Indices: 76730867--76730936 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 19
76730857 CTGTTGTTAC
76730867 TAATTTTTAACAAATTTAA
1 TAATTTTTAACAAATTTAA
*
76730886 GTAATTTTTTTACAAATTTAA
1 -TAA-TTTTTAACAAATTTAA
* *
76730907 -ATTTTTTTGACAATATTTAA
1 TA-ATTTTTAACAA-ATTTAA
76730927 TAATTATTTA
1 TAATT-TTTA
76730937 CAATTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 10 0.25
20 11 0.28
21 19 0.47
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATTTTTAACAAATTTAA
Found at i:76730900 original size:21 final size:20
Alignment explanation
Indices: 76730870--76730931 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
76730860 TTGTTACTAA
*
76730870 TTTTTAACAAATTTAAGTAAT
1 TTTTTTACAAATTTAA-TAAT
76730891 TTTTTTACAAATTT-A-AAT
1 TTTTTTACAAATTTAATAAT
76730909 TTTTTTGACAATATTTAATAAT
1 TTTTTT-ACAA-ATTTAATAAT
76730931 T
1 T
76730932 ATTTACAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 9 0.25
19 4 0.11
20 5 0.14
21 14 0.39
22 4 0.11
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTTACAAATTTAATAAT
Found at i:76730911 original size:18 final size:20
Alignment explanation
Indices: 76730888--76730926 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
76730878 AAATTTAAGT
76730888 AATTTTTTT-ACAA-ATTTA
1 AATTTTTTTGACAATATTTA
76730906 AATTTTTTTGACAATATTTA
1 AATTTTTTTGACAATATTTA
76730926 A
1 A
76730927 TAATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
AATTTTTTTGACAATATTTA
Found at i:76730939 original size:20 final size:20
Alignment explanation
Indices: 76730842--76730948 Score: 71
Period size: 20 Copynumber: 5.3 Consensus size: 20
76730832 TTCACAAATT
**
76730842 TTTAATAATTATTTACTGT-
1 TTTAATAATTATTTACAATA
*
76730861 TGTTACTAATT-TTTAACAA-A
1 T-TTAATAATTATTT-ACAATA
*
76730881 TTTAAGTAATTTTTTTACAA-A
1 TTTAA-TAA-TTATTTACAATA
* *
76730902 TTTAA-ATTTTTTTGACAATA
1 TTTAATAATTATTT-ACAATA
*
76730922 TTTAATAATTATTTACAATT
1 TTTAATAATTATTTACAATA
76730942 TTTAATA
1 TTTAATA
76730949 CTTTCAATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
18 6 0.08
19 12 0.17
20 32 0.45
21 18 0.25
22 3 0.04
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTAATAATTATTTACAATA
Found at i:76730990 original size:19 final size:19
Alignment explanation
Indices: 76730939--76730990 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
76730929 ATTATTTACA
* *
76730939 ATTTTTAAT-ACTTTCAAT
1 ATTTTTTATAACTTTTAAT
* *
76730957 -TTTTTTACAATTTTTAAT
1 ATTTTTTATAACTTTTAAT
76730975 ATTTTTTATAACTTTT
1 ATTTTTTATAACTTTT
76730991 TTACAAATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
17 6 0.23
18 7 0.27
19 13 0.50
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTTATAACTTTTAAT
Found at i:76732507 original size:51 final size:52
Alignment explanation
Indices: 76732412--76732509 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 52
76732402 GATAGAAATG
** *
76732412 ATGAAAATGGAGAAAAGAGAAATATTTGGAAATGATTATGGTTTTCTTTAAA
1 ATGAAAATGGAGAAAAGAGAAATATTTAAAAATGAATATGGTTTTCTTTAAA
*
76732464 ATGAAAATGGAG-AAATAG-AATCATTTAAAAATGAATATGGTTTTCT
1 ATGAAAATGGAGAAAAGAGAAAT-ATTTAAAAATGAATATGGTTTTCT
76732510 GCTGAAAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 3 0.07
51 26 0.63
52 12 0.29
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (52 bp):
ATGAAAATGGAGAAAAGAGAAATATTTAAAAATGAATATGGTTTTCTTTAAA
Found at i:76738468 original size:24 final size:24
Alignment explanation
Indices: 76738422--76738468 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
76738412 TGTATGAATA
* *
76738422 AGAAATATAAATAACTAAGTAATG
1 AGAAATATAAATAAATAAATAATG
76738446 AGAAA-ATAAATAAATAGAATAAT
1 AGAAATATAAATAAATA-AATAAT
76738469 AATAATGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (24 bp):
AGAAATATAAATAAATAAATAATG
Found at i:76738523 original size:3 final size:3
Alignment explanation
Indices: 76738517--76738569 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
76738507 TAATATGTCA
*
76738517 AAT AAT AAA AATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
76738563 AAT AAT A
1 AAT AAT A
76738570 GTAGTAGCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:76738800 original size:3 final size:3
Alignment explanation
Indices: 76738792--76739064 Score: 153
Period size: 3 Copynumber: 89.0 Consensus size: 3
76738782 GTAAATATTG
*
76738792 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * *
76738841 GAGCA ACAA ATA ATA ATA ATA CGTTA ATA AAA ATA ATA AGA AT- ATG
1 -A-TA A-TA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
76738887 TTA GTA ATA ATA A-A TTA ATGGA CTA ATA ATA A-A ATGA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA AT-A AT-A AT-A
* * * * ** * *
76738932 ATA A-A CACA AAA ATA A-A GT- ATA ATT ATA ATA GCA ATA TTA ACA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
76738975 AAA AGA GTC ATA ATA ATA ATA ACA ATA ACA ATA ATG ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
76739023 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
76739065 GTGATAACAA
Statistics
Matches: 207, Mismatches: 49, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
2 8 0.04
3 177 0.86
4 15 0.07
5 7 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:76738878 original size:23 final size:23
Alignment explanation
Indices: 76738848--76738899 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
76738838 GTAGAGCAAC
*
76738848 AAATAATAATAATACGTTAATAA
1 AAATAATAAGAATACGTTAATAA
* *
76738871 AAATAATAAGAATATGTTAGTAA
1 AAATAATAAGAATACGTTAATAA
*
76738894 TAATAA
1 AAATAA
76738900 ATTAATGGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (23 bp):
AAATAATAAGAATACGTTAATAA
Found at i:76744484 original size:5 final size:5
Alignment explanation
Indices: 76744460--76744523 Score: 103
Period size: 5 Copynumber: 13.0 Consensus size: 5
76744450 TCTTTATTTC
* *
76744460 TATTA TATAA T-TTA TGTTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
76744509 TATTA TATTA TATTA
1 TATTA TATTA TATTA
76744524 ATTCTTAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
4 3 0.05
5 52 0.95
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:76747389 original size:24 final size:26
Alignment explanation
Indices: 76747356--76747414 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
76747346 CTATATAACG
*
76747356 GGAAGCTCAT-AAG-AGTTATAATCA
1 GGAAGCTCATAAAGAAATTATAATCA
* *
76747380 GGAAGTTCATAAAGAAATTTTAATCA
1 GGAAGCTCATAAAGAAATTATAATCA
76747406 GGAAGCTCA
1 GGAAGCTCA
76747415 CGAAGCTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 3 0.10
26 17 0.59
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (26 bp):
GGAAGCTCATAAAGAAATTATAATCA
Found at i:76747596 original size:65 final size:65
Alignment explanation
Indices: 76747492--76747615 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
76747482 ATATTAGGAC
** * *
76747492 TTTGTGTCTGTAATATATGCAGGATCACAACCAATCATATAACAGGACGCTTACAAAGAGCTACG
1 TTTGTGTCTACAATATATGCAGGATCACAACCAATCATATAACAGGACACTCACAAAGAGCTACG
*
76747557 TTTGTGTCTACAATATATGCAGGATCACAACCGATCATATAACAGGACACTCACAAAGA
1 TTTGTGTCTACAATATATGCAGGATCACAACCAATCATATAACAGGACACTCACAAAGA
76747616 ACTATGATAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (65 bp):
TTTGTGTCTACAATATATGCAGGATCACAACCAATCATATAACAGGACACTCACAAAGAGCTACG
Found at i:76748176 original size:30 final size:30
Alignment explanation
Indices: 76748117--76748177 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
76748107 TTATTTAATT
76748117 AATTATCATCTTTTATTTTTTTCACTTTCC
1 AATTATCATCTTTTATTTTTTTCACTTTCC
* *
76748147 AATT-TCATCCTTTTCTTTATTTT-ATTTTCC
1 AATTATCAT-CTTTTATTT-TTTTCACTTTCC
76748177 A
1 A
76748178 TGGATGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.15
30 19 0.70
31 4 0.15
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.61
Consensus pattern (30 bp):
AATTATCATCTTTTATTTTTTTCACTTTCC
Found at i:76755857 original size:30 final size:30
Alignment explanation
Indices: 76755813--76755872 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
76755803 ATTATTTAAT
*
76755813 TAATTATCATCTTTTATTTTTTTTACTTTC
1 TAATTATCATCTTTTATTTATTTTACTTTC
* *
76755843 TAATT-TCATCCTTTTCTTTATTTTATTTTC
1 TAATTATCAT-CTTTTATTTATTTTACTTTC
76755873 CATGGATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (30 bp):
TAATTATCATCTTTTATTTATTTTACTTTC
Found at i:76769114 original size:18 final size:18
Alignment explanation
Indices: 76769091--76769136 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
76769081 TGGGCCATGA
*
76769091 TCATGGTCATGGTCACGG
1 TCATGGTCATGATCACGG
*
76769109 TCATGGCCATGATCACGG
1 TCATGGTCATGATCACGG
*
76769127 TCATGCTCAT
1 TCATGGTCAT
76769137 AGCCATAGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (18 bp):
TCATGGTCATGATCACGG
Found at i:76776272 original size:43 final size:43
Alignment explanation
Indices: 76776211--76776294 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
76776201 CACACACCCA
* * * *
76776211 TGTGGTCAGACCGTGTGGCTTACATGGTCAAGAGACACGCTCT
1 TGTGGTCAAACCATGTGGCTCACACGGTCAAGAGACACGCTCT
76776254 TGTGGTCAAACCATGTGGCTCACACGGTCAAGAGACACGCT
1 TGTGGTCAAACCATGTGGCTCACACGGTCAAGAGACACGCT
76776295 TGTGTTTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (43 bp):
TGTGGTCAAACCATGTGGCTCACACGGTCAAGAGACACGCTCT
Found at i:76786962 original size:75 final size:75
Alignment explanation
Indices: 76786839--76789152 Score: 1889
Period size: 75 Copynumber: 29.8 Consensus size: 75
76786829 TCTGTTTTCT
*
76786839 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
76786904 TTTTTCAAAA
66 TTTTTCAAAA
*
76786914 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
**
76786979 TTTGGC--AA
66 TTTTTCAAAA
* * * * *
76786987 AAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGA-GTATTTTCGATT-TCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAT-T
76787050 GTTTTTCAATTTATGTTTTCAA
65 GTTTTTC-A---A-------AA
* * * *
76787072 AAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGAACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
76787137 TTTGTT-AAAA
66 TTT-TTCAAAA
* *
76787147 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
*
76787212 TTTGTCAAAA
66 TTTTTCAAAA
* * *
76787222 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATT-TCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAT-T
76787286 G-TTTTC--AA
65 GTTTTTCAAAA
* * * * *
76787294 AATTCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
*
76787359 TGTTTTAATTTATTTTTCAA
66 T-TTTTCA---A------AA
* * ** * ** *
76787379 AAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTTAA-T-TT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
* **
76787441 ATCAT-AAAA
66 TTTTTCAAAA
* * *** * * *
76787450 AATATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTTATG-TGTTGAGTCACTTTCAATT
1 AA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG-AG-GT-ATTTTCAATT
***
76787514 -TCTGTTTTTATGTCTATTTTCT
62 AT-TG--TTT-T-TC-A---AAA
* * *
76787536 AAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
* *
76787601 TTTGTAAAAA
66 TTTTTCAAAA
*
76787611 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
**
76787676 TTTGGC--AA
66 TTTTTCAAAA
* * * * * *
76787684 AAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATT-TCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAT-T
*
76787748 ATTTTTCAATTTATGTTTTCAA
65 GTTTTTC-A---A-------AA
* * *
76787770 AAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
76787835 TTTGTT-AAAA
66 TTT-TTCAAAA
* *
76787845 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
**
76787910 TTTGGC--AA
66 TTTTTCAAAA
* * * * * * *
76787918 AAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGATATTTTCGATT-TCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAT-T
*
76787982 ATTTTTCAATTTATGTTTTCAA
65 GTTTTTC-A---A-------AA
* * *
76788004 AAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
76788069 TTTGTT-AAAA
66 TTT-TTCAAAA
* *
76788079 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
*
76788144 TTTGTCAAAAAA
66 TTTTTC--AAAA
* * *
76788156 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGACGTATTGTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
*
76788221 TGTTTTAATTTATTTTTCAA
66 T-TTTTCA---A------AA
* ** * ** * *
76788241 AAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACATTAAGGTATTTTTAA-T-TT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
* ** *
76788303 ATCATAAAAA
66 TTTTTCAAAA
* * * * *
76788313 AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTG-ACG-TGTTGAGTCACTTTCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GGCACGCTG-AG-GT-ATTTTCAATT
****
76788376 -TCTGTTTTTATGTCTGTTTTCT
62 AT-TG--TTT-T-TC----AAAA
* * *
76788398 AAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGGGTACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
**
76788463 TTTGTAAAAAA
66 TTT-TTCAAAA
* * *
76788474 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGTTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
**
76788539 TTTGGC--AA
66 TTTTTCAAAA
* * * * * *
76788547 AAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATT-TCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAT-T
76788611 GTTTTTCAATTTATGTTTTCAA
65 GTTTTTC-A---A-------AA
* * *
76788633 AAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
76788698 TTTGTT-AAAA
66 TTT-TTCAAAA
* *
76788708 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
*
76788773 TTTGTCAAAAA
66 TTTTTC-AAAA
* * *
76788784 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATT-TCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAT-T
76788848 GTTTTTC--AA
65 GTTTTTCAAAA
* * * * * *
76788857 AATTCAACTCATATTACTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
*
76788922 TGTTTTAATTTATTTTTCAA
66 T-TTTTCA---A------AA
* ** * ** *
76788942 AAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTTAA-T-TT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
* **
76789004 ATCATCAAAA
66 TTTTTCAAAA
* * ** * **
76789014 AAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTTGGCTCACACGCTGGGGTATTTTCAATTCC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GGCACGCTGAGGTATTTTCAATTAT
*
76789079 TGCTTTTCAAAA
64 TGTTTTTCAAAA
76789091 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTA
76789153 ATATTTTTTC
Statistics
Matches: 1807, Mismatches: 280, Indels: 304
0.76 0.12 0.13
Matches are distributed among these distances:
71 7 0.00
72 183 0.10
73 294 0.16
74 44 0.02
75 479 0.27
76 135 0.07
77 109 0.06
78 6 0.00
79 4 0.00
80 1 0.00
81 18 0.01
82 4 0.00
83 29 0.02
84 10 0.01
85 276 0.15
86 196 0.11
87 12 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (75 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
TTTTTCAAAA
Found at i:76787119 original size:85 final size:87
Alignment explanation
Indices: 76786966--76787128 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 87
76786956 CGCTGAGGTA
* *
76786966 TTTTCAATTACTGTTTGGCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTCAATTACTGTTTGGCAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACACG
76787031 CTGA-GTATTTTCGATTTCTGT
66 CTGAGGTATTTTCGATTTCTGT
* * * * *
76787052 TTTTCAATTTA-TGTTT-TCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGA-A
1 TTTTCAA-TTACTGTTTGGCAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTC-AGGACA
76787114 CGCTGAGGTATTTTC
64 CGCTGAGGTATTTTC
76787129 AATTATTGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
85 41 0.61
86 23 0.34
87 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (87 bp):
TTTTCAATTACTGTTTGGCAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCGATTTCTGT
Found at i:76787822 original size:234 final size:232
Alignment explanation
Indices: 76786694--76789217 Score: 2395
Period size: 234 Copynumber: 10.8 Consensus size: 232
76786684 GTTTCATTTC
* * **
76786694 TGCGAGAGGTGAGTTGAGCCTCGGAGCACGCCGAGGTATTTTCAAATT-CTACTT-TCAAAAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATTACTGTTTGTC--AAAAA
* * ** * * *
76786757 TCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACG-TGTTGAGTCACTTTCAATTTCTG
63 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG-AG-GT-ATTTTCAATTT-TA
* * * *
76786821 TTTTT-ATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGC
124 TTTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
* *
76786884 TGAGGTATTTTCAATTATTGTTTTTCAAAAAAATCAACTCATAT
189 TGAGGTATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
*
76786928 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAAAAATCA
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCA
* * * * * *
76786993 ACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGA-GTATTTTCGATTTCTGTTTTTC
66 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-TATTTTT-
* * * *
76787057 AATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGAACGCTGAGG
129 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
*
76787122 TATTTTCAATTATTGTTTGTTAAAAAAATCAACTCATAT
194 TATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
* * *
76787161 TGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTGTTTGTCAAAAAAAT
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTC--AAAAAT
* * *
76787226 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-G--------A---TATTTTC
64 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTATTTTT
* * * *
76787279 AATTTCTGTTTTCAAAATTCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
129 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
* * *
76787344 TATTGTCAATTTTTGTGTTTTAATTTATTTTTCAAAAATCAACTCATAT
194 TATTTTCAATTATTGT-TTGTAA---A------AAAAATCAACTCATAT
* * ** * ** * ** **
76787393 CGCAAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTTAATTTA-T-CAT-AAAAAATAT
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-TTACTGTTTGTCAAAA-AT
* * *** * * * *
76787455 CAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTTATG-TGTTGAGTCACTTTCAATTTCTGT
64 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG-AG-GT-ATTTTCAATTT-TAT
* * * * * * *
76787519 TTTT-ATGTCTATTTTC-TAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGGGTACGCT
125 TTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
76787582 GAGGTATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
190 GAGGTATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
*
76787625 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAAAAATCA
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCA
* * * * * *
76787690 ACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTATTTTTC
66 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-TATTTTT-
* * *
76787755 AATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
129 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
*
76787820 TATTTTCAATTATTGTTTGTTAAAAAAATCAACTCATAT
194 TATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
* *
76787859 TGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAAAAATCA
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCA
* * * * * * *
76787924 ACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGATATTTTCGATTTCTATTTTTC
66 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-TATTTTT-
* * *
76787989 AATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
129 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
*
76788054 TATTTTCAATTATTGTTTGTTAAAAAAATCAACTCATAT
194 TATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
* * *
76788093 TGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTGTTTGTCAAAAAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTC----AAAA
* * *
76788158 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGACGTATTGTCAATTTTTGTG
62 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-TTTTAT-
* ** * **
76788223 TTTTAATTTAT-TTTTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACATT
125 TTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
* * * **
76788287 AAGGTATTTTTAA-T-TT-ATCATAAAAAAAATCAACTCATAT
190 GAGGTATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
* * * * * *
76788327 TGCGAAAGGTGAGTTGAGCCTTGGCTG-ACG-TGTTGAGTCACTTTCAATTTCTGTTTTTATGTC
1 TGCGAGAGGTGAGTTGAGCCTCGG-GGCACGCTG-AG-GT-ATTTTCAATTACTG---TT-TGTC
** * * *
76788390 TGTTTTCTAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGGGTACGCTGAGGTATTTTC
58 ------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC
* * * *
76788455 AATTATTGTTTGTAA---A------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
117 AATT-TTATTTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * ** * *
76788511 GGGCACGTTGAGGTATTTTCAATTACTGTTTG--GCAAAAATCAACTTATAC
181 GGGCACGCTGAGGTATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
* * * * *
76788561 TGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTGTTTTTCAATTTATG
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG---------TT-TG
* * *
76788626 TTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
56 ---TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
* ** *
76788691 A--TTA---TT--GTT-TG-TTAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGG
118 ATTTTATTTTTAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
76788747 GCACGCTGAGGTATTTTTAATTATTGTTTGTCAAAAAAAATCAACTCATAT
183 GCACGCTGAGGTATTTTCAATTATTGTTTGT-AAAAAAAATCAACTCATAT
* * * * * *
76788798 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATTTCTGTTTTTCAAAATTCA
1 TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCA
* * * * *
76788863 ACTCATATTACTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCAATTTTTGTGTTTT
66 ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-TTTTAT-TTTT
* ** * **
76788928 AATTTAT-TTTTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGG
129 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
* * ** *
76788992 TATTTTTAA-T-TT-ATCATCAAAAAAATCAACTCATAT
194 TATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
* * ** * *
76789028 TGCGAGGGGTGAGTTGAGCCTTGGCTCACACGCTGGGGTATTTTCAATTCCTGCTTT-TCAAAAA
1 TGCGAGAGGTGAGTTGAGCCTCGG--GGCACGCTGAGGTATTTTCAATTACTG-TTTGTC--AAA
*
76789092 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAATAT
61 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT-TTA-
*
76789157 TTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG
124 TTTTT-AATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
76789218 TCACATGTCG
Statistics
Matches: 1931, Mismatches: 253, Indels: 209
0.81 0.11 0.09
Matches are distributed among these distances:
222 71 0.04
223 9 0.00
224 57 0.03
226 1 0.00
227 4 0.00
228 8 0.00
229 36 0.02
230 56 0.03
231 27 0.01
232 161 0.08
233 292 0.15
234 690 0.36
235 120 0.06
236 12 0.01
237 159 0.08
238 69 0.04
239 9 0.00
240 5 0.00
241 14 0.01
242 116 0.06
243 10 0.01
244 5 0.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (232 bp):
TGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCA
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTATTTTTAA
TTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
TTTTCAATTATTGTTTGTAAAAAAAATCAACTCATAT
Found at i:76788565 original size:629 final size:618
Alignment explanation
Indices: 76786839--76789152 Score: 2362
Period size: 629 Copynumber: 3.7 Consensus size: 618
76786829 TCTGTTTTCT
* * *
76786839 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
*
76786904 TTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
66 TTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA-GTAT
** ***
76786967 TTTCAATTACTG--TTTGGCAAAAATCAACTCATA-CTGCGAGAGGTGAGTTGAGCCTC-AGG-A
130 TTTCAATTTTTGTTTTTAAAAAAAATCAACTCATATC-GCGAGAGGTGAGTTGAGCCTCAAGGCA
* * * ** * * *
76787027 CATGCTGA-GTATTTTCGATTTCTGTTTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTA
194 CA--CTAAGGTATTTTCAATTACTG-----C-A--TA-----AAAAAAATCAACTCATACTGCGA
* * * * **
76787091 AAGGTGAGTTGAGCCTCGGGGA-ACGCTGAGGTATTTTCAA--T-TA----T--TGTTTG-TTAA
244 AAGGTGAGTTGAGCCTC-AGGACATGCTGAGGTACTTTCAATTTCTATTTTTAATGTATGTTTTC
*
76787145 AAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTA
308 AAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTA
* * * *
76787209 TTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATA
372 TTGTTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
* * * ** * * *
76787274 TTTTCAATTTCTGTTT-TCAAAATTCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
437 TTTTCAATTACTGTTTGGCAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATG
* * * * *
76787338 CTGAGGTATTGTCAATTTTTGTGTTTT-AATTTAT-TTTTCAAAAATCAACTCATATCGC-AAGA
502 CTGAGGTATTTTCGATTTCTGT-TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAA-A
** * ** * * **
76787400 GGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTT---TAATT-TATCATAAAA
565 GGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTTGTTAAAA
** * *** * * * *
76787450 AATATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTTATG-TGTTGAGTCACTTTCAATT
1 AA-ATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTG-AG-GT-ATTTTTAATT
***** * * *
76787514 -TCTGTTTTTATGTCTATTTTCTAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGGGTA
62 AT-TG---TT-TGTC-A-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
* * *
76787578 CGCTGAGGTATTTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
120 CGCTGA-GTATTTTCAATTTTTGTTTTTAAAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAG
** * * ** *** * *
76787643 CCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAAAAATCAACTTATACTGCGAGAGGT
184 CCTCAAGGCACACTAAGGTATTTTCAATTACTGCATAAAAAAAATCAACTCATACTGCGAAAGGT
* * *
76787708 GAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTATTTTTCAATTTATGTTTTCAAAAA
249 GAGTTGAGCCTCAGGACATGCTGAGGTACTTTCAATTTCTATTTTT-AATGTATGTTTTCAAAAA
* *
76787773 TCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTT
313 TCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTT
* *
76787838 GTTAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
378 GTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
*
76787903 ATTACTGTTTGGCAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGA
443 ATTACTGTTTGGCAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
*
76787968 TATTTTCGATTTCTATTTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTT
508 TATTTTCGATTTCTGTTTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTT
76788033 GAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTTGTTAAAA
573 GAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTTGTTAAAA
76788079 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
76788144 TTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGACGTAT
66 TTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA-GTAT
*
76788209 TGTCAATTTTTGTGTTTTAATTTATTTTTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGC
130 TTTCAATTTTTGT-TTTTAA---A------AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGC
* * * *
76788274 CTCAAGTCACATTAAGGTATTTTTAATTTA-T-CATAAAAAAAATCAACTCATATTGCGAAAGGT
185 CTCAAGGCACACTAAGGTATTTTCAA-TTACTGCATAAAAAAAATCAACTCATACTGCGAAAGGT
** * * * * *
76788337 GAGTTGAGCCTTGGCTGACGTGTTGA-GTCACTTTCAATTTCTGTTTTT-ATGTCTGTTTTC-TA
249 GAGTTGAGCCTCAG--GACATGCTGAGGT-ACTTTCAATTTCTATTTTTAATGTATGTTTTCAAA
* * *
76788399 AATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGGGTACGCTGAGGTATTTTCAATTATTGT
311 AATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGT
* *
76788464 TTGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGTTGAGGTATTT
376 TTGT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTT
76788529 TCAATTACTGTTTGGCAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTG
440 TCAATTACTGTTTGGCAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTG
76788594 AGGTATTTTCGATTTCTGTTTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGA
505 AGGTATTTTCGATTTCTGTTTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGA
76788659 GTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTTGTTAAAA
570 GTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTTGTTAAAA
76788708 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
* *
76788773 TTTGTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAT
66 TTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG-TAT
* * * ** * *
76788837 TTTCAATTTCTGTTTTT--CAAAATTCAACTCATATTACTAGAGGTGAGTTGAGCCTCAGGGCAC
130 TTTCAATTTTTGTTTTTAAAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGGCAC
* * * ** ** *
76788900 GCTGAGGTATTGTCAATTTTTGTGTTTTAATTTATTTTTCAAAAATCAACTCATA-TCGCGAGAG
195 ACTAAGGTATTTTCAA--TTACTG-CATAA---A------AAAAATCAACTCATACT-GCGAAAG
* * * ***
76788964 GTGAGTTGAGCCTCAAGTCACAT--TGAGGTA---T---TTT-TA-ATTT-AT-CA---TCAAAA
247 GTGAGTTGAGCCTC-AG-GACATGCTGAGGTACTTTCAATTTCTATTTTTAATGTATGTTTTCAA
** * ** * **
76789014 AAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTTGGCTCACACGCTGGGGTATTTTCAATTCC
310 AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--GGCACGCTGAGGTATTTTCAATTAT
*
76789079 TGCTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
373 TG-TTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
76789143 TTTTCAATTA
437 TTTTCAATTA
76789153 ATATTTTTTC
Statistics
Matches: 1450, Mismatches: 175, Indels: 150
0.82 0.10 0.08
Matches are distributed among these distances:
611 7 0.00
612 88 0.06
613 3 0.00
614 12 0.01
615 3 0.00
616 86 0.06
617 70 0.05
618 26 0.02
619 9 0.01
620 64 0.04
621 9 0.01
622 71 0.05
623 142 0.10
624 109 0.08
625 69 0.05
626 14 0.01
627 12 0.01
628 173 0.12
629 399 0.28
630 57 0.04
631 27 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (618 bp):
AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
TTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGTATT
TTCAATTTTTGTTTTTAAAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGGCACA
CTAAGGTATTTTCAATTACTGCATAAAAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTC
AGGACATGCTGAGGTACTTTCAATTTCTATTTTTAATGTATGTTTTCAAAAATCAACTCATATTG
CGAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTGTTTGTAAAAAAAATCA
ACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGC
AAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTC
TGTTTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCA
CGCTGAGGTATTTTCAATTATTGTTTGTTAAAA
Found at i:76788596 original size:73 final size:74
Alignment explanation
Indices: 76788398--76789152 Score: 638
Period size: 76 Copynumber: 9.8 Consensus size: 74
76788388 TCTGTTTTCT
* * *
76788398 AAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGGGTACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACTG
76788463 TTTGTAAAAAA
66 TTTG--AAAAA
*
76788474 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGTTGAGGTATTTTCAATTACTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACTG
**
76788539 TTTG-GCAA
66 TTTGAAAAA
* * ** * * * *
76788547 AAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACTG
*
76788612 TTTTTCAATTTATGTTTTCAA
66 --TTTGAA---A-------AA
* * * * *
76788633 AAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACTG
*
76788698 TTTGTTAAAA
66 TTTG-AAAAA
* * * *
76788708 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTATTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACTG
76788773 TTTGTCAAAAA
66 TTTG--AAAAA
** * * *
76788784 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACTG
***
76788849 TTT-TTCAA
66 TTTGAAAAA
* * * ** * **
76788857 AATTCAACTCATATTACTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAA--TTAC
*
76788922 TGTTTTAATTTATTTTTCAA
64 TGTTTGAA---A------AA
* *** * ** *
76788942 AAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTATTTTTAATTTA-T
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAA-TTACT
** *
76789006 -CAT-CAAAA
65 GTTTGAAAAA
* ** * *
76789014 AAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTTGGCTCACACGCTGGGGTATTTTCAATTCC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG--GGCACGCTGAGGTATTTTCAATTAC
**
76789079 TGCTTTTCAAAA
64 TG-TTTGAAAAA
*
76789091 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTA
76789153 ATATTTTTTC
Statistics
Matches: 554, Mismatches: 92, Indels: 67
0.78 0.13 0.09
Matches are distributed among these distances:
72 35 0.06
73 115 0.21
74 16 0.03
75 97 0.18
76 131 0.24
77 41 0.07
78 1 0.00
81 1 0.00
82 2 0.00
83 1 0.00
84 6 0.01
85 52 0.09
86 56 0.10
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (74 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTCAATTACTG
TTTGAAAAA
Found at i:76789215 original size:88 final size:89
Alignment explanation
Indices: 76789068--76789302 Score: 284
Period size: 88 Copynumber: 2.6 Consensus size: 89
76789058 CGCTGGGGTA
**
76789068 TTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
*
76789133 C-G-CTGAGGTATTTTCAATTAATAT-T
65 CAGTC-GAGGTATTTTCAA--AATATGC
* *
76789158 TTTTCAATTTATGCTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
* *
76789222 ATGTCGGGGTATTTTCAAAATCTGC
66 A-GTCGAGGTATTTTCAAAATATGC
* * *
76789247 TTTTCAAATTAAG--TTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
76789303 TAGCTCACGT
Statistics
Matches: 128, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
87 4 0.03
88 47 0.37
