Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 62
Found at i:9996321 original size:23 final size:24
Alignment explanation
Indices: 9996286--9996330 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
9996276 GACTAAACTG
*
9996286 TAATAAAATATGATAAA-TAACCA
1 TAATAAAATATGAAAAAGTAACCA
9996309 TAATCAAAA-ATGAAAAAGTAAC
1 TAAT-AAAATATGAAAAAGTAAC
9996331 ATTTAGTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (24 bp):
TAATAAAATATGAAAAAGTAACCA
Found at i:9998828 original size:29 final size:28
Alignment explanation
Indices: 9998782--9998837 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
9998772 AAAATTTTGG
* *
9998782 TTAGTGACAAAAACATAAATTTTGAAAGT
1 TTAGTAACAAAAACATAAAGTTT-AAAGT
* *
9998811 TTAGTAACCAAAATATAAAGTTTAAAG
1 TTAGTAACAAAAACATAAAGTTTAAAG
9998838 AAGTTTAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (28 bp):
TTAGTAACAAAAACATAAAGTTTAAAGT
Found at i:10001679 original size:50 final size:50
Alignment explanation
Indices: 10001620--10001718 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
10001610 TTTAGCACTA
**
10001620 TAGTGTATATAAAGGACACGTAGTGCGTATGATGGGCACGACCTTATGTG
1 TAGTGTATATAAAGGACACGTAGTGCACATGATGGGCACGACCTTATGTG
* * *
10001670 TAGTGTATATAATGGACACTTAGTGCACATGGTGGGCACGACCTTATGT
1 TAGTGTATATAAAGGACACGTAGTGCACATGATGGGCACGACCTTATGT
10001719 ATATTAACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (50 bp):
TAGTGTATATAAAGGACACGTAGTGCACATGATGGGCACGACCTTATGTG
Found at i:10008954 original size:78 final size:78
Alignment explanation
Indices: 10008865--10009023 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
10008855 ATACCTAGGG
*
10008865 TTTGGGGTACATGGAAATGGGGGCTGAAAAAATGTCTTGGTCTCATGAAATTTTAGTTAATTTCA
1 TTTGGGGTACATGGAAATGGGAGCTGAAAAAATGTCTTGGTCTCATGAAATTTTAGTTAATTTCA
10008930 TGTTAATTTATCC
66 TGTTAATTTATCC
10008943 TTTGGGGTACATGGAAATGGGAGCTGAAAAAATGTCTTGGTCTCATGAAATTTTAGTTAATTTCA
1 TTTGGGGTACATGGAAATGGGAGCTGAAAAAATGTCTTGGTCTCATGAAATTTTAGTTAATTTCA
10009008 TGTTAATTTATCC
66 TGTTAATTTATCC
10009021 TTT
1 TTT
10009024 ATTTAAGCTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (78 bp):
TTTGGGGTACATGGAAATGGGAGCTGAAAAAATGTCTTGGTCTCATGAAATTTTAGTTAATTTCA
TGTTAATTTATCC
Found at i:10013148 original size:22 final size:21
Alignment explanation
Indices: 10013101--10013182 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 21
10013091 TTGGTAAAAG
* * *
10013101 TCAAAGTCAAAGGTTAGACCT
1 TCAAAGTCAACGGTCAGACAT
10013122 GTCAAAGTCAACGGTCAGATCAT
1 -TCAAAGTCAACGGTCAGA-CAT
** *
10013145 TCAATTTCAACGGTCAGACCAG
1 TCAAAGTCAACGGTCAGA-CAT
* *
10013167 TCAAAGTTAACAGTCA
1 TCAAAGTCAACGGTCA
10013183 TACCGGTTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 46 0.96
23 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (21 bp):
TCAAAGTCAACGGTCAGACAT
Found at i:10018294 original size:29 final size:29
Alignment explanation
Indices: 10018248--10018328 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
10018238 ATTCATAAAT
*
10018248 TTTGAAAATTACCATTTTGGTCTCTGAACA
1 TTTGAAAA-TACCATTTTGGTCCCTGAACA
*
10018278 TTTGAAAATACCATTTTGGTCCCTGAACT
1 TTTGAAAATACCATTTTGGTCCCTGAACA
*
10018307 TTTAAAAAAATACCATTTTGGT
1 TTT--GAAAATACCATTTTGGT
10018329 TGCTAAACTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 22 0.48
30 8 0.17
31 16 0.35
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (29 bp):
TTTGAAAATACCATTTTGGTCCCTGAACA
Found at i:10018338 original size:31 final size:31
Alignment explanation
Indices: 10018252--10018340 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 31
10018242 ATAAATTTTG
* * * *
10018252 AAAATTACCATTTTGGTCTCTGAACATTT--
1 AAAAATACCATTTTGGTCCCTAAACTTTTAA
* *
10018281 GAAAATACCATTTTGGTCCCTGAACTTTTAA
1 AAAAATACCATTTTGGTCCCTAAACTTTTAA
**
10018312 AAAAATACCATTTTGGTTGCTAAACTTTT
1 AAAAATACCATTTTGGTCCCTAAACTTTT
10018341 CCAAACTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
29 25 0.50
31 25 0.50
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (31 bp):
AAAAATACCATTTTGGTCCCTAAACTTTTAA
Found at i:10018690 original size:31 final size:31
Alignment explanation
Indices: 10018655--10018726 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
10018645 TGAGGCCTTT
* *
10018655 GAGCTTACCCAAGGAATACCT-TAGGGCCTGA
1 GAGCTTACCCAAGGAA-ACATCTAGGGCCTAA
*
10018686 GAGCTTACCCAAGGGAACATCTAGGGCCTAA
1 GAGCTTACCCAAGGAAACATCTAGGGCCTAA
*
10018717 GAGCCTACCC
1 GAGCTTACCC
10018727 TTATAATGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 3 0.08
31 33 0.92
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (31 bp):
GAGCTTACCCAAGGAAACATCTAGGGCCTAA
Found at i:10026169 original size:24 final size:24
Alignment explanation
Indices: 10026130--10026182 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10026120 TCGATCTTGT
* *
10026130 TTAGTGCTTTCGTGCACTCCA-GTA
1 TTAGTGCATTCATGCACT-CATGTA
10026154 TTAGTGCATTCATGCACTCATGTA
1 TTAGTGCATTCATGCACTCATGTA
10026178 TTAGT
1 TTAGT
10026183 ACCTTTGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (24 bp):
TTAGTGCATTCATGCACTCATGTA
Found at i:10032205 original size:22 final size:22
Alignment explanation
Indices: 10032179--10032223 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
10032169 GTTGAATTGA
10032179 AGTTGATTTCATGCATGAATCG
1 AGTTGATTTCATGCATGAATCG
*
10032201 AGTTGATTTCATGCTTGAATCG
1 AGTTGATTTCATGCATGAATCG
10032223 A
1 A
10032224 ATCAAAATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (22 bp):
AGTTGATTTCATGCATGAATCG
Found at i:10036857 original size:38 final size:38
Alignment explanation
Indices: 10036798--10036871 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
10036788 TGCACATAAG
* *
10036798 GTCGTGCCAACCTCCTACACTAAGTGTCCTTACACACA
1 GTCGTGCCAAACTCCTACACTAAATGTCCTTACACACA
* * *
10036836 GTCGTGCCAAACTCTTGCACTAAATGTCCTTTCACA
1 GTCGTGCCAAACTCCTACACTAAATGTCCTTACACA
10036872 ACCTTGTGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.27
Consensus pattern (38 bp):
GTCGTGCCAAACTCCTACACTAAATGTCCTTACACACA
Found at i:10038307 original size:19 final size:20
Alignment explanation
Indices: 10038283--10038329 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
10038273 CCAAAATGGC
*
10038283 TCAATTTC-ACATTCTAACA
1 TCAATTTCAACACTCTAACA
10038302 TCAATTTCAACACTCTAACA
1 TCAATTTCAACACTCTAACA
*
10038322 ACAATTTC
1 TCAATTTC
10038330 CAGCATAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (20 bp):
TCAATTTCAACACTCTAACA
Found at i:10039543 original size:30 final size:30
Alignment explanation
Indices: 10039507--10039589 Score: 107
Period size: 30 Copynumber: 2.7 Consensus size: 30
10039497 CAAAATACAC
10039507 AACTTTTGAAAATTATACTTTT-GATCCCTA
1 AACTTTTGAAAATTATACTTTTAG-TCCCTA
10039537 AACTTTTGAAAATTATGA-TTTTAGTCCCTA
1 AACTTTTGAAAATTAT-ACTTTTAGTCCCTA
*
10039567 AACTTTTCCAAAATTTATACTTT
1 AACTTTT-GAAAA-TTATACTTT
10039590 GGCCATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
30 33 0.70
31 7 0.15
32 7 0.15
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.45
Consensus pattern (30 bp):
AACTTTTGAAAATTATACTTTTAGTCCCTA
Found at i:10042190 original size:21 final size:20
Alignment explanation
Indices: 10042153--10042204 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
10042143 ATCTATTTTT
*
10042153 GGTATTGATACC--AGTAAG
1 GGTATCGATACCATAGTAAG
*
10042171 GGATATCGGTACCATAGTAAG
1 GG-TATCGATACCATAGTAAG
10042192 GGTATCGATACCA
1 GGTATCGATACCA
10042205 GGAAACATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 2 0.07
19 8 0.29
20 10 0.36
21 8 0.29
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCATAGTAAG
Found at i:10042237 original size:73 final size:72
Alignment explanation
Indices: 10042118--10042258 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 72
10042108 CCGTGATAAG
* * *** * * *
10042118 GGGTATCGATACCAAGAAACATTGAATCTATTTTTGGTATTGATACCAGTAAGGGATATCGGTAC
1 GGGTATCGATACCAAGAAACATCGAACCTAAAATTGGCATCGATACCA-AAAGGGATATCGGTAC
10042183 CATAGTAA
65 CATAGTAA
* * *
10042191 GGGTATCGATACCAGGAAACATCGAACCTAAAATTGGCATCGATACCAAAAGGGGTATTGGTACC
1 GGGTATCGATACCAAGAAACATCGAACCTAAAATTGGCATCGATACCAAAAGGGATATCGGTACC
10042256 ATA
66 ATA
10042259 ATATAGAAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
72 17 0.30
73 40 0.70
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (72 bp):
GGGTATCGATACCAAGAAACATCGAACCTAAAATTGGCATCGATACCAAAAGGGATATCGGTACC
ATAGTAA
Found at i:10042695 original size:59 final size:59
Alignment explanation
Indices: 10042625--10043080 Score: 711
Period size: 59 Copynumber: 7.7 Consensus size: 59
10042615 ATGACACTAA
* *
10042625 GTGTGCTAAAATGATATGGAAATCATACTAAGTGTATTAATTTCCAGATAGGGCACTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
* * * *
10042684 GTATGCTAAAATGATAAGGAAGTCATACTAAGTATATGAATTTTCAGATAGGGCA-TTT
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
* * *
10042742 CGTGTGCTAAAATGATAAGGAAATCATTCTAAGTGTATGATTTTCCAGATAGGGCACTTC
1 -GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
* * *
10042802 GTGTACTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCC-TATAGGGCACTTC
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
*
10042860 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
* *
10042919 ATGTGCTAAAATGATAAGGAAAACATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
*
10042978 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTGTGAATTTCCAGATAGGGCACTTT
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
* *
10043037 GTGTGCTAAACA-AATAAGGAAATCATGCTAAGTGTATGAATTTC
1 GTGTGCTAAA-ATGATAAGGAAATCATACTAAGTGTATGAATTTC
10043081 TGTAGGGGCA
Statistics
Matches: 363, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
58 58 0.16
59 302 0.83
60 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTT
Found at i:10043092 original size:235 final size:235
Alignment explanation
Indices: 10042625--10043080 Score: 736
Period size: 235 Copynumber: 1.9 Consensus size: 235
10042615 ATGACACTAA
* * *
10042625 GTGTGCTAAAATGATATGGAAATCATACTAAGTGTATTAATTTCCAGATAGGGCACTTTGTATGC
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTATATGC
** *
10042690 TAAAATGATAAGGAAGTCATACTAAGTATATGAATTTTCAGATAGGGCATTTCGTGTGCTAAAAT
66 TAAAATGATAAGGAAAACATACTAAGTATATGAATTTCCAGATAGGGCATTTCGTGTGCTAAAAT
* * *
10042755 GATAAGGAAATCATTCTAAGTGTATGATTTTCCAGATAGGGCACTTCGTGTACTAAAATGATAAG
131 GATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTACTAAAATAATAAG
10042820 GAAATCATACTAAGTGTATGAATTTCCTATAGGGCACTTC
196 GAAATCATACTAAGTGTATGAATTTCCTATAGGGCACTTC
* *
10042860 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTTATGTGC
1 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTATATGC
*
10042925 TAAAATGATAAGGAAAACATACTAAGTGTATGAATTTCCAGATAGGGCACTTT-GTGTGCTAAAA
66 TAAAATGATAAGGAAAACATACTAAGTATATGAATTTCCAGATAGGGCA-TTTCGTGTGCTAAAA
* * *
10042989 TGATAAGGAAATCATACTAAGTGTGTGAATTTCCAGATAGGGCACTTTGTGTGCTAAACA-AATA
130 TGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTACTAAA-ATAATA
*
10043053 AGGAAATCATGCTAAGTGTATGAATTTC
194 AGGAAATCATACTAAGTGTATGAATTTC
10043081 TGTAGGGGCA
Statistics
Matches: 203, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
235 199 0.98
236 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (235 bp):
GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTTATATGC
TAAAATGATAAGGAAAACATACTAAGTATATGAATTTCCAGATAGGGCATTTCGTGTGCTAAAAT
GATAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTCGTGTACTAAAATAATAAG
GAAATCATACTAAGTGTATGAATTTCCTATAGGGCACTTC
Found at i:10043563 original size:45 final size:46
Alignment explanation
Indices: 10043514--10043606 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 46
10043504 TAAACAGAAC
*
10043514 ATAAAAGGCATGAAA-GAATGCCATAAATG-AAAT-GTATAATAGTGT
1 ATAAAAGGCAAGAAATG-ATGCCAT-AATGAAAATGGTATAATAGTGT
10043559 ATAAAAGGCAAGAAATGATGCCATAATGAAAATGGTATAATAGTGT
1 ATAAAAGGCAAGAAATGATGCCATAATGAAAATGGTATAATAGTGT
10043605 AT
1 AT
10043607 TATAAGTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
44 4 0.09
45 25 0.57
46 15 0.34
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.25
Consensus pattern (46 bp):
ATAAAAGGCAAGAAATGATGCCATAATGAAAATGGTATAATAGTGT
Found at i:10044141 original size:25 final size:25
Alignment explanation
Indices: 10044112--10044221 Score: 64
Period size: 26 Copynumber: 4.3 Consensus size: 25
10044102 ATCGAATTGA
10044112 AACAAATTTTTACGTGTTTTCAAAT
1 AACAAATTTTTACGTGTTTTCAAAT
** * *
10044137 AACAAA-CATTACTTTGCTTTTAAAAT
1 AACAAATTTTTAC-GTG-TTTTCAAAT
* * ** *
10044163 ATCATATTTTTTA-GT-TAATCGAATT
1 AACA-AATTTTTACGTGTTTTC-AAAT
10044188 GAAACAAATTTTTACGTGTTTTCAAAT
1 -A-ACAAATTTTTACGTGTTTTCAAAT
10044215 AACAAAT
1 AACAAAT
10044222 ATTATTTTTA
Statistics
Matches: 58, Mismatches: 18, Indels: 18
0.62 0.19 0.19
Matches are distributed among these distances:
24 6 0.10
25 17 0.29
26 21 0.36
27 8 0.14
28 6 0.10
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (25 bp):
AACAAATTTTTACGTGTTTTCAAAT
Found at i:10044169 original size:78 final size:78
Alignment explanation
Indices: 10044075--10044225 Score: 275
Period size: 78 Copynumber: 1.9 Consensus size: 78
10044065 TAGTATGTTT
*
10044075 CTTTTAAAATATCATATTTTGTGGTTAATCGAATTGAAACAAATTTTTACGTGTTTTCAAATAAC
1 CTTTTAAAATATCATATTTTGTAGTTAATCGAATTGAAACAAATTTTTACGTGTTTTCAAATAAC
10044140 AAACATTACTTTG
66 AAACATTACTTTG
*
10044153 CTTTTAAAATATCATATTTTTTAGTTAATCGAATTGAAACAAATTTTTACGTGTTTTCAAATAAC
1 CTTTTAAAATATCATATTTTGTAGTTAATCGAATTGAAACAAATTTTTACGTGTTTTCAAATAAC
*
10044218 AAATATTA
66 AAACATTA
10044226 TTTTTAAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (78 bp):
CTTTTAAAATATCATATTTTGTAGTTAATCGAATTGAAACAAATTTTTACGTGTTTTCAAATAAC
AAACATTACTTTG
Found at i:10044533 original size:17 final size:17
Alignment explanation
Indices: 10044513--10044558 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
10044503 AAAAGAAGTT
10044513 CAAGATTAAAATCAACC
1 CAAGATTAAAATCAACC
10044530 CAAGATTAAAATCAACC
1 CAAGATTAAAATCAACC
10044547 CAAGATTAAAAT
1 CAAGATTAAAAT
10044559 TTGGGATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.20
Consensus pattern (17 bp):
CAAGATTAAAATCAACC
Found at i:10066020 original size:65 final size:63
Alignment explanation
Indices: 10065951--10066110 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
10065941 AATTAAATTG
* *
10065951 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATCTTT-TG-
10066015 A
63 A
* * * * *
10066016 AACATCGAATGCATTTGATGCATCGATGCACCAGCGATGCATCGATGCACTCTGGCTCTTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATCTTTTGA
*
10066080 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
10066111 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 49 0.58
66 5 0.06
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATCTTTTGA
Found at i:10066110 original size:17 final size:19
Alignment explanation
Indices: 10066082--10066130 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10066072 TCTTTTGAAA
10066082 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
10066100 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
10066119 CACCGATGCACT
1 CATCGATGCACT
10066131 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:10073494 original size:21 final size:21
Alignment explanation
Indices: 10073452--10073495 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10073442 ACTCCAGGAG
* *
10073452 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
10073473 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
10073494 CT
1 CT
10073496 CCTCCAGCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:10074763 original size:21 final size:21
Alignment explanation
Indices: 10074733--10074788 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
10074723 TTTTACACTG
*
10074733 ATGCACCGATGCACCATGGGT
1 ATGCATCGATGCACCATGGGT
10074754 ATGCATCGATGCACCATGGGT
1 ATGCATCGATGCACCATGGGT
10074775 ATGCATCGATGCAC
1 ATGCATCGATGCAC
10074789 TGACGCTCCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (21 bp):
ATGCATCGATGCACCATGGGT
Found at i:10079091 original size:70 final size:69
Alignment explanation
Indices: 10078969--10079118 Score: 196
Period size: 70 Copynumber: 2.1 Consensus size: 69
10078959 TATACATCGA
* *
10078969 AGTGCTAAACTGAATATGACACATAAGGTCGTGCACACCATACACACTAAGTGTCTTTTATATAC
1 AGTGCTAAACTGAACATGACACATAAGGTCGT-CACACCATACACACAAAGTGTCTTTTATATAC
*
10079034 ACTCT
65 AATCT
* *
10079039 AGTGTTAAACTGACCATGACACATAAGGTCGT-AC-CCATCACATGCACAAAGTGTCTTTTATAT
1 AGTGCTAAACTGAACATGACACATAAGGTCGTCACACCAT-ACA--CACAAAGTGTCTTTTATAT
10079102 ACAATCT
63 ACAATCT
*
10079109 ATTGCTAAAC
1 AGTGCTAAAC
10079119 CGGATATGCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
67 4 0.06
68 5 0.07
70 61 0.87
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (69 bp):
AGTGCTAAACTGAACATGACACATAAGGTCGTCACACCATACACACAAAGTGTCTTTTATATACA
ATCT
Found at i:10084170 original size:19 final size:19
Alignment explanation
Indices: 10084132--10084167 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10084122 GTCTTAATTA
*
10084132 AGAAAATTAAAAGTTTAAT
1 AGAAAATTAAAAATTTAAT
10084151 AGAAAA-TAAAAATTTAA
1 AGAAAATTAAAAATTTAA
10084168 ATACAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
AGAAAATTAAAAATTTAAT
Found at i:10084543 original size:27 final size:29
Alignment explanation
Indices: 10084513--10084572 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
10084503 TTTTAAAGAG
* * *
10084513 AAATAATAAAATAAAACTAAA-AGAAAA-
1 AAATAAGAAAAAAAAACAAAATAGAAAAC
*
10084540 AAATGAGAAAAAAAAACAAAATAGAAAAC
1 AAATAAGAAAAAAAAACAAAATAGAAAAC
10084569 AAAT
1 AAAT
10084573 GTGAACTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 17 0.63
28 6 0.22
29 4 0.15
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (29 bp):
AAATAAGAAAAAAAAACAAAATAGAAAAC
Found at i:10084627 original size:16 final size:16
Alignment explanation
Indices: 10084608--10084645 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10084598 TAATAACCTA
10084608 AAAAAGT-AATTAAAT
1 AAAAAGTGAATTAAAT
*
10084623 GAAAATGTGAATTAAAT
1 -AAAAAGTGAATTAAAT
10084640 AAAAAG
1 AAAAAG
10084646 GACTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (16 bp):
AAAAAGTGAATTAAAT
Found at i:10084644 original size:17 final size:16
Alignment explanation
Indices: 10084606--10084644 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
10084596 TATAATAACC
10084606 TAAAAAAGTAATTAAA
1 TAAAAAAGTAATTAAA
* *
10084622 TGAAAATGTGAATTAAA
1 TAAAAAAGT-AATTAAA
10084639 TAAAAA
1 TAAAAA
10084645 GGACTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
TAAAAAAGTAATTAAA
Found at i:10085515 original size:5 final size:5
Alignment explanation
Indices: 10085473--10085543 Score: 81
Period size: 5 Copynumber: 13.8 Consensus size: 5
10085463 GAAAAAAAAT
* * *
10085473 TATAA AATAA TAATAA TAGCAA TAT-A TAATAA TTTAA TATAA TATAA
1 TATAA TATAA T-ATAA TA-TAA TATAA T-ATAA TATAA TATAA TATAA
10085520 TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATA
10085544 TGTATTATGC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
4 2 0.04
5 43 0.77
6 11 0.20
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:10088728 original size:12 final size:12
Alignment explanation
Indices: 10088702--10088739 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
10088692 CAATTCTTGT
*
10088702 TACGCATTTTTTG
1 TACG-ATTTTCTG
10088715 TACGATTTTCTG
1 TACGATTTTCTG
10088727 TACGATTTTCTG
1 TACGATTTTCTG
10088739 T
1 T
10088740 CACCGGGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (12 bp):
TACGATTTTCTG
Found at i:10089681 original size:15 final size:15
Alignment explanation
Indices: 10089661--10089696 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10089651 CAGTTAGTAA
*
10089661 GATAAAAATAATAAT
1 GATAAAAATAAAAAT
*
10089676 GATAAAAGTAAAAAT
1 GATAAAAATAAAAAT
10089691 GATAAA
1 GATAAA
10089697 CTGCATGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (15 bp):
GATAAAAATAAAAAT
Found at i:10090850 original size:70 final size:70
Alignment explanation
Indices: 10090773--10090919 Score: 195
Period size: 70 Copynumber: 2.1 Consensus size: 70
10090763 GTGCTAAAAT
* * * * * *
10090773 GAATATGACGCATAAGGTTGAGCCCGCCAAACCCACTAAGTGTCTTTTATATACACTCTAGTATT
1 GAATATGACACATAAGGTCGAGCCCACCAAACCCACAAAGTGTCTTTTATATACAATCTAGTACT
10090838 AAACC
66 AAACC
* * ** *
10090843 GAATATGACACATAAGGTCGTGCCCACCACATGCACAAAGTGTCTTTTATATACAATCTAGTGCT
1 GAATATGACACATAAGGTCGAGCCCACCAAACCCACAAAGTGTCTTTTATATACAATCTAGTACT
10090908 AAACC
66 AAACC
10090913 GAATATG
1 GAATATG
10090920 CAACCTACAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (70 bp):
GAATATGACACATAAGGTCGAGCCCACCAAACCCACAAAGTGTCTTTTATATACAATCTAGTACT
AAACC
Found at i:10099441 original size:70 final size:70
Alignment explanation
Indices: 10099284--10099433 Score: 212
Period size: 70 Copynumber: 2.1 Consensus size: 70
10099274 TATACACCGA
* *
10099284 AGTGCTAAACTGAATATGACACATAAGGTCGTGCCCACCATACACACTAAGTCTCTTTTATATAC
1 AGTGCTAAACTGAATATGACACATAAGGTCGTGCCCACCACACACACAAAGTCTCTTTTATATAC
*
10099349 ACTCT
66 AATCT
* * * * *
10099354 AGTGTTAAACTAAATATGACACATAAGGTTGTTCCCACCACA-AGCACAAAGTGTCTTTTATATA
1 AGTGCTAAACTGAATATGACACATAAGGTCGTGCCCACCACACA-CACAAAGTCTCTTTTATATA
10099418 CAATCT
65 CAATCT
10099424 AGTGCTAAAC
1 AGTGCTAAAC
10099434 CGGATATGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
69 1 0.01
70 69 0.99
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (70 bp):
AGTGCTAAACTGAATATGACACATAAGGTCGTGCCCACCACACACACAAAGTCTCTTTTATATAC
AATCT
Found at i:10111665 original size:20 final size:20
Alignment explanation
Indices: 10111636--10111674 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10111626 TTTCCACCAC
*
10111636 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
10111656 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
10111675 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:10117688 original size:22 final size:22
Alignment explanation
Indices: 10117632--10117677 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
10117622 AACAAAAAGA
*
10117632 AAATAAA-AATAATAA-ATAAT
1 AAATAAATTATAATAATATAAT
*
10117652 AAATAAATTACAATAATATAAT
1 AAATAAATTATAATAATATAAT
10117674 AAAT
1 AAAT
10117678 CATATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAATTATAATAATATAAT
Found at i:10117700 original size:32 final size:30
Alignment explanation
Indices: 10117640--10117722 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 30
10117630 GAAAATAAAA
* *
10117640 ATAATAAATAATAAATAA-ATTACAATAAT
1 ATAATAAATCATATATAATATTACAATAAT
*
10117669 ATAATAAATCATATATAATAGTATACTATAAT
1 ATAATAAATCATATATAATA-T-TACAATAAT
10117701 AT-ATAATATACATATA-AATATT
1 ATAATAA-AT-CATATATAATATT
10117723 TTCAACAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
29 16 0.35
30 2 0.04
31 6 0.13
32 16 0.35
33 6 0.13
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (30 bp):
ATAATAAATCATATATAATATTACAATAAT
Found at i:10117768 original size:42 final size:39
Alignment explanation
Indices: 10117716--10117868 Score: 139
Period size: 47 Copynumber: 3.7 Consensus size: 39
10117706 ATATACATAT
10117716 AAATATTTTCAACAAACTATATTATATGTATATATATTTTCA
1 AAATATTTTCAA-AAACTATA-TATAT-TATATATATTTTCA
* * *
10117758 AAATATTTTCAAAAACTCTATATATATATTCAAAACATTTTCAAA
1 AAATATTTTCAAAAACTATATATAT-TA-T--ATATATTTTC--A
10117803 AATGATATTTTCAAAAACTATATATTATT-TATAT-TTTTCA
1 AA--ATATTTTCAAAAACTATATA-TATTATATATATTTTCA
* *
10117843 AAATGTTTTCAAAAACCATATATATT
1 AAATATTTTCAAAAACTATATATATT
10117869 CAAAATATTC
Statistics
Matches: 94, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
37 4 0.04
38 18 0.19
40 10 0.11
41 8 0.09
42 17 0.18
43 10 0.11
45 4 0.04
47 20 0.21
48 3 0.03
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (39 bp):
AAATATTTTCAAAAACTATATATATTATATATATTTTCA
Found at i:10117790 original size:32 final size:32
Alignment explanation
Indices: 10117744--10117804 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
10117734 ATATTATATG
* *
10117744 TATATATATTTTCAAAATATTTTCAAAAACTC
1 TATATATATATTCAAAACATTTTCAAAAACTC
10117776 TATATATATATTCAAAACATTTTCAAAAA
1 TATATATATATTCAAAACATTTTCAAAAA
10117805 TGATATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (32 bp):
TATATATATATTCAAAACATTTTCAAAAACTC
Found at i:10117894 original size:26 final size:26
Alignment explanation
Indices: 10117839--10117920 Score: 103
Period size: 26 Copynumber: 3.1 Consensus size: 26
10117829 ATTTATATTT
*
10117839 TTCAAAATGTTTTCAAAAACCATATATA
1 TTCAAAATATTTTCAAAAA-C-TATATA
*
10117867 TTCAAAATATTCTCAAAAACTATATA
1 TTCAAAATATTTTCAAAAACTATATA
*
10117893 TT-ATATATATTTTCAAAAACTATATA
1 TTCA-AAATATTTTCAAAAACTATATA
10117919 TT
1 TT
10117921 TTATATACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.02
26 30 0.61
27 1 0.02
28 17 0.35
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.40
Consensus pattern (26 bp):
TTCAAAATATTTTCAAAAACTATATA
Found at i:10117908 original size:37 final size:37
Alignment explanation
Indices: 10117860--10118006 Score: 150
Period size: 37 Copynumber: 4.2 Consensus size: 37
10117850 TTCAAAAACC
*
10117860 ATATATATTCAAAATATTCTCAAAAACTATATATTAT
1 ATATATTTTCAAAATATTCTCAAAAACTATATATTAT
*
10117897 ATATATTTTCAAAA-A--CT-----A-TATATTTTAT
1 ATATATTTTCAAAATATTCTCAAAAACTATATATTAT
* * *
10117925 ATACATTTTCAAAATGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAATATTCTCAAAAACTATATATTAT
* *
10117962 ATATATTTTCAAGATATTTTCAAAAACTATATTATATAT
1 ATATATTTTCAAAATATTCTCAAAAACTATA-TAT-TAT
10118001 ATATAT
1 ATATAT
10118007 GTGTGTGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 20
0.76 0.08 0.17
Matches are distributed among these distances:
28 22 0.24
29 1 0.01
31 1 0.01
34 2 0.02
36 2 0.02
37 50 0.56
38 3 0.03
39 9 0.10
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAATATTCTCAAAAACTATATATTAT
Found at i:10117925 original size:26 final size:26
Alignment explanation
Indices: 10117848--10117938 Score: 103
Period size: 26 Copynumber: 3.3 Consensus size: 26
10117838 TTTCAAAATG
*
10117848 TTTTCAAAAACCATATATATTCA-AAATA
1 TTTTCAAAAA-C-TATATATT-ATATATA
*
10117876 TTCTCAAAAACTATATATTATATATA
1 TTTTCAAAAACTATATATTATATATA
*
10117902 TTTTCAAAAACTATATATTTTATATACA
1 TTTTCAAAAACTATATA--TTATATATA
10117930 TTTTCAAAA
1 TTTTCAAAA
10117939 TGTTTTCAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.02
26 28 0.50
27 1 0.02
28 26 0.46
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTTCAAAAACTATATATTATATATA
Found at i:10117927 original size:28 final size:28
Alignment explanation
Indices: 10117848--10117938 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
10117838 TTTCAAAATG
* * *
10117848 TTTTCAAAAACCATATATATTCA-AAATA
1 TTTTCAAAAACTATATAT-TTTATATATA
*
10117876 TTCTCAAAAACTATATA--TTATATATA
1 TTTTCAAAAACTATATATTTTATATATA
*
10117902 TTTTCAAAAACTATATATTTTATATACA
1 TTTTCAAAAACTATATATTTTATATATA
10117930 TTTTCAAAA
1 TTTTCAAAA
10117939 TGTTTTCAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 20 0.37
28 32 0.59
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTCAAAAACTATATATTTTATATATA
Found at i:10118004 original size:39 final size:38
Alignment explanation
Indices: 10117899--10118006 Score: 155
Period size: 37 Copynumber: 2.8 Consensus size: 38
10117889 TATATTATAT
* * *
10117899 ATATTTTCAAAAACTATATATTTTATATACATTTTCAAA
1 ATATTTTCAAAAACTATATA-TATATATATATTTTCAAG
*
10117938 ATGTTTTCAAAAACTATATAT-TATATATATTTTCAAG
1 ATATTTTCAAAAACTATATATATATATATATTTTCAAG
10117975 ATATTTTCAAAAACTATATTATATATATATAT
1 ATATTTTCAAAAACTATA-TATATATATATAT
10118007 GTGTGTGTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
37 31 0.49
38 4 0.06
39 28 0.44
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (38 bp):
ATATTTTCAAAAACTATATATATATATATATTTTCAAG
Found at i:10120613 original size:49 final size:49
Alignment explanation
Indices: 10120475--10120619 Score: 175
Period size: 49 Copynumber: 3.0 Consensus size: 49
10120465 AACCATATTT
* * * * *
10120475 ATTTATAAGGAAAAAGGAACAGGGTATATGAAAAACATTATGGAAGGTC
1 ATTTATAAGGAAAAAGGAACAGAGTATATGAAAAACATTCTGAAAAGCC
* * * *
10120524 ATTTACAAGGAAAATA-AAACAGAGTATATGACAAACATTCTGTAAAGCC
1 ATTTATAAGGAAAA-AGGAACAGAGTATATGAAAAACATTCTGAAAAGCC
* *
10120573 ATTTATAAGGAAAAAGGAACAGAGTATACGAAAAATATTCTGAAAAG
1 ATTTATAAGGAAAAAGGAACAGAGTATATGAAAAACATTCTGAAAAG
10120620 TTAATACATA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 78 0.98
50 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.22
Consensus pattern (49 bp):
ATTTATAAGGAAAAAGGAACAGAGTATATGAAAAACATTCTGAAAAGCC
Found at i:10123032 original size:190 final size:189
Alignment explanation
Indices: 10122683--10123060 Score: 580
Period size: 190 Copynumber: 2.0 Consensus size: 189
10122673 TCTAAGGATA
* *
10122683 TGGCCATCAAGTCTTCGCGTGGAAGTCAAAGTCCAGTGGCTCATAATTTTCAACTGTTCTGCTTG
1 TGGCCATCAAGTCTTCGCGTGGAAGGCAAAGTCCAGTAGCTCATAATTTTCAACTGTTCTGCTTG
* * *
10122748 CCAAGAAATCCAATATGGCACTTGCCTTTATAGCTTTTTGGCTCACGTACTCGATGTCAAATTTG
66 CCAAGAAATCAAATATGGAACTTCCCTTTATAGCTTTTTGGCTCACGTACTCGATGTCAAATTTG
* * *
10122813 GATAGCAGCATCTGCCATCTGGCTAACCTTTCAGAGAGAGCAGGCACTCCCATCATATG
131 GATAGCAGCATCTGCCATCGGGCTAACCTTCCAGAGAGAGCAGGCACACCCATCATATG
* * * *
10122872 TGGCCATCAAGTCTTCGTC-TAGGAAGGCAAAGTCTAGTAGCTCGTAATTTT-TAGTAGTTCTGC
1 TGGCCATCAAGTCTTCG-CGT-GGAAGGCAAAGTCCAGTAGCTCATAATTTTCAACT-GTTCTGC
* *
10122935 TTTCCAAGAAATCAAATATGGAACTTCCCTTTATATCTTTTTGGCTCACGTACTCGATGTCAAAT
63 TTGCCAAGAAATCAAATATGGAACTTCCCTTTATAGCTTTTTGGCTCACGTACTCGATGTCAAAT
*
10123000 TTGGATAGCAGCATCTGCCATCGGGCTAACCTTCCAGAGAGAGCAGGCACACCTATCATAT
128 TTGGATAGCAGCATCTGCCATCGGGCTAACCTTCCAGAGAGAGCAGGCACACCCATCATAT
10123061 ACTTTAGTGG
Statistics
Matches: 171, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
189 20 0.12
190 151 0.88
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (189 bp):
TGGCCATCAAGTCTTCGCGTGGAAGGCAAAGTCCAGTAGCTCATAATTTTCAACTGTTCTGCTTG
CCAAGAAATCAAATATGGAACTTCCCTTTATAGCTTTTTGGCTCACGTACTCGATGTCAAATTTG
GATAGCAGCATCTGCCATCGGGCTAACCTTCCAGAGAGAGCAGGCACACCCATCATATG
Found at i:10126637 original size:31 final size:32
Alignment explanation
Indices: 10126576--10126639 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
10126566 AAATTATAAA
* *
10126576 TTTGGTAAAGTTTGGTGATCAAAGTATAATTT
1 TTTGGTAAAGTTTGGTGACCAAAATATAATTT
*
10126608 TTTGG-AAAGTTTAGG-GACCAAAATGTAATTT
1 TTTGGTAAAGTTT-GGTGACCAAAATATAATTT
10126639 T
1 T
10126640 GGAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.41
Consensus pattern (32 bp):
TTTGGTAAAGTTTGGTGACCAAAATATAATTT
Found at i:10128386 original size:40 final size:40
Alignment explanation
Indices: 10128330--10128452 Score: 228
Period size: 40 Copynumber: 3.1 Consensus size: 40
10128320 TGCAGGTTTA
10128330 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
10128370 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
10128410 TAATACACTTCGGTGTATATGGTGGACACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
10128450 TAA
1 TAA
10128453 CACTACGGTG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:10128689 original size:45 final size:45
Alignment explanation
Indices: 10128555--10128781 Score: 323
Period size: 45 Copynumber: 5.0 Consensus size: 45
10128545 GGTAACCAGG
*
10128555 AAAATAAGCTTACCAGCTTATGGAAT-AATGGAAAGTATA-TGGAT
1 AAAATAAGCTTACCAGCTTATGGAATAAATGGTAAGTATATTGG-T
**
10128599 AAAATAAGCTTACCAGCTTATAAAAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACCAGCTTAT-GGAATAAATGGTAAGTATATTGGT
* *
10128645 AAAATAAGCTTACAAGCTTATGGATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACCAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
10128690 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACCAGCTTATGGAATAAATGGTAAGTATATTGGT
* * * *
10128735 AAAATAAGCTTACGAGCTTATGGGATAAATGATATGTATATTGGT
1 AAAATAAGCTTACCAGCTTATGGAATAAATGGTAAGTATATTGGT
10128780 AA
1 AA
10128782 GAAAGTTTTA
Statistics
Matches: 168, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
44 21 0.12
45 111 0.66
46 33 0.20
47 3 0.02
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (45 bp):
AAAATAAGCTTACCAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:10130640 original size:38 final size:35
Alignment explanation
Indices: 10130597--10130727 Score: 104
Period size: 38 Copynumber: 3.5 Consensus size: 35
10130587 ATAATATTAT
10130597 ACTATAATGTATAATATACATATAAATATTTTCAAAAA
1 ACTATAAT-TATAATATA-ATATAAATATTTTC-AAAA
** * *
10130635 ACTATATATTATATATATTTTTTCAAAATGTTTTCAAAA
1 ACTATA-ATTATA-ATATAATAT--AAATATTTTCAAAA
10130674 ACTAT-ATATATATATATAATCA-AAATATTTTCAAAA
1 ACTATAAT-TATA-ATATAAT-ATAAATATTTTCAAAA
10130710 ACTATATATTATATATAT
1 ACTATA-ATTATA-ATAT
10130728 TTTCAAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
36 18 0.23
37 11 0.14
38 24 0.31
39 15 0.19
40 9 0.12
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (35 bp):
ACTATAATTATAATATAATATAAATATTTTCAAAA
Found at i:10130745 original size:38 final size:37
Alignment explanation
Indices: 10130620--10130971 Score: 233
Period size: 38 Copynumber: 9.1 Consensus size: 37
10130610 ATATACATAT
10130620 AAATATTTTCAAAAAACTATATATTATATATATTTTTTCA
1 AAATATTTTC-AAAAACTATATATTATATATA--TTTTCA
* **
10130660 AAATGTTTTCAAAAACTATATA-TATATATATAATCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
10130696 AAATATTTTCAAAAACTATATATTATATATATTTTCAA
1 AAATATTTTCAAAAACTATATATTATATATATTTTC-A
* ** *
10130734 AAAAAAATTCAAAAACTATACA-T-TATATA---T--
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
* * *
10130764 --ATGTTTTCAAAAACCATATCTATATATATATTTTCAAAA
1 AAATATTTTCAAAAACTATATAT-TATATATATTTTC---A
* **
10130803 TATATATATTTTCAAAATATTTTTAAAAACTATATATTATATATACGTTTTC
1 -A-A-ATATTTTC-----------AAAAACTATATATTATATATA-TTTTCA
*
10130855 AAAATGTTTTCAAAAACTATATATTATATATATTTTCA
1 AA-ATATTTTCAAAAACTATATATTATATATATTTTCA
*
10130893 AGATATTTTCAAAAACTATATA-TATATATAAGTTTTCA
1 AAATATTTTCAAAAACTATATATTATATAT-A-TTTTCA
*
10130931 AAACT-TTTTCAAAAACTATATATTATATATGTTTTCA
1 AAA-TATTTTCAAAAACTATATATTATATATATTTTCA
10130968 AAAT
1 AAAT
10130972 TCTATATATA
Statistics
Matches: 246, Mismatches: 32, Indels: 72
0.70 0.09 0.21
Matches are distributed among these distances:
28 13 0.05
30 1 0.00
31 6 0.02
33 1 0.00
34 1 0.00
36 39 0.16
37 41 0.17
38 56 0.23
39 41 0.17
40 9 0.04
44 7 0.03
50 8 0.03
51 1 0.00
54 8 0.03
55 14 0.06
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (37 bp):
AAATATTTTCAAAAACTATATATTATATATATTTTCA
Found at i:10130761 original size:75 final size:75
Alignment explanation
Indices: 10130620--10130765 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 75
10130610 ATATACATAT
**** *
10130620 AAATATTTTCAAAAAACTATATATTATATATATTTTTTCAAAATGTTTTCAAAAACTATATATAT
1 AAATATTTTCAAAAAACTATATATTATATATA-TTTTTCAAAAAAAATTCAAAAACTATACATAT
10130685 ATATATAATCA
65 ATATATAATCA
10130696 AAATATTTTC-AAAAACTATATATTATATATA-TTTTCAAAAAAAAATTCAAAAACTATACATTA
1 AAATATTTTCAAAAAACTATATATTATATATATTTTTC-AAAAAAAATTCAAAAACTATACA-TA
10130759 TATATAT
64 TATATAT
10130766 GTTTTCAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
73 5 0.08
74 18 0.29
75 30 0.48
76 10 0.16
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.41
Consensus pattern (75 bp):
AAATATTTTCAAAAAACTATATATTATATATATTTTTCAAAAAAAATTCAAAAACTATACATATA
TATATAATCA
Found at i:10130772 original size:28 final size:28
Alignment explanation
Indices: 10130741--10130858 Score: 118
Period size: 28 Copynumber: 4.2 Consensus size: 28
10130731 CAAAAAAAAA
*
10130741 TTCAAAAACTATACATTATATATATGTT
1 TTCAAAAACTATATATTATATATATGTT
* * *
10130769 TTCAAAAACCATAT-CTATATATATATT
1 TTCAAAAACTATATATTATATATATGTT
* *
10130796 TTCAAAATA-TATATATTTTCAAAATAT-TT
1 TTCAAAA-ACTATATATTAT--ATATATGTT
*
10130825 TT-AAAAACTATATATTATATATACGTT
1 TTCAAAAACTATATATTATATATATGTT
10130852 TTCAAAA
1 TTCAAAA
10130859 TGTTTTCAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
26 4 0.06
27 27 0.38
28 32 0.44
29 4 0.06
30 5 0.07
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (28 bp):
TTCAAAAACTATATATTATATATATGTT
Found at i:10130775 original size:27 final size:27
Alignment explanation
Indices: 10130745--10130858 Score: 97
Period size: 27 Copynumber: 4.1 Consensus size: 27
10130735 AAAAAATTCA
*
10130745 AAAACTATACATTATATATATGTTTTC
1 AAAACTATATATTATATATATGTTTTC
* * *
10130772 AAAAACCATAT-CTATATATATATTTTC
1 -AAAACTATATATTATATATATGTTTTC
* * * *
10130799 AAAATATATATATTTTCAAAATAT-TTTTA
1 AAAA-CTATATATTAT--ATATATGTTTTC
*
10130828 AAAACTATATATTATATATACGTTTTC
1 AAAACTATATATTATATATATGTTTTC
10130855 AAAA
1 AAAA
10130859 TGTTTTCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
26 8 0.12
27 26 0.39
28 19 0.29
29 8 0.12
30 5 0.08
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (27 bp):
AAAACTATATATTATATATATGTTTTC
Found at i:10130807 original size:17 final size:17
Alignment explanation
Indices: 10130785--10130822 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
10130775 AACCATATCT
10130785 ATATATATATTTTCAAA
1 ATATATATATTTTCAAA
10130802 ATATATATATTTTCAAA
1 ATATATATATTTTCAAA
10130819 ATAT
1 ATAT
10130823 TTTTAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATTTTCAAA
Found at i:10130876 original size:37 final size:37
Alignment explanation
Indices: 10130803--10130971 Score: 213
Period size: 39 Copynumber: 4.5 Consensus size: 37
10130793 ATTTTCAAAA
*
10130803 TATATATA-TTTTCAAAATATTTTTAAAAACTATATAT
1 TATATATAGTTTTCAAAATATTTTCAAAAAC-ATATAT
*
10130840 TATATATACGTTTTCAAAATGTTTTCAAAAACTATATAT
1 TATATATA-GTTTTCAAAATATTTTCAAAAAC-ATATAT
*
10130879 TATATATA-TTTTCAAGATATTTTCAAAAAC-TATAT
1 TATATATAGTTTTCAAAATATTTTCAAAAACATATAT
10130914 ATATATATAAGTTTTCAAAACT-TTTTCAAAAACTATATAT
1 -TATATAT-AGTTTTCAAAA-TATTTTCAAAAAC-ATATAT
10130954 TATATAT-GTTTTCAAAAT
1 TATATATAGTTTTCAAAAT
10130972 TCTATATATA
Statistics
Matches: 119, Mismatches: 5, Indels: 17
0.84 0.04 0.12
Matches are distributed among these distances:
35 5 0.04
36 8 0.07
37 39 0.33
38 19 0.16
39 43 0.36
40 5 0.04
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (37 bp):
TATATATAGTTTTCAAAATATTTTCAAAAACATATAT
Found at i:10130876 original size:160 final size:155
Alignment explanation
Indices: 10130645--10130933 Score: 425
Period size: 160 Copynumber: 1.8 Consensus size: 155
10130635 ACTATATATT
* *
10130645 ATATATATTTTTTCAAAATGTTTTCAAAAACTATATATATATATATAATCAAAATATTTTCAAAA
1 ATATATATATTTTCAAAATATTTTCAAAAACTATATATATATATATAATCAAAATATTTTCAAAA
*
10130710 ACTATATATTATATATATTTTCAAAAAAAAATTCAAAAACTATACATTATATATATGTTTTCAAA
66 ACTATATATTATATATATTTTC-AAAAAAAATTCAAAAACTATACA-TATATATAAGTTTTCAAA
10130775 AACCATATCTATATATATATTTTCAAA
129 AACCATATCTATATATATATTTTCAAA
* ** *
10130802 ATATATATATTTTCAAAATATTTTTAAAAACTATATATTATATATACGTTTTCAAAATGTTTTCA
1 ATATATATATTTTCAAAATATTTTCAAAAACTATATA-TATATATA--TAATCAAAATATTTTCA
* * ** *
10130867 AAAACTATATATTATATATATTTTCAAGATATTTTCAAAAACTATATATATATATAAGTTTTCAA
63 AAAACTATATATTATATATATTTTCAAAAAAAATTCAAAAACTATACATATATATAAGTTTTCAA
10130932 AA
128 AA
10130934 CTTTTTCAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
157 34 0.29
158 26 0.22
159 18 0.15
160 39 0.33
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (155 bp):
ATATATATATTTTCAAAATATTTTCAAAAACTATATATATATATATAATCAAAATATTTTCAAAA
ACTATATATTATATATATTTTCAAAAAAAATTCAAAAACTATACATATATATAAGTTTTCAAAAA
CCATATCTATATATATATTTTCAAA
Found at i:10130976 original size:27 final size:27
Alignment explanation
Indices: 10130936--10130989 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
10130926 TTTCAAAACT
10130936 TTTTCAAAAAC-TATATATTATATATG
1 TTTTCAAAAACATATATATTATATATG
*
10130962 TTTTCAAAATTCTATATATATTATATAT
1 TTTTCAAAA-AC-ATATATATTATATAT
10130990 ATTAAATAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 1 0.04
29 14 0.58
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTTCAAAAACATATATATTATATATG
Found at i:10133805 original size:6 final size:6
Alignment explanation
Indices: 10133797--10134425 Score: 493
Period size: 6 Copynumber: 104.8 Consensus size: 6
10133787 TATAGATAGA
*
10133797 TAGATA TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
10133845 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * *
10133893 TAGATG TAGATG TAGATG TAGATG TAGATG GAGATG GAGATG GAGATG
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10133941 GAGATG GAGATG GAGATG GAGATG GAGATG GAGATG GAGATG GAGATG
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * * *
10133989 GAGATG GAGATG GAGATG GAGATG GAGATG GAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134037 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134085 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134133 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134181 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134229 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134277 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134325 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
* * * * * * * *
10134373 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA
1 TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG TAGATG
10134421 TAGAT
1 TAGAT
10134426 ATATATAGAT
Statistics
Matches: 619, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 619 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (6 bp):
TAGATG
Found at i:10134426 original size:6 final size:6
Alignment explanation
Indices: 10134020--10134443 Score: 834
Period size: 6 Copynumber: 71.0 Consensus size: 6
10134010 ATGGAGATGG
10134020 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134068 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134116 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134164 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134212 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134260 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134308 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134356 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134404 AGATAT AGATAT AGATAT AGATAT --ATAT AGATAT AGATAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT
10134444 TAAAAATGTA
Statistics
Matches: 416, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.01
6 412 0.99
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
AGATAT
Found at i:10136089 original size:10 final size:10
Alignment explanation
Indices: 10136074--10136103 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
10136064 CTATGGTCCC
10136074 TAAAATTTAT
1 TAAAATTTAT
10136084 TAAAATTTAT
1 TAAAATTTAT
10136094 TAAAATTTAT
1 TAAAATTTAT
10136104 ACTTTGAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TAAAATTTAT
Found at i:10137146 original size:3 final size:3
Alignment explanation
Indices: 10137138--10137188 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
10137128 AATTTAATTT
*
10137138 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10137185 ATA A
1 ATA A
10137189 ACAACATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:10140862 original size:81 final size:81
Alignment explanation
Indices: 10140755--10141411 Score: 844
Period size: 81 Copynumber: 8.2 Consensus size: 81
10140745 TATTTTAAAA
*** * * *
10140755 TAAAAGATTAAATGCCTAACTGTGCATTTATTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
*
10140820 GCTAAATGGCTTTGAG
66 GCTAAATGCCTTTGAG
* * * *** * * *
10140836 TAAAAGATTAAACGCCTAAATTTGCATTTAAAATAAAAGTGCCAATCATTCAAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
*
10140901 GCTAAATGTCTTTGAG
66 GCTAAATGCCTTTGAG
* * * *
10140917 TAAAAGATTAAATGCCTAACTGTGCATTTGGTAGAAAGGAGCCAATCATGCAAGTTGGATTAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
*
10140982 ACTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* *
10140998 TAAAAGATTAAATGCCTAACTGTGCACTTGGCAGAAAGGTGCCAATCATGCAAGTTATATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
*
10141063 GCTAAATGCCTTTGAC
66 GCTAAATGCCTTTGAG
* *
10141079 TAAAAGAATAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGCAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
*
10141144 GCTAAATGCCTTTAAG
66 GCTAAATGCCTTTGAG
* * *
10141160 TAAAAGA-T---T--CTAACTGTGTATTTGGAAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
*
10141219 GCTAAATGCCTTTAAG
66 GCTAAATGCCTTTGAG
* * *
10141235 TAAAAGATTAAATGTCTAATTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
*
10141300 GCTAAATGCCTTTGGG
66 GCTAAATGCCTTTGAG
* * * * *
10141316 TAAAAGATTAAATGCCTAACTAG-GAATTTGGAAGAAATGTTCCAATCATGCAAGTTGGATGAAA
1 TAAAAGATTAAATGCCTAACT-GTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAA
*
10141380 GGCTAAATGACTTTAGAG
65 GGCTAAATGCCTTT-GAG
* *
10141398 -GAAAGACTAAATGC
1 TAAAAGATTAAATGC
10141412 TTAATAGTGT
Statistics
Matches: 507, Mismatches: 61, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
75 69 0.14
76 1 0.00
77 1 0.00
79 1 0.00
80 1 0.00
81 431 0.85
82 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (81 bp):
TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:10141288 original size:237 final size:240
Alignment explanation
Indices: 10140755--10141394 Score: 856
Period size: 237 Copynumber: 2.7 Consensus size: 240
10140745 TATTTTAAAA
*** * * *
10140755 TAAAAGATTAAATGCCTAACTGTGCATTTATTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * * ** *
10140820 GCTAAATGGCTTTGAGTAAAAGATTAAACGCCTAAATTTGCATTTAAAATAAAAGTGCCAATCAT
66 GCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGAAGAAAAGTGCCAATCAT
* * * *
10140885 TCAAGTTAGATGAAAGGCTAAATGTCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGTA
131 GCAAGTTAGATGAAAGGCTAAATGACTTTAAGTAAAAGATT--AT-CCTAACTGTGCATTTGGAA
* * * *
10140950 GAAAGGAGCCAATCATGCAAGTTGGATTAAAGACTAAATGCCTTTGAG
193 GAAAGGAGCCAATAATGCAAGTTAGATGAAAGACTAAATGCCTTTAAG
* * *
10140998 TAAAAGATTAAATGCCTAACTGTGCACTTGGCAGAAAGGTGCCAATCATGCAAGTTATATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * *
10141063 GCTAAATGCCTTTGACTAAAAGAATAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCAT
66 GCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGAAGAAAAGTGCCAATCAT
* * *
10141128 GCAAGTTAGATGCAAGGCTAAATGCCTTTAAGTAAAAGA-T-T-CTAACTGTGTATTTGGAAGAA
131 GCAAGTTAGATGAAAGGCTAAATGACTTTAAGTAAAAGATTATCCTAACTGTGCATTTGGAAGAA
* *
10141190 AGGTGCCAATAATGCAAGTTAGATGAAAGGCTAAATGCCTTTAAG
196 AGGAGCCAATAATGCAAGTTAGATGAAAGACTAAATGCCTTTAAG
* *
10141235 TAAAAGATTAAATGTCTAATTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
* * * *
10141300 GCTAAATGCCTTTGGGTAAAAGATTAAATGCCTAACTAG-GAATTTGGAAGAAATGTTCCAATCA
66 GCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACT-GTGCATTTGGAAGAAAAGTGCCAATCA
*
10141364 TGCAAGTTGGATGAAAGGCTAAATGACTTTA
130 TGCAAGTTAGATGAAAGGCTAAATGACTTTA
10141395 GAGGAAAGAC
Statistics
Matches: 350, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
237 201 0.57
238 1 0.00
239 1 0.00
242 1 0.00
243 146 0.42
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (240 bp):
TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGAAGAAAAGTGCCAATCAT
GCAAGTTAGATGAAAGGCTAAATGACTTTAAGTAAAAGATTATCCTAACTGTGCATTTGGAAGAA
AGGAGCCAATAATGCAAGTTAGATGAAAGACTAAATGCCTTTAAG
Found at i:10148139 original size:81 final size:80
Alignment explanation
Indices: 10148011--10148592 Score: 711
Period size: 81 Copynumber: 7.2 Consensus size: 80
10148001 TGCTTTAAAA
* * ** *
10148011 TAAAATATTAAATGCCTAACTGTGCATTTGGCAGAAATGTGACAATCATGTTAGTTAAATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTG-CAATCATGCAAGTTAGATGAAAG
10148076 GCTAAATGCCTTTGAG
65 GCTAAATGCCTTTGAG
* * *
10148092 TAAAAGATTAAATGCCTAACTGTGCATTTGACATAAAGGTTCTAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGC-AATCATGCAAGTTAGATGAAAG
10148157 GCTAAATGCCTTTGAG
65 GCTAAATGCCTTTGAG
* * * *
10148173 TAAAAGATTAAATGTCTAATTATGCATTTGGCATAAAGGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTG-CAATCATGCAAGTTAGATGAAAG
*
10148238 GCTAAATGTCTTTGAG
65 GCTAAATGCCTTTGAG
* * * * *
10148254 TAAAAGATTAAATGCCTAATTGTGCATTTAGTAGAAAGGTGGCAATCATGCAAGTTAAATGAAAT
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGT-GCAATCATGCAAGTTAGATGAAAG
*
10148319 GCTAAATTCCTTTGAG
65 GCTAAATGCCTTTGAG
* * * * * * *
10148335 TAAAAGATTAAATTCCTAACTATGTATTTGGCATAAATGTACCAATCATGCAAGTAAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGT-GCAATCATGCAAGTTAGATGAAAG
**
10148400 TTTAAATGCCTTTGAG
65 GCTAAATGCCTTTGAG
* *
10148416 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAATGTGCCAATAATGCAAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTG-CAATCATGCAAGTTAGATGAAAG
*
10148481 GCTAAATGACTTTGCA-
65 GCTAAATGCCTTTG-AG
* ** * *
10148497 TAAAAGATTAAATTCCTAACTAAGCATTTGGCAGAAAGGTGCCAATCAT-AATAGTTGGATGAAA
1 TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTG-CAATCATGCA-AGTTAGATGAAA
10148561 GGCTAAATGCCTTTAGAG
64 GGCTAAATGCCTTT-GAG
* *
10148579 -GAAAGACTAAATGC
1 TAAAAGATTAAATGC
10148593 TTAATAGTGT
Statistics
Matches: 433, Mismatches: 60, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.00
81 427 0.99
82 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (80 bp):
TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCAATCATGCAAGTTAGATGAAAGG
CTAAATGCCTTTGAG
Found at i:10148445 original size:243 final size:243
Alignment explanation
Indices: 10148010--10148615 Score: 788
Period size: 243 Copynumber: 2.5 Consensus size: 243
10148000 ATGCTTTAAA
* * **
10148010 ATAAAATATTAAATGCCTAACTGTGCATTTGGCAGAAATGTGACAATCATGTTAGTTAAATGAAA
1 ATAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATCATGCAAGTTAAATGAAA
* * *
10148075 GGCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGACATAAAGGTTCTAATCA
66 GGCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGACATAAAGGTACCAATCA
* * *
10148140 TGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAAATGTCTAATTATGCATTTGGC
131 TGCAAGTAAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGGC
* * * *
10148205 ATAAAGGTGTCAATCATGCAAGTTAGATGAAAGGCTAAATGTCTTTG-
196 AGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGCTAAATGACTTTGC
* * * *
10148252 AGTAAAAGATTAAATGCCTAATTGTGCATTTAGTAGAAAGGTGGCAATCATGCAAGTTAAATGAA
1 A-TAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATCATGCAAGTTAAATGAA
* * * * * *
10148317 ATGCTAAATTCCTTTGAGTAAAAGATTAAATTCCTAACTATGTATTTGGCATAAATGTACCAATC
65 AGGCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGACATAAAGGTACCAATC
** *
10148382 ATGCAAGTAAGATGAAAGTTTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGG
130 ATGCAAGTAAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGG
*
10148447 CAGAAATGTGCCAATAATGCAAGTTAGATGAAAGGCTAAATGACTTTGC
195 CAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGCTAAATGACTTTGC
* ** * * **
10148496 ATAAAAGATTAAATTCCTAACTAAGCATTTGGCAGAAAGGTGCCAATCAT-AATAGTTGGATGAA
1 ATAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATCATGCA-AGTTAAATGAA
* * * *
10148560 AGGCTAAATGCCTTTAGAG-GAAAGACTAAATGCTTAA-TAGTGTATTTTGACATAAA
65 AGGCTAAATGCCTTT-GAGTAAAAGATTAAATGCCTAACTA-TGCA-TTTGACATAAA
10148616 CGGTGTCATT
Statistics
Matches: 313, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
242 4 0.01
243 295 0.94
244 14 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (243 bp):
ATAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGACAATCATGCAAGTTAAATGAAA
GGCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGACATAAAGGTACCAATCA
TGCAAGTAAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGGC
AGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGCTAAATGACTTTGC
Found at i:10152629 original size:17 final size:17
Alignment explanation
Indices: 10152604--10152689 Score: 72
Period size: 16 Copynumber: 5.1 Consensus size: 17
10152594 AAAAGAAAAA
*
10152604 AAAGAAAGAAATAAA-G
1 AAAGAAAGAAAAAAATG
10152620 AAATGAAAGAAAAAAATG
1 AAA-GAAAGAAAAAAATG
*
10152638 AAAGAAAG-AAAAAATT
1 AAAGAAAGAAAAAAATG
* *
10152654 AAAAAAATTAAAAAAA--
1 AAAGAAA-GAAAAAAATG
*
10152670 AAAGAAAAAAAAAGAATG
1 AAAGAAAGAAAAA-AATG
10152688 AA
1 AA
10152690 TAAAGAAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
15 5 0.09
16 24 0.42
17 16 0.28
18 12 0.21
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAGAAAGAAAAAAATG
Found at i:10152706 original size:38 final size:37
Alignment explanation
Indices: 10152588--10152721 Score: 123
Period size: 38 Copynumber: 3.5 Consensus size: 37
10152578 TACACCTAAA
10152588 GAAAAAAAAAG-AAAAAAAAGAAAGAAATAAAG-AAAT
1 GAAAAAAAAAGAAAAAAAAAGAAAG-AATAAAGAAAAT
* * *
10152624 GAAAGAAAAAA-ATGAAAGAAAGAAAAAATTAAA-AAAATT
1 GAAA-AAAAAAGA-AAAAAAAAGAAAGAA-TAAAGAAAA-T
* *
10152663 AAAAAAAAAAGAAAAAAAAAGAATGAATAAAGAAGAAT
1 GAAAAAAAAAGAAAAAAAAAGAAAGAATAAAGAA-AAT
*
10152701 GAAAAAATAAGAAAAAGAAAA
1 GAAAAAAAAAGAAAAA-AAAA
10152722 AAAAAGAGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
36 4 0.05
37 12 0.15
38 51 0.65
39 11 0.14
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.08
Consensus pattern (37 bp):
GAAAAAAAAAGAAAAAAAAAGAAAGAATAAAGAAAAT
Found at i:10152722 original size:17 final size:17
Alignment explanation
Indices: 10152591--10152738 Score: 70
Period size: 17 Copynumber: 8.2 Consensus size: 17
10152581 ACCTAAAGAA
* *
10152591 AAAAAAAGAAAAAAAAG
1 AAAAAAATAAGAAAAAG
*
10152608 AAAGAAATAAAGAAATGAAAG
1 AAAAAAAT-AAG-AA--AAAG
*
10152629 AAAAAAATGAA-AGAAAG
1 AAAAAAAT-AAGAAAAAG
* *
10152646 AAAAAATTAA-AAAAATT
1 AAAAAAATAAGAAAAA-G
*
10152663 AAAAAAAAAAGAAAAA-
1 AAAAAAATAAGAAAAAG
* *
10152679 AAAAGAATGAATAAAGAAG
1 AAAAAAAT-AAGAAA-AAG
10152698 AATGAAAAAATAAGAAAAAG
1 -A--AAAAAATAAGAAAAAG
*
10152718 AAAAAAA-AAGAGAAAAT
1 AAAAAAATAAGA-AAAAG
10152735 AAAA
1 AAAA
10152739 TTGAAAGGGG
Statistics
Matches: 101, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
16 16 0.16
17 44 0.44
18 9 0.09
19 4 0.04
20 4 0.04
21 18 0.18
22 6 0.06
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (17 bp):
AAAAAAATAAGAAAAAG
Found at i:10154804 original size:103 final size:101
Alignment explanation
Indices: 10154687--10154882 Score: 304
Period size: 103 Copynumber: 1.9 Consensus size: 101
10154677 AAATTAACAT
*
10154687 TTGAGATTGTTTTTCTCAAAACCAATTTCACCTCGCTTGAGACAGTTTTCCCTTGAAACACAAAA
1 TTGAGATTGGTTTTCTCAAAACCAATTTCACCTCGCTTGAGACAGTTTTCCCTTGAAACACAAAA
*
10154752 TTTGGAATTTGTTTCAC-CTGAAACCAAATTGATCTCAC
66 TTT-GAAATTG-TTCACTC-GAAACCAAATTGATCTCAC
* * * *
10154790 TTGAGATTGGTTTTCTTAAAATCAATTTCATCTGGCTTGAGACAGTTTTCCCTTGAAACACAAAA
1 TTGAGATTGGTTTTCTCAAAACCAATTTCACCTCGCTTGAGACAGTTTTCCCTTGAAACACAAAA
10154855 TTTGAAATTGTTCACTCGAAACCAAATT
66 TTTGAAATTGTTCACTCGAAACCAAATT
10154883 TTATCGCACC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
101 16 0.19
102 7 0.08
103 63 0.73
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (101 bp):
TTGAGATTGGTTTTCTCAAAACCAATTTCACCTCGCTTGAGACAGTTTTCCCTTGAAACACAAAA
TTTGAAATTGTTCACTCGAAACCAAATTGATCTCAC
Found at i:10155441 original size:163 final size:161
Alignment explanation
Indices: 10155157--10155720 Score: 675
Period size: 163 Copynumber: 3.5 Consensus size: 161
10155147 TCATAGAATG
* * * * * *
10155157 AGGTTGATCAACATTTCCTATGGAGGGGTTCATAATGAGAAGAATTCATCCAAAGAATGACAAAA
1 AGGTGGATCAACATTTCCAATGGA-AGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAAA
* *
10155222 AGTTCATAATGAGAAGAACATT-TTCATCATTTTGTTCGA-TTCTATCTTAGAAGGAGGTAGATC
65 AGTTCATAATGAGAAGAA-ATTGTTCATCATTTTGCTCGACTT-TATCGTAGAAGGAGGTAGATC
* * **
10155285 GAAGTCAATATTTTGTTCGATTCTGTCACAAAAGA
128 -AAGTCAACATTATGTTCGATTCCATCACAAAAGA
* * *
10155320 AGGTGGATCAACATTTCCAATGGATAGGTTTATAATGAGAAGAACTCATTCAAAGAAGGAGAAGA
1 AGGTGGATCAACATTTCCAATGGA-AGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAAA
* *
10155385 AGTTCATAATGAGAAGAATTTGTTCATCATTTTGCTCGACTTTATCGTAAAAGGAGGTAGATCAG
65 AGTTCATAATGAGAAGAAATTGTTCATCATTTTGCTCGACTTTATCGTAGAAGGAGGTAGATCA-
* * * * * *
10155450 CGTCAACATTCTATTTGATTCCATCACAGAAGG
129 AGTCAACATTATGTTCGATTCCATCACAAAAGA
* * *
10155483 AGGTGGATCAATATTTCCAATCGAAAGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAGA
1 AGGTGGATCAACATTTCCAAT-GGAAGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAAA
*** * * * *
10155548 AGTTCATAATGAGAAGGGCTTGTTCATCATTTTCCTTGACTTTATTGCAGAAGGAGGTAGATCAA
65 AGTTCATAATGAGAAGAAATTGTTCATCATTTTGCTCGACTTTATCGTAGAAGGAGGTAGATCAA
* *
10155613 TGTCAACATTATGTTCAATTCCATCATAGAAAGA
130 -GTCAACATTATGTTCGATTCCATCACA-AAAGA
* * *
10155647 A-GTGGATCAACATTTCTAATTGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAAAAAA
1 AGGTGGATCAACATTTCCAATGGAA-GGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAAA
10155711 AGTTCATAAT
65 AGTTCATAAT
10155721 TTGTTAAAAA
Statistics
Matches: 345, Mismatches: 49, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
162 5 0.01
163 332 0.96
164 8 0.02
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (161 bp):
AGGTGGATCAACATTTCCAATGGAAGGTTCATAATGAGAAGAACTCATCCAAAGAAGGAGAAAAA
GTTCATAATGAGAAGAAATTGTTCATCATTTTGCTCGACTTTATCGTAGAAGGAGGTAGATCAAG
TCAACATTATGTTCGATTCCATCACAAAAGA
Found at i:10157799 original size:54 final size:54
Alignment explanation
Indices: 10157712--10158439 Score: 926
Period size: 54 Copynumber: 13.6 Consensus size: 54
10157702 AAACTAGGAG
* *
10157712 ATGAATTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGTATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* * *
10157766 ATGAGTTGATGAACAACTGTACAGGCAATATGTGTGCAATCCACGAAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* * * *
10157820 ATGAGTTGATGAACAACCGTACATGCACTACGTGTGCTATCCACGAAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
** *
10157874 ATGAGTTGATGAACAACCGTACAGGCACTACATGTGCAATCCACAGAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* * * *
10157928 ATGAGTTTATGAACAACCATACAGGCACTACGTGTTCAATCCACGGAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* * * * *
10157982 ATGAGTTGATGAATAACCATACAGACACTACGTGTACAATCCACGGAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* ** * *
10158036 ATGAGTTGATGAATAATTGTACAGGAACTATGTGTGCAATCCACAGAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* * * * *
10158090 ATGAGTTGATGAATAACCGTATAGGAACTATGTATGCAATCCACAGAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* *
10158144 ATGAGTTGATGAACAACCGTAGAGGCACTATGTGTGCAATCCATGGAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* * * * *
10158198 ATGAGTTGATG----ACCGTACAGGCGCTATGTGTGAAACCCACGAAATTTATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* *
10158248 ATGAGTTGATGAACAACCGTATAGGCACTATGTGTGCAA-CGCACGAAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATC-CACGGAATTCATC
* * ** * **
10158302 ATGAGATGATGAACAACTGTACAGAAACTATGTGTGCAATGCACAAAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* * * * *
10158356 ATGAGATGATAAACAACCGTACAGGCACTATTTGTGCAACCCACAGAATTCATC
1 ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
* *
10158410 ATGTGTTGATGAACAACCGTATAGGCACTA
1 ATGAGTTGATGAACAACCGTACAGGCACTA
10158440 CATGTGCATC
Statistics
Matches: 596, Mismatches: 72, Indels: 12
0.88 0.11 0.02
Matches are distributed among these distances:
50 43 0.07
53 1 0.00
54 552 0.93
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (54 bp):
ATGAGTTGATGAACAACCGTACAGGCACTATGTGTGCAATCCACGGAATTCATC
Found at i:10158804 original size:81 final size:81
Alignment explanation
Indices: 10158581--10158808 Score: 314
Period size: 83 Copynumber: 2.8 Consensus size: 81
10158571 GAAATTGTTC
* *
10158581 TAAA-ATAAAAGACTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGATAGA
1 TAAAGATAAAAAACT-AATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGA
10158645 AGAAAGGTTAAATGCCT
65 AGAAAGGTTAAATGCCT
* * *
10158662 TTAGGATAAAAAAAACTAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATAATGCAAGTTAG
1 TAAAGAT--AAAAAACTAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAG
* *
10158727 ACGAAAGGTTAAATTCCT
64 AAGAAAGGTTAAATGCCT
* * * * *
10158745 TAAAGATAAAATACTAATGCCTAAATGTGCATTTGGCATAAAGGTGTCAATAATACAAGTTAGA
1 TAAAGATAAAAAACTAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGA
10158809 TGAAGATCAG
Statistics
Matches: 129, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
81 53 0.41
82 2 0.02
83 67 0.52
84 7 0.05
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (81 bp):
TAAAGATAAAAAACTAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGAA
GAAAGGTTAAATGCCT
Found at i:10161493 original size:17 final size:18
Alignment explanation
Indices: 10161455--10161521 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
10161445 AACCTGTTTG
*
10161455 TTTTAGGTTGCAACCATA
1 TTTTAGGTTGAAACCATA
* *
10161473 TTTTAGGTTGGAA-CTTA
1 TTTTAGGTTGAAACCATA
10161490 TTTTAGGTTGAAACCATA
1 TTTTAGGTTGAAACCATA
*
10161508 TTTTAGGATGAAAC
1 TTTTAGGTTGAAAC
10161522 TTGTTTAGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
17 15 0.35
18 28 0.65
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (18 bp):
TTTTAGGTTGAAACCATA
Found at i:10161499 original size:35 final size:35
Alignment explanation
Indices: 10161455--10161523 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
10161445 AACCTGTTTG
* * *
10161455 TTTTAGGTTGCAACCATATTTTAGGTTGGAACTTA
1 TTTTAGGTTGAAACCATATTTTAGGATGAAACTTA
10161490 TTTTAGGTTGAAACCATATTTTAGGATGAAACTT
1 TTTTAGGTTGAAACCATATTTTAGGATGAAACTT
10161524 GTTTAGTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (35 bp):
TTTTAGGTTGAAACCATATTTTAGGATGAAACTTA
Found at i:10161568 original size:19 final size:18
Alignment explanation
Indices: 10161540--10161582 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
10161530 TGAAACAATG
*
10161540 TTTTAAGTTGAAATCTGAA
1 TTTTAAGTTGAAACCTG-A
* *
10161559 TTTTACGTTGGAACCTGA
1 TTTTAAGTTGAAACCTGA
10161577 TTTTAA
1 TTTTAA
10161583 AGTAGAAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (18 bp):
TTTTAAGTTGAAACCTGA
Found at i:10161704 original size:40 final size:40
Alignment explanation
Indices: 10161649--10162144 Score: 250
Period size: 40 Copynumber: 12.4 Consensus size: 40
10161639 TGCTATATTC
*
10161649 AAGTGATGATGTATCGTACGAGATATACACATAAATATGA
1 AAGTGATGATGTATCGTACGAGATACACACATAAATATGA
*
10161689 AAGTGATGATGTATCGTACG-GATACACATC-TAAATATGC
1 AAGTGATGATGTATCGTACGAGATACACA-CATAAATATGA
* * *
10161728 AAGCGATGATGTATTCGTAC-AGGGTACACACCTAAATATGA
1 AAGTGATGATGTA-TCGTACGA-GATACACACATAAATATGA
* * *
10161769 AAGTGATCATGTATCGTAC-AGGGTACACATC-TAAATATGC
1 AAGTGATGATGTATCGTACGA-GATACACA-CATAAATATGA
* * *
10161809 TAGT-AGTGATGTATCGTATG-GAGTACACACCTAAATATGA
1 AAGTGA-TGATGTATCGTACGAGA-TACACACATAAATATGA
* * * * * * *
10161849 AAATGATGATGTGTCGTAAGGGGTACACATC-TAATTATGC
1 AAGTGATGATGTATCGTACGAGATACACA-CATAAATATGA
** * * * *
10161889 AAGCAATGATGTATCGTAC-ATGGTATACATC-TAATTATGC
1 AAGTGATGATGTATCGTACGA-GATACACA-CATAAATATGA
* * * * * *
10161929 AAGCGGTGATATATCGTATGGGGTACACATC-TAAATATGA
1 AAGTGATGATGTATCGTACGAGATACACA-CATAAATATGA
* * * * *
10161969 AAGT-AGTGATGTGTCGTACGGGGTACAAAC-TAAATATAA
1 AAGTGA-TGATGTATCGTACGAGATACACACATAAATATGA
* * * * ** * *
10162008 AAGCGGTGATGTATCATACGTGGCACGCATC-TAAATATGT
1 AAGTGATGATGTATCGTACGAGATACACA-CATAAATATGA
* * * * *
10162048 AAGT-AGTGATATATCGTGCGAGGTACACACCTAAATACGA
1 AAGTGA-TGATGTATCGTACGAGATACACACATAAATATGA
*** * * * *
10162088 AAACAATGATGCATCGTACGGGGTACACATC-TAATTATGA
1 AAGTGATGATGTATCGTACGAGATACACA-CATAAATATGA
10162128 AAGTGATGATGTATCGT
1 AAGTGATGATGTATCGT
10162145 CTGGGTACAC
Statistics
Matches: 360, Mismatches: 74, Indels: 44
0.75 0.15 0.09
Matches are distributed among these distances:
39 60 0.17
40 268 0.74
41 32 0.09
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (40 bp):
AAGTGATGATGTATCGTACGAGATACACACATAAATATGA
Found at i:10161785 original size:80 final size:77
Alignment explanation
Indices: 10161643--10162155 Score: 436
Period size: 80 Copynumber: 6.4 Consensus size: 77
10161633 ATTTCATGCT
* * * * *
10161643 ATATTCAAGTGATGATGTATCGTACGAGATATACACATAAATATGAAAGTGATGATGTATCGTAC
1 ATATGCAAG-GATGATGTATCGTACG-GGTACACACCTAAATATGAAAGCGATGATGTATCGTAC
*
10161708 GGATACACATCTAA
64 GGGTACACATCTAA
* *
10161722 ATATGCAAGCGATGATGTATTCGTACAGGGTACACACCTAAATATGAAAGTGATCATGTATCGTA
1 ATATGCAAG-GATGATGTA-TCGTAC-GGGTACACACCTAAATATGAAAGCGATGATGTATCGTA
10161787 CAGGGTACACATCTAA
63 C-GGGTACACATCTAA
* * * ** *
10161803 ATATGCTAGTAGTGATGTATCGTATGGAGTACACACCTAAATATGAAAATGATGATGTGTCGTAA
1 ATATGCAAGGA-TGATGTATCGTACGG-GTACACACCTAAATATGAAAGCGATGATGTATCGT-A
*
10161868 GGGGTACACATCTAA
63 CGGGTACACATCTAA
* * * * * * * * *
10161883 TTATGCAAGCAATGATGTATCGTACATGGTATACATCTAATTATGCAAGCGGTGATATATCGTAT
1 ATATGCAAG-GATGATGTATCGTAC-GGGTACACACCTAAATATGAAAGCGATGATGTATCGTA-
*
10161948 GGGGTACACATCTAA
63 CGGGTACACATCTAA
* * * * * * *
10161963 ATATGAAAGTAGTