Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015381.1 Kokia drynarioides strain JFW-HI SEQ_130428, whole genome shotgun sequence
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: 2291099
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Warning! 587 characters in sequence are not A, C, G, or T
File 4 of 8
Found at i:897568 original size:59 final size:58
Alignment explanation
Indices: 897476--897977 Score: 491
Period size: 59 Copynumber: 8.5 Consensus size: 58
897466 CCCAAAAGGT
* *
897476 CCCT-AACTTTATAAAAATTACATTTTGACCCCTAAACTTTCCAAAAATCACATTTTAA
1 CCCTAAACTTTCT-AAAATTACATTTTAACCCCTAAACTTTCCAAAAATCACATTTTAA
* * * **
897534 CCCCTAAACTTTCCAAAACTACATTTTAACCCCTAAATTTTCTTAAAATCACATTTT--
1 -CCCTAAACTTTCTAAAATTACATTTTAACCCCTAAACTTTCCAAAAATCACATTTTAA
* * * *
897591 CCCT-TACTTT-TAAAAAATTTCATTTTGATCCC-AAACTTTCCAAAAATCACATTTTAA
1 CCCTAAACTTTCT--AAAATTACATTTTAACCCCTAAACTTTCCAAAAATCACATTTTAA
* *
897648 CACCTAAACTTTTCTAAAATTAAAATTTAACCCCTAAACTTTCCAAAAATCACATTTTAA
1 C-CCTAAAC-TTTCTAAAATTACATTTTAACCCCTAAACTTTCCAAAAATCACATTTTAA
* * * * * *
897708 CCCTAAATTTTTCTAAAATTAAATTTTAACCACTAAACTTTTCAAAAATTACATTTAAAA
1 CCCTAAA-CTTTCTAAAATTACATTTTAACCCCTAAACTTTCCAAAAATCACATTT-TAA
* * *
897768 CCCTAAACTTCTCCAAAATTACATTTTAATCCCTAAACTTTTCC-AAAATTACATTTTAA
1 CCCTAAACTT-TCTAAAATTACATTTTAACCCCTAAAC-TTTCCAAAAATCACATTTTAA
* * * * *
897827 CCATCAAGCTTTTCTAAAATTACATTTTAATCCCT-AACTTCTCC-AAAATTACGTTTTAA
1 CCCT-AAAC-TTTCTAAAATTACATTTTAACCCCTAAACTT-TCCAAAAATCACATTTTAA
* * * **
897886 CCCTTAAACTTCTCTAAAATCACATTTTAACCCTTAAACCTTCTTAAAATCACATTTTAA
1 CCC-TAAACTT-TCTAAAATTACATTTTAACCCCTAAACTTTCCAAAAATCACATTTTAA
* *
897946 CCCTAAACCTTCTCAAAATCACATTTTAACCC
1 CCCTAAACTTTCT-AAAATTACATTTTAACCC
897978 AAAATTTCTG
Statistics
Matches: 372, Mismatches: 49, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
55 25 0.07
56 19 0.05
57 1 0.00
58 10 0.03
59 185 0.50
60 125 0.34
61 7 0.02
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (58 bp):
CCCTAAACTTTCTAAAATTACATTTTAACCCCTAAACTTTCCAAAAATCACATTTTAA
Found at i:902154 original size:191 final size:191
Alignment explanation
Indices: 901830--902212 Score: 766
Period size: 191 Copynumber: 2.0 Consensus size: 191
901820 TAGATTTTGC
901830 TTTCTGAATTTGACATAGTCTATGTCAATCAAAGGGTAGTAAAAAGGAGTGCGATAGTAGACTTC
1 TTTCTGAATTTGACATAGTCTATGTCAATCAAAGGGTAGTAAAAAGGAGTGCGATAGTAGACTTC
901895 TTAGCTAGCAGGGCCTTAGAGGAGCCAATGAACTTTGACTTCCCAAATGAGGTTTTAATGTATGT
66 TTAGCTAGCAGGGCCTTAGAGGAGCCAATGAACTTTGACTTCCCAAATGAGGTTTTAATGTATGT
901960 TGCAACCACTAAAGAGGGAACCACAGTAGAACATCCTTGGAGATTAAATTTTGATGGAGCT
131 TGCAACCACTAAAGAGGGAACCACAGTAGAACATCCTTGGAGATTAAATTTTGATGGAGCT
902021 TTTCTGAATTTGACATAGTCTATGTCAATCAAAGGGTAGTAAAAAGGAGTGCGATAGTAGACTTC
1 TTTCTGAATTTGACATAGTCTATGTCAATCAAAGGGTAGTAAAAAGGAGTGCGATAGTAGACTTC
902086 TTAGCTAGCAGGGCCTTAGAGGAGCCAATGAACTTTGACTTCCCAAATGAGGTTTTAATGTATGT
66 TTAGCTAGCAGGGCCTTAGAGGAGCCAATGAACTTTGACTTCCCAAATGAGGTTTTAATGTATGT
902151 TGCAACCACTAAAGAGGGAACCACAGTAGAACATCCTTGGAGATTAAATTTTGATGGAGCT
131 TGCAACCACTAAAGAGGGAACCACAGTAGAACATCCTTGGAGATTAAATTTTGATGGAGCT
902212 T
1 T
902213 CAAATGCCAC
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 192 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (191 bp):
TTTCTGAATTTGACATAGTCTATGTCAATCAAAGGGTAGTAAAAAGGAGTGCGATAGTAGACTTC
TTAGCTAGCAGGGCCTTAGAGGAGCCAATGAACTTTGACTTCCCAAATGAGGTTTTAATGTATGT
TGCAACCACTAAAGAGGGAACCACAGTAGAACATCCTTGGAGATTAAATTTTGATGGAGCT
Found at i:905260 original size:209 final size:208
Alignment explanation
Indices: 904897--905620 Score: 1022
Period size: 209 Copynumber: 3.5 Consensus size: 208
904887 TCAGGGGGAA
* *
904897 GAGTGAAACTTCAAACCACATCTTCCTAATGAGATACTGAGAAGTGGGTCAAAGTAATAAAGCGG
1 GAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAA-TAATAAAGCGG
* * *
904962 TCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGT
65 TCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAAATACAAAGAAGT
* * *
905027 GGATTAAAACAAGTGATACGATCATCCTCCTGATAAGGTATAGAGAAGTAGACCAATTCAACGAA
130 GGATTAAAACAAGTGATGCGATCATCTTCCTGATGAGGTATAGAGAAGTAGACCAATTCAACGAA
* *
905092 GTGAAGCTAAATAT
195 GTGAAGCTCAATGT
* * * * *
905106 GAGTGAATCTTTAAAACTCATCTTCTTGATGAGATACTGAGAAGTGGGTCAAAGTAATAAAGCGG
1 GAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAA-TAATAAAGCGG
* * *
905171 TCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAAATATAAAGAAGT
65 TCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAAATACAAAGAAGT
* * *
905236 GGATTAAAACAAGTCATGCGATCATCTTCCTAATGAGGTATAGAGAAGTAGACCAATTCAATGAA
130 GGATTAAAACAAGTGATGCGATCATCTTCCTGATGAGGTATAGAGAAGTAGACCAATTCAACGAA
905301 GTGAAGCTCAATGT
195 GTGAAGCTCAATGT
* * *
905315 GAGTGAAACTTCAAACCCCATCTTCCCGATGAGATACTAAGAACTGGGTCAAATCAATAAAGCGG
1 GAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAT-AATAAAGCGG
* * *
905380 TCATCTTCTTGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGGT-AAGATACAAAGAAG
65 TCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAA-ATACAAAGAAG
* * *
905444 TGGACTAAAA-AAGTGATGCGGTCATCTTCTTGATGAGGTATAGAGAAGTAGACCAATTCAACGA
129 TGGATTAAAACAAGTGATGCGATCATCTTCCTGATGAGGTATAGAGAAGTAGACCAATTCAACGA
*
905508 ATTGAAGCTCAATGT
194 AGTGAAGCTCAATGT
* * * *
905523 GAGTGAAATTTCAAACCCCATCTTTCTGATGAGATA-TAGAGTAGTGGGTCGAAACAATAAAGCG
1 GAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACT-GAGAAGTGGGTC-AAATAATAAAGCG
* * * *
905587 ATCGTCTTCCTGATGAGATAAAGAGAAGTAGACC
64 GTCATCTTCCTGATGAGATATAGAGAAGTGGACC
905621 GAGAGATGAA
Statistics
Matches: 458, Mismatches: 53, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
207 1 0.00
208 146 0.32
209 311 0.68
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (208 bp):
GAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAATAATAAAGCGGT
CATCTTCCTGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCCTGATGAAATACAAAGAAGTG
GATTAAAACAAGTGATGCGATCATCTTCCTGATGAGGTATAGAGAAGTAGACCAATTCAACGAAG
TGAAGCTCAATGT
Found at i:906838 original size:21 final size:21
Alignment explanation
Indices: 906813--906853 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
906803 AGATCTAAGG
906813 TTTTAAAAAAAAAAAAATGAT
1 TTTTAAAAAAAAAAAAATGAT
* *
906834 TTTTAAAGAAAAGAAAATGA
1 TTTTAAAAAAAAAAAAATGA
906854 AAAAACTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (21 bp):
TTTTAAAAAAAAAAAAATGAT
Found at i:907031 original size:29 final size:29
Alignment explanation
Indices: 906897--907110 Score: 218
Period size: 30 Copynumber: 7.2 Consensus size: 29
906887 CAAACCTCTT
* * *
906897 TTTTAACCTCCAAACATCTCTAAAATTACA
1 TTTTAACC-CCAAACTTCTCCAAAATCACA
* *
906927 TTTTAACCCCTAAACTTCTCTAAAATTACA
1 TTTTAACCCC-AAACTTCTCCAAAATCACA
906957 TTTTAACTCCCTAAACTTCTCCAAAATCACA
1 TTTTAAC-CCC-AAACTTCTCCAAAATCACA
*
906988 TTTTAACCCTCAAACCTTCT-TAAAATCACA
1 TTTTAACCC-CAAA-CTTCTCCAAAATCACA
*
907018 TTTTAACCCCAAACATTCT-CAAAATTACA
1 TTTTAACCCCAAAC-TTCTCCAAAATCACA
* * *
907047 TTTTGACTCGAAACTTCTCCAAAATCACA
1 TTTTAACCCCAAACTTCTCCAAAATCACA
**
907076 TTTTTAACCATAAACTT-TCCCAAAATCACA
1 -TTTTAACCCCAAACTTCT-CCAAAATCACA
907106 TTTTA
1 TTTTA
907111 CCCTGAATTC
Statistics
Matches: 162, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.03
29 44 0.27
30 79 0.49
31 34 0.21
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (29 bp):
TTTTAACCCCAAACTTCTCCAAAATCACA
Found at i:907081 original size:59 final size:58
Alignment explanation
Indices: 906897--907110 Score: 220
Period size: 59 Copynumber: 3.6 Consensus size: 58
906887 CAAACCTCTT
* * *
906897 TTTTAACCTCCAAACA-TCTCTAAAATTACATTTTAACCCCTAAACTTCTCTAAAATTACA
1 TTTTAACC-CCAAACATTCTC-AAAATCACATTTTAACCTC-AAACTTCTCTAAAATCACA
906957 TTTTAACTCCCTAAAC-TTCTCCAAAATCACATTTTAACCCTCAAACCTTCT-TAAAATCACA
1 TTTTAAC-CCC-AAACATTCT-CAAAATCACATTTTAA-CCTCAAA-CTTCTCTAAAATCACA
* * *
907018 TTTTAACCCCAAACATTCTCAAAATTACATTTTGA-CTCGAAACTTCTCCAAAATCACA
1 TTTTAACCCCAAACATTCTCAAAATCACATTTTAACCTC-AAACTTCTCTAAAATCACA
** * *
907076 TTTTTAACCATAAACTTTCCCAAAATCACATTTTA
1 -TTTTAACCCCAAACATTCTCAAAATCACATTTTA
907111 CCCTGAATTC
Statistics
Matches: 132, Mismatches: 12, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
57 8 0.06
58 12 0.09
59 46 0.35
60 16 0.12
61 41 0.31
62 9 0.07
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (58 bp):
TTTTAACCCCAAACATTCTCAAAATCACATTTTAACCTCAAACTTCTCTAAAATCACA
Found at i:910506 original size:23 final size:23
Alignment explanation
Indices: 910476--910529 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
910466 ATTACGAAGA
* *
910476 AAGAAGGGTTTATTGATGGGGTT
1 AAGAAGGGTCTATGGATGGGGTT
910499 AAGAAGGGTCTATGGATGGGGTT
1 AAGAAGGGTCTATGGATGGGGTT
910522 AAGCAAGG
1 AAG-AAGG
910530 AAGAGATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.30, C:0.04, G:0.41, T:0.26
Consensus pattern (23 bp):
AAGAAGGGTCTATGGATGGGGTT
Found at i:913164 original size:13 final size:14
Alignment explanation
Indices: 913146--913175 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
913136 TCACTCATTC
913146 TCTCTCAATTT-TT
1 TCTCTCAATTTCTT
913159 TCTCTCAATTTCTT
1 TCTCTCAATTTCTT
913173 TCT
1 TCT
913176 AAAGCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (14 bp):
TCTCTCAATTTCTT
Found at i:913375 original size:23 final size:24
Alignment explanation
Indices: 913330--913376 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
913320 TCATTTTAAT
* *
913330 TTTTTATATTATTTATTTTATTTTA
1 TTTTTATA-TATTTAATTAATTTTA
913355 TTTTTATA-ATTTAATTAATTTT
1 TTTTTATATATTTAATTAATTTT
913377 TTAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTATATATTTAATTAATTTTA
Found at i:914186 original size:43 final size:43
Alignment explanation
Indices: 914138--914226 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
914128 TAAAGAAGGG
* * * *
914138 TTAGCACCCTTACACGCCCAAAAATTGGTACTTAGTCGATTAT
1 TTAGCACCCTCACACGCCCAAAAATTAGTACCTAGTCAATTAT
* *
914181 TTAGCACCCTCACATGCCTAAAAATTAGTACCTAGTCAATTAT
1 TTAGCACCCTCACACGCCCAAAAATTAGTACCTAGTCAATTAT
914224 TTA
1 TTA
914227 TTGTCTTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (43 bp):
TTAGCACCCTCACACGCCCAAAAATTAGTACCTAGTCAATTAT
Found at i:916916 original size:49 final size:49
Alignment explanation
Indices: 916863--917437 Score: 496
Period size: 49 Copynumber: 11.7 Consensus size: 49
916853 TCAACTTTAG
* * * *
916863 GGTATAAGATTCACTGTTGCGGCTTCAATCTTTTCTATCACATCTCTAA
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
* ** * **
916912 GGTATAAGGTTCGCCGTTGCAACTTCAA-CTTTTCCC-TCCATATCTCTGT
1 GGTATAAGATTCGCCGTTGCGGCTTCAATC-TTTCCCAT-CACATCTCTAA
* * * *
916961 GGTACAAGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATTTCTAA
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
* * * * *
917010 GGTATAAGGTTCGCCGTTGCTGCTTC-ATCCTTTCCC-TCAATATCTCCAT
1 GGTATAAGATTCGCCGTTGCGGCTTCAAT-CTTTCCCATC-ACATCTCTAA
* * **
917059 GGTACAAGATTCGCCATTGCAACTTCAATCTTTCCCATCACATCTCTAA
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
* * * * * * * *
917108 GGTATAAGGTTCACCGTTGTGGCTTCAACCTTTCCCTTCATATCTCCAT
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
* * * * *
917157 GGTACAAGATTCGCCGTTGCAGCTTCAATCTTTCCTATTAAATCTCTAA
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
* * * *
917206 GGTATAAGGTTCGCCGTTGCGGCTTCAACCTTTCCC-TCCATATCTCTAT
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCAT-CACATCTCTAA
* * * *
917255 GGTATAAGATTCACCGTTGTGGCTTCAATCTTTCCCATTACATCACTAA
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
* * * * * * *
917304 GGTATAAGGTTCGCCGTTACAGCTTCAACCTTTCCC-TCCATATCTCCAT
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCAT-CACATCTCTAA
* * ** * * *
917353 GGTACAATATTTTCCATTACGGCTTCAATCTTTTCCATCACATCTCTAA
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
* * * *
917402 GGTAAAAGTTTCGCCATTGTGGCTTCAATCTTTCCC
1 GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCC
917438 TTTATAATTT
Statistics
Matches: 406, Mismatches: 108, Indels: 24
0.75 0.20 0.04
Matches are distributed among these distances:
48 8 0.02
49 390 0.96
50 8 0.02
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (49 bp):
GGTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAA
Found at i:916982 original size:98 final size:98
Alignment explanation
Indices: 916863--917438 Score: 738
Period size: 98 Copynumber: 5.9 Consensus size: 98
916853 TCAACTTTAG
* * * * *
916863 GGTATAAGATTCACTGTTGCGGCTTCAATCTTTTCTATCACATCTCTAAGGTATAAGGTTCGCCG
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * **
916928 TTGCAACTTCAACTTTTCCCTCCATATCTCTGT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* * *
916961 GGTACAAGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATTTCTAAGGTATAAGGTTCGCCG
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * *
917026 TTGCTGCTTCATCCTTTCCCTCAATATCTCCAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* ** *
917059 GGTACAAGATTCGCCATTGCAACTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCG
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
** *
917124 TTGTGGCTTCAACCTTTCCCTTCATATCTCCAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* * * *
917157 GGTACAAGATTCGCCGTTGCAGCTTCAATCTTTCCTATTAAATCTCTAAGGTATAAGGTTCGCCG
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* *
917222 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* * * * *
917255 GGTATAAGATTCACCGTTGTGGCTTCAATCTTTCCCATTACATCACTAAGGTATAAGGTTCGCCG
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
*
917320 TTACAGCTTCAACCTTTCCCTCCATATCTCCAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* ** * * * * * *
917353 GGTACAATATTTTCCATTACGGCTTCAATCTTTTCCATCACATCTCTAAGGTAAAAGTTTCGCCA
1 GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
** *
917418 TTGTGGCTTCAATCTTTCCCT
66 TTGCAGCTTCAACCTTTCCCT
917439 TTATAATTTG
Statistics