89 46 0.36
90 30 0.23
91 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (89 bp):
TTTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
AGTCGAGGTATTTTCAAAATATGC
Found at i:76793687 original size:27 final size:27
Alignment explanation
Indices: 76793649--76793703 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
76793639 CATGTTTAGG
* *
76793649 AAACAAAAGAACTATACGAACGAGTCT
1 AAACAAAAGAACTACACAAACGAGTCT
76793676 AAACAAAAGAACTACACAAACGAGTCT
1 AAACAAAAGAACTACACAAACGAGTCT
76793703 A
1 A
76793704 TCACCGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.55, C:0.20, G:0.13, T:0.13
Consensus pattern (27 bp):
AAACAAAAGAACTACACAAACGAGTCT
Found at i:76795925 original size:19 final size:18
Alignment explanation
Indices: 76795881--76795954 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 18
76795871 TATTATTATT
76795881 TATTATATATTATTTTTCACA
1 TATTAT-TATTA-TTTT-ACA
*
76795902 AATTATTATTATTTTACA
1 TATTATTATTATTTTACA
* * *
76795920 TCATTATTTTTATATTATA
1 T-ATTATTATTATTTTACA
76795939 TATTTATTAATTATTT
1 TA-TTATT-ATTATTT
76795955 ATATATTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.09
19 24 0.56
20 10 0.23
21 5 0.12
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTATTATTTTACA
Found at i:76796229 original size:31 final size:32
Alignment explanation
Indices: 76796186--76796246 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
76796176 AATTATTAAT
*
76796186 TATTTATTTATTATGTATTTTTTTA-AAATGA
1 TATTTATTTATTATGTATTATTTTATAAATGA
*
76796217 TATTT-TTATATTATGTGTTATTTTATAAAT
1 TATTTATT-TATTATGTATTATTTTATAAAT
76796247 TCTTTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 20 0.77
32 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (32 bp):
TATTTATTTATTATGTATTATTTTATAAATGA
Found at i:76796362 original size:28 final size:27
Alignment explanation
Indices: 76796331--76796396 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
76796321 AATATTTTGT
*
76796331 TATTATGTTTTATATATTATATAGCAAA
1 TATTATGTTTTATAGATTAT-TAGCAAA
**
76796359 TATTA--TTTTA-AGATTATTATTAAA
1 TATTATGTTTTATAGATTATTAGCAAA
76796383 TATTATGTCTTTAT
1 TATTATGT-TTTAT
76796397 TTGTGTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 10 0.32
25 6 0.19
26 6 0.19
27 4 0.13
28 5 0.16
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (27 bp):
TATTATGTTTTATAGATTATTAGCAAA
Found at i:76800652 original size:13 final size:15
Alignment explanation
Indices: 76800618--76800651 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
76800608 ATGTCGTGCA
76800618 AATAAACATAGAAAAT
1 AATAAACATA-AAAAT
76800634 AATAAACATAAAATAT
1 AATAAACATAAAA-AT
76800650 AA
1 AA
76800652 AATTACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAACATAAAAAT
Found at i:76801148 original size:17 final size:17
Alignment explanation
Indices: 76801137--76801309 Score: 130
Period size: 17 Copynumber: 10.0 Consensus size: 17
76801127 AAAATTATAC
76801137 ATAATAATAAATAATAA
1 ATAATAATAAATAATAA
* *
76801154 ATAATAATATATAATAT
1 ATAATAATAAATAATAA
76801171 ATAAT-A-AAATAA-AA
1 ATAATAATAAATAATAA
76801185 ATAAT-AT-AATGAATAA
1 ATAATAATAAAT-AATAA
*
76801201 TATATATAATAAAATGATATA
1 -ATA-ATAAT-AAATAATA-A
76801222 ATATATAATAAAATATATAA
1 ATA-ATAAT-AAATA-ATAA
*
76801242 ATAA-AATATATAATAA
1 ATAATAATAAATAATAA
76801258 A-ATATAAATAATATAATAA
1 ATA-AT-AATAA-ATAATAA
76801277 ATAATACATAAATAA-AA
1 ATAATA-ATAAATAATAA
*
76801294 ATAAT-ATATATAATAA
1 ATAATAATAAATAATAA
76801310 TTTTTTACAT
Statistics
Matches: 130, Mismatches: 9, Indels: 35
0.75 0.05 0.20
Matches are distributed among these distances:
14 10 0.08
15 15 0.12
16 11 0.08
17 34 0.26
18 14 0.11
19 17 0.13
20 22 0.17
21 7 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (17 bp):
ATAATAATAAATAATAA
Found at i:76801151 original size:7 final size:7
Alignment explanation
Indices: 76801139--76801309 Score: 89
Period size: 7 Copynumber: 22.1 Consensus size: 7
76801129 AATTATACAT
76801139 AATAATA
1 AATAATA
76801146 AATAATA
1 AATAATA
76801153 AATAATAA
1 AATAAT-A
76801161 TATATAATA
1 -A-ATAATA
*
76801170 TATAATAA
1 AATAAT-A
76801178 AATAA-A
1 AATAATA
76801184 AATAATA
1 AATAATA
76801191 TAATGAATA
1 -AAT-AATA
76801200 ATATATATA
1 A-ATA-ATA
*
76801209 ATAAAATGA
1 A-ATAAT-A
*
76801218 TATAATA
1 AATAATA
*
76801225 TATAATAA
1 AATAAT-A
76801233 AATATATA
1 AATA-ATA
76801241 AATAAAATA
1 AAT--AATA
*
76801250 TATAATA
1 AATAATA
76801257 AA-ATATA
1 AATA-ATA
76801264 AATAATA
1 AATAATA
76801271 TAATAA-A
1 -AATAATA
76801278 TAATACATA
1 -AATA-ATA
76801287 AATAA-A
1 AATAATA
76801293 AATAATA
1 AATAATA
76801300 TATATAATA
1 -A-ATAATA
76801309 A
1 A
76801310 TTTTTTACAT
Statistics
Matches: 134, Mismatches: 8, Indels: 43
0.72 0.04 0.23
Matches are distributed among these distances:
6 13 0.10
7 47 0.35
8 38 0.28
9 30 0.22
10 6 0.04
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:76801194 original size:50 final size:51
Alignment explanation
Indices: 76801137--76801310 Score: 191
Period size: 55 Copynumber: 3.3 Consensus size: 51
76801127 AAAATTATAC
76801137 ATAATA-ATA-AATAATAA-ATAATAATATATAATATATAATAAAATAAAA
1 ATAATATATATAATAATAATATAATAATATATAATATATAATAAAATAAAA
76801185 ATAATATA-ATGAATAATATATATAATAAAATGATATAATATATAATAAAATATATAA
1 ATAATATATAT-AATAATA-ATATAAT--AAT-ATATAATATATAATAAAATA-A-AA
*
76801242 ATAAAATATATAATAA-AATATAAATAATATAATAA-ATAATACAT-AAATAAAA
1 ATAATATATATAATAATAATAT-AATAATAT-ATAATAT-ATA-ATAAAATAAAA
76801294 ATAATATATATAATAAT
1 ATAATATATATAATAAT
76801311 TTTTTACATA
Statistics
Matches: 108, Mismatches: 2, Indels: 27
0.79 0.01 0.20
Matches are distributed among these distances:
48 7 0.06
49 1 0.01
50 7 0.06
51 1 0.01
52 22 0.20
53 5 0.05
54 18 0.17
55 26 0.24
56 5 0.05
57 14 0.13
58 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.33
Consensus pattern (51 bp):
ATAATATATATAATAATAATATAATAATATATAATATATAATAAAATAAAA
Found at i:76801199 original size:12 final size:11
Alignment explanation
Indices: 76801140--76801310 Score: 119
Period size: 10 Copynumber: 16.7 Consensus size: 11
76801130 ATTATACATA
76801140 ATAATAAATAAT
1 ATAAT-AATAAT
76801152 A-AATAATAAT
1 ATAATAATAAT
76801162 AT-ATAAT-AT
1 ATAATAATAAT
76801171 ATAATAA-AAT
1 ATAATAATAAT
76801181 A-AA-AATAAT
1 ATAATAATAAT
76801190 ATAATGAATAAT
1 ATAAT-AATAAT
*
76801202 ATATATAATAAA
1 ATA-ATAATAAT
*
76801214 ATGAT-ATAAT
1 ATAATAATAAT
*
76801224 AT-ATAATAAA
1 ATAATAATAAT
76801234 AT-AT-ATAA-
1 ATAATAATAAT
76801242 ATAA-AAT-AT
1 ATAATAATAAT
76801251 ATAATAA-AAT
1 ATAATAATAAT
76801261 AT-A-AATAAT
1 ATAATAATAAT
76801270 ATAATAAATAAT
1 ATAAT-AATAAT
*
76801282 A-CATAAATAA-
1 ATAAT-AATAAT
76801292 A-AATAATATAT
1 ATAATAATA-AT
76801303 ATAATAAT
1 ATAATAAT
76801311 TTTTTACATA
Statistics
Matches: 132, Mismatches: 6, Indels: 42
0.73 0.03 0.23
Matches are distributed among these distances:
8 7 0.05
9 33 0.25
10 46 0.35
11 14 0.11
12 30 0.23
13 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:76801310 original size:80 final size:79
Alignment explanation
Indices: 76801137--76801310 Score: 232
Period size: 80 Copynumber: 2.2 Consensus size: 79
76801127 AAAATTATAC
* *
76801137 ATAATA-ATA-AATAATAAATAATAATATATAATATATAATAAAATAAAAATAATATAATGAATA
1 ATAATATATATAATAATAAATAATAATATAAAATATATAATAAAATAAAAATAATATAATAAATA
*
76801200 ATATATATAATAAA
66 ATACATATAATAAA
* *
76801214 ATGATATA-ATATATAATAAAATATATAA-ATAAAATATATAATAAAATATAAATAATATAATAA
1 ATAATATATATA-ATAAT-AAATA-ATAATATAAAATATATAATAAAATAAAAATAATATAATAA
76801277 ATAATACATA-AATAAAA
63 ATAATACATATAAT-AAA
76801294 ATAATATATATAATAAT
1 ATAATATATATAATAAT
76801311 TTTTTACATA
Statistics
Matches: 84, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
77 6 0.07
78 2 0.02
79 8 0.10
80 61 0.73
81 7 0.08
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.33
Consensus pattern (79 bp):
ATAATATATATAATAATAAATAATAATATAAAATATATAATAAAATAAAAATAATATAATAAATA
ATACATATAATAAA
Found at i:76801335 original size:19 final size:21
Alignment explanation
Indices: 76801297--76801335 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
76801287 AATAAAAATA
*
76801297 ATATATATAATAATTTTTTAC
1 ATATATATAATAATTGTTTAC
76801318 ATATATA-AATAA-TGTTTA
1 ATATATATAATAATTGTTTA
76801336 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATATAATAATTGTTTAC
Found at i:76801375 original size:29 final size:29
Alignment explanation
Indices: 76801342--76801398 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
76801332 TTTATAGTAA
* *
76801342 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAAATTAAAAT
*
76801371 AAATAAATTATATATAAAAAAATTAAAA
1 AAATAAATAATATATAAAAAAATTAAAA
76801399 AGGATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAAATTAAAAT
Found at i:76802961 original size:90 final size:90
Alignment explanation
Indices: 76802805--76803470 Score: 960
Period size: 90 Copynumber: 7.4 Consensus size: 90
76802795 TAATATCCTT
* * *
76802805 GATCTACTCGCCGTCAAATACAGAGACGCCAAATCTG-CTATCTTCGATCTGCTTCGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAAC
*
76802869 ACACAAATGTCAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * * *
76802895 GACCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTTGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
76802960 CACAAATGTCAGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * * * *
76802985 GATCTGCTTCCCATCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTCAATGCAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
76803050 CACGAGTGTCAGATCTGCTATCTTT
66 CACGAATGTCAGATCTGCTATCTTC
* * * *
76803075 GATCTGCTCCCCATCTAATACAGAGACGTCAAATCTGTCATCTTCAATCTGTTTC-ATTGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGA-TGTAAAC
76803139 ACACGAATGTCAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
** * *
76803165 GATCTGCTCCCCGTCTAATGTAGAGACGCCAAATCTATCATCTTCGATCTGCTTCAATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
76803230 CACGAATGTCAGATCTGCTATCTTT
66 CACGAATGTCAGATCTGCTATCTTC
* * *
76803255 GATCTGCTCCCCGTCTAATACAGAAACACCAAATCTTTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
76803320 CACGAATGTCAGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * *
76803345 GATCTGCTCCCTGTCTAATACAGAAACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* * *
76803410 CACTAATGTCTA-ATATGCTATCTTT
66 CACGAATGTC-AGATCTGCTATCTTC
* *
76803435 GATCTGCTCCCCGTTTAATACAGAAACGCCAAATCT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
76803471 ACTTCTTCGA
Statistics
Matches: 525, Mismatches: 47, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
89 1 0.00
90 521 0.99
91 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCTTC
Found at i:76815018 original size:13 final size:15
Alignment explanation
Indices: 76814984--76815017 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
76814974 ATGTCGTGCA
76814984 AATAAACATAGAAAAT
1 AATAAACATA-AAAAT
76815000 AATAAACATAAAATAT
1 AATAAACATAAAA-AT
76815016 AA
1 AA
76815018 AATTACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAACATAAAAAT
Done.