Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 762 of 770
Found at i:241935252 original size:80 final size:80
Alignment explanation
Indices: 241935168--241935316 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
241935158 TATGGTAACC
* * * *
241935168 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
241935232 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
241935248 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
241935313 CCGG
66 CCGG
241935317 TATAATTTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:241935258 original size:40 final size:39
Alignment explanation
Indices: 241935209--241935316 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
241935199 ATCACGATTT
** *
241935209 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
241935249 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
*
241935289 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
241935317 TATAATTTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.03
40 58 0.97
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:241943338 original size:40 final size:38
Alignment explanation
Indices: 241943289--241943395 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 38
241943279 ATCACGATTT
*
241943289 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
241943329 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
*
241943368 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
241943396 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
38 3 0.05
39 29 0.48
40 29 0.48
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:241943395 original size:39 final size:39
Alignment explanation
Indices: 241943289--241943438 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
241943279 ATCACGATTT
*
241943289 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
241943329 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTA
* * * ** *
241943368 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
241943408 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
241943439 TCATTCAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.03
39 30 0.33
40 58 0.64
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:241948219 original size:39 final size:40
Alignment explanation
Indices: 241948161--241948261 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
241948151 AAATTGAATG
* *
241948161 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
241948200 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
241948240 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
241948262 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:241948254 original size:40 final size:40
Alignment explanation
Indices: 241948161--241948311 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
241948151 AAATTGAATG
* * * * *
241948161 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
241948200 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
241948240 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
241948280 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
241948312 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:241948326 original size:40 final size:38
Alignment explanation
Indices: 241948157--241948328 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
241948147 TGAGAAATTG
* *
241948157 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
241948196 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
241948233 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
241948273 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
241948313 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
241948329 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:241956232 original size:40 final size:39
Alignment explanation
Indices: 241956065--241956234 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
241956055 AGAAATTGAA
*
241956065 TGATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
241956104 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
241956144 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
241956184 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
241956224 TGATATCCGGG
1 TGATATCCGGG
241956235 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 18 0.17
40 81 0.76
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:241960838 original size:40 final size:39
Alignment explanation
Indices: 241960772--241960922 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
241960762 AAATTGAATG
* * *
241960772 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
241960811 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
241960851 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
241960891 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
241960923 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:241960936 original size:40 final size:39
Alignment explanation
Indices: 241960809--241960938 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
241960799 ATGCTGGAAA
* *
241960809 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
241960849 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
241960889 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
241960929 TTATATCCGG
1 TTATATCCGG
241960939 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:241968797 original size:39 final size:39
Alignment explanation
Indices: 241968716--241968881 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 39
241968706 AAATTGAATG
* *
241968716 ATATCCGGGCTAAG-CCCGAAGACAATTATGC--TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGG---TT
* *
241968755 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
**
241968794 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTGGTT
* * *
241968834 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGGTT
241968874 ATATCCGG
1 ATATCCGG
241968882 TTATATTCCG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.40
40 56 0.53
41 2 0.02
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
Found at i:241973079 original size:49 final size:49
Alignment explanation
Indices: 241973010--241973398 Score: 629
Period size: 49 Copynumber: 8.1 Consensus size: 49
241973000 GTACATAATA
241973010 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
241973059 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241973108 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241973156 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TAT
* *
241973207 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
241973256 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241973295 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
241973344 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241973393 ATATAT
1 ATATAT
241973399 ATGTGGTAAA
Statistics
Matches: 319, Mismatches: 8, Indels: 26
0.90 0.02 0.07
Matches are distributed among these distances:
39 30 0.09
41 4 0.01
42 4 0.01
46 4 0.01
47 4 0.01
48 47 0.15
49 179 0.56
51 47 0.15
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:241973278 original size:39 final size:39
Alignment explanation
Indices: 241973235--241973312 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
241973225 AATGGCCGAC
241973235 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
241973274 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
241973313 AATGGCCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (39 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
Found at i:241973318 original size:88 final size:90
Alignment explanation
Indices: 241973183--241973361 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 90
241973173 TAATGGCCGA
241973183 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
*
241973248 AAGTGTATATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
* *
241973273 TGTGATGAATGTG-AAA-GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
241973336 AAATGTATATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
241973361 T
1 T
241973362 AATGGCCGAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
88 70 0.81
89 3 0.03
90 13 0.15
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (90 bp):
TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
AAATGTATATATATGTGATAAGGCC
Found at i:241973522 original size:37 final size:36
Alignment explanation
Indices: 241973467--241973553 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
241973457 AACTTGGAAA
241973467 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
241973505 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
241973542 TATGTCCGGGTA
1 TATGTCCGGGTA
241973554 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:241975474 original size:40 final size:40
Alignment explanation
Indices: 241975430--241975741 Score: 500
Period size: 40 Copynumber: 7.8 Consensus size: 40
241975420 GAGAATTGAG
241975430 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
241975470 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
241975510 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
241975550 AATGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
241975590 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
241975630 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
241975670 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
241975710 AGTGATGTATCCGGGCT-AGATCCCGAAGAGCA
1 AATGATGTATCCGGACTAAG-TTCCGAAGAGCA
241975742 ATCATGCTGG
Statistics
Matches: 262, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 2 0.01
40 260 0.99
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:241976543 original size:41 final size:40
Alignment explanation
Indices: 241976486--241976624 Score: 113
Period size: 40 Copynumber: 3.5 Consensus size: 40
241976476 GAATGGTATT
* ** * *
241976486 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTA-AATC
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAA-TCACTATAA-C
241976527 CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAAC
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAAC
* * * * * *
241976567 CGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATC
1 CGGGCTAAT-TCCCGAAGGCAATTGTGCGAATCACTATAAC
*
241976607 C-GGTTAAATTCCCGAAGG
1 CGGGCT-AATTCCCGAAGG
241976625 TACGTGATTC
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
39 5 0.06
40 46 0.57
41 30 0.37
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAAC
Found at i:241976581 original size:40 final size:41
Alignment explanation
Indices: 241976486--241976588 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 41
241976476 GAATGGTATT
* ** * *
241976486 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATC
1 CGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAATC
241976527 CGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATAA-C
1 CGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-AATC
*
241976567 CGGGCTATGTCCCGAAGACAAT
1 CGGGCTATGTCCCGAAGGCAAT
241976589 CGAGCGAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
39 2 0.04
40 24 0.45
41 26 0.49
42 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (41 bp):
CGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAATC
Found at i:241979437 original size:49 final size:49
Alignment explanation
Indices: 241979368--241979757 Score: 624
Period size: 49 Copynumber: 8.2 Consensus size: 49
241979358 GTACATAATA
241979368 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
241979417 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241979466 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241979515 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TAT
* *
241979566 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
241979613 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241979652 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
241979701 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
241979750 ATATATGT
1 ATATATGT
241979758 ATGTGGTAAG
Statistics
Matches: 317, Mismatches: 10, Indels: 28
0.89 0.03 0.08
Matches are distributed among these distances:
37 12 0.04
38 2 0.01
39 16 0.05
40 3 0.01
42 1 0.00
44 1 0.00
46 3 0.01
47 15 0.05
49 219 0.69
50 3 0.01
51 42 0.13
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:241979644 original size:37 final size:38
Alignment explanation
Indices: 241979594--241979669 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 38
241979584 AATGGCCGAC
241979594 GTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCT
241979631 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCT
241979670 AATGGCCGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 18 0.49
39 19 0.51
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (38 bp):
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCT
Found at i:241979660 original size:186 final size:192
Alignment explanation
Indices: 241979368--241979755 Score: 644
Period size: 186 Copynumber: 2.0 Consensus size: 192
241979358 GTACATAATA
*
241979368 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTG--AA---
241979433 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
61 CTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
*
241979498 TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTA
125 TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTA
241979563 TAT
190 TAT
*
241979566 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTGTATATATGTG-A-TAA-
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGAACTAAT
241979626 GGCC-TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
66 GGCCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
241979690 TGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATAT
131 TGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
241979752 ATAT
1 ATAT
241979756 GTATGTGGTA
Statistics
Matches: 186, Mismatches: 4, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
186 124 0.67
188 4 0.02
189 3 0.02
193 1 0.01
196 12 0.06
197 3 0.02
198 39 0.21
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (192 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGAACTAAT
GGCCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
TGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATAT
Found at i:241979675 original size:86 final size:90
Alignment explanation
Indices: 241979542--241979718 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 90
241979532 TAATGGCCGA
241979542 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
*
241979606 AAA-GTGTATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
* *
241979630 TGTGATGAATGTG-AAA-GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
241979693 AAATGTATATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
241979718 T
1 T
241979719 AATGGCCGAC
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
86 44 0.52
87 6 0.07
88 34 0.40
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (90 bp):
TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
AAATGTATATATATGTGATAAGGCC
Found at i:241979880 original size:37 final size:36
Alignment explanation
Indices: 241979825--241979911 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
241979815 AACTTGGAAA
241979825 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
241979863 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
241979900 TATGTCCGGGTA
1 TATGTCCGGGTA
241979912 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:241981827 original size:40 final size:40
Alignment explanation
Indices: 241981783--241982091 Score: 419
Period size: 40 Copynumber: 7.8 Consensus size: 40
241981773 GAGAATTGAG
*
241981783 AATGATGTATCCGGAATAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
**
241981823 AATGATGTATCTTGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
241981863 AATGATG-ATCTGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
241981902 AATGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
241981942 AATGATATATCCGGGCTAAATTCC-AAGAGCA-TCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
241981980 AATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
241982020 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
241982060 AGTGATGTATCCGGGCT-AGATCCCGAAGAGCA
1 AATGATGTATCCGGACTAAG-TTCCGAAGAGCA
241982092 ATCATGCTGG
Statistics
Matches: 247, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
38 31 0.13
39 52 0.21
40 164 0.66
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (40 bp):
AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:241981890 original size:79 final size:80
Alignment explanation
Indices: 241981783--241982091 Score: 437
Period size: 79 Copynumber: 3.9 Consensus size: 80
241981773 GAGAATTGAG
* * ** *
241981783 AATGATGTATCCGGAATAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCTTGACTAAGTTCCG
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAGTTCCG
241981848 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* *
241981863 AATGATG-ATCTGGACTAAGTTCTGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAGTTCCG
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAGTTCCG
241981927 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * * *
241981942 AATGATATATCCGGGCTAAATTCC-AAGAGCA-TCGTGCTAATGATATATCCGGGCTAAATTCCG
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAGTTCCG
241982005 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * * * *
241982020 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCT-AGATCCC
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAG-TTCC
241982084 GAAGAGCA
65 GAAGAGCA
241982092 ATCATGCTGG
Statistics
Matches: 203, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
78 65 0.32
79 86 0.42
80 52 0.26
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (80 bp):
AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAGTTCCG
AAGAGCATTCGTGCT
Found at i:241982039 original size:118 final size:119
Alignment explanation
Indices: 241981783--241982091 Score: 433
Period size: 118 Copynumber: 2.6 Consensus size: 119
241981773 GAGAATTGAG
* ** * *
241981783 AATGATGTATCCGGAATAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCTTGACTAAGTTCCG
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCCGGGCTAAATTCCG
* * *
241981848 AAGAGCATTCGTGCTAATGATGATCTGGACTAAGTTCTGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAATGATGATCCGGACTAAATTCCGAAGAGCATTCGTGCT
* * *
241981902 AATGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAATGATATATCCGGGCTAAATTCC-
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCCGGGCTAAATTCCG
* *
241981966 AAGAGCA-TCGTGCTAATGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAATGAT-GATCCGGACTAAATTCCGAAGAGCATTCGTGCT
* * * * *
241982020 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAGATCCCG
1 AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCCGGGCTAAATTCCG
241982085 AAGAGCA
66 AAGAGCA
241982092 ATCATGCTGG
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
117 13 0.08
118 91 0.54
119 63 0.38
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (119 bp):
AATGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAATGATGTATCCGGGCTAAATTCCG
AAGAGCATTCGTGCTAATGATGATCCGGACTAAATTCCGAAGAGCATTCGTGCT
Found at i:241982305 original size:24 final size:25
Alignment explanation
Indices: 241982267--241982316 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
241982257 GTGTAATAAC
241982267 GAATGAATAAGAGCACTATGTGTGT
1 GAATGAATAAGAGCACTATGTGTGT
* *
241982292 GAATG-ATTAGAGCACTGTGTGTGT
1 GAATGAATAAGAGCACTATGTGTGT
241982316 G
1 G
241982317 TAAATCCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (25 bp):
GAATGAATAAGAGCACTATGTGTGT
Found at i:241984999 original size:41 final size:40
Alignment explanation
Indices: 241984859--241985001 Score: 182
Period size: 39 Copynumber: 3.6 Consensus size: 40
241984849 GATTCGCAAT
*
241984859 TGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAA
1 TGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAA
* * *
241984899 TGCCTTCGGGACTTAACCCGG-TTTTGTAACTCGCACAAA
1 TGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAA
* *
241984938 TGCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAA
1 TGCCTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAA
* *
241984979 AGCCTTCGGGACTTAGCCCGGAT
1 TGCCTTCGGGAATTAGCCCGGAT
241985002 ACCATTCGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.39
40 26 0.30
41 27 0.31
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAA
Found at i:241992950 original size:79 final size:80
Alignment explanation
Indices: 241992850--241992999 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 80
241992840 TTATAGTGAT
* * * *
241992850 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTT
241992913 AACCCGGTTTTGTAAC
65 AACCCGGTTTTGTAAC
*
241992929 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
241992994 GCCCGG
66 ACCCGG
241993000 ATACCATTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 36 0.57
80 27 0.43
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGGTTTTGTAAC
Found at i:241992999 original size:41 final size:40
Alignment explanation
Indices: 241992850--241993001 Score: 191
Period size: 39 Copynumber: 3.8 Consensus size: 40
241992840 TTATAGTGAT
*
241992850 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
* * * *
241992890 TCGCACGAATGCCTTCGGGACTTAACCCGG-TTTTGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
*
241992929 TCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC
* * *
241992969 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 -TCGCACAAATGCCTTCGGGAATTAGCCCGGAT
241993002 ACCATTCGAA
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 34 0.36
40 33 0.35
41 27 0.28
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
Found at i:241993705 original size:2 final size:2
Alignment explanation
Indices: 241993698--241993724 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
241993688 TGCAAACATC
241993698 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
241993725 GGCTAGAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:241997547 original size:21 final size:21
Alignment explanation
Indices: 241997507--241997569 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
241997497 GTTTTAAGAA
*
241997507 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTA-TTTTAT
241997528 TTGTTTTAATATTTATTTTAT
1 TTGTTTTAATATTTATTTTAT
* * *
241997549 GT-TTTTAA-ATATATTTGAT
1 TTGTTTTAATATTTATTTTAT
241997568 TT
1 TT
241997570 ATTATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.28
20 6 0.17
21 17 0.47
22 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (21 bp):
TTGTTTTAATATTTATTTTAT
Found at i:242000200 original size:43 final size:42
Alignment explanation
Indices: 242000104--242000212 Score: 128
Period size: 43 Copynumber: 2.6 Consensus size: 42
242000094 TTAAAGCTCG
* *
242000104 ACCTGTTTCCCTACTGCTTAGGGGTTTAGATCTGTAAATTCA
1 ACCTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCA
* * **
242000146 ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGAAAATTTG
1 ACCTGTTACCCTACTGCTTAGGGGTTT-AGATCTGAAAATTCA
* * *
242000189 GCTTGTTACCCTATTGCTTAGGGG
1 ACCTGTTACCCTACTGCTTAGGGG
242000213 GTTGAAGCCC
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (42 bp):
ACCTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCA
Found at i:242010432 original size:40 final size:40
Alignment explanation
Indices: 242010324--242010533 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
242010314 CGGGATTTAA
* * * * *
242010324 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
242010364 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242010404 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242010444 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242010484 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242010524 CCGGATATAT
1 CCGGATATAT
242010534 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:242018548 original size:40 final size:40
Alignment explanation
Indices: 242018440--242018685 Score: 349
Period size: 40 Copynumber: 6.2 Consensus size: 40
242018430 CGGGATTTAA
* * * * *
242018440 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
242018480 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242018520 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242018560 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242018600 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242018640 CCGGATATAT----TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
242018676 CCGGATATAT
1 CCGGATATAT
242018686 TTCCAATGTT
Statistics
Matches: 189, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
36 36 0.19
39 1 0.01
40 152 0.80
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:242023281 original size:39 final size:39
Alignment explanation
Indices: 242023189--242023337 Score: 137
Period size: 38 Copynumber: 3.8 Consensus size: 39
242023179 AATTGAATGA
* * * * **
242023189 TATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTCA-TAC
*
242023229 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGT-CATAC
*
242023269 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCAGTCATAC
*
242023307 TAT-CGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCA
242023338 AATCGTGATA
Statistics
Matches: 93, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 32 0.34
39 31 0.33
40 29 0.31
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTCATAC
Found at i:242031372 original size:40 final size:39
Alignment explanation
Indices: 242031207--242031390 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
242031197 AAATTGAATG
* * *
242031207 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
242031247 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
242031287 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
242031327 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
242031366 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
242031391 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:242031373 original size:80 final size:80
Alignment explanation
Indices: 242031251--242031399 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
242031241 GAAATTATAA
* * * *
242031251 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
242031316 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
242031331 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
242031395 GTGCG
65 GTGCG
242031400 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:242034283 original size:39 final size:39
Alignment explanation
Indices: 242034222--242034448 Score: 316
Period size: 39 Copynumber: 5.9 Consensus size: 39
242034212 ATGCAAGACA
*
242034222 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
242034261 CTGGAACTGTATCCGGGTTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
242034300 -TGGAAATGTATCCGGGCCAAAGGCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
242034338 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
242034377 CTGGAAATGTATCCGGGCCAAAGTCCCACAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
242034416 C-GGGAATGTATCCGGGTTAAAGT-CCGCAAGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
242034449 TGTACTGGTA
Statistics
Matches: 166, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
37 8 0.05
38 52 0.31
39 106 0.64
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:242034350 original size:77 final size:78
Alignment explanation
Indices: 242034222--242034448 Score: 334
Period size: 77 Copynumber: 2.9 Consensus size: 78
242034212 ATGCAAGACA
* * *
242034222 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAACTGTATCCGGGTTAAAGTCC
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCC
242034287 CGCAGGCTTCATG
66 CGCAGGCTTCATG
* * *
242034300 -TGGAAATGTATCCGGGCCAAAGGCCCGCAGGCTTCGTGCTGGAAATGTATCCAGGCTAAAGTCC
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCC
*
242034364 CGCAGGCTTCGTG
66 CGCAGGCTTCATG
* * *
242034377 CTGGAAATGTATCCGGGCCAAAGTCCCACAGGCTTCATGC-GGGAATGTATCCGGGTTAAAGT-C
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCC
*
242034440 CGCAAGCTT
66 CGCAGGCTT
242034449 TGTACTGGTA
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
76 9 0.07
77 89 0.66
78 36 0.27
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (78 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCC
CGCAGGCTTCATG
Found at i:242034426 original size:116 final size:116
Alignment explanation
Indices: 242034222--242034431 Score: 348
Period size: 116 Copynumber: 1.8 Consensus size: 116
242034212 ATGCAAGACA
** * **
242034222 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAACTGTATCCGGGTTAAAGTCC
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
* *
242034287 CGCAGGCTTCATGTGGAAATGTATCCGGGCCAAAGGCCCGCAGGCTTCGTG
66 CACAGGCTTCATGCGGAAATGTATCCGGGCCAAAGGCCCGCAGGCTTCGTG
242034338 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
*
242034403 CACAGGCTTCATGCGGGAATGTATCCGGG
66 CACAGGCTTCATGCGGAAATGTATCCGGG
242034432 TTAAAGTCCG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 86 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.22
Consensus pattern (116 bp):
CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
CACAGGCTTCATGCGGAAATGTATCCGGGCCAAAGGCCCGCAGGCTTCGTG
Found at i:242035305 original size:11 final size:11
Alignment explanation
Indices: 242035289--242035313 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
242035279 TCTTTATTCA
242035289 TTTTTTCCTTC
1 TTTTTTCCTTC
242035300 TTTTTTCCTTC
1 TTTTTTCCTTC
242035311 TTT
1 TTT
242035314 CAAAAACAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCCTTC
Found at i:242036394 original size:25 final size:25
Alignment explanation
Indices: 242036365--242036412 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
242036355 TTATAATATG
* * *
242036365 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
242036390 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
242036413 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:242036463 original size:9 final size:9
Alignment explanation
Indices: 242036451--242036507 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
242036441 TTTGATAAAC
242036451 ATGATATGT
1 ATGATATGT
*
242036460 ATGATATGCAC
1 ATGATATG--T
*
242036471 ATGACATGT
1 ATGATATGT
*
242036480 ATGATATGCAC
1 ATGATATG--T
242036491 ATGATATGT
1 ATGATATGT
242036500 ATGATATG
1 ATGATATG
242036508 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:242036474 original size:20 final size:20
Alignment explanation
Indices: 242036449--242036519 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
242036439 ATTTTGATAA
242036449 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
242036469 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
242036489 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
242036509 ACATGAGATGT
1 ACATGATATGT
242036520 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:242036496 original size:11 final size:11
Alignment explanation
Indices: 242036460--242036514 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
242036450 CATGATATGT
242036460 ATGATATGCAC
1 ATGATATGCAC
* *
242036471 ATGACATG--T
1 ATGATATGCAC
242036480 ATGATATGCAC
1 ATGATATGCAC
*
242036491 ATGATATG--T
1 ATGATATGCAC
242036500 ATGATATGCAC
1 ATGATATGCAC
242036511 ATGA
1 ATGA
242036515 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:242036596 original size:23 final size:23
Alignment explanation
Indices: 242036566--242036731 Score: 278
Period size: 23 Copynumber: 7.1 Consensus size: 23
242036556 AGGAAGTGCA
242036566 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
242036589 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
242036613 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
242036636 AAAGGGCTTATGCCCTAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
242036659 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
242036682 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
242036705 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
242036729 AAA
1 AAA
242036732 AGAGGCTAGG
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 90 0.67
24 44 0.33
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:242036633 original size:47 final size:47
Alignment explanation
Indices: 242036564--242036731 Score: 302
Period size: 47 Copynumber: 3.6 Consensus size: 47
242036554 GGAGGAAGTG
242036564 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
242036611 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
242036658 C-AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
242036704 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
242036732 AGAGGCTAGG
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 44 0.38
47 72 0.62
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:242044526 original size:24 final size:24
Alignment explanation
Indices: 242044499--242044544 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
242044489 TTATAATATG
* *
242044499 AAATGACCATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
242044523 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
242044545 GTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:242044595 original size:9 final size:9
Alignment explanation
Indices: 242044583--242044639 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
242044573 TTTGATAAAC
242044583 ATGATATGT
1 ATGATATGT
*
242044592 ATGATATGCAC
1 ATGATATG--T
*
242044603 ATGACATGT
1 ATGATATGT
*
242044612 ATGATATGCAC
1 ATGATATG--T
242044623 ATGATATGT
1 ATGATATGT
242044632 ATGATATG
1 ATGATATG
242044640 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:242044606 original size:20 final size:20
Alignment explanation
Indices: 242044581--242044651 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
242044571 ATTTTGATAA
242044581 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
242044601 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
242044621 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
242044641 ACATGAGATGT
1 ACATGATATGT
242044652 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:242044628 original size:11 final size:11
Alignment explanation
Indices: 242044592--242044646 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
242044582 CATGATATGT
242044592 ATGATATGCAC
1 ATGATATGCAC
* *
242044603 ATGACATG--T
1 ATGATATGCAC
242044612 ATGATATGCAC
1 ATGATATGCAC
*
242044623 ATGATATG--T
1 ATGATATGCAC
242044632 ATGATATGCAC
1 ATGATATGCAC
242044643 ATGA
1 ATGA
242044647 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:242044727 original size:22 final size:23
Alignment explanation
Indices: 242044697--242044836 Score: 230
Period size: 23 Copynumber: 6.1 Consensus size: 23
242044687 AGGAAGTGCA
242044697 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
242044720 AAA-GGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
242044743 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
242044766 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
242044789 AAAGGGCTTATGCCCCAGTTA-A
1 AAAGGGCTTATGCCCCAGTTATT
*
242044811 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
242044834 AAA
1 AAA
242044837 AGAGGCTAGG
Statistics
Matches: 109, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
22 38 0.35
23 53 0.49
24 18 0.17
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:242044762 original size:46 final size:47
Alignment explanation
Indices: 242044695--242044857 Score: 235
Period size: 46 Copynumber: 3.5 Consensus size: 47
242044685 GGAGGAAGTG
242044695 CAAAAGGGCTTATGCCCCAGTTATTAAA-GGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
242044741 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
242044788 -TAAAGGGCTTATGCCCCAGTTA-AAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
242044833 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
242044858 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
45 21 0.20
46 58 0.54
47 28 0.26
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:242048514 original size:40 final size:40
Alignment explanation
Indices: 242048379--242048531 Score: 148
Period size: 40 Copynumber: 3.9 Consensus size: 40
242048369 GTGTGCATGA
* *
242048379 GCAAATTGTGATATCC-GGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
242048418 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
242048458 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
242048498 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
242048532 CTTGGTGCGG
Statistics
Matches: 92, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 11 0.12
40 78 0.85
41 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:242056609 original size:39 final size:39
Alignment explanation
Indices: 242056546--242056700 Score: 197
Period size: 39 Copynumber: 4.0 Consensus size: 39
242056536 CATGAGCAAA
* * * **
242056546 TTGTGATATCCGGGCTAAGTCCCG-AGACATTTATGCTAG
1 TTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AG
**
242056585 TAATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG
1 TTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AG
242056625 TTGTTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAG
1 TTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAG
* *
242056663 TTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
242056701 AATCGTGATA
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
38 8 0.08
39 80 0.78
40 15 0.15
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAG
Found at i:242061098 original size:28 final size:28
Alignment explanation
Indices: 242061033--242061133 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
242061023 ATAGTGAATC
*
242061033 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
242061062 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
242061090 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
242061120 CGCACACTTAGTGC
1 CGCACACTTAGTGC
242061134 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:242067237 original size:99 final size:101
Alignment explanation
Indices: 242067055--242067256 Score: 349
Period size: 99 Copynumber: 2.0 Consensus size: 101
242067045 GGCATCATCA
242067055 GTAACTATGGCCTTGAACTCCTCGGGCCCCAGCTTCCTAATCAAGTCCACAGGTGGTTTACTCAG
1 GTAACTATGGCCTTGAACTCCTC-GGCCCCAGCTTCCTAATCAAGTCCACAGGTGGTTTACTCAG
242067120 CCTCACAGGATCAGTAACTGGAGGCATTGCGGGCTCTTG
65 CCTCACAGGATCAGTAACTGGA-GCATTGC-GGCTCTTG
242067159 GTAACTATGGCCTTGAACT-CTC-GCCCC-GCTTCCTAATCAAGTCCACAGGTGG-TTACTCAGC
1 GTAACTATGGCCTTGAACTCCTCGGCCCCAGCTTCCTAATCAAGTCCACAGGTGGTTTACTCAGC
242067220 CTCACAGGATCAGTAACTGGAGCATTGCGGCTCTTG
66 CTCACAGGATCAGTAACTGGAGCATTGCGGCTCTTG
242067256 G
1 G
242067257 GTGGAGTTTT
Statistics
Matches: 98, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
97 9 0.09
98 7 0.07
99 30 0.31
100 25 0.26
101 5 0.05
103 3 0.03
104 19 0.19
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.25
Consensus pattern (101 bp):
GTAACTATGGCCTTGAACTCCTCGGCCCCAGCTTCCTAATCAAGTCCACAGGTGGTTTACTCAGC
CTCACAGGATCAGTAACTGGAGCATTGCGGCTCTTG
Found at i:242068995 original size:28 final size:28
Alignment explanation
Indices: 242068930--242069030 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
242068920 ATAGTGAATC
*
242068930 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
242068959 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
242068987 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
242069017 CGCACACTTAGTGC
1 CGCACACTTAGTGC
242069031 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:242073084 original size:29 final size:29
Alignment explanation
Indices: 242073050--242073210 Score: 112
Period size: 29 Copynumber: 5.6 Consensus size: 29
242073040 TACTCGATTT
* * *
242073050 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
242073079 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
242073108 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
242073137 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
242073166 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
242073195 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
242073211 ATCTCGTCAC
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
29 117 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:242073142 original size:58 final size:59
Alignment explanation
Indices: 242073049--242073210 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 59
242073039 ATACTCGATT
** * * * * *
242073049 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
* * *
242073107 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
242073166 T-GCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
242073211 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACACTTCCAGCA
Found at i:242081050 original size:29 final size:29
Alignment explanation
Indices: 242081016--242081147 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
242081006 TACTCGATTT
** * *
242081016 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
242081045 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
242081074 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
242081103 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
242081132 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
242081148 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:242085521 original size:40 final size:39
Alignment explanation
Indices: 242085476--242085682 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
242085466 CGGAATACAA
*
242085476 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
242085516 CCGGATAGAACGACTTGCACAAATGCCTTC-GGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
242085555 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
242085595 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
242085635 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
242085675 CCGGATAT
1 CCGGATAT
242085683 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 35 0.25
40 105 0.75
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:242085594 original size:79 final size:80
Alignment explanation
Indices: 242085476--242085681 Score: 238
Period size: 79 Copynumber: 2.6 Consensus size: 80
242085466 CGGAATACAA
* * *
242085476 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-CGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGC-ACTAGCACAAAT
*
242085540 GCCTTC-GGTATTAGC
65 GCCTTCGGGTATTAAC
* * *
242085555 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGTCACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTAGCACAAAT
*
242085619 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
242085635 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
242085682 TCATTCAATT
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 59 0.55
80 46 0.43
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:242093662 original size:40 final size:39
Alignment explanation
Indices: 242093617--242093824 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
242093607 CGGAATACAA
*
242093617 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
242093657 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
242093697 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
242093737 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
242093777 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
242093817 CCGGATAT
1 CCGGATAT
242093825 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:242093757 original size:80 final size:81
Alignment explanation
Indices: 242093617--242093822 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
242093607 CGGAATACAA
* * *
242093617 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
242093681 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
242093697 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
242093760 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
242093777 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
242093823 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:242100692 original size:40 final size:40
Alignment explanation
Indices: 242100633--242100774 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
242100623 AAATTGAATG
* * *
242100633 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
242100673 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
242100713 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
242100753 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
242100775 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:242100775 original size:40 final size:39
Alignment explanation
Indices: 242100672--242100800 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
242100662 TGCTGGAAAT
* * *
242100672 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
242100712 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
242100752 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
242100792 TATATCCGG
1 TATATCCGG
242100801 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:242110680 original size:34 final size:34
Alignment explanation
Indices: 242110637--242110705 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
242110627 ACAAATGCCT
242110637 TCGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TCGGTCTTAGCCCGGATATAACAACTCGCACGAA
242110671 TCGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TCGGTCTTAGCCCGGATATAACAACTCGCACGAA
242110705 T
1 T
242110706 GCCTTCGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (34 bp):
TCGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:242110728 original size:40 final size:40
Alignment explanation
Indices: 242110585--242110765 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
242110575 ATAACCGCAA
* * * *** *
242110585 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
242110625 GCACAAATGCCTTC-GGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
242110664 GCACGAA-----TC-GGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
242110698 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
242110738 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
242110766 GTATCATTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
34 34 0.28
39 27 0.22
40 60 0.49
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:242118776 original size:40 final size:39
Alignment explanation
Indices: 242118621--242118794 Score: 205
Period size: 40 Copynumber: 4.5 Consensus size: 39
242118611 CAAGCACAAT
* * * *
242118621 TGCCTTCGGGTCTTAACCC-GATTTTA-ACTTGCAC-AA
1 TGCCTTCGGGTCTTAGCCCGGATATAACACTCGCACGAA
*
242118657 TGCCTTC-GGTCTTAGCCCGGATATAACAATCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACACTCGCACGAA
242118695 TGCCTTCGGGTCTTA-CCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAAC-ACTCGCACGAA
* * **
242118734 TGCCTTCGAGTCTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CACTCGCACGAA
*
242118774 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
242118795 GTATCATTCA
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 10 0.08
36 12 0.10
37 6 0.05
38 21 0.18
39 31 0.26
40 38 0.32
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACACTCGCACGAA
Found at i:242123328 original size:40 final size:39
Alignment explanation
Indices: 242123163--242123346 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
242123153 AAATTGAATG
* * *
242123163 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
242123203 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
242123243 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
242123283 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
242123322 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
242123347 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:242123371 original size:80 final size:81
Alignment explanation
Indices: 242123203--242123391 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
242123193 GCTGGAAATT
* * * *
242123203 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
242123268 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
242123284 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
242123347 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
242123363 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
242123392 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:242131366 original size:40 final size:39
Alignment explanation
Indices: 242131264--242131443 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
242131254 AAATTGAATG
* * * * * *
242131264 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGT
*
242131304 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAG-T
* *
242131344 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGT
* * *
242131383 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-GT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
* *
242131420 GATATCCGGG-TAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
242131444 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.02
38 41 0.34
39 15 0.12
40 62 0.52
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
Found at i:242131468 original size:78 final size:78
Alignment explanation
Indices: 242131308--242131488 Score: 179
Period size: 78 Copynumber: 2.3 Consensus size: 78
242131298 GAAATTATAT
* * *
242131308 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATTCG
** *
242131373 TGCGAGTTGTTAT
66 TGCGAGTTCATAA
* * * * *
242131386 CCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G-TGATATCCGGG-TAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
*
242131448 GTGCGGGTTACCATAA
65 GTGCGAGTT--CATAA
* * *
242131464 CCGGGCTATGTCCCGAAGGCGATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
242131489 CGAGTACGAC
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
76 23 0.27
77 10 0.12
78 51 0.61
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTCATAA
Found at i:242134013 original size:23 final size:23
Alignment explanation
Indices: 242133983--242134122 Score: 212
Period size: 23 Copynumber: 6.1 Consensus size: 23
242133973 AGGAAGTGCA
242133983 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
242134006 AAAGGGCTTATG-CCCAGCTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
242134028 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
242134051 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
242134074 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
242134096 AAATGGCTTTTTGCCGCAGTTATT
1 AAAGGGC-TTATGCCCCAGTTATT
242134120 AAA
1 AAA
242134123 AGAGGCTAGG
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
22 37 0.35
23 58 0.54
24 12 0.11
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:242134050 original size:45 final size:45
Alignment explanation
Indices: 242133983--242134122 Score: 210
Period size: 45 Copynumber: 3.1 Consensus size: 45
242133973 AGGAAGTGCA
*
242133983 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGCTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATT
*
242134028 AAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTATT
* *
242134074 AAAGGGCTTATG-CCCAGTTATTAAATGGCTTTTTGCCGCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGC-TTATGCC-CAGTTATT
242134120 AAA
1 AAA
242134123 AGAGGCTAGG
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
45 51 0.59
46 36 0.41
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (45 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATT
Found at i:242134096 original size:68 final size:69
Alignment explanation
Indices: 242133983--242134122 Score: 228
Period size: 68 Copynumber: 2.0 Consensus size: 69
242133973 AGGAAGTGCA
242133983 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGCTATTAAAGGGC-TTATGCCCCAAT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGCTATTAAAGGGCTTTATGCCCCAAT
242134047 TATT
66 TATT
* * * * *
242134051 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATTAAATGGCTTTTTGCCGCAGT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGCTATTAAAGGGCTTTATGCCCCAAT
242134116 TATT
66 TATT
242134120 AAA
1 AAA
242134123 AGAGGCTAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
68 50 0.76
69 16 0.24
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (69 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGCTATTAAAGGGCTTTATGCCCCAAT
TATT
Found at i:242134371 original size:31 final size:31
Alignment explanation
Indices: 242134331--242134390 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
242134321 CGTTTACAGT
*
242134331 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGACTTCGGCCCAGTAATATGAAATATAA
**
242134362 AAAGACTTCGGCCCAGTGTTATGAAATAT
1 AAAGACTTCGGCCCAGTAATATGAAATAT
242134391 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGACTTCGGCCCAGTAATATGAAATATAA
Found at i:242148288 original size:39 final size:39
Alignment explanation
Indices: 242148071--242148276 Score: 272
Period size: 39 Copynumber: 5.3 Consensus size: 39
242148061 AACATTGGAA
242148071 ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
242148110 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTG
242148150 ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
242148189 ATATATCCGGGCTAAGA-CCGAAGGCCTTTGTGCAAG-TC
1 ATATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
242148227 ACCAAATCCGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
242148267 CTATATCCGG
1 ATATATCCGG
242148277 TTAAATCCCG
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
38 8 0.06
39 90 0.62
40 47 0.32
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
ATATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:242156229 original size:40 final size:40
Alignment explanation
Indices: 242156174--242156422 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
242156164 AACATTGGAA
242156174 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
242156214 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
242156254 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
242156294 ATATATCCGGGCTAAGACCCGAAGGC-TTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
242156333 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
242156372 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
242156413 CTATATCCGG
1 ATATATCCGG
242156423 TTAAATCCCG
Statistics
Matches: 190, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
39 41 0.22
40 149 0.78
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:242156392 original size:119 final size:120
Alignment explanation
Indices: 242156174--242156422 Score: 376
Period size: 119 Copynumber: 2.1 Consensus size: 120
242156164 AACATTGGAA
242156174 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * * * *
242156239 CATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
66 CATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
242156294 ATATATCCGGGCTAAGACCCGAAGGC-TTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * *
242156358 CCTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
66 CATTCGTGCAAGTTCA-CAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
*
242156413 CTATATCCGG
1 ATATATCCGG
242156423 TTAAATCCCG
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
118 2 0.02
119 89 0.76
120 26 0.22
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (120 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CATTCGTGCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCG
Found at i:242160606 original size:40 final size:39
Alignment explanation
Indices: 242160441--242160624 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
242160431 AAATTGAATG
* * *
242160441 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
242160481 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
242160521 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
242160561 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
242160600 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
242160625 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:242160649 original size:80 final size:81
Alignment explanation
Indices: 242160481--242160669 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
242160471 GCTGGAAATT
* * * *
242160481 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
242160546 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
242160562 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
242160625 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
242160641 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
242160670 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:242168720 original size:40 final size:39
Alignment explanation
Indices: 242168555--242168738 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
242168545 AAATTGAATG
* * *
242168555 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
242168595 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
242168635 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
242168675 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
242168714 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
242168739 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:242168763 original size:80 final size:81
Alignment explanation
Indices: 242168595--242168783 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
242168585 GCTGGAAATT
* * * *
242168595 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
242168660 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
242168676 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
242168739 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
242168755 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
242168784 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:242172657 original size:40 final size:39
Alignment explanation
Indices: 242172592--242172831 Score: 297
Period size: 40 Copynumber: 6.3 Consensus size: 39
242172582 TCTTCGGAAT
* **
242172592 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *
242172631 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
242172671 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
242172711 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
242172751 TTAGCCCGGATAT---AA-TCGCACAATG-CTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
242172785 TTAGCCCGGATAT---AA---GCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
242172819 TTAGCCCGGATAT
1 TTAGCCCGGATAT
242172832 CATTCAAATG
Statistics
Matches: 187, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
32 4 0.02
33 4 0.02
34 46 0.25
35 4 0.02
36 6 0.03
37 2 0.01
39 3 0.02
40 116 0.62
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:242172840 original size:33 final size:33
Alignment explanation
Indices: 242172737--242172842 Score: 142
Period size: 34 Copynumber: 3.2 Consensus size: 33
242172727 AACTCGCACG
*
242172737 AATGCCTTCGGGTCTTAGCCCGGATATAATCGCA
1 AATGCCTTCGGGTCTTAGCCCGGATATAAT-ACA
*
242172771 CAATG-CTTCGGGTCTTAGCCCGGATATAAGCACA
1 -AATGCCTTCGGGTCTTAGCCCGGATATAA-TACA
* *
242172805 AATGCCTTCGGGTCTTAGCCCGGATATCATTCA
1 AATGCCTTCGGGTCTTAGCCCGGATATAATACA
242172838 AATGC
1 AATGC
242172843 TTCATGCACA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
33 11 0.17
34 49 0.77
35 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (33 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAATACA
Found at i:242180794 original size:40 final size:40
Alignment explanation
Indices: 242180739--242180921 Score: 241
Period size: 38 Copynumber: 4.7 Consensus size: 40
242180729 CGGATATAAC
* * * *
242180739 CACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCG
242180779 CACAAATGCCTTCGGGTCTTAG-CC-GATATAACAACTCG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCG
242180817 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT--
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCG
* **
242180855 CACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACGAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCG
* *
242180895 CATAAATGCCTTCGGGACTTAGCCCGG
1 CACAAATGCCTTCGGGTCTTAGCCCGG
242180922 GTATCATTCA
Statistics
Matches: 129, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
38 68 0.53
39 5 0.04
40 56 0.43
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCG
Found at i:242180843 original size:78 final size:78
Alignment explanation
Indices: 242180739--242180925 Score: 245
Period size: 78 Copynumber: 2.4 Consensus size: 78
242180729 CGGATATAAC
* * *
242180739 CACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAG-CC
1 CACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACT--CACAAATGCCTTCGGGTCTTAGCCC
**
242180803 -GATATAA-CAACTCG
64 GGATATAATC-ACGAG
* *
242180817 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCACGAATGCCTTCGGGTCTTAGCCCGG
1 CACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCACAAATGCCTTCGGGTCTTAGCCCGG
242180882 ATATAATCACGAG
66 ATATAATCACGAG
* *
242180895 CATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 CACAAATGCCTTCGGGTCTTAGCCCGGGTAT
242180926 CATTCAAATG
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
76 21 0.22
77 2 0.02
78 72 0.75
79 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCACAAATGCCTTCGGGTCTTAGCCCGG
ATATAATCACGAG
Found at i:242183837 original size:15 final size:15
Alignment explanation
Indices: 242183788--242183839 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
242183778 ACTTTTTCTA
242183788 TCGCT-CTGCCTCCC
1 TCGCTGCTGCCTCCC
*
242183802 TCGCTGCTG-C-CGC
1 TCGCTGCTGCCTCCC
*
242183815 T-GCCGCTGCCTCCC
1 TCGCTGCTGCCTCCC
242183829 TCGCTGCTGCC
1 TCGCTGCTGCC
242183840 AGCTACCTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.20
13 4 0.13
14 9 0.30
15 11 0.37
ACGTcount: A:0.00, C:0.52, G:0.23, T:0.25
Consensus pattern (15 bp):
TCGCTGCTGCCTCCC
Found at i:242183850 original size:22 final size:21
Alignment explanation
Indices: 242183813--242183861 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
242183803 CGCTGCTGCC
*
242183813 GCTGCCGCTGCCTCCCTCGCT
1 GCTGCCGCTACCTCCCTCGCT
*
242183834 GCTGCCAGCTACCTCCCTCTCT
1 GCTGCC-GCTACCTCCCTCGCT
242183856 GCTGCC
1 GCTGCC
242183862 TCCGCTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.04, C:0.51, G:0.20, T:0.24
Consensus pattern (21 bp):
GCTGCCGCTACCTCCCTCGCT
Found at i:242184300 original size:13 final size:14
Alignment explanation
Indices: 242184275--242184303 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
242184265 TGATGAATTG
242184275 AATTAAACAATTAT
1 AATTAAACAATTAT
242184289 AATTAAAC-ATTAT
1 AATTAAACAATTAT
242184302 AA
1 AA
242184304 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:242184506 original size:16 final size:17
Alignment explanation
Indices: 242184469--242184507 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
242184459 AAAATATTAT
*
242184469 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
242184486 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
242184502 TTAATA
1 TTAATA
242184508 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:242189504 original size:9 final size:9
Alignment explanation
Indices: 242189490--242189679 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
242189480 TATTTAAGTA
242189490 TTATGTAAG
1 TTATGTAAG
242189499 TTATGTAAG
1 TTATGTAAG
*
242189508 TTATGATATG
1 TTATG-TAAG
* * *
242189518 ATATAT-AT
1 TTATGTAAG
*
242189526 TTATGTAAA
1 TTATGTAAG
* *
242189535 TTATAT-AT
1 TTATGTAAG
*
242189543 TTATCTAAG
1 TTATGTAAG
*
242189552 TTATATAAG
1 TTATGTAAG
242189561 TTATGTAAG
1 TTATGTAAG
*
242189570 TTATGTAAA
1 TTATGTAAG
*
242189579 TTATGATATAAAA
1 TTATG---T-AAG
*
242189592 TATATTTAAG
1 T-TATGTAAG
242189602 TATTATGTAAG
1 --TTATGTAAG
242189613 TTATGTAAG
1 TTATGTAAG
* *
242189622 TTATAT-AT
1 TTATGTAAG
*
242189630 TTATCTAAG
1 TTATGTAAG
*
242189639 TTATATAAG
1 TTATGTAAG
*
242189648 TTATGTACG
1 TTATGTAAG
*
242189657 TTTTGTAAG
1 TTATGTAAG
* *
242189666 TTATATAAA
1 TTATGTAAG
242189675 TTATG
1 TTATG
242189680 ATATCAAATA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
8 16 0.12
9 98 0.71
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:242189572 original size:71 final size:69
Alignment explanation
Indices: 242189490--242189652 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
242189480 TATTTAAGTA
* * * *
242189490 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
242189554 ATATAAG
64 ATAT-AG
* * *
242189561 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
242189626 ATAT
66 ATAG
* *
242189630 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
242189653 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:242189666 original size:114 final size:114
Alignment explanation
Indices: 242189466--242189679 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
242189456 ACTAGTTATG
* * * *
242189466 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
242189531 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
242189580 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
242189643 ATAAGTTATGTACGTTT-TGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
242189680 ATATCAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 62 0.71
115 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:242189718 original size:87 final size:87
Alignment explanation
Indices: 242189526--242189710 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
242189516 TGATATATAT
*
242189526 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
242189591 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
242189613 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
242189676 TATGATATCAAATATAGTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
242189700 TTATGTAAGTT
1 TTATGTAAGTT
242189711 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 70 0.81
88 3 0.03
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:242189804 original size:15 final size:15
Alignment explanation
Indices: 242189784--242189839 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
242189774 AAGTAGAGGG
242189784 ATTAAATAATATTTA
1 ATTAAATAATATTTA
242189799 ATTAAATAATATTT-
1 ATTAAATAATATTTA
242189813 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
242189828 ATTAAGTAATAT
1 ATTAAATAATAT
242189840 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:242190797 original size:15 final size:15
Alignment explanation
Indices: 242190777--242190805 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
242190767 AGAATTTTGA
242190777 AATAAAACGTACCTT
1 AATAAAACGTACCTT
242190792 AATAAAACGTACCT
1 AATAAAACGTACCT
242190806 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:242191279 original size:14 final size:13
Alignment explanation
Indices: 242191260--242191289 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
242191250 CAATATAATT
242191260 TTACTTCATATATA
1 TTACTTCATATA-A
242191274 TTACTTCATATAA
1 TTACTTCATATAA
242191287 TTA
1 TTA
242191290 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:242193007 original size:15 final size:16
Alignment explanation
Indices: 242192987--242193016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
242192977 AAAGGTTATA
242192987 CACTG-AAAACTCATG
1 CACTGAAAAACTCATG
242193002 CACTGAAAAACTCAT
1 CACTGAAAAACTCAT
242193017 TCATAACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (16 bp):
CACTGAAAAACTCATG
Found at i:242197571 original size:29 final size:29
Alignment explanation
Indices: 242197538--242197640 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
242197528 CCTTCGAGCT
** * *
242197538 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
242197567 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
242197596 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
242197625 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
242197641 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:242197572 original size:58 final size:58
Alignment explanation
Indices: 242197509--242197640 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
242197499 AATTTAAGCC
* * * * * *
242197509 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
242197567 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
242197625 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
242197641 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:242205275 original size:29 final size:29
Alignment explanation
Indices: 242205247--242205375 Score: 192
Period size: 29 Copynumber: 4.6 Consensus size: 29
242205237 CCTTCGAGCT
** * *
242205247 CGCACACCCAGTGCCGTATTTTTCCAGC-
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
242205275 TGCACACTTAGTGCC--ATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
242205302 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
242205331 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
242205360 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
242205376 ATCGCACGCA
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.11
27 14 0.15
28 12 0.13
29 57 0.61
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:242205315 original size:84 final size:83
Alignment explanation
Indices: 242205220--242205375 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 83
242205210 AATTTAAGCC
* * * * * *
242205220 CGCACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGC-TGCACACTT
1 CGCACACAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACTT
242205284 AGTGCCATATTTCCAGCA
66 AGTGCCATATTTCCAGCA
* * **
242205302 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACAC--AGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
242205367 TTAGTGCCA
64 TTAGTGCCA
242205376 ATCGCACGCA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
82 7 0.11
84 39 0.64
85 15 0.25
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (83 bp):
CGCACACAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACTT
AGTGCCATATTTCCAGCA
Found at i:242207285 original size:27 final size:27
Alignment explanation
Indices: 242207244--242207296 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
242207234 TGTCATGTGA
* *
242207244 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
242207271 AATTGAATGTTAAATTACTATTACAT
1 AATTGAATGACAAATTACTATTACAT
242207297 NNNNNNNNNN
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:242209802 original size:80 final size:80
Alignment explanation
Indices: 242209718--242209869 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
242209708 TATGGTAACC
* * * *
242209718 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
242209782 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
242209798 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
242209863 CCGGATA
66 CCGGATA
242209870 ATTTCCAGCA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.02
80 59 0.98
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:242209808 original size:40 final size:39
Alignment explanation
Indices: 242209759--242209869 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
242209749 ATCACGATTT
*
242209759 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
242209799 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
242209839 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
242209870 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:242217874 original size:80 final size:80
Alignment explanation
Indices: 242217790--242217938 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
242217780 TATGGTAACC
* * * *
242217790 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
242217854 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
242217870 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
242217935 CCGG
66 CCGG
242217939 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:242217880 original size:40 final size:38
Alignment explanation
Indices: 242217831--242217938 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
242217821 ATCACGATTT
*
242217831 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
242217871 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
242217911 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
242217939 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:242222236 original size:27 final size:28
Alignment explanation
Indices: 242222180--242222249 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
242222170 AAATTTGTAC
242222180 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
242222208 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
242222235 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
242222250 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:242222260 original size:27 final size:27
Alignment explanation
Indices: 242222180--242222261 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
242222170 AAATTTGTAC
* *
242222180 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
242222208 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
242222235 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
242222262 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:242230061 original size:27 final size:28
Alignment explanation
Indices: 242230005--242230074 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
242229995 AAATTTGTAC
242230005 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
242230033 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
242230060 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
242230075 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:242230085 original size:27 final size:27
Alignment explanation
Indices: 242230005--242230086 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
242229995 AAATTTGTAC
* *
242230005 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
242230033 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
242230060 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
242230087 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:242234882 original size:40 final size:40
Alignment explanation
Indices: 242234822--242234984 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
242234812 TGAATGATAC
* * *
242234822 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
242234861 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
242234901 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
242234941 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
242234981 CCGG
1 CCGG
242234985 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 13 0.13
40 84 0.82
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:242242918 original size:39 final size:40
Alignment explanation
Indices: 242242834--242242996 Score: 179
Period size: 39 Copynumber: 4.1 Consensus size: 40
242242824 TGAATGATAC
* * *
242242834 CCGGGCTAAGTCTCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGAC-CCGAAGGCAATTGTGCTAGTTG-TTATAT
*
242242875 CCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATAT
* *** *
242242914 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATAT
* * *
242242954 CCGGGTTAAGACCCGAA-GCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATAT
242242993 CCGG
1 CCGG
242242997 TTGAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 52 0.50
40 40 0.39
41 11 0.11
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATAT
Found at i:242245445 original size:35 final size:35
Alignment explanation
Indices: 242245406--242245477 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
242245396 CATCTCCGGA
*
242245406 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
242245441 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
242245476 GC
1 GC
242245478 GATCTTAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:242250666 original size:35 final size:35
Alignment explanation
Indices: 242250627--242250698 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
242250617 CATCTCCGGA
*
242250627 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
242250662 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
242250697 GC
1 GC
242250699 GATCTTAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:242254814 original size:22 final size:22
Alignment explanation
Indices: 242254786--242254830 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
242254776 CTCGGACACA
242254786 GGGCACGATTGTGGTCCACCAC
1 GGGCACGATTGTGGTCCACCAC
242254808 GGGCACGATTGTGGTCCACCAC
1 GGGCACGATTGTGGTCCACCAC
242254830 G
1 G
242254831 CACCCAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (22 bp):
GGGCACGATTGTGGTCCACCAC
Done.