Matches: 415, Mismatches: 63, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
98 415 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (98 bp):
GGTACAAGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
Found at i:918499 original size:29 final size:29
Alignment explanation
Indices: 918453--918523 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
918443 AATAGGTCCA
* * * *
918453 AAAATGAAGATTTTGAGAATTTTGAGGGCC
1 AAAATGTA-ATTTCGAGAAGTTTAAGGGCC
*
918483 AAAATGTAATTTCGAGAAGTTTAAGGGTC
1 AAAATGTAATTTCGAGAAGTTTAAGGGCC
918512 AAAATGTAATTT
1 AAAATGTAATTT
918524 TAGGGGTCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 29 0.81
30 7 0.19
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (29 bp):
AAAATGTAATTTCGAGAAGTTTAAGGGCC
Found at i:920613 original size:208 final size:208
Alignment explanation
Indices: 920233--921059 Score: 1109
Period size: 208 Copynumber: 4.0 Consensus size: 208
920223 CTTCATTTCA
* * * * * *
920233 TGGTCTACCTCTCTGTATCTCATCATGAAGATGACCGCTTTATTACTTCGACCCACTTCTTTGTA
1 TGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTTTGTA
* * * * **
920298 TCTCATCAGGAAGATAGGGGTTTGACGTCTCATTCGTATTGAGCTTCGCTTTATTGACTTCATCT
66 TCTCATCAGAAAGAT-GGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCT
* * * *
920363 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCTTTGATTTAATCCAGTTCCCTGTATCTCAT
130 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
920428 CAGGAAGACAAGTT
195 CAGGAAGACAAGTT
* * * ** * *
920442 TGGTCTACTTCTCTGTATTTTATTAGGAAGATGACAACTTTATTGTTTTGACCCACTTCTTTGCA
1 TGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTTTGTA
* * * *
920507 TCTCATTAGGAAGATGGGGTTTGAAGTCTCATTCGAATTGAGCTTCGCTTCATTAATTTGGTCTA
66 TCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTA
* ** *
920572 CTTCTCTGTATATCATCAAGAAGATGACCATTTCATTGATTTAATCCACTTCTTTGTATCTCATC
131 CTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATC
*
920637 AGGAAGGCGAA-TT
196 AGGAAGAC-AAGTT
* * *
920650 TGGTCCACTTCTCTATATCTCATTAGGAAGATGACCGCTTTATTGTTTTGACCTACTTCTTTGTA
1 TGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTTTGTA
* *
920715 TCTCATTAGAAAGATGGGGTTTGAAGTCTCATTCTTATTGAGCTTCGCTTCATTGATTTGGTCTA
66 TCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTA
* * * * * * * *
920780 ATTTTCTATATCTTATTAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTCTGTATTTCATC
131 CTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATC
* *
920845 AAGAAGGC-AGATT
196 AGGAAGACAAG-TT
* *
920858 TGGTCCACTTCTCTGTATCTCATTAGGAAGATTACTGCTTTATTGCTTTGACCCACTTCTTTGTA
1 TGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTTTGTA
920923 TCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTA
66 TCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTA
* * * * * * *
920988 CTTCTTTGTATCTCATCAAGAAGATGACCTCTTTATTGCTTTGACCCACTTCTTTGTATCTCATC
131 CTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATC
921053 AGGAAGA
196 AGGAAGA
921060 TGGGGTTTGT
Statistics
Matches: 538, Mismatches: 77, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
206 1 0.00
208 467 0.87
209 70 0.13
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (208 bp):
TGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTGCTTTGACCCACTTCTTTGTA
TCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTA
CTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCATC
AGGAAGACAAGTT
Found at i:920708 original size:85 final size:85
Alignment explanation
Indices: 920561--920720 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
920551 TCGCTTCATT
* *
920561 AATTTGGTCTACTTCTCTGTATATCATCAAGAAGATGACCATTTCATTGATTTAATCCACTTCTT
1 AATTTGGTCCACTTCTCTATATATCATCAAGAAGATGACCATTTCATTGATTTAATCCACTTCTT
920626 TGTATCTCATCAGGAAGGCG
66 TGTATCTCATCAGGAAGGCG
* * * * * *
920646 AATTTGGTCCACTTCTCTATATCTCATTAGGAAGATGACCGCTTT-ATTGTTTTGA-CCTACTTC
1 AATTTGGTCCACTTCTCTATATATCATCAAGAAGATGACC-ATTTCATTGATTTAATCC-ACTTC
920709 TTTGTATCTCAT
64 TTTGTATCTCAT
920721 TAGAAAGATG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
84 2 0.03
85 60 0.92
86 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (85 bp):
AATTTGGTCCACTTCTCTATATATCATCAAGAAGATGACCATTTCATTGATTTAATCCACTTCTT
TGTATCTCATCAGGAAGGCG
Found at i:920915 original size:85 final size:85
Alignment explanation
Indices: 920769--920930 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 85
920759 TCGCTTCATT
* * * *
920769 GATTTGGTCTAATTTTCTATATCTTATTAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTC
1 GATTTGGTCCAATTCTCTATATCTCATTAGGAAGATGATCGCTTCATTGATTTAACCCACTTCTC
*
920834 TGTATTTCATCAAGAAGGCA
66 TGTATCTCATCAAGAAGGCA
* * * * * *
920854 GATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATTA-CTGCTTTATTGCTTTGACCCACTTCT
1 GATTTGGTCCAATTCTCTATATCTCATTAGGAAGATGATC-GCTTCATTGATTTAACCCACTTCT
*
920918 TTGTATCTCATCA
65 CTGTATCTCATCA
920931 GAAAGATGGG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 1 0.02
85 63 0.98
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (85 bp):
GATTTGGTCCAATTCTCTATATCTCATTAGGAAGATGATCGCTTCATTGATTTAACCCACTTCTC
TGTATCTCATCAAGAAGGCA
Found at i:921129 original size:120 final size:121
Alignment explanation
Indices: 920854--921300 Score: 587
Period size: 122 Copynumber: 3.7 Consensus size: 121
920844 CAAGAAGGCA
* * * * * * *
920854 GATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATTACTGCTTTATTGCTTTGACCCACTTCTT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTTAACCCACTTCTT
*
920919 TGTATCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATT
66 TGTATCTCATCAGGAAGATGGGGTTT--AGTCTCATTCGTATTGAGCTTCGCTTCATT
* * * *
920977 GATTTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCT-CTTTATTGCTTTGACCCACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGA-CTGCTTCATTGATTTAACCCACTTCT
*
921041 TTGTATCTCATCAGGAAGATGGGGTTT-GTCTTATTCGTATTGAGCTTCGCTTCATT
65 TTGTATCTCATCAGGAAGATGGGGTTTAGTCTCATTCGTATTGAGCTTCGCTTCATT
*** *
921097 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCATTTCATTGATTTAAACCACTTCTT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTTAACCCACTTCTT
* ** *
921162 TGTATCTCATGAGGAAG--GCGAATTTGACGTCTCATTCGTATTGAGCTTCACTTCATT
66 TGTATCTCATCAGGAAGATG-GGGTTT-A-GTCTCATTCGTATTGAGCTTCGCTTCATT
* * * *
921219 GATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACTGCTTCATTGATTTAATCCACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTTAACCCACTTCTT
921284 TGTATCTCATCAGGAAG
66 TGTATCTCATCAGGAAG
921301 GCAAATTTGG
Statistics
Matches: 291, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
118 1 0.00
119 5 0.02
120 100 0.34
122 101 0.35
123 82 0.28
124 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (121 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTTAACCCACTTCTT
TGTATCTCATCAGGAAGATGGGGTTTAGTCTCATTCGTATTGAGCTTCGCTTCATT
Found at i:921243 original size:122 final size:120
Alignment explanation
Indices: 920854--921300 Score: 553
Period size: 120 Copynumber: 3.7 Consensus size: 120
920844 CAAGAAGGCA
* * * * * *
920854 GATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATTACTGCTTT-ATTGCTTTGACCCACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAC--CTTTCATTGATTTAACCCACTTCT
* **
920918 TTGTATCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATT
64 TTGTATCTCATCAGGAAGA-GGAATTTG-AGTCTCATTCGTATTGAGCTTCGCTTCATT
* * * *
920977 GATTTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCTCTTTATTGCTTTGACCCACTTCTT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCT-TTCATTGATTTAACCCACTTCTT
** *
921042 TGTATCTCATCAGGAAGATGGGGTTT--GTCTTATTCGTATTGAGCTTCGCTTCATT
65 TGTATCTCATCAGGAAGA-GGAATTTGAGTCTCATTCGTATTGAGCTTCGCTTCATT
*
921097 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCATTTCATTGATTTAAACCACTTCTT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACC-TTTCATTGATTTAACCCACTTCTT
* *
921162 TGTATCTCATGAGGAAG-GCGAATTTGACGTCTCATTCGTATTGAGCTTCACTTCATT
65 TGTATCTCATCAGGAAGAG-GAATTTGA-GTCTCATTCGTATTGAGCTTCGCTTCATT
* * *
921219 GATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGA-CTGCTTCATTGATTTAATCCACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCT--TTCATTGATTTAACCCACTTCT
*
921283 CTGTATCTCATCAGGAAG
64 TTGTATCTCATCAGGAAG
921301 GCAAATTTGG
Statistics
Matches: 293, Mismatches: 22, Indels: 19
0.88 0.07 0.06
Matches are distributed among these distances:
118 1 0.00
119 4 0.01
120 103 0.35
121 4 0.01
122 102 0.35
123 79 0.27
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (120 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCTTTCATTGATTTAACCCACTTCTTT
GTATCTCATCAGGAAGAGGAATTTGAGTCTCATTCGTATTGAGCTTCGCTTCATT
Found at i:921281 original size:242 final size:241
Alignment explanation
Indices: 920854--921300 Score: 630
Period size: 242 Copynumber: 1.8 Consensus size: 241
920844 CAAGAAGGCA
* * * * * *
920854 GATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATTACTGCTTTATTGCTTTGACCCACTTCTT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC-GCTTTATTGATTTAAACCACTTCTT
** *
920919 TGTATCTCATCAGAAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGG
65 TGTATCTCATCAGAAAGA-GGAATTTGAAGTCTCATTCGTATTGAGCTTCACTTCATTGATTTGG
* * * * *
920984 TCTACTTCTTTGTATCTCATCAAGAAGATGACCTCTTTATTGCTTTGACCCACTTCTTTGTATCT
129 TCTACTTCTCTGTATCTCATCAAGAAGATGACCTCTTCATTGATTTAACCCACTTCTCTGTATCT
921049 CATCAGGAAGATGGGGTTTGTCTTATTCGTATTGAGCTTCGCTTCATT
194 CATCAGGAAGATGGGGTTTGTCTTATTCGTATTGAGCTTCGCTTCATT
*
921097 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAC-CATTTCATTGATTTAAACCACTTCT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACGC-TTT-ATTGATTTAAACCACTTCT
* * *
921161 TTGTATCTCATGAGGAAG-GCGAATTTGACGTCTCATTCGTATTGAGCTTCACTTCATTGATTTG
64 TTGTATCTCATCAGAAAGAG-GAATTTGAAGTCTCATTCGTATTGAGCTTCACTTCATTGATTTG
* * *
921225 GTCTACTTCTCTGTATCTCATTAGGAAGATGA-CTGCTTCATTGATTTAATCCACTTCTCTGTAT
128 GTCTACTTCTCTGTATCTCATCAAGAAGATGACCT-CTTCATTGATTTAACCCACTTCTCTGTAT
921289 CTCATCAGGAAG
192 CTCATCAGGAAG
921301 GCAAATTTGG
Statistics
Matches: 179, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
241 4 0.02
242 108 0.60
243 67 0.37
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (241 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACGCTTTATTGATTTAAACCACTTCTTT
GTATCTCATCAGAAAGAGGAATTTGAAGTCTCATTCGTATTGAGCTTCACTTCATTGATTTGGTC
TACTTCTCTGTATCTCATCAAGAAGATGACCTCTTCATTGATTTAACCCACTTCTCTGTATCTCA
TCAGGAAGATGGGGTTTGTCTTATTCGTATTGAGCTTCGCTTCATT
Found at i:921364 original size:85 final size:85
Alignment explanation
Indices: 921220--921385 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
921210 CACTTCATTG
* * * *
921220 ATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACTGCTTCATTGATTTAATCCACTTCTCT
1 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTTAACCCACTTCTCT
*
921285 GTATCTCATCAGGAAGGCAA
66 ATATCTCATCAGGAAGGCAA
* * *
921305 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGA-TCGCTTTATTGTTTTGACCCACTTCTC
1 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACT-GCTTCATTGATTTAACCCACTTCTC
*
921369 TATATCTCATTAGGAAG
65 TATATCTCATCAGGAAG
921386 ATGGGGTATG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 70 0.99
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTTAACCCACTTCTCT
ATATCTCATCAGGAAGGCAA
Found at i:921455 original size:208 final size:209
Alignment explanation
Indices: 921097--921889 Score: 1089
Period size: 208 Copynumber: 3.8 Consensus size: 209
921087 TCGCTTCATT
* * * * *
921097 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCA-TTTCATTGATTTAAACCACTTCT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTT-ATTGCTTTGACCCACTTCT
* ** * *
921161 TTGTATCTCATGAGGAAG--GCGAATTTGACGTCTCATTCGTATTGAGCTTCACTTCATTGATTT
65 TTGTATCTCATTAGGAAGATG-GGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTT
*
921224 GGTCTACTTCTCTG-TATCTCATTAGGAAGATGACTGCTTCATTGATTTAATCCACTTCTCTGTA
129 GGTCTACTTCTCTGTTATCTCATTAGGAAGATGACTGCTTCATTGATTCAATCCACTTCTCTGTA
*
921288 TCTCATCAGGAAGGCA
194 TCTCATCAAGAAGGCA
* * * *
921304 AATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCTTTATTGTTTTGACCCACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTTATTGCTTTGACCCACTTCTT
* * *
921369 TATATCTCATTAGGAAGATGGGGTATGCAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGG
66 TGTATCTCATTAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGG
*
921434 TCTACTTCTCTGTTA-CTCATTAGGAAGATGACTGCTTCATTGATTCAATCCACTTCTCTATATC
131 TCTACTTCTCTGTTATCTCATTAGGAAGATGACTGCTTCATTGATTCAATCCACTTCTCTGTATC
921498 TCATCAAGAAGGCA
196 TCATCAAGAAGGCA
* * * * *
921512 GATTTGGTCCACTTTTTTGTATCTCATCAGGAAGATAATCATTTTATTGCTTTGACCCACTTCTT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTTATTGCTTTGACCCACTTCTT
* * *
921577 TGTATCTCATCAGGAAGATGTGGTTTGAAGTCTCATTCATATTGAGCTTCGCTTCATTGATTTGG
66 TGTATCTCATTAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGG
* * * * * *
921642 TCTACTTCTCT-ATATCTCATCAAGAAGATAACCGCTTCACTGATTCAATCCACTTCTCTGTATC
131 TCTACTTCTCTGTTATCTCATTAGGAAGATGACTGCTTCATTGATTCAATCCACTTCTCTGTATC
*
921706 TCATCAAGAAGGCG
196 TCATCAAGAAGGCA
* * * * *
921720 GATTTGGTCCACTTCTTTGTATATCATCAGGAAGATGACCATTTTATTGCTTTGACCCACTTCTT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTTATTGCTTTGACCCACTTCTT
* * *
921785 TGTATCTCATTAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTTGTTTCATTGATTTGA
66 TGTATCTCATTAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGG
* * *
921850 TCTACTTCTCTG-TATCTTATAAAGAAGATGA-TCGCTTCAT
131 TCTACTTCTCTGTTATCTCATTAGGAAGATGACT-GCTTCAT
921890 CATTTTGACG
Statistics
Matches: 522, Mismatches: 57, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
207 70 0.13
208 449 0.86
209 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (209 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTTATTGCTTTGACCCACTTCTT
TGTATCTCATTAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGG
TCTACTTCTCTGTTATCTCATTAGGAAGATGACTGCTTCATTGATTCAATCCACTTCTCTGTATC
TCATCAAGAAGGCA
Found at i:922956 original size:47 final size:47
Alignment explanation
Indices: 922862--922958 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 47
922852 AACCCTTTGG
* **
922862 TTTCAAGACGCCCTTTGTGTGTTTTCATCTTTATTTTTTTTTATTTT
1 TTTCAAGACGCCCTTTGAGTGTTTTCATCTCGATTTTTTTTTATTTT
*
922909 TTTC-AGACGCCCTTTGCAG-GTTTTCATCTCGATTTCTTTTT-TTTT
1 TTTCAAGACGCCCTTTG-AGTGTTTTCATCTCGATTTTTTTTTATTTT
922954 TTTCA
1 TTTCA
922959 GGCAAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
45 8 0.18
46 31 0.70
47 5 0.11
ACGTcount: A:0.12, C:0.19, G:0.11, T:0.58
Consensus pattern (47 bp):
TTTCAAGACGCCCTTTGAGTGTTTTCATCTCGATTTTTTTTTATTTT
Found at i:929877 original size:60 final size:59
Alignment explanation
Indices: 929812--930074 Score: 235
Period size: 60 Copynumber: 4.4 Consensus size: 59
929802 TTTTGAGATT
* * * *
929812 TTTAGGGGCCAAAATGTAATTTTAGGAAAGTTTGAGGGTTAAAAAGTAATTTTGGAAAAG
1 TTTAGGGGTCAAAATATAATTTTAGAAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAG
* * **
929872 TTTAGGGGTTAAAATATATTTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAAAAAG
1 TTTAGGGGTCAAAATATAATTTTAGAAAAGTTTA-GGGTTAAAATGTAATTTTGGAAAAG
* * * *
929932 TTTAGGGGTCATAATAT-ATTTTTGAAAAAGTTTAGTGGTCAAAATGTAATTTTGGAAAAA
1 TTTAGGGGTCAAAATATAATTTTAG-AAAAGTTTAG-GGTTAAAATGTAATTTTGGAAAAG
* * * * * * * * * **
929992 TTTA-GGGACAAAATGTAATTTTTGGAAAGTTCAAGGGTGATAATATAATTTTTGTGAA-
1 TTTAGGGGTCAAAATATAATTTTAGAAAAGTT-TAGGGTTAAAATGTAATTTTGGAAAAG
*
930050 TTTAAGGGGTCAAAATATAGTTTTA
1 TTT-AGGGGTCAAAATATAATTTTA
930075 AAATAAAATA
Statistics
Matches: 165, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
58 3 0.02
59 40 0.24
60 122 0.74
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (59 bp):
TTTAGGGGTCAAAATATAATTTTAGAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAG
Found at i:929909 original size:90 final size:90
Alignment explanation
Indices: 929812--930074 Score: 248
Period size: 90 Copynumber: 2.9 Consensus size: 90
929802 TTTTGAGATT
* * *
929812 TTTAGGGGCCAAAATGTAATTTTAGGAAAGTTT-GAGGGTTA-AAAAGTAATTTTGGAAAAGTTT
1 TTTAGGGGACAAAATGTAATTTTAGGAAAGTTTAG-GGGTCATAAAA-TAATTTTGAAAAAGTTT
* * *
929875 AGGGGTTAAAATATATTTTTAGAAAAG
64 AGGGGTCAAAATATAATTTTAGAAAAA
** ** * *
929902 TTTAGGGGTTAAAATGTAATTTTAAAAAAGTTTAGGGGTCATAATATATTTTTGAAAAAGTTTAG
1 TTTAGGGGACAAAATGTAATTTTAGGAAAGTTTAGGGGTCATAAAATAATTTTGAAAAAGTTTAG
* * *
929967 TGGTCAAAATGTAATTTTGGAAAAA
66 GGGTCAAAATATAATTTTAGAAAAA
* * * * * **
929992 TTTA-GGGACAAAATGTAATTTTTGGAAAGTTCAAGGGTGATAATATAATTTTTG-TGAA-TTTA
1 TTTAGGGGACAAAATGTAATTTTAGGAAAGTTTAGGGGTCATAAAATAA-TTTTGAAAAAGTTT-
*
930054 AGGGGTCAAAATATAGTTTTA
64 AGGGGTCAAAATATAATTTTA
930075 AAATAAAATA
Statistics
Matches: 140, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
88 3 0.02
89 54 0.39
90 79 0.56
91 4 0.03
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (90 bp):
TTTAGGGGACAAAATGTAATTTTAGGAAAGTTTAGGGGTCATAAAATAATTTTGAAAAAGTTTAG
GGGTCAAAATATAATTTTAGAAAAA
Found at i:930015 original size:30 final size:31
Alignment explanation
Indices: 929812--930019 Score: 175
Period size: 30 Copynumber: 6.9 Consensus size: 31
929802 TTTTGAGATT
* * *
929812 TTTAGGGGCCAAAATGTAATTTTAGG-AAAG
1 TTTAGGGGTCAAAATGTAATTTTTGGAAAAA
* * *
929842 TTT-GAGGGTTAAAAAGTAA-TTTTGGAAAAG
1 TTTAG-GGGTCAAAATGTAATTTTTGGAAAAA
* * * *
929872 TTTAGGGGTTAAAATAT-ATTTTTAGAAAAG
1 TTTAGGGGTCAAAATGTAATTTTTGGAAAAA
* *
929902 TTTAGGGGTTAAAATGTAA-TTTT-AAAAAA
1 TTTAGGGGTCAAAATGTAATTTTTGGAAAAA
* *
929931 GTTTAGGGGTCATAATAT-ATTTTT-GAAAAA
1 -TTTAGGGGTCAAAATGTAATTTTTGGAAAAA
*
929961 GTTTAGTGGTCAAAATGTAA-TTTTGGAAAAA
1 -TTTAGGGGTCAAAATGTAATTTTTGGAAAAA
*
929992 TTTA-GGGACAAAATGTAATTTTTGGAAA
1 TTTAGGGGTCAAAATGTAATTTTTGGAAA
930020 GTTCAAGGGT
Statistics
Matches: 149, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
29 24 0.16
30 116 0.78
31 9 0.06
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.36
Consensus pattern (31 bp):
TTTAGGGGTCAAAATGTAATTTTTGGAAAAA
Found at i:947172 original size:37 final size:36
Alignment explanation
Indices: 947084--947223 Score: 181
Period size: 37 Copynumber: 3.8 Consensus size: 36
947074 AATATAATCA
* *
947084 ATCACATGACATGAAGAACATACCCACATATTTTTT
1 ATCACATGGCATGAAGAACATACCCACATATTTTCT
* *
947120 TTCACATGGCGTGAAGAACATACCCCACATATTTTCT
1 ATCACATGGCATGAAGAACATA-CCCACATATTTTCT
* * *
947157 ATCACGTGGCATGAAGAATATACTCCAAATATTTTCT
1 ATCACATGGCATGAAGAACATAC-CCACATATTTTCT
* *
947194 GTCACATGGCATGAAGAACATATCCACATA
1 ATCACATGGCATGAAGAACATACCCACATA
947224 CTGACTTTCA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
36 26 0.30
37 62 0.70
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (36 bp):
ATCACATGGCATGAAGAACATACCCACATATTTTCT
Found at i:947337 original size:23 final size:23
Alignment explanation
Indices: 947308--947991 Score: 821
Period size: 23 Copynumber: 29.7 Consensus size: 23
947298 TTAATTCTTC
947308 AAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
947331 AAGCACAAATCGCATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
947354 AAGCACAAATCAGATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
947377 AAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * * *
947400 GAGAATAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
947423 AAGAACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
947446 AAGCACAAATCACATTAATATTA
1 AAGCACAAATCACATTAATATTT
* * * *
947469 AAGCATAAATAAAATTATTATTT
1 AAGCACAAATCACATTAATATTT
*
947492 AAGCACAAATTACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
947515 GAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
947538 AAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * *
947561 TAGCATAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
947584 AAGCATAAATCACGTTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
947607 AAGCACAAGTCACATTATTATTT
1 AAGCACAAATCACATTAATATTT
* * *
947630 AATC-CTAAATCATATTAATATTA
1 AAGCAC-AAATCACATTAATATTT
* *
947653 AAACATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * *
947676 GAGCACAAACCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
947699 AAGCATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * * * *
947722 AAGAATAAATTATATTAACATTT
1 AAGCACAAATCACATTAATATTT
* *
947745 AAACATAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
947768 AAGCATAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
947791 GAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
*
947814 ATGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* * * *
947837 AAGCATAAATCATATTAAAATTC
1 AAGCACAAATCACATTAATATTT
* * * * *
947860 AAGCATAATTTAAAATAATATTT
1 AAGCACAAATCACATTAATATTT
*
947883 AAGCACAAATCATATTAATATTT
1 AAGCACAAATCACATTAATATTT
947906 AAGCACAAATCACATTAATATTT
1 AAGCACAAATCACATTAATATTT
* *
947929 AAGCACAAATCATATTAACATTT
1 AAGCACAAATCACATTAATATTT
* *
947952 AAGCATAAATCACAATAATATTT
1 AAGCACAAATCACATTAATATTT
*
947975 AAGCATAAATCACATTA
1 AAGCACAAATCACATTA
947992 TCGATGTATA
Statistics
Matches: 565, Mismatches: 94, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
22 1 0.00
23 564 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (23 bp):
AAGCACAAATCACATTAATATTT
Found at i:957510 original size:52 final size:52
Alignment explanation
Indices: 957430--957529 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
957420 GAAGTTTAGC
* * *
957430 ACTGTTTGATGATGATGCGGTGACATCTACCAATGACATTCTAGATGATTGT
1 ACTGTCTGATAATGATGCGGTGAAATCTACCAATGACATTCTAGATGATTGT
* *
957482 ACTGTCTGATAATGATGCGGTGAAATCTACCGATGATATTCTAGATGA
1 ACTGTCTGATAATGATGCGGTGAAATCTACCAATGACATTCTAGATGA
957530 CTGTGTCGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (52 bp):
ACTGTCTGATAATGATGCGGTGAAATCTACCAATGACATTCTAGATGATTGT
Found at i:966276 original size:77 final size:77
Alignment explanation
Indices: 966146--966297 Score: 259
Period size: 77 Copynumber: 2.0 Consensus size: 77
966136 TGTCAAAGAC
* *
966146 TGCTTTTAGAACTTTATATGGTCATTATGAGTTCCTGGTGATGCCATTTGGGTTAACTAATGCCC
1 TGCTTTTAGAACTTGATATGGTCATTATGAGTTCCTGGTGATGCCATTAGGGTTAACTAATGCCC
966211 CTACAGCATCAT
66 CTACAGCATCAT
* *
966223 TGCTTTTAGAACTTGATATGGTCATTTTGAGTTCTTGGTGATGCCATTAGGGTTAACTAATGCCC
1 TGCTTTTAGAACTTGATATGGTCATTATGAGTTCCTGGTGATGCCATTAGGGTTAACTAATGCCC
*
966288 CTGCAGCATC
66 CTACAGCATC
966298 CATGGATTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (77 bp):
TGCTTTTAGAACTTGATATGGTCATTATGAGTTCCTGGTGATGCCATTAGGGTTAACTAATGCCC
CTACAGCATCAT
Found at i:967787 original size:21 final size:21
Alignment explanation
Indices: 967761--967800 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
967751 AACTGTAAGA
*
967761 TTACATGGGATTCCTTTATCC
1 TTACATGGGATTCCCTTATCC
967782 TTACATGGGATTCCCTTAT
1 TTACATGGGATTCCCTTAT
967801 TCATTATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TTACATGGGATTCCCTTATCC
Found at i:970984 original size:17 final size:17
Alignment explanation
Indices: 970954--970994 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
970944 AAACTAAAAT
970954 GAATGCAACGACAATTAA
1 GAATGCAACGACAA-TAA
970972 -AATGCAATC-ACAATAA
1 GAATGCAA-CGACAATAA
970988 GAATGCA
1 GAATGCA
970995 TGAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (17 bp):
GAATGCAACGACAATAA
Found at i:997416 original size:47 final size:47
Alignment explanation
Indices: 997362--997462 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 47
997352 ACAGAATACG
*
997362 CCACAAAGGCCAGATCAAAATACCACGGAGGTAACATACAAATTACA
1 CCACAAAGGCCAGATCAAAATACCACAGAGGTAACATACAAATTACA
* * *
997409 CCACAAAGGCTAGATCAGAGTACCACAGAGGTAACATACAAATTACA
1 CCACAAAGGCCAGATCAAAATACCACAGAGGTAACATACAAATTACA
*
997456 TCACAAA
1 CCACAAA
997463 TTCCAAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.47, C:0.25, G:0.15, T:0.14
Consensus pattern (47 bp):
CCACAAAGGCCAGATCAAAATACCACAGAGGTAACATACAAATTACA
Found at i:999597 original size:38 final size:38
Alignment explanation
Indices: 999552--999652 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
999542 CAAAATAACA
* *
999552 TCCAAATTTGCACCCAAAACTGTCGCCACATGATCACT
1 TCCAAATTTGCACCCAAAACTATCGCCACATGAGCACT
* * * *
999590 TCTAAA-TTGCACCCAAAAACTTTCGTCGCATGAGCACT
1 TCCAAATTTGCACCC-AAAACTATCGCCACATGAGCACT
*
999628 TCCAGATTT-CA-CCAAAACTATCGCC
1 TCCAAATTTGCACCCAAAACTATCGCC
999653 GCAGGAATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
36 10 0.19
37 10 0.19
38 30 0.58
39 2 0.04
ACGTcount: A:0.32, C:0.33, G:0.11, T:0.25
Consensus pattern (38 bp):
TCCAAATTTGCACCCAAAACTATCGCCACATGAGCACT
Found at i:1006044 original size:25 final size:24
Alignment explanation
Indices: 1005999--1006089 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 24
1005989 ACAGAGTTTA
*
1005999 GCTCTTATGAGTCCAGATAGAATACT
1 GCTCTTACGAG-CCAGATAGAATA-T
* * *
1006025 ACTCTTACGAGCCAGTTAGAACATT
1 GCTCTTACGAGCCAGATAGAATA-T
*
1006050 GCTCTTACGAGCCAGATGGAATAT
1 GCTCTTACGAGCCAGATAGAATAT
1006074 CGCTCTTACGAGCCAG
1 -GCTCTTACGAGCCAG
1006090 TCTTCAATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
24 1 0.02
25 45 0.82
26 9 0.16
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
GCTCTTACGAGCCAGATAGAATAT
Found at i:1007615 original size:25 final size:25
Alignment explanation
Indices: 1007585--1007634 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1007575 ACTTCTAATT
* *
1007585 CACTAATTAAAATTTACCAATTCAA
1 CACTAACTAAAATTCACCAATTCAA
1007610 CACTAACTAAAATTCACCAATTCAA
1 CACTAACTAAAATTCACCAATTCAA
1007635 AATTTTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (25 bp):
CACTAACTAAAATTCACCAATTCAA
Found at i:1008276 original size:19 final size:19
Alignment explanation
Indices: 1008252--1008288 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1008242 TCCAGGTAAA
1008252 GTTGAACAATCTAATTAAG
1 GTTGAACAATCTAATTAAG
1008271 GTTGAACAATCTAATTAA
1 GTTGAACAATCTAATTAA
1008289 TCATATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (19 bp):
GTTGAACAATCTAATTAAG
Found at i:1009667 original size:21 final size:21
Alignment explanation
Indices: 1009643--1009690 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1009633 CTTATGACAA
* * *
1009643 TTCTACCGATACAAGTGTAAC
1 TTCTACCAAAACAAGTCTAAC
*
1009664 TTCTACCAAAACAAGTCTTAC
1 TTCTACCAAAACAAGTCTAAC
1009685 TTCTAC
1 TTCTAC
1009691 TAATACTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.31
Consensus pattern (21 bp):
TTCTACCAAAACAAGTCTAAC
Found at i:1010719 original size:50 final size:49
Alignment explanation
Indices: 1010603--1010759 Score: 161
Period size: 50 Copynumber: 3.1 Consensus size: 49
1010593 CAAAGTTTAG
* ** * * * * *
1010603 CTCTTACGAGCGCAGATAAAATACCGCTCTTACAGCCAGTCAGAACATCG
1 CTCTTACGAGC-CAAACGAAATATCGCTCTTAGAGCCAGACAGAATATCA
* *
1010653 CTCTTACGTGCCAAACGAAATATCGCTCTTATGAGCCAGACAGAATATCT
1 CTCTTACGAGCCAAACGAAATATCGCTCTTA-GAGCCAGACAGAATATCA
* * * *
1010703 CTCTTACGAGCCAAACGGAATATCACTCTTACGAGCTAGATAGAATATCA
1 CTCTTACGAGCCAAACGAAATATCGCTCTTA-GAGCCAGACAGAATATCA
1010753 CTCTTAC
1 CTCTTAC
1010760 AAGCTAATCT
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 16 0.18
50 74 0.82
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (49 bp):
CTCTTACGAGCCAAACGAAATATCGCTCTTAGAGCCAGACAGAATATCA
Found at i:1010748 original size:25 final size:25
Alignment explanation
Indices: 1010603--1010759 Score: 138
Period size: 25 Copynumber: 6.3 Consensus size: 25
1010593 CAAAGTTTAG
* * * *
1010603 CTCTTACGAGCGCAGATAAAATACCG
1 CTCTTACGAGC-CAGACAGAATATCA
* * *
1010629 CTCTTAC-AGCCAGTCAGAACATCG
1 CTCTTACGAGCCAGACAGAATATCA
* * *
1010653 CTCTTACGTGCCAAAC-GAAATATCG
1 CTCTTACGAGCCAGACAG-AATATCA
* *
1010678 CTCTTATGAGCCAGACAGAATATCT
1 CTCTTACGAGCCAGACAGAATATCA
* *
1010703 CTCTTACGAGCCAAACGGAATATCA
1 CTCTTACGAGCCAGACAGAATATCA
* *
1010728 CTCTTACGAGCTAGATAGAATATCA
1 CTCTTACGAGCCAGACAGAATATCA
1010753 CTCTTAC
1 CTCTTAC
1010760 AAGCTAATCT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
24 17 0.16
25 82 0.77
26 8 0.07
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (25 bp):
CTCTTACGAGCCAGACAGAATATCA
Found at i:1012928 original size:19 final size:19
Alignment explanation
Indices: 1012901--1012939 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1012891 ATTATCCAGG
*
1012901 TAAGGTTGAACAATCTAAT
1 TAAGATTGAACAATCTAAT
1012920 TAAGATTGAACAATCTAAT
1 TAAGATTGAACAATCTAAT
1012939 T
1 T
1012940 CATCATATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (19 bp):
TAAGATTGAACAATCTAAT
Found at i:1018366 original size:6 final size:6
Alignment explanation
Indices: 1018348--1018408 Score: 79
Period size: 6 Copynumber: 10.3 Consensus size: 6
1018338 ATTTAGTACA
* * *
1018348 TTTATT TTCATT TTTATT TTTATT TTTAGT TTTAGT TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
1018395 TTTAAT TTTATT TT
1 TTTATT TTTATT TT
1018409 AATTATGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:1018371 original size:18 final size:17
Alignment explanation
Indices: 1018348--1018409 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
1018338 ATTTAGTACA
*
1018348 TTTATTTTCATTTTTATT
1 TTTATTTT-ATTTTTAAT
* *
1018366 TTTATTTTTAGTTTTAGT
1 TTTA-TTTTATTTTTAAT
1018384 TTTATTTTATTTTTAAT
1 TTTATTTTATTTTTAAT
1018401 TTTATTTTA
1 TTTATTTTA
1018410 ATTATGCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
17 20 0.51
18 15 0.38
19 4 0.10
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTTTAAT
Found at i:1019322 original size:9 final size:9
Alignment explanation
Indices: 1019303--1019387 Score: 70
Period size: 9 Copynumber: 9.6 Consensus size: 9
1019293 TATTGTTTAG
1019303 AAAAAGA-A
1 AAAAAGAGA
1019311 AAAAAGAGA
1 AAAAAGAGA
*
1019320 AAAAA-AGTC
1 AAAAAGAG-A
1019329 AAAAAGA-A
1 AAAAAGAGA
** *
1019337 AAATTGAAA
1 AAAAAGAGA
1019346 AAAAAGAGA
1 AAAAAGAGA
*
1019355 AAAATGAGGA
1 AAAAAGA-GA
1019365 AAAAAGAGA
1 AAAAAGAGA
1019374 AGAAAA-AGA
1 A-AAAAGAGA
1019383 AAAAA
1 AAAAA
1019388 AATATGTCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 18 0.29
9 31 0.50
10 13 0.21
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:1020445 original size:23 final size:25
Alignment explanation
Indices: 1020419--1020464 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1020409 CCAATTAGGG
1020419 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
1020442 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
1020465 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:1022026 original size:21 final size:21
Alignment explanation
Indices: 1022002--1022042 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1021992 TTCTATTGAT
1022002 ACAAGT-GTAGCTTCTACCGAA
1 ACAAGTCGTA-CTTCTACCGAA
*
1022023 ACAAGTCTTACTTCTACCGA
1 ACAAGTCGTACTTCTACCGA
1022043 TACTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (21 bp):
ACAAGTCGTACTTCTACCGAA
Found at i:1022941 original size:26 final size:26
Alignment explanation
Indices: 1022893--1022947 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
1022883 GTCTTCCAAA
* *
1022893 AATTTAGCTCATACGAGCCCAGACAG
1 AATTTAGCTCATACCAGCACAGACAG
* *
1022919 AATTTAGCTCTTACCAGCACAGATAG
1 AATTTAGCTCATACCAGCACAGACAG
1022945 AAT
1 AAT
1022948 ACCACTCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (26 bp):
AATTTAGCTCATACCAGCACAGACAG
Found at i:1022994 original size:25 final size:25
Alignment explanation
Indices: 1022911--1023156 Score: 228
Period size: 25 Copynumber: 9.8 Consensus size: 25
1022901 TCATACGAGC
* * **
1022911 CCAGACAGAATTTAGCTCTTACCAG
1 CCAGACAGAATATCGCTCTTATGAG
* * * * *
1022936 CACAGATAGAATACCACTCTTA-AAC
1 C-CAGACAGAATATCGCTCTTATGAG
* * *
1022961 CCAGTCAGAACAGCGCTCTTATGAG
1 CCAGACAGAATATCGCTCTTATGAG
* *
1022986 CCAGACAGAATATCGCTATTACGAG
1 CCAGACAGAATATCGCTCTTATGAG
* *
1023011 CCAAAC-GAAATATCGCTCTTACGAG
1 CCAGACAG-AATATCGCTCTTATGAG
* *
1023036 CTAGACAAAATATCGCTCTTATGAG
1 CCAGACAGAATATCGCTCTTATGAG
1023061 CCAGAC-GAAATATCGCTCTTATGAG
1 CCAGACAG-AATATCGCTCTTATGAG
* *
1023086 CCAAACAGAATATCGCTCTTATGAA
1 CCAGACAGAATATCGCTCTTATGAG
**
1023111 CCAGACAGAATATCGCTCTTACAAG
1 CCAGACAGAATATCGCTCTTATGAG
* *
1023136 CCAGACAAAATATTGCTCTTA
1 CCAGACAGAATATCGCTCTTA
1023157 CAAGCCAGCC
Statistics
Matches: 180, Mismatches: 35, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
24 16 0.09
25 148 0.82
26 16 0.09
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (25 bp):
CCAGACAGAATATCGCTCTTATGAG
Found at i:1023157 original size:25 final size:25
Alignment explanation
Indices: 1022974--1023164 Score: 229
Period size: 25 Copynumber: 7.6 Consensus size: 25
1022964 GTCAGAACAG
* *
1022974 CGCTCTTATGAGCCAGACAGAATAT
1 CGCTCTTACGAGCCAGACAAAATAT
* * *
1022999 CGCTATTACGAGCCAAACGAAATAT
1 CGCTCTTACGAGCCAGACAAAATAT
*
1023024 CGCTCTTACGAGCTAGACAAAATAT
1 CGCTCTTACGAGCCAGACAAAATAT
* *
1023049 CGCTCTTATGAGCCAGACGAAATAT
1 CGCTCTTACGAGCCAGACAAAATAT
* * *
1023074 CGCTCTTATGAGCCAAACAGAATAT
1 CGCTCTTACGAGCCAGACAAAATAT
* * *
1023099 CGCTCTTATGAACCAGACAGAATAT
1 CGCTCTTACGAGCCAGACAAAATAT
*
1023124 CGCTCTTACAAGCCAGACAAAATAT
1 CGCTCTTACGAGCCAGACAAAATAT
* *
1023149 TGCTCTTACAAGCCAG
1 CGCTCTTACGAGCCAG
1023165 CCTTCAGTAA
Statistics
Matches: 144, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 144 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (25 bp):
CGCTCTTACGAGCCAGACAAAATAT
Found at i:1028020 original size:22 final size:22
Alignment explanation
Indices: 1027992--1028037 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1027982 ATATAAACAT
*
1027992 TCAATTATATTGGCACAATCAA
1 TCAATTATATTGGCACAATAAA
*
1028014 TCAATTATATTGGCATAATAAA
1 TCAATTATATTGGCACAATAAA
1028036 TC
1 TC
1028038 CATGGCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (22 bp):
TCAATTATATTGGCACAATAAA
Found at i:1037282 original size:22 final size:24
Alignment explanation
Indices: 1037257--1037314 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
1037247 GATAACGTGT
*
1037257 TAAAAAATAAAG-AGACG-GAGAG
1 TAAAAAATAAAGAAAACGAGAGAG
* * *
1037279 TAAATAACAAAGAAAATGAGAGAG
1 TAAAAAATAAAGAAAACGAGAGAG
*
1037303 CAAAAAATAAAG
1 TAAAAAATAAAG
1037315 CGTATTTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 10 0.37
23 3 0.11
24 14 0.52
ACGTcount: A:0.64, C:0.05, G:0.21, T:0.10
Consensus pattern (24 bp):
TAAAAAATAAAGAAAACGAGAGAG
Found at i:1037554 original size:14 final size:14
Alignment explanation
Indices: 1037535--1037561 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1037525 AAACTCTCTT
1037535 TCAAAAATTATTTC
1 TCAAAAATTATTTC
1037549 TCAAAAATTATTT
1 TCAAAAATTATTT
1037562 TTAGCGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TCAAAAATTATTTC
Found at i:1040434 original size:31 final size:31
Alignment explanation
Indices: 1040397--1040457 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1040387 AAATTATTAG
* * *
1040397 TAAT-AAAATTATATTTTAATTTTTTTAAAAA
1 TAATAAAAATT-TAATTTAATCTTTTGAAAAA
1040428 TAATAAAAATTTAATTTAATCTTTTGAAAA
1 TAATAAAAATTTAATTTAATCTTTTGAAAA
1040458 TTATAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
TAATAAAAATTTAATTTAATCTTTTGAAAAA
Found at i:1040464 original size:30 final size:32
Alignment explanation
Indices: 1040397--1040464 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
1040387 AAATTATTAG
* *
1040397 TAAT-AAAATTATATTTTAATTTTTTTAAAAA
1 TAATAAAAATTATAATTTAATTCTTTTAAAAA
*
1040428 TAATAAAAATT-TAATTTAA-TCTTTTGAAAA
1 TAATAAAAATTATAATTTAATTCTTTTAAAAA
*
1040458 TTATAAA
1 TAATAAA
1040465 GATATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 15 0.47
31 11 0.34
32 6 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAATAAAAATTATAATTTAATTCTTTTAAAAA
Found at i:1043646 original size:29 final size:29
Alignment explanation
Indices: 1043604--1044054 Score: 250
Period size: 29 Copynumber: 14.9 Consensus size: 29
1043594 AATTACCACT
*
1043604 ATTTTATAGCTTTGCCACTGGTTTTCCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* *
1043633 ATTTTATAGTTTTGTCA-TTGTTTTCCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* ** *
1043661 ATTTTACAGTTTTATCACTGGTTTTTCCAG
1 ATTTTATAGTTTTGCCACTGG-TTTTCCAA
* *
1043691 ATTTTATAGTTTTGCCACTAGTTTTTCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* * *
1043720 ATTTTATAGTTTTGCCATTGGTTTTCTAG
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* * * * *
1043749 CTTTTACAATTTTGCTAC-AGTTTTCCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* *
1043777 ATTTTATAGTTTTGCCACTGGTTTTCTAG
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* * * *
1043806 CTTTTACAATTTTGCCAC-AGTTTTACCTCTAATTTTCTA
1 ATTTTATAGTTTTGCCACTGGTTTT--C-C--A------A
*
1043845 GATTTTATAGTTTTGCCACTGGTTATT-CAG
1 -ATTTTATAGTTTTGCCACTGGTT-TTCCAA
* * * **
1043875 CTTTTACAATTTTGCCA-AAGTTTTACCACTAATTTTCCA
1 ATTTTATAGTTTTGCCACTGGTTTT--C-C--A------A
1043914 GATTTTATAGTTTTGCCACT-GTTTTCCAA
1 -ATTTTATAGTTTTGCCACTGGTTTTCCAA
* * *
1043943 ATTTTATAGTTTTGCCACTGATTTTCTAG
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* * * *
1043972 ATTTTATAATTTTACCACTGGTTTTCTAG
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
* * * * *
1044001 CTTTTACAATTTTGCTAC-AGTTTTCCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCCAA
1044029 ATTTTATAGTTTTGCCACTGGTTTTC
1 ATTTTATAGTTTTGCCACTGGTTTTC
1044055 TAGCTTTTAC
Statistics
Matches: 317, Mismatches: 72, Indels: 66
0.70 0.16 0.15
Matches are distributed among these distances:
27 2 0.01
28 94 0.30
29 149 0.47
30 25 0.08
31 1 0.00
33 2 0.01
35 1 0.00
36 1 0.00
37 1 0.00
38 2 0.01
40 34 0.11
41 3 0.01
42 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.50
Consensus pattern (29 bp):
ATTTTATAGTTTTGCCACTGGTTTTCCAA
Found at i:1043784 original size:57 final size:57
Alignment explanation
Indices: 1043604--1044266 Score: 425
Period size: 57 Copynumber: 10.8 Consensus size: 57
1043594 AATTACCACT
* * ** * * * **
1043604 ATTTTATAGCTTTGCCACTGGTTTTCCAAATTTTATAGTTTTGTCATTGTTTTCCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTCCAA
* ** * * * * *
1043661 ATTTTACAGTTTTATCACTGGTTTTTCCAGATTTTATAGTTTTGCCACTAGTTTTTCAA
1 ATTTTATAGTTTTGCCACTGG-TTTTCTAGCTTTTACAATTTTGCCAC-AGTTTTCCAA
* *
1043720 ATTTTATAGTTTTGCCATTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTCCAA
1043777 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCTCTAATTTT
1 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTT--C-C--A----
1043842 CTA
57 --A
*
1043845 GATTTTATAGTTTTGCCACTGGTTATTC-AGCTTTTACAATTTTGCCAAAGTTTTACCACTAATT
1 -ATTTTATAGTTTTGCCACTGGTT-TTCTAGCTTTTACAATTTTGCCACAGTTTT--C-C--A--
1043909 TTCCA
57 ----A
* ** * * * * *
1043914 GATTTTATAGTTTTGCCACT-GTTTTCCAAATTTTATAGTTTTGCCACTGATTTTCTAG
1 -ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAG-TTTTCCAA
* * *
1043972 ATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAA
1 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTCCAA
1044029 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCTCTAATTTT
1 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTT--C-C--A----
1044094 CCA
57 --A
* *
1044097 GATTTTATAGTTTTGCCACTGGTTATTC-AACTTTTACAATTTTGCCAAAATTTTACCACTAATT
1 -ATTTTATAGTTTTGCCACTGGTT-TTCTAGCTTTTACAATTTTG-----------CCAC-AGTT
*
1044161 TTCCAG
52 TTCCAA
* * * * * * *
1044167 ATTTTATAGTTTTGCCACT-GTTTTCCAGATTTTATAGTTTTGCCACTGATTTTCTAG
1 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAG-TTTTCCAA
* *
1044224 ATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTG
1 ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTG
1044267 GCACTATTTT
Statistics
Matches: 498, Mismatches: 62, Indels: 91
0.76 0.10 0.14
Matches are distributed among these distances:
57 178 0.36
58 85 0.17
59 27 0.05
60 2 0.00
62 2 0.00
64 1 0.00
67 7 0.01
68 36 0.07
69 142 0.29
70 6 0.01
76 1 0.00
78 1 0.00
79 1 0.00
80 4 0.01
81 5 0.01
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.49
Consensus pattern (57 bp):
ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTCCAA
Found at i:1043829 original size:40 final size:40
Alignment explanation
Indices: 1043784--1043938 Score: 98
Period size: 40 Copynumber: 4.2 Consensus size: 40
1043774 CAAATTTTAT
* ** *
1043784 AGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCAC
1 AGTTTTACCACTAATTTTCTAGATTTTACAATTTTGCCAC
* * *
1043824 AGTTTTACCTCTAATTTTCTAGATTTTATAGTTTTGCCAC
1 AGTTTTACCACTAATTTTCTAGATTTTACAATTTTGCCAC
** * *
1043864 --TGGT-----T-A--TTC-AGCTTTTACAATTTTGCCAA
1 AGTTTTACCACTAATTTTCTAGATTTTACAATTTTGCCAC
* * *
1043893 AGTTTTACCACTAATTTTCCAGATTTTATAGTTTTGCCAC
1 AGTTTTACCACTAATTTTCTAGATTTTACAATTTTGCCAC
*
1043933 TGTTTT
1 AGTTTT
1043939 CCAAATTTTA
Statistics
Matches: 84, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
29 16 0.19
30 3 0.04
31 2 0.02
32 1 0.01
33 1 0.01
36 1 0.01
37 1 0.01
38 2 0.02
39 3 0.04
40 54 0.64
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (40 bp):
AGTTTTACCACTAATTTTCTAGATTTTACAATTTTGCCAC
Found at i:1043852 original size:69 final size:68
Alignment explanation
Indices: 1043769--1044266 Score: 506
Period size: 69 Copynumber: 7.7 Consensus size: 68
1043759 TTTGCTACAG
* *
1043769 TTTTCCAAATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCT
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTTTTC-AGCTTTTACAATTTTGCCACAGTTTTACCA
1043834 CTAA
65 CTAA
* *
1043838 TTTTCTAGATTTTATAGTTTTGCCACTGGTTATTCAGCTTTTACAATTTTGCCAAAGTTTTACCA
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTT-TTCAGCTTTTACAATTTTGCCACAGTTTTACCA
1043903 CTAA
65 CTAA
* *
1043907 TTTTCCAGATTTTATAGTTTTGCCACT-GTTTTC--C----A-AATTTT---ATAGTTTTGCCAC
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTTTTCAGCTTTTACAATTTTGCCACAGTTTTACCAC
*
1043961 TGA
66 TAA
* * * *
1043964 TTTTCTAGATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTT--C-
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTTTTC-AGCTTTTACAATTTTGCCACAGTTTTACCA
1044026 C--A
65 CTAA
*
1044028 ------A-ATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCT
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTTTTC-AGCTTTTACAATTTTGCCACAGTTTTACCA
1044086 CTAA
65 CTAA
* * *
1044090 TTTTCCAGATTTTATAGTTTTGCCACTGGTTATTCAACTTTTACAATTTTGCCAAAATTTTACCA
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTT-TTCAGCTTTTACAATTTTGCCACAGTTTTACCA
1044155 CTAA
65 CTAA
* * *
1044159 TTTTCCAGATTTTATAGTTTTGCCACT-GTTTTC--C----A-GATTTT---ATAGTTTTGCCAC
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTTTTCAGCTTTTACAATTTTGCCACAGTTTTACCAC
*
1044213 TGA
66 TAA
* * *
1044216 TTTTCTAGATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTG
1 TTTTCCAGATTTTATAGTTTTGCCACTGGTTTTC-AGCTTTTACAATTTTG
1044267 GCACTATTTT
Statistics
Matches: 365, Mismatches: 28, Indels: 74
0.78 0.06 0.16
Matches are distributed among these distances:
57 123 0.34
58 13 0.04
59 1 0.00
60 12 0.03
61 4 0.01
62 1 0.00
64 1 0.00
65 4 0.01
66 12 0.03
67 7 0.02
68 7 0.02
69 174 0.48
70 6 0.02
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.49
Consensus pattern (68 bp):
TTTTCCAGATTTTATAGTTTTGCCACTGGTTTTCAGCTTTTACAATTTTGCCACAGTTTTACCAC
TAA
Found at i:1044014 original size:86 final size:86
Alignment explanation
Indices: 1043895--1044075 Score: 254
Period size: 86 Copynumber: 2.1 Consensus size: 86
1043885 TTTGCCAAAG
* * *
1043895 TTTTACCACTAATTTTCCAGATTTTATAGTTTTGCCACTGTTTTCCAAATTTTATAGTTTTGCCA
1 TTTTACCACTAATTTTCCAGATTTTACAATTTTGCCACAGTTTTCCAAATTTTATAGTTTTGCCA
*
1043960 CTGATTTTCTAGATTTTATAA
66 CTGATTTTCTAGATTTTACAA
** * * *
1043981 TTTTACCACTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAAATTTTATAGTTTTGCCA
1 TTTTACCACTAATTTTCCAGATTTTACAATTTTGCCACAGTTTTCCAAATTTTATAGTTTTGCCA
* *
1044046 CTGGTTTTCTAGCTTTTACAA
66 CTGATTTTCTAGATTTTACAA
*
1044067 TTTTGCCAC
1 TTTTACCAC
1044076 AGTTTTACCT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.49
Consensus pattern (86 bp):
TTTTACCACTAATTTTCCAGATTTTACAATTTTGCCACAGTTTTCCAAATTTTATAGTTTTGCCA
CTGATTTTCTAGATTTTACAA
Found at i:1044062 original size:29 final size:29
Alignment explanation
Indices: 1043893--1044075 Score: 181
Period size: 29 Copynumber: 6.4 Consensus size: 29
1043883 ATTTTGCCAA
* **
1043893 AGTTTTACCACTAATTTTCCAGATTTTAT
1 AGTTTTGCCACTGGTTTTCCAGATTTTAT
*
1043922 AGTTTTGCCACT-GTTTTCCAAATTTTAT
1 AGTTTTGCCACTGGTTTTCCAGATTTTAT
* *
1043950 AGTTTTGCCACTGATTTTCTAGATTTTAT
1 AGTTTTGCCACTGGTTTTCCAGATTTTAT
* * * * *
1043979 AATTTTACCACTGGTTTTCTAGCTTTTAC
1 AGTTTTGCCACTGGTTTTCCAGATTTTAT
* * * *
1044008 AATTTTGCTAC-AGTTTTCCAAATTTTAT
1 AGTTTTGCCACTGGTTTTCCAGATTTTAT
* * *
1044036 AGTTTTGCCACTGGTTTTCTAGCTTTTAC
1 AGTTTTGCCACTGGTTTTCCAGATTTTAT
*
1044065 AATTTTGCCAC
1 AGTTTTGCCAC
1044076 AGTTTTACCT
Statistics
Matches: 126, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
28 47 0.37
29 79 0.63
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (29 bp):
AGTTTTGCCACTGGTTTTCCAGATTTTAT
Found at i:1044133 original size:252 final size:252
Alignment explanation
Indices: 1043653--1044266 Score: 1077
Period size: 252 Copynumber: 2.4 Consensus size: 252
1043643 TTTGTCATTG
* * ** *
1043653 TTTTCCAAATTTTACAGTTTTATCACTGGTTTTTCCAGATTTTATAGTTTTGCCACTAGTTTTTC
1 TTTTCCAGATTTTATAGTTTTGCCACT-G-TTTTCCAGATTTTATAGTTTTGCCACT-GATTTTC
* * * *
1043718 -AAATTTTATAGTTTTGCCATTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAAATTTT
63 TAGATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAAATTTT
*
1043782 ATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCTCTAATTTTCTAGA
128 ATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCTCTAATTTTCCAGA
* *
1043847 TTTTATAGTTTTGCCACTGGTTATTCAGCTTTTACAATTTTGCCAAAGTTTTACCACTAA
193 TTTTATAGTTTTGCCACTGGTTATTCAACTTTTACAATTTTGCCAAAATTTTACCACTAA
*
1043907 TTTTCCAGATTTTATAGTTTTGCCACTGTTTTCCAAATTTTATAGTTTTGCCACTGATTTTCTAG
1 TTTTCCAGATTTTATAGTTTTGCCACTGTTTTCCAGATTTTATAGTTTTGCCACTGATTTTCTAG
1043972 ATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAAATTTTATA
66 ATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAAATTTTATA
1044037 GTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCTCTAATTTTCCAGATTT
131 GTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCTCTAATTTTCCAGATTT
1044102 TATAGTTTTGCCACTGGTTATTCAACTTTTACAATTTTGCCAAAATTTTACCACTAA
196 TATAGTTTTGCCACTGGTTATTCAACTTTTACAATTTTGCCAAAATTTTACCACTAA
1044159 TTTTCCAGATTTTATAGTTTTGCCACTGTTTTCCAGATTTTATAGTTTTGCCACTGATTTTCTAG
1 TTTTCCAGATTTTATAGTTTTGCCACTGTTTTCCAGATTTTATAGTTTTGCCACTGATTTTCTAG
1044224 ATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTG
66 ATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTG
1044267 GCACTATTTT
Statistics
Matches: 345, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
251 6 0.02
252 315 0.91
253 1 0.00
254 23 0.07
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.49
Consensus pattern (252 bp):
TTTTCCAGATTTTATAGTTTTGCCACTGTTTTCCAGATTTTATAGTTTTGCCACTGATTTTCTAG
ATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTGCTACAGTTTTCCAAATTTTATA
GTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGCCACAGTTTTACCTCTAATTTTCCAGATTT
TATAGTTTTGCCACTGGTTATTCAACTTTTACAATTTTGCCAAAATTTTACCACTAA
Found at i:1044243 original size:29 final size:29
Alignment explanation
Indices: 1044145--1044265 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
1044135 ATTTTGCCAA
*
1044145 AATTTTACCACTAATTTTCCAGATTTTAT
1 AATTTTACCACTGATTTTCCAGATTTTAT
* *
1044174 AGTTTTGCCACTG-TTTTCCAGATTTTAT
1 AATTTTACCACTGATTTTCCAGATTTTAT
* * *
1044202 AGTTTTGCCACTGATTTTCTAGATTTTAT
1 AATTTTACCACTGATTTTCCAGATTTTAT
* * * *
1044231 AATTTTACCACTGGTTTTCTAGCTTTTAC
1 AATTTTACCACTGATTTTCCAGATTTTAT
1044260 AATTTT
1 AATTTT
1044266 GGCACTATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 28 0.34
29 54 0.66
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (29 bp):
AATTTTACCACTGATTTTCCAGATTTTAT
Found at i:1044276 original size:126 final size:122
Alignment explanation
Indices: 1043653--1044270 Score: 533
Period size: 126 Copynumber: 4.9 Consensus size: 122
1043643 TTTGTCATTG
* * * * *
1043653 TTTTCCAAATTTTACAGTTTTATCACTGGTTTTTCCAGATTTTATAGTTTTGCCACTAGTTTTTC
1 TTTTCCAGATTTTATAGTTTT-CCACT-GCTTTTCCA-ATTTTATAGTTTTGCCACT-GATTTTC
* *
1043718 -AAATTTTATAGTTTTGCCATTGGTTTTCTAGCTTTTACAATTTT-GCTACAGTTTTCCAAA
62 TAGATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGGC-ACAGTTTTCCAAA
** * * * * * * *
1043778 TTTTATAG-TTTTGCCACTGGTTTTCTA--GCTTTTACAATTTTGCCACAGTTTTACCTCTAATT
1 TTTTCCAGATTTT---A-TAGTTTTCCACTGCTTTTCCAATTTT---ATAGTTTTGCCACTGATT
* *
1043840 TTCTAGATTTTATAGTTTTGCCACTGGTTATTC-AGCTTTTACAATTTTGCCAAAGTTTTACCAC
59 TTCTAGATTTTATAGTTTTGCCACTGGTT-TTCTAGCTTTTACAATTTTGGCACAGTTTT-CCA-
1043904 TAA
121 -AA
1043907 TTTTCCAGATTTTATAGTTTTGCCACTG-TTTTCCAAATTTTATAGTTTTGCCACTGATTTTCTA
1 TTTTCCAGATTTTATAGTTTT-CCACTGCTTTTCC-AATTTTATAGTTTTGCCACTGATTTTCTA
* *
1043971 GATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTT-GCTACAGTTTTCCAAA
64 GATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGGC-ACAGTTTTCCAAA
** * * * * * * *
1044030 TTTTATAG-TTTTGCCACTGGTTTTCTA--GCTTTTACAATTTTGCCACAGTTTTACCTCTAATT
1 TTTTCCAGATTTT---A-TAGTTTTCCACTGCTTTTCCAATTTT---ATAGTTTTGCCACTGATT
* * * * *
1044092 TTCCAGATTTTATAGTTTTGCCACTGGTTATTC-AACTTTTACAATTTTGCCAAAATTTTACCAC
59 TTCTAGATTTTATAGTTTTGCCACTGGTT-TTCTAGCTTTTACAATTTTGGCACAGTTTT-CCA-
1044156 TAA
121 -AA
1044159 TTTTCCAGATTTTATAGTTTTGCCACTG-TTTTCCAGATTTTATAGTTTTGCCACTGATTTTCTA
1 TTTTCCAGATTTTATAGTTTT-CCACTGCTTTTCCA-ATTTTATAGTTTTGCCACTGATTTTCTA
* *
1044223 GATTTTATAATTTTACCACTGGTTTTCTAGCTTTTACAATTTTGGCAC
64 GATTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGGCAC
1044271 TATTTTTTTT
Statistics
Matches: 392, Mismatches: 62, Indels: 77
0.74 0.12 0.15
Matches are distributed among these distances:
122 4 0.01
123 20 0.05
124 16 0.04
125 23 0.06
126 254 0.65
127 22 0.06
128 16 0.04
129 29 0.07
130 8 0.02
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (122 bp):
TTTTCCAGATTTTATAGTTTTCCACTGCTTTTCCAATTTTATAGTTTTGCCACTGATTTTCTAGA
TTTTATAGTTTTGCCACTGGTTTTCTAGCTTTTACAATTTTGGCACAGTTTTCCAAA
Found at i:1044545 original size:29 final size:29
Alignment explanation
Indices: 1044507--1044562 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
1044497 TACAATATGC
* *
1044507 ATGATGTGGTACATACTATTTGATTAATT
1 ATGATATGGTAAATACTATTTGATTAATT
*
1044536 ATGATATGGTAAATATTATTTGATTAA
1 ATGATATGGTAAATACTATTTGATTAA
1044563 GTATTCTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (29 bp):
ATGATATGGTAAATACTATTTGATTAATT
Found at i:1044612 original size:75 final size:74
Alignment explanation
Indices: 1044461--1044612 Score: 180
Period size: 75 Copynumber: 2.0 Consensus size: 74
1044451 ACAAAATATG
* ** *
1044461 TATGATATAGTAAATACTATTTGATTGATAATACTATACAATATGCATGATGTGGTACATACTAT
1 TATGATATAGTAAATACTATTTGATTAATAATACTATACAATATGCATGACATGGTAAATACTAT
1044526 TTGATTAAT
66 TTGATTAAT
* * * * *
1044535 TATGATATGGTAAATATTATTTGATTAAGT-ATTCTATGAGAATATGCATGACATGGTAAATATT
1 TATGATATAGTAAATACTATTTGATTAA-TAATACTAT-ACAATATGCATGACATGGTAAATACT
* *
1044599 ATTTTATTGAT
64 ATTTGATTAAT
1044610 TAT
1 TAT
1044613 ACTAAATGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
74 31 0.48
75 34 0.52
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (74 bp):
TATGATATAGTAAATACTATTTGATTAATAATACTATACAATATGCATGACATGGTAAATACTAT
TTGATTAAT
Found at i:1044642 original size:91 final size:90
Alignment explanation
Indices: 1044535--1044702 Score: 237
Period size: 91 Copynumber: 1.9 Consensus size: 90
1044525 TTTGATTAAT
* * *
1044535 TATGATATGGTAAATATTATTTGATTAAGTATTCTATGAGAATATGCATGACATGGTAAATATTA
1 TATGATATGGTAAATATTATTTGATTAAGTATGCTAT-ACAATATGCATGACATGGTAAATACTA
* *
1044600 TTTTATTGATTATACTAAATGATATG
65 TTTGATTAATTATACTAAATGATATG
* * * **
1044626 TATGATATGGTAAATATTATTTGATTGATTATGCTATACAATATGTATGATGTGGTAAATACTAT
1 TATGATATGGTAAATATTATTTGATTAAGTATGCTATACAATATGCATGACATGGTAAATACTAT
1044691 TTGATTAATTAT
66 TTGATTAATTAT
1044703 GATATGGTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 33 0.49
91 34 0.51
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.44
Consensus pattern (90 bp):
TATGATATGGTAAATATTATTTGATTAAGTATGCTATACAATATGCATGACATGGTAAATACTAT
TTGATTAATTATACTAAATGATATG
Found at i:1044703 original size:45 final size:45
Alignment explanation
Indices: 1044535--1044703 Score: 203
Period size: 45 Copynumber: 3.7 Consensus size: 45
1044525 TTTGATTAAT
* * *
1044535 TATGATATGGTAAATATTATTTGATTAAGTATTCTATGAGAATATG
1 TATGATATGGTAAATATTATTTGATTAATTATGCTAT-ACAATATG
* * * * * * **
1044581 CATGACATGGTAAATATTATTTTATTGATTATACTAAATGATATG
1 TATGATATGGTAAATATTATTTGATTAATTATGCTATACAATATG
*
1044626 TATGATATGGTAAATATTATTTGATTGATTATGCTATACAATATG
1 TATGATATGGTAAATATTATTTGATTAATTATGCTATACAATATG
* *
1044671 TATGATGTGGTAAATACTATTTGATTAATTATG
1 TATGATATGGTAAATATTATTTGATTAATTATG
1044704 ATATGGTAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 74 0.71
46 30 0.29
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (45 bp):
TATGATATGGTAAATATTATTTGATTAATTATGCTATACAATATG
Found at i:1044704 original size:29 final size:29
Alignment explanation
Indices: 1044671--1044727 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1044661 ATACAATATG
*
1044671 TATGATGTGGTAAATACTATTTGATTAAT
1 TATGATATGGTAAATACTATTTGATTAAT
* *
1044700 TATGATATGGTAAATATTATTTGTTTAA
1 TATGATATGGTAAATACTATTTGATTAA
1044728 GTATTCTATA
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:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (29 bp):
TATGATATGGTAAATACTATTTGATTAAT
Found at i:1044709 original size:74 final size:76
Alignment explanation
Indices: 1044619--1044856 Score: 248
Period size: 74 Copynumber: 3.1 Consensus size: 76
1044609 TTATACTAAA
* *
1044619 TGATATGTATGATATGGTAAATATTATTTGATTGATTATGCTATACAATATGTATGATGTGGTAA
1 TGATATGTATGATATGGTAAATATTATTTGATTAATTATGCTATACAATATGTATGATATGGTAA
1044684 ATACTATTTGAT
66 ATA-TATTTGAT
* * * * * * *
1044696 T-A-AT-TATGATATGGTAAATATTATTTGTTTAAGTATTCTATACGATATGCATGACATAGTAA
1 TGATATGTATGATATGGTAAATATTATTTGATTAATTATGCTATACAATATGTATGATATGGTAA
1044758 ATATCATTTGAAT
66 ATAT-ATTTG-AT
* * *
1044771 TGATTATGTATGCATGACATAGTAAATATTATTTGATTAATTATGTTATACAATATGTATGGTAT
1 TGA-TATGTATG-AT---ATGGTAAATATTATTTGATTAATTATGCTATACAATATGTATGATAT
* *
1044836 GATAAATATTATTTGAC
61 GGTAAATA-TATTTGAT
1044853 TGAT
1 TGAT
1044857 TATACTATAT
Statistics
Matches: 129, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
73 1 0.01
74 57 0.44
75 5 0.04
76 2 0.02
77 1 0.01
78 2 0.02
79 4 0.03
80 2 0.02
81 1 0.01
82 4 0.03
83 49 0.38
84 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.44
Consensus pattern (76 bp):
TGATATGTATGATATGGTAAATATTATTTGATTAATTATGCTATACAATATGTATGATATGGTAA
ATATATTTGAT
Found at i:1044760 original size:45 final size:43
Alignment explanation
Indices: 1044709--1044994 Score: 208
Period size: 45 Copynumber: 6.5 Consensus size: 43
1044699 TTATGATATG
* *
1044709 GTAAATATTATTTGTTTAAGTATTCTATACGATATGCATGACAT
1 GTAAATATTATTTGATTAATTATT-TATACGATATGCATGACAT
*
1044753 AGTAAATATCATTTG---AATTGA-TTAT--G-TATGCATGACAT
1 -GTAAATATTATTTGATTAATT-ATTTATACGATATGCATGACAT
* * **
1044791 AGTAAATATTATTTGATTAATTATGTTATACAATATGTATGGTAT
1 -GTAAATATTATTTGATTAATTAT-TTATACGATATGCATGACAT
* * * *
1044836 GATAAATATTATTTGACTGATTATACTATATGATATGCATGACAT
1 G-TAAATATTATTTGATTAATTAT-TTATACGATATGCATGACAT
* * * * * *
1044881 GACAAATATTATTTGATTGATTATGTTAGACGACATGTATGATAT
1 G-TAAATATTATTTGATTAATTAT-TTATACGATATGCATGACAT
* * * * *
1044926 GGTAAATATTATTTGATTGATTATGCTATATGATATACATGATAT
1 -GTAAATATTATTTGATTAATTAT-TTATACGATATGCATGACAT
*
1044971 GGTAAATACTATTTGATTAATTAT
1 -GTAAATATTATTTGATTAATTAT
1044995 GATATGGTAA
Statistics
Matches: 196, Mismatches: 34, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
38 26 0.13
39 1 0.01
40 1 0.01
41 7 0.04
42 8 0.04
43 1 0.01
44 1 0.01
45 150 0.77
46 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (43 bp):
GTAAATATTATTTGATTAATTATTTATACGATATGCATGACAT
Found at i:1044792 original size:38 final size:37
Alignment explanation
Indices: 1044741--1044816 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 37
1044731 TTCTATACGA
*
1044741 TATGCATGACATAGTAAATATCATTTGAATTGATTATG
1 TATGCATGACATAGTAAATATCATTTG-ATTAATTATG
*
1044779 TATGCATGACATAGTAAATATTATTTGATTAATTATG
1 TATGCATGACATAGTAAATATCATTTGATTAATTATG
1044816 T
1 T
1044817 TATACAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 10 0.28
38 26 0.72
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (37 bp):
TATGCATGACATAGTAAATATCATTTGATTAATTATG
Found at i:1044893 original size:90 final size:90
Alignment explanation
Indices: 1044775--1044995 Score: 302
Period size: 90 Copynumber: 2.5 Consensus size: 90
1044765 TTGAATTGAT
* * *
1044775 TATG-TATGCATGACAT-AGTAAATATTATTTGATTAATTATGTTATACAATATGTATGGTATGA
1 TATGATATGCATGACATGA-TAAATATTATTTGATTAATTATGTTAGACAACATGTATGATATGA
1044838 TAAATATTATTTGACTGATTATACTA
65 TAAATATTATTTGACTGATTATACTA
* * * *
1044864 TATGATATGCATGACATGACAAATATTATTTGATTGATTATGTTAGACGACATGTATGATATGGT
1 TATGATATGCATGACATGATAAATATTATTTGATTAATTATGTTAGACAACATGTATGATATGAT
* *
1044929 AAATATTATTTGATTGATTATGCTA
66 AAATATTATTTGACTGATTATACTA
* * * *
1044954 TATGATATACATGATATGGTAAATACTATTTGATTAATTATG
1 TATGATATGCATGACATGATAAATATTATTTGATTAATTATG
1044996 ATATGGTAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
89 4 0.03
90 110 0.96
91 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (90 bp):
TATGATATGCATGACATGATAAATATTATTTGATTAATTATGTTAGACAACATGTATGATATGAT
AAATATTATTTGACTGATTATACTA
Found at i:1044995 original size:45 final size:45
Alignment explanation
Indices: 1044779--1044995 Score: 227
Period size: 45 Copynumber: 4.8 Consensus size: 45
1044769 ATTGATTATG
* * * *
1044779 TATGCATGACATAGTAAATATTATTTGATTAATTATGTTATACAA
1 TATGCATGATATGGTAAATATTATTTGATTAATTATGCTATACGA
* * * * * * *
1044824 TATGTATGGTATGATAAATATTATTTGACTGATTATACTATATGA
1 TATGCATGATATGGTAAATATTATTTGATTAATTATGCTATACGA
* ** * * *
1044869 TATGCATGACATGACAAATATTATTTGATTGATTATGTTAGACGA
1 TATGCATGATATGGTAAATATTATTTGATTAATTATGCTATACGA
* * * *
1044914 CATGTATGATATGGTAAATATTATTTGATTGATTATGCTATATGA
1 TATGCATGATATGGTAAATATTATTTGATTAATTATGCTATACGA
* *
1044959 TATACATGATATGGTAAATACTATTTGATTAATTATG
1 TATGCATGATATGGTAAATATTATTTGATTAATTATG
1044996 ATATGGTAAA
Statistics
Matches: 139, Mismatches: 33, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 139 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (45 bp):
TATGCATGATATGGTAAATATTATTTGATTAATTATGCTATACGA
Found at i:1045000 original size:29 final size:29
Alignment explanation
Indices: 1044964--1045019 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
1044954 TATGATATAC
1044964 ATGATATGGTAAATACTATTTGATTAATT
1 ATGATATGGTAAATACTATTTGATTAATT
*
1044993 ATGATATGGTAAATATTATTTGATTAA
1 ATGATATGGTAAATACTATTTGATTAA
1045020 GTATTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (29 bp):
ATGATATGGTAAATACTATTTGATTAATT
Found at i:1045007 original size:74 final size:74
Alignment explanation
Indices: 1044918--1045069 Score: 223
Period size: 74 Copynumber: 2.1 Consensus size: 74
1044908 AGACGACATG
* * * *
1044918 TATGATATGGTAAATATTATTTGATTGATTATGCTATATGATATACATGATATGGTAAATACTAT
1 TATGATATGGTAAATATTATTTGATTAAGTATGCTATATGATATACATGACATGATAAATACTAT
1044983 TTGATTAAT
66 TTGATTAAT
** * *
1044992 TATGATATGGTAAATATTATTTGATTAAGTATTTTATATGATATGCATGACATGATAAATATTAT
1 TATGATATGGTAAATATTATTTGATTAAGTATGCTATATGATATACATGACATGATAAATACTAT
*
1045057 TTGATTGAT
66 TTGATTAAT
1045066 TATG
1 TATG
1045070 CTATACAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (74 bp):
TATGATATGGTAAATATTATTTGATTAAGTATGCTATATGATATACATGACATGATAAATACTAT
TTGATTAAT
Found at i:1045012 original size:164 final size:164
Alignment explanation
Indices: 1044828--1045158 Score: 466
Period size: 164 Copynumber: 2.0 Consensus size: 164
1044818 ATACAATATG
* * *
1044828 TATGGTATGATAAATATTATTTGACTGATTATACTATATGATATGCATGACATGACAAATATTAT
1 TATGATATGATAAATATTATTTGACTAAGTATACTATATGATATGCATGACATGACAAATATTAT
* * * *
1044893 TTGATTGATTATGTTAGACGACATGTATGATATGGTAAATATTATTTGATTGATTATGCTATATG
66 TTGATTGATTATGCTAGACAACATGTATGATATGGTAAATATTATTTGACTAATTATGCTATATG
* **
1044958 ATAT-ACATGATATGGTAAATACTATTTGATTAAT
131 ATATGA-ATGACATGACAAATACTATTTGATTAAT
* * ** *
1044992 TATGATATGGTAAATATTATTTGATTAAGTATTTTATATGATATGCATGACATGATAAATATTAT
1 TATGATATGATAAATATTATTTGACTAAGTATACTATATGATATGCATGACATGACAAATATTAT
* * *
1045057 TTGATTGATTATGCTATACAATATGTATGATATGGTAAATATTATTTGACTAATTATGTTATATG
66 TTGATTGATTATGCTAGACAACATGTATGATATGGTAAATATTATTTGACTAATTATGCTATATG
* *
1045122 ATATGAATGACATGACAAATATTATTTGATTGAT
131 ATATGAATGACATGACAAATACTATTTGATTAAT
1045156 TAT
1 TAT
1045159 ATTATACGAT
Statistics
Matches: 146, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
164 145 0.99
165 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (164 bp):
TATGATATGATAAATATTATTTGACTAAGTATACTATATGATATGCATGACATGACAAATATTAT
TTGATTGATTATGCTAGACAACATGTATGATATGGTAAATATTATTTGACTAATTATGCTATATG
ATATGAATGACATGACAAATACTATTTGATTAAT
Found at i:1045053 original size:45 final size:45
Alignment explanation
Indices: 1044993--1045244 Score: 279
Period size: 45 Copynumber: 5.6 Consensus size: 45
1044983 TTGATTAATT
* * * *
1044993 ATGATATGGTAAATATTATTTGATTAAGTATTTTATATGATATGC
1 ATGATATGATAAATATTATTTGATTAATTATGTTATACGATATGC
* * * * *
1045038 ATGACATGATAAATATTATTTGATTGATTATGCTATACAATATGT
1 ATGATATGATAAATATTATTTGATTAATTATGTTATACGATATGC
* * * *
1045083 ATGATATGGTAAATATTATTTGACTAATTATGTTATATGATATGA
1 ATGATATGATAAATATTATTTGATTAATTATGTTATACGATATGC
* * * * *
1045128 ATGACATGACAAATATTATTTGATTGATTATATTATACGATATGT
1 ATGATATGATAAATATTATTTGATTAATTATGTTATACGATATGC
* * * *
1045173 ATGATATGATAAATATTATATGATTGATTATGCTATACAATATGC
1 ATGATATGATAAATATTATTTGATTAATTATGTTATACGATATGC
* * *
1045218 ATGATGTGGTAAATACTATTTGATTAA
1 ATGATATGATAAATATTATTTGATTAA
1045245 CTGTGATATG
Statistics
Matches: 170, Mismatches: 37, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 170 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.43
Consensus pattern (45 bp):
ATGATATGATAAATATTATTTGATTAATTATGTTATACGATATGC
Found at i:1045095 original size:119 final size:119
Alignment explanation
Indices: 1044884--1045368 Score: 414
Period size: 119 Copynumber: 3.9 Consensus size: 119
1044874 ATGACATGAC
* * * * *
1044884 AAATATTATTTGATTGATTATGTTAGACGACATGTATGATATGGTAAATATTATTTGATTGATTA
1 AAATATTATTTGATTAAGTATGTTAGACGACATGCATGACATGATAAATATTATTTGATTGATTA
** *
1044949 TGCTATATGATATACATGATATGGTAAATACTATTTGATTAATTATGATATGGT
66 TGCTATACAATATACATGATATGGTAAATACTATTTGACTAATTATGATATGGT
* * * *
1045003 AAATATTATTTGATTAAGTATTTTATATGATATGCATGACATGATAAATATTATTTGATTGATTA
1 AAATATTATTTGATTAAGTATGTTAGACGACATGCATGACATGATAAATATTATTTGATTGATTA
** * *
1045068 TGCTATACAATATGTATGATATGGTAAATATTATTTGACTAATTATGTTATATGAT
66 TGCTATACAATATACATGATATGGTAAATACTATTTGACTAATTATG--ATATGGT
* ** ** * ** * * *
1045124 ATGAATGACATGACAAAT-ATTATTTGATTGATTATATTATACGATATGTATGATATGATAAATA
1 A--AAT---AT--TATTTGATTAAGT-A-TG-TTAGA--CGAC-ATG--CATGACATGATAAATA
* * * * * *
1045188 TTATATGATTGATTATGCTATACAATATGCATGATGTGGTAAATACTATTTGATTAACTGTGATA
51 TTATTTGATTGATTATGCTATACAATATACATGATATGGTAAATACTATTTGACTAATTATGATA
1045253 TGGT
116 TGGT
* * * *
1045257 AAATATTATTTGATTAAGTATGTTATACGATATGCATGATATGGTAAATATTATTTGATTGATTA
1 AAATATTATTTGATTAAGTATGTTAGACGACATGCATGACATGATAAATATTATTTGATTGATTA
* * * * * * *
1045322 TGCTATACAAAATGCATGATAAGATAAATATTATTTGATTGATTATG
66 TGCTATACAATATACATGATATGGTAAATACTATTTGACTAATTATG
1045369 CTATAAAATA
Statistics
Matches: 292, Mismatches: 56, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
119 164 0.56
121 9 0.03
122 1 0.00
123 3 0.01
124 5 0.02
125 2 0.01
126 5 0.02
127 10 0.03
128 5 0.02
129 1 0.00
130 5 0.02
131 3 0.01
132 1 0.00
133 9 0.03
135 69 0.24
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (119 bp):
AAATATTATTTGATTAAGTATGTTAGACGACATGCATGACATGATAAATATTATTTGATTGATTA
TGCTATACAATATACATGATATGGTAAATACTATTTGACTAATTATGATATGGT
Found at i:1045099 original size:90 final size:90
Alignment explanation
Indices: 1044992--1045242 Score: 340
Period size: 90 Copynumber: 2.8 Consensus size: 90
1044982 TTTGATTAAT
* *
1044992 TATGATATGGTAAATATTATTTGATTAAGTATTTTATATGATATGCATGACATGATAAATATTAT
1 TATGATATGGTAAATATTATTTGATTAATTATGTTATATGATATGCATGACATGATAAATATTAT
*
1045057 TTGATTGATTATGCTATACAATATG
66 TTGATTGATTATACTATACAATATG
* * *
1045082 TATGATATGGTAAATATTATTTGACTAATTATGTTATATGATATGAATGACATGACAAATATTAT
1 TATGATATGGTAAATATTATTTGATTAATTATGTTATATGATATGCATGACATGATAAATATTAT
* *
1045147 TTGATTGATTATATTATACGATATG
66 TTGATTGATTATACTATACAATATG
* * * * ** ** * *
1045172 TATGATATGATAAATATTATATGATTGATTATGCTATACAATATGCATGATGTGGTAAATACTAT
1 TATGATATGGTAAATATTATTTGATTAATTATGTTATATGATATGCATGACATGATAAATATTAT
1045237 TTGATT
66 TTGATT
1045243 AACTGTGATA
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 140 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (90 bp):
TATGATATGGTAAATATTATTTGATTAATTATGTTATATGATATGCATGACATGATAAATATTAT
TTGATTGATTATACTATACAATATG
Found at i:1045122 original size:254 final size:253
Alignment explanation
Indices: 1044536--1045413 Score: 970
Period size: 254 Copynumber: 3.5 Consensus size: 253
1044526 TTGATTAATT
* * * * * * *
1044536 ATGATATGGTAAATATTATTTGATTAAGTATTCTATGAGAATATGCATGACATGGTAAATATTAT
1 ATGACATGATAAATATTATTTGATTAATTATGCTAT-ACAATATGCATGATATGATAAATATTAT
* * * * * ** * *
1044601 TTTATTGATTATACTAAATGATATGTATGATATGGTAAATATTATTTGATTGATTATGCTATACA
65 TTGACTGATTATACTATATGATATGCATGACATGACAAATATTATTTGATTGATTATGTTATACG
* * * * * * * * *
1044666 ATATGTATGATGTGGTAAATACTATTTGATTAATTATG--ATATGGTAAATATTATTTGTTTAAG
130 ATATGTATGATATGGTAAATATTATTTGATTGATTATGCTATATGATATACATGATATG-GTAA-
* ** * * * *
1044729 TATTCTATACGA-T-ATGCATGACATAGTAAATATCATTTGAATT--G-A--T-TATG-TATGC
193 -ATACTATTTGATTAAT-TATGATATGGTAAATATTATTTG-ATTAAGTATTTATATGATATGC
* * *
1044784 ATGACAT-AGTAAATATTATTTGATTAATTATGTTATACAATATGTATGGTATGATAAATATTAT
1 ATGACATGA-TAAATATTATTTGATTAATTATGCTATACAATATGCATGATATGATAAATATTAT
*
1044848 TTGACTGATTATACTATATGATATGCATGACATGACAAATATTATTTGATTGATTATGTTAGACG
65 TTGACTGATTATACTATATGATATGCATGACATGACAAATATTATTTGATTGATTATGTTATACG
*
1044913 ACATGTATGATATGGTAAATATTATTTGATTGATTATGCTATATGATATACATGATATGGTAAAT
130 ATATGTATGATATGGTAAATATTATTTGATTGATTATGCTATATGATATACATGATATGGTAAAT
1044978 ACTATTTGATTAATTATGATATGGTAAATATTATTTGATTAAGTATTTTATATGATATGC
195 ACTATTTGATTAATTATGATATGGTAAATATTATTTGATTAAGTA-TTTATATGATATGC
* * *
1045038 ATGACATGATAAATATTATTTGATTGATTATGCTATACAATATGTATGATATGGTAAATATTATT
1 ATGACATGATAAATATTATTTGATTAATTATGCTATACAATATGCATGATATGATAAATATTATT
* ** * *
1045103 TGACTAATTATGTTATATGATATGAATGACATGACAAATATTATTTGATTGATTATATTATACGA
66 TGACTGATTATACTATATGATATGCATGACATGACAAATATTATTTGATTGATTATGTTATACGA
* * ** * *
1045168 TATGTATGATATGATAAATATTATATGATTGATTATGCTATACAATATGCATGATGTGGTAAATA
131 TATGTATGATATGGTAAATATTATTTGATTGATTATGCTATATGATATACATGATATGGTAAATA
* * *
1045233 CTATTTGATTAACTGTGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATGC
196 CTATTTGATTAATTATGATATGGTAAATATTATTTGATTAAGTAT-TTATATGATATGC
* * * * *
1045292 ATGATATGGTAAATATTATTTGATTGATTATGCTATACAAAATGCATGATAAGATAAATATTATT
1 ATGACATGATAAATATTATTTGATTAATTATGCTATACAATATGCATGATATGATAAATATTATT
* * ** ** ** * *
1045357 TGATTGATTATGCTATAAAATATGCATGATGTGGTAAATACTATTTGATTAATTATG
66 TGACTGATTATACTATATGATATGCATGACATGACAAATATTATTTGATTGATTATG
1045414 ATATGGTAAA
Statistics
Matches: 539, Mismatches: 76, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
246 11 0.02
247 132 0.24
248 36 0.07
249 15 0.03
252 1 0.00
253 5 0.01
254 338 0.63
255 1 0.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (253 bp):
ATGACATGATAAATATTATTTGATTAATTATGCTATACAATATGCATGATATGATAAATATTATT
TGACTGATTATACTATATGATATGCATGACATGACAAATATTATTTGATTGATTATGTTATACGA
TATGTATGATATGGTAAATATTATTTGATTGATTATGCTATATGATATACATGATATGGTAAATA
CTATTTGATTAATTATGATATGGTAAATATTATTTGATTAAGTATTTATATGATATGC
Found at i:1045254 original size:164 final size:164
Alignment explanation
Indices: 1045082--1045538 Score: 709
Period size: 164 Copynumber: 2.8 Consensus size: 164
1045072 ATACAATATG
* * * * * **
1045082 TATGATATGGTAAATATTATTTGACTAATTATGTTATATGATATGAATGACATGACAAATATTAT
1 TATGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATGCATGATATGGTAAATATTAT
** *
1045147 TTGATTGATTATATTATACGATATGTATGATATGATAAATATTATATGATTGATTATGCTATACA
66 TTGATTGATTATGCTATACGATATGTATGATATGATAAATATTATTTGATTGATTATGCTATACA
1045212 ATATGCATGATGTGGTAAATACTATTTGATTAAC
131 ATATGCATGATGTGGTAAATACTATTTGATTAAC
*
1045246 TGTGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATGCATGATATGGTAAATATTAT
1 TATGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATGCATGATATGGTAAATATTAT
* * * * *
1045311 TTGATTGATTATGCTATACAAAATGCATGATAAGATAAATATTATTTGATTGATTATGCTATAAA
66 TTGATTGATTATGCTATACGATATGTATGATATGATAAATATTATTTGATTGATTATGCTATACA
*
1045376 ATATGCATGATGTGGTAAATACTATTTGATTAAT
131 ATATGCATGATGTGGTAAATACTATTTGATTAAC
*
1045410 TATGATATGGTAAATATTATTTGATTAAGTATGTTATACAATATGCATGATATGGTAAATATTAT
1 TATGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATGCATGATATGGTAAATATTAT
* * *
1045475 TTGATTGATTATGCTATACGATAT-TCATGATATGGTAAATATAATTTGATTGATTATACTATAC
66 TTGATTGATTATGCTATACGATATGT-ATGATATGATAAATATTATTTGATTGATTATGCTATAC
1045539 GACACACATG
Statistics
Matches: 265, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
164 265 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.42
Consensus pattern (164 bp):
TATGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATGCATGATATGGTAAATATTAT
TTGATTGATTATGCTATACGATATGTATGATATGATAAATATTATTTGATTGATTATGCTATACA
ATATGCATGATGTGGTAAATACTATTTGATTAAC
Found at i:1045278 original size:24 final size:26
Alignment explanation
Indices: 1045218--1045273 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 26
1045208 TACAATATGC
*
1045218 ATGATGTGGTAAATACTATTTGATTA
1 ATGATATGGTAAATACTATTTGATTA
*
1045244 ACTGTGATATGGTAAATATTATTTGATTA
1 A---TGATATGGTAAATACTATTTGATTA
1045273 A
1 A
1045274 GTATGTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.04
29 24 0.96
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (26 bp):
ATGATATGGTAAATACTATTTGATTA
Found at i:1045299 original size:45 final size:45
Alignment explanation
Indices: 1045248--1045413 Score: 233
Period size: 45 Copynumber: 3.7 Consensus size: 45
1045238 TGATTAACTG
* * *
1045248 TGATATGGTAAATATTATTTGATTAAGTATGTTATACGATATGCA
1 TGATATGGTAAATATTATTTGATTAATTATGCTATACAATATGCA
* *
1045293 TGATATGGTAAATATTATTTGATTGATTATGCTATACAAAATGCA
1 TGATATGGTAAATATTATTTGATTAATTATGCTATACAATATGCA
* * * *
1045338 TGATAAGATAAATATTATTTGATTGATTATGCTATAAAATATGCA
1 TGATATGGTAAATATTATTTGATTAATTATGCTATACAATATGCA
* *
1045383 TGATGTGGTAAATACTATTTGATTAATTATG
1 TGATATGGTAAATATTATTTGATTAATTATG
1045414 ATATGGTAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (45 bp):
TGATATGGTAAATATTATTTGATTAATTATGCTATACAATATGCA
Found at i:1045415 original size:29 final size:29
Alignment explanation
Indices: 1045382--1045442 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
1045372 TAAAATATGC
* *
1045382 ATGATGTGGTAAATACTATTTGATTAATT
1 ATGATATGGTAAATACTATTTGATTAAGT
*
1045411 ATGATATGGTAAATATTATTTGATTAAGT
1 ATGATATGGTAAATACTATTTGATTAAGT
1045440 ATG
1 ATG
1045443 TTATACAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (29 bp):
ATGATATGGTAAATACTATTTGATTAAGT
Found at i:1045415 original size:119 final size:119
Alignment explanation
Indices: 1045292--1045531 Score: 365
Period size: 119 Copynumber: 2.0 Consensus size: 119
1045282 TACGATATGC
* *
1045292 ATGATATGGTAAATATTATTTGATTGATTATGCTATACAAAATGCATGATAAGATAAATATTATT
1 ATGATATGGTAAATATTATTTGATTAAGTATGCTATACAAAATGCATGATAAGATAAATATTATT
*
1045357 TGATTGATTATGCTATAAAATATGCATGATGTGGTAAATACT-ATTTGATTAATT
66 TGATTGATTATGCTATAAAATATGCATGATATGGTAAATA-TAATTTGATTAATT
* * * *
1045411 ATGATATGGTAAATATTATTTGATTAAGTATGTTATACAATATGCATGATATGGTAAATATTATT
1 ATGATATGGTAAATATTATTTGATTAAGTATGCTATACAAAATGCATGATAAGATAAATATTATT
** * *
1045476 TGATTGATTATGCTATACGATATTCATGATATGGTAAATATAATTTGATTGATT
66 TGATTGATTATGCTATAAAATATGCATGATATGGTAAATATAATTTGATTAATT
1045530 AT
1 AT
1045532 ACTATACGAC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 1 0.01
119 108 0.99
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (119 bp):
ATGATATGGTAAATATTATTTGATTAAGTATGCTATACAAAATGCATGATAAGATAAATATTATT
TGATTGATTATGCTATAAAATATGCATGATATGGTAAATATAATTTGATTAATT
Found at i:1045486 original size:74 final size:74
Alignment explanation
Indices: 1045337--1045487 Score: 221
Period size: 74 Copynumber: 2.0 Consensus size: 74
1045327 TACAAAATGC
* * *
1045337 ATGATAAGATAAATATTATTTGATTGATTATGCTATAAAATATGCATGATGTGGTAAATACTATT
1 ATGATAAGATAAATATTATTTGATTAAGTATGCTATAAAATATGCATGATATGGTAAATACTATT
1045402 TGATTAATT
66 TGATTAATT
* * * * *
1045411 ATGATATGGTAAATATTATTTGATTAAGTATGTTATACAATATGCATGATATGGTAAATATTATT
1 ATGATAAGATAAATATTATTTGATTAAGTATGCTATAAAATATGCATGATATGGTAAATACTATT
*
1045476 TGATTGATT
66 TGATTAATT
1045485 ATG
1 ATG
1045488 CTATACGATA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (74 bp):
ATGATAAGATAAATATTATTTGATTAAGTATGCTATAAAATATGCATGATATGGTAAATACTATT
TGATTAATT
Found at i:1045526 original size:45 final size:45
Alignment explanation
Indices: 1045411--1045540 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
1045401 TTGATTAATT
* * * *
1045411 ATGATATGGTAAATATTATTTGATTAAGTATGTTATACAATATGC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
*
1045456 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATTC
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
* *
1045501 ATGATATGGTAAATATAATTTGATTGATTATACTATACGA
1 ATGATATGGTAAATATTATTTGATTGATTATGCTATACGA
1045541 CACACATGAT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.42
Consensus pattern (45 bp):
ATGATATGGTAAATATTATTTGATTGATTATGCTATACGATATGC
Found at i:1053213 original size:16 final size:16
Alignment explanation
Indices: 1053189--1053233 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1053179 GGAAATGTGT
1053189 AATAAACAT-AAATATA
1 AATAAACATGAAA-ATA
*
1053205 AATAGACATGAAAATA
1 AATAAACATGAAAATA
*
1053221 AATAAAGATGAAA
1 AATAAACATGAAA
1053234 TAAGAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (16 bp):
AATAAACATGAAAATA
Found at i:1054851 original size:19 final size:18
Alignment explanation
Indices: 1054813--1054850 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1054803 TTTAACTTGT
1054813 AACTCAATTTTATTTAAA
1 AACTCAATTTTATTTAAA
* *
1054831 AACTTAATTTTTTTTAAA
1 AACTCAATTTTATTTAAA
1054849 AA
1 AA
1054851 AAAACCTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
AACTCAATTTTATTTAAA
Found at i:1055317 original size:14 final size:14
Alignment explanation
Indices: 1055300--1055350 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
1055290 AATTTAACTC
1055300 TTATATTTTAATTT
1 TTATATTTTAATTT
1055314 TTATATTTTAATTT
1 TTATATTTTAATTT
*
1055328 TTAGATATTTAATTT
1 TTATAT-TTTAATTT
1055343 TT-TATTTT
1 TTATATTTT
1055351 TTATTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 3 0.09
14 21 0.62
15 10 0.29
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTATATTTTAATTT
Found at i:1055323 original size:28 final size:28
Alignment explanation
Indices: 1055292--1055350 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1055282 AAATTTAAAA
*
1055292 TTTAACTCTTATAT-TTTAATTTTTATAT
1 TTTAACTCTTAGATATTTAATTTTT-TAT
* *
1055320 TTTAATTTTTAGATATTTAATTTTTTAT
1 TTTAACTCTTAGATATTTAATTTTTTAT
1055348 TTT
1 TTT
1055351 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTAACTCTTAGATATTTAATTTTTTAT
Found at i:1055346 original size:8 final size:7
Alignment explanation
Indices: 1055305--1055356 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
1055295 AACTCTTATA
1055305 TTTTAAT
1 TTTTAAT
1055312 TTTT-AT
1 TTTTAAT
1055318 ATTTTAAT
1 -TTTTAAT
1055326 TTTTAGAT
1 TTTTA-AT
*
1055334 ATTTAAT
1 TTTTAAT
*
1055341 TTTTTAT
1 TTTTAAT
*
1055348 TTTTTAT
1 TTTTAAT
1055355 TT
1 TT
1055357 AAAAATTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
6 2 0.05
7 29 0.74
8 8 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:1055356 original size:14 final size:14
Alignment explanation
Indices: 1055300--1055347 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
1055290 AATTTAACTC
1055300 TTATATTTTAA-TTT
1 TTATA-TTTAATTTT
1055314 TTATATTTTAATTTT
1 TTATA-TTTAATTTT
*
1055329 TAGATATTTAATTTT
1 T-TATATTTAATTTT
1055344 TTAT
1 TTAT
1055348 TTTTTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 13 0.43
15 14 0.47
16 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATATTTAATTTT
Found at i:1055966 original size:17 final size:17
Alignment explanation
Indices: 1055946--1055983 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1055936 ATAACATCAA
*
1055946 ATTTTAGAAT-TTTTTAT
1 ATTTTAAAATATTTTT-T
1055963 ATTTTAAAATATTTTTT
1 ATTTTAAAATATTTTTT
1055980 ATTT
1 ATTT
1055984 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
ATTTTAAAATATTTTTT
Found at i:1056012 original size:23 final size:21
Alignment explanation
Indices: 1055955--1056013 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 21
1055945 AATTTTAGAA
1055955 TTTTTTATATTTTAAAATATTT
1 TTTTTTATATTTTAAAATA-TT
*
1055977 TTTATTTAAATTTTAAAGAGT-TT
1 TTT-TTTATATTTTAAA-A-TATT
1056000 TTTTTTCATATTTT
1 TTTTTT-ATATTTT
1056014 TATTTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 6 0.19
23 23 0.74
24 1 0.03
25 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (21 bp):
TTTTTTATATTTTAAAATATT
Found at i:1056278 original size:17 final size:17
Alignment explanation
Indices: 1056256--1056291 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1056246 TTTTTATAAG
1056256 TTTATAATATT-TTTATT
1 TTTATAAT-TTATTTATT
1056273 TTTATAATTTATTTATT
1 TTTATAATTTATTTATT
1056290 TT
1 TT
1056292 GAATTAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATAATTTATTTATT
Found at i:1062574 original size:25 final size:25
Alignment explanation
Indices: 1062519--1062570 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
1062509 TTTCATAATT
*
1062519 TATTATTTTTTTGTAAAAAATATAA
1 TATTATCTTTTTGTAAAAAATATAA
*
1062544 TATTATCTTTTT-TAAAAATTAT-A
1 TATTATCTTTTTGTAAAAAATATAA
1062567 TATT
1 TATT
1062571 TTATAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 9 0.36
25 11 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTATCTTTTTGTAAAAAATATAA
Found at i:1069897 original size:111 final size:112
Alignment explanation
Indices: 1069778--1070007 Score: 399
Period size: 111 Copynumber: 2.1 Consensus size: 112
1069768 ATCTTCTTTC
1069778 CTTTTGATTCCAATATCTTTAGTTACAAATCTATCTCAAAGCTTGAATCTTTAAAACCCA-AACC
1 CTTTTGATTCCAATATCTTTAGTTACAAATCTATCTCAAAGCTTGAATCTTTAAAACCCATAACC
*
1069842 AAAAGATTCAATATCTTTGGTTCCAATATCTTCTTCCCATTAAGTTT
66 AAAAGATTCAATATCTTTAGTTCCAATATCTTCTTCCCATTAAGTTT
*
1069889 CTTTTGATTCCAATATCTTTAGTTACAAATCTTTCTCAAAGCTTGAATCTTTAAAACCCATTAAC
1 CTTTTGATTCCAATATCTTTAGTTACAAATCTATCTCAAAGCTTGAATCTTTAAAACCCA-TAAC
**
1069954 CAAAAGATTCAATATCTTTAGTTCCAATATCTTCTTCCTGTTAAGTTT
65 CAAAAGATTCAATATCTTTAGTTCCAATATCTTCTTCCCATTAAGTTT
*
1070002 TTTTTG
1 CTTTTG
1070008 GGTTAATGGA
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 59 0.53
113 53 0.47
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (112 bp):
CTTTTGATTCCAATATCTTTAGTTACAAATCTATCTCAAAGCTTGAATCTTTAAAACCCATAACC
AAAAGATTCAATATCTTTAGTTCCAATATCTTCTTCCCATTAAGTTT
Found at i:1072531 original size:18 final size:18
Alignment explanation
Indices: 1072508--1072550 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1072498 GTTCAAGATG
1072508 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
1072526 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
1072544 TAATTAA
1 TAATTAA
1072551 AAACGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:1078712 original size:36 final size:35
Alignment explanation
Indices: 1078619--1078721 Score: 143
Period size: 36 Copynumber: 2.9 Consensus size: 35
1078609 ATATAATCAA
* * *
1078619 TCACATGGCATGAAGAACATATCAACATATTTTTT
1 TCACATGGCATGAAGAACATACCCACATATTTTTG
*
1078654 TCCTCATGGCATGAAGAACATACCCACATATTTTCTG
1 T-CACATGGCATGAAGAACATACCCACATATTTT-TG
*
1078691 TCACATGGCATGAAGAACATACCCATATATT
1 TCACATGGCATGAAGAACATACCCACATATT
1078722 CACTTTCACA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
35 1 0.02
36 57 0.95
37 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (35 bp):
TCACATGGCATGAAGAACATACCCACATATTTTTG
Found at i:1078836 original size:23 final size:23
Alignment explanation
Indices: 1078801--1079134 Score: 418
Period size: 23 Copynumber: 14.6 Consensus size: 23
1078791 ATCTTAATTC
*
1078801 TTTAAGCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
1078824 TTTAATCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
1078847 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
1078870 TTTGAGCACAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
1078893 TTTAACCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
1078916 TTTGAGCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
*
1078939 TTTAAGCATAAATTACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * *
1078962 TTTGAGCACAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
1078985 TTTAACCACAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* *
1079008 TTTGAGCATAAATCATATTAATA
1 TTTAAGCATAAATCACATTAATA
1079031 TTTAAGCA-AAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
1079053 TTTAAGCATAAATCACATTAATA
1 TTTAAGCATAAATCACATTAATA
* * * *
1079076 CTTAAGCACAAATAAAATTAATA
1 TTTAAGCATAAATCACATTAATA
* * * *
1079099 TTTAATCTTAAATCATAATAATA
1 TTTAAGCATAAATCACATTAATA
*
1079122 TTTAAGCACAAAT
1 TTTAAGCATAAAT
1079135 ATAAAAACAC
Statistics
Matches: 265, Mismatches: 45, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
22 21 0.08
23 244 0.92
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
TTTAAGCATAAATCACATTAATA
Found at i:1079135 original size:46 final size:46
Alignment explanation
Indices: 1078801--1079134 Score: 499
Period size: 46 Copynumber: 7.3 Consensus size: 46
1078791 ATCTTAATTC
* *
1078801 TTTAAGCACAAATCACATTAATATTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
* *
1078847 TTTAAGCATAAATCACATTAATATTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
*
1078893 TTTAACCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
* * *
1078939 TTTAAGCATAAATTACATTAATATTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
*
1078985 TTTAACCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
* *
1079031 TTTAAGCA-AAATCACATTAATATTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
* * * * * * *
1079076 CTTAAGCACAAATAAAATTAATATTTAATCTTAAATCATAATAATA
1 TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
1079122 TTTAAGCACAAAT
1 TTTAAGCACAAAT
1079135 ATAAAAACAC
Statistics
Matches: 261, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 42 0.16
46 219 0.84
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.35
Consensus pattern (46 bp):
TTTAAGCACAAATCACATTAATATTTGAGCATAAATCATATTAATA
Found at i:1080606 original size:53 final size:53
Alignment explanation
Indices: 1080533--1080731 Score: 265
Period size: 53 Copynumber: 3.8 Consensus size: 53
1080523 ATGAAAAAAG
* * *
1080533 GTTCGATGACTT-TGTGTCATCGTGAGTATATGAATCCTATTACGGATGAACAT
1 GTTCGATGA-TTATGTATCATCGTGAGTATATGAATCCTATTACGGATTAACAA
* * * * *
1080586 GTTCGATTATCATGTATCATCGTAAGTATATGAATCCTACTACGGATTAACAG
1 GTTCGATGATTATGTATCATCGTGAGTATATGAATCCTATTACGGATTAACAA
* * *
1080639 GTTCGATGATTATGTATCATCATGAGTCTATGAATCCTATTATGGATTAACAA
1 GTTCGATGATTATGTATCATCGTGAGTATATGAATCCTATTACGGATTAACAA
* *
1080692 GTCCGATGATTATGTATCATCGTGAGTATATGAATTCTAT
1 GTTCGATGATTATGTATCATCGTGAGTATATGAATCCTAT
1080732 CATATATTTA
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
52 1 0.01
53 125 0.99
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (53 bp):
GTTCGATGATTATGTATCATCGTGAGTATATGAATCCTATTACGGATTAACAA
Found at i:1080720 original size:106 final size:106
Alignment explanation
Indices: 1080531--1080773 Score: 287
Period size: 106 Copynumber: 2.3 Consensus size: 106
1080521 AAATGAAAAA
* * * * *
1080531 AGGTTCGATGACTTTGTGTCATCGTGAGTATATGAATCCTATTACGGATGAACATGTTCGATTAT
1 AGGTTCGATGACTTTGTATCATCATGAGTATATGAATCCTATTACGGATGAACAAGTCCGATGAT
1080596 CATGTATCATCGTAAGTATATGAATCCTACTACGGATTAAC
66 CATGTATCATCGTAAGTATATGAATCCTACTACGGATTAAC
* * *
1080637 AGGTTCGATGA-TTATGTATCATCATGAGTCTATGAATCCTATTATGGATTAACAAGTCCGATGA
1 AGGTTCGATGACTT-TGTATCATCATGAGTATATGAATCCTATTACGGATGAACAAGTCCGATGA
* * * *
1080701 TTATGTATCATCGTGAGTATATGAATTCTATCATA--TATTTAA-
65 TCATGTATCATCGTAAGTATATGAATCCTA-C-TACGGA-TTAAC
* * *
1080743 AGGTCCGATGACTATGTGTCATCATGAGTAT
1 AGGTTCGATGACTTTGTATCATCATGAGTAT
1080774 TAAATGAAAT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
105 2 0.02
106 106 0.91
107 6 0.05
108 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (106 bp):
AGGTTCGATGACTTTGTATCATCATGAGTATATGAATCCTATTACGGATGAACAAGTCCGATGAT
CATGTATCATCGTAAGTATATGAATCCTACTACGGATTAAC
Found at i:1080749 original size:53 final size:53
Alignment explanation
Indices: 1080531--1080773 Score: 215
Period size: 53 Copynumber: 4.6 Consensus size: 53
1080521 AAATGAAAAA
* * * * ** *
1080531 AGGTTCGATGACTT-TGTGTCATCGTGAGTATATGAATCCTATTACGGATGAAC
1 AGGTCCGATGA-TTATGTATCATCATGAGTATATGAATCCTATCATAGATTAAC
* * * * * *
1080584 ATGTTCGATTATCATGTATCATCGTAAGTATATGAATCCTA-C-TACGGATTAAC
1 AGGTCCGATGATTATGTATCATCATGAGTATATGAATCCTATCATA--GATTAAC
* * * *
1080637 AGGTTCGATGATTATGTATCATCATGAGTCTATGAATCCTATTATGGATTAAC
1 AGGTCCGATGATTATGTATCATCATGAGTATATGAATCCTATCATAGATTAAC
* * * *
1080690 AAGTCCGATGATTATGTATCATCGTGAGTATATGAATTCTATCATATATTTAA-
1 AGGTCCGATGATTATGTATCATCATGAGTATATGAATCCTATCATAGA-TTAAC
* *
1080743 AGGTCCGATGACTATGTGTCATCATGAGTAT
1 AGGTCCGATGATTATGTATCATCATGAGTAT
1080774 TAAATGAAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
52 1 0.01
53 149 0.96
54 4 0.03
55 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (53 bp):
AGGTCCGATGATTATGTATCATCATGAGTATATGAATCCTATCATAGATTAAC
Found at i:1090376 original size:12 final size:12
Alignment explanation
Indices: 1090359--1090416 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
1090349 GTATTGAAAA
*
1090359 GAGAAAGAAGAT
1 GAGAAAGAAGAG
*
1090371 GAGAAAGATGAG
1 GAGAAAGAAGAG
1090383 GA-AAAGAAGAAG
1 GAGAAAGAAG-AG
1090395 GA-AAAGAAG-G
1 GAGAAAGAAGAG
*
1090405 AGAGAAGGAAGA
1 -GAGAAAGAAGA
1090417 AATTTTTGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 1 0.03
11 8 0.21
12 29 0.76
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (12 bp):
GAGAAAGAAGAG
Found at i:1091598 original size:53 final size:53
Alignment explanation
Indices: 1091527--1091717 Score: 274
Period size: 53 Copynumber: 3.6 Consensus size: 53
1091517 TGACTTTGTG
* * *
1091527 TCATCGTGAGTATATGAATCCTATTACAGATGATCAGGTCCGATGATTATGTA
1 TCATCGTGAGTATATGAATCCTATTACAGATTAACAGGTCCAATGATTATGTA
* *
1091580 TCATCGTGAGTATTTGAATCCTACTACAGATTAACAGGTCCAATGATTATGTA
1 TCATCGTGAGTATATGAATCCTATTACAGATTAACAGGTCCAATGATTATGTA
* * * * * *
1091633 TCATTGTGAGTCTATGAATCCTATTACGGATTAACATGTCTAATGAATATGTA
1 TCATCGTGAGTATATGAATCCTATTACAGATTAACAGGTCCAATGATTATGTA
*
1091686 TCATCGTGAGTATATGAATCCTATCACAGATT
1 TCATCGTGAGTATATGAATCCTATTACAGATT
1091718 TAAAGGTTTG
Statistics
Matches: 121, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 121 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (53 bp):
TCATCGTGAGTATATGAATCCTATTACAGATTAACAGGTCCAATGATTATGTA
Found at i:1091737 original size:53 final size:52
Alignment explanation
Indices: 1091507--1091751 Score: 231
Period size: 53 Copynumber: 4.6 Consensus size: 52
1091497 GTAAATGCAA
* * * * *
1091507 AAAGGTTCGATGACTTTGTGTCATCGTGAGTATATGAATCCTATTACAGATG
1 AAAGGTCCGATGACTATGTATCATCGTGAGTATATGAATCCTATCACAGATT
* * *
1091559 ATCAGGTCCGATGATTATGTATCATCGTGAGTATTTGAATCCTA-CTACAGATT
1 A-AAGGTCCGATGACTATGTATCATCGTGAGTATATGAATCCTATC-ACAGATT
* * * * * *
1091612 AACAGGTCCAATGATTATGTATCATTGTGAGTCTATGAATCCTATTACGGATT
1 AA-AGGTCCGATGACTATGTATCATCGTGAGTATATGAATCCTATCACAGATT
* ** *
1091665 AACATGTCTAATGAATATGTATCATCGTGAGTATATGAATCCTATCACAGATTT
1 AA-AGGTCCGATGACTATGTATCATCGTGAGTATATGAATCCTATCACAGA-TT
** * **
1091719 AAAGGTTTGATGACTATGTGTCATTATGAGTAT
1 AAAGGTCCGATGACTATGTATCATCGTGAGTAT
1091752 TAAATGAAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 154 0.97
54 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (52 bp):
AAAGGTCCGATGACTATGTATCATCGTGAGTATATGAATCCTATCACAGATT
Found at i:1091737 original size:106 final size:105
Alignment explanation
Indices: 1091507--1091751 Score: 303
Period size: 106 Copynumber: 2.3 Consensus size: 105
1091497 GTAAATGCAA
* * * *
1091507 AAAGGTTCGATGACTTTGTGTCATCGTGAGTATATGAATCCTATTACAGATGATCAGGTCCGATG
1 AAAGGTTCGATGACTATGTGTCATTGTGAGTATATGAATCCTATTACAGATGAACAGGTCCAATG
* *
1091572 ATTATGTATCATCGTGAGTATTTGAATCCTACTACAGATT
66 AATATGTATCATCGTGAGTATATGAATCCTACTACAGATT
* * * * * * * * *
1091612 AACAGGTCCAATGATTATGTATCATTGTGAGTCTATGAATCCTATTACGGATTAACATGTCTAAT
1 AA-AGGTTCGATGACTATGTGTCATTGTGAGTATATGAATCCTATTACAGATGAACAGGTCCAAT
1091677 GAATATGTATCATCGTGAGTATATGAATCCTA-TCACAGATTT
65 GAATATGTATCATCGTGAGTATATGAATCCTACT-ACAGA-TT
* *
1091719 AAAGGTTTGATGACTATGTGTCATTATGAGTAT
1 AAAGGTTCGATGACTATGTGTCATTGTGAGTAT
1091752 TAAATGAAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
105 3 0.03
106 108 0.94
107 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (105 bp):
AAAGGTTCGATGACTATGTGTCATTGTGAGTATATGAATCCTATTACAGATGAACAGGTCCAATG
AATATGTATCATCGTGAGTATATGAATCCTACTACAGATT
Found at i:1096968 original size:48 final size:48
Alignment explanation
Indices: 1096897--1096993 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
1096887 CGAGGCACCG
1096897 AGTAAACCTAAATTTCACGGTTAAGCCCAAAGCAGAACATCTTACAAC
1 AGTAAACCTAAATTTCACGGTTAAGCCCAAAGCAGAACATCTTACAAC
1096945 AGTAAACCTAAATTTCACGGTTAAGCCCAAAGCAGAACATCTTACAAC
1 AGTAAACCTAAATTTCACGGTTAAGCCCAAAGCAGAACATCTTACAAC
1096993 A
1 A
1096994 TTCCCTCTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (48 bp):
AGTAAACCTAAATTTCACGGTTAAGCCCAAAGCAGAACATCTTACAAC
Found at i:1098291 original size:16 final size:18
Alignment explanation
Indices: 1098260--1098294 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1098250 TCTCACATCA
1098260 ATTTATCAACTATAAAAC
1 ATTTATCAACTATAAAAC
1098278 ATTTATC-A-TATAAAAC
1 ATTTATCAACTATAAAAC
1098294 A
1 A
1098295 AACCTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTTATCAACTATAAAAC
Found at i:1100589 original size:18 final size:18
Alignment explanation
Indices: 1100566--1100731 Score: 125
Period size: 18 Copynumber: 9.2 Consensus size: 18
1100556 CGGAAGGATC
1100566 AGCATACTGGCTCGTTTG
1 AGCATACTGGCTCGTTTG
* *
1100584 AGCATATTGACTCGTTTG
1 AGCATACTGGCTCGTTTG
* *
1100602 GGCATACTAGCTCGTTTG
1 AGCATACTGGCTCGTTTG
* * *
1100620 GGCATACTGACTCATTTG
1 AGCATACTGGCTCGTTTG
* * * *
1100638 GGTATACTGACTCATTTG
1 AGCATACTGGCTCGTTTG
** *
1100656 AGCATACTAACTCGTTTT
1 AGCATACTGGCTCGTTTG
*
1100674 AGCATACTGGCTCATTTG
1 AGCATACTGGCTCGTTTG
* * * **
1100692 AACGTACTGGCTTGTAAG
1 AGCATACTGGCTCGTTTG
* *
1100710 AGCATTACTGGATCGTATG
1 AGCA-TACTGGCTCGTTTG
1100729 AGC
1 AGC
1100732 TATATTTACT
Statistics
Matches: 117, Mismatches: 30, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
18 103 0.88
19 14 0.12
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (18 bp):
AGCATACTGGCTCGTTTG
Found at i:1100615 original size:36 final size:36
Alignment explanation
Indices: 1100567--1100692 Score: 153
Period size: 36 Copynumber: 3.5 Consensus size: 36
1100557 GGAAGGATCA
* *
1100567 GCATACTGGCTCGTTTGAGCATATTGACTCGTTTGG
1 GCATACTGGCTCATTTGAGCATACTGACTCGTTTGG
* * * *
1100603 GCATACTAGCTCGTTTGGGCATACTGACTCATTTGG
1 GCATACTGGCTCATTTGAGCATACTGACTCGTTTGG
* * * **
1100639 GTATACTGACTCATTTGAGCATACTAACTCGTTTTA
1 GCATACTGGCTCATTTGAGCATACTGACTCGTTTGG
1100675 GCATACTGGCTCATTTGA
1 GCATACTGGCTCATTTGA
1100693 ACGTACTGGC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (36 bp):
GCATACTGGCTCATTTGAGCATACTGACTCGTTTGG
Found at i:1100700 original size:54 final size:54
Alignment explanation
Indices: 1100566--1100692 Score: 164
Period size: 54 Copynumber: 2.4 Consensus size: 54
1100556 CGGAAGGATC
* * * * *
1100566 AGCATACTGGCTCGTTTGAGCATATTGACTCGTTTGGGCATACTAGCTCGTTTG
1 AGCATACTGGCTCATTTGAGCATACTGACTCATTTGAGCATACTAACTCGTTTG
* * * * *
1100620 GGCATACTGACTCATTTGGGTATACTGACTCATTTGAGCATACTAACTCGTTTT
1 AGCATACTGGCTCATTTGAGCATACTGACTCATTTGAGCATACTAACTCGTTTG
1100674 AGCATACTGGCTCATTTGA
1 AGCATACTGGCTCATTTGA
1100693 ACGTACTGGC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (54 bp):
AGCATACTGGCTCATTTGAGCATACTGACTCATTTGAGCATACTAACTCGTTTG
Found at i:1105518 original size:6 final size:6
Alignment explanation
Indices: 1105447--1105500 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
1105437 GAGTTTTCTG
* * * * *
1105447 TTTTTA TTTTTG TTTCTA GTTGTA CTTTTAA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA
1105496 TTTTT
1 TTTTT
1105501 CGTAGTTGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 35 0.92
7 3 0.08
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:1112099 original size:49 final size:49
Alignment explanation
Indices: 1112031--1112198 Score: 142
Period size: 49 Copynumber: 3.3 Consensus size: 49
1112021 TCTTTTACAC
* * * *
1112031 ATTAATCGC-TTTAATCACATGAGTACTTAAGCATTTAACACAACACAT
1 ATTAATCACATTTAAACACATGAGTACTTAAGCATTTATCACATCACAT
*
1112079 ATTAATCACATTTAAACACATTAGTCACATGAATATTTCAGCA-TTATCACATCACAT
1 ATTAATCACATTTAAACACATGAGT-AC-T---TA----AGCATTTATCACATCACAT
* * * * * *
1112136 ATTAATCACATTTAACCAAATGAATATTTCAGCATTTGTCACATCACAT
1 ATTAATCACATTTAAACACATGAGTACTTAAGCATTTATCACATCACAT
1112185 ATTAATCACATTTA
1 ATTAATCACATTTA
1112199 GTCACATTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
48 12 0.12
49 40 0.41
50 2 0.02
51 1 0.01
52 1 0.01
54 2 0.02
55 1 0.01
56 1 0.01
57 33 0.34
58 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (49 bp):
ATTAATCACATTTAAACACATGAGTACTTAAGCATTTATCACATCACAT
Found at i:1112205 original size:10 final size:10
Alignment explanation
Indices: 1112178--1112214 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
1112168 CATTTGTCAC
1112178 ATCACATATTA
1 ATCACAT-TTA
1112189 ATCACATTTA
1 ATCACATTTA
*
1112199 GTCACATTTA
1 ATCACATTTA
1112209 ATCACA
1 ATCACA
1112215 AGAATATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (10 bp):
ATCACATTTA
Found at i:1112220 original size:59 final size:60
Alignment explanation
Indices: 1112129--1112246 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 60
1112119 GCATTATCAC
*
1112129 ATCACATATTAATCACATTTAACCAAATGAATATTTCAGCATTTGTCACATCACATATTA
1 ATCACATATTAATCACATTTAACCAAATGAATATTTCAACATTTGTCACATCACATATTA
* *
1112189 ATCACAT-TTAGTCACATTTAATCACAA-GAATATTTCAACATTTGTCACATCACATATT
1 ATCACATATTAATCACATTTAACCA-AATGAATATTTCAACATTTGTCACATCACATATT
1112247 GATCGGCCTG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 45 0.83
60 9 0.17
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (60 bp):
ATCACATATTAATCACATTTAACCAAATGAATATTTCAACATTTGTCACATCACATATTA
Found at i:1113812 original size:10 final size:10
Alignment explanation
Indices: 1113797--1113823 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1113787 CATTTATCAC
1113797 ATCACATATA
1 ATCACATATA
1113807 ATCACATATA
1 ATCACATATA
1113817 ATCACAT
1 ATCACAT
1113824 GAATATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (10 bp):
ATCACATATA
Found at i:1113819 original size:48 final size:48
Alignment explanation
Indices: 1113749--1113843 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
1113739 TCACATATTA
* * * *
1113749 ATCACATGTAGTCACATTTAATCACATGAATATTTTAACATTTATCAC
1 ATCACATATAATCACATATAATCACATGAATATTTCAACATTTATCAC
*
1113797 ATCACATATAATCACATATAATCACATGAATATTTCAATATTTATCA
1 ATCACATATAATCACATATAATCACATGAATATTTCAACATTTATCA
1113844 TATTTACATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (48 bp):
ATCACATATAATCACATATAATCACATGAATATTTCAACATTTATCAC
Found at i:1113829 original size:24 final size:23
Alignment explanation
Indices: 1113760--1113829 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
1113750 TCACATGTAG
**
1113760 TCACATTTAATCACATGAATATTT
1 TCACA-TTAATCACATGAATATAA
* * *
1113784 TAACATTTATCACATCACATATAA
1 TCACATTAATCACATGA-ATATAA
1113808 TCACATATAATCACATGAATAT
1 TCACAT-TAATCACATGAATAT
1113830 TTCAATATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 10 0.28
24 17 0.47
25 9 0.25
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.36
Consensus pattern (23 bp):
TCACATTAATCACATGAATATAA
Done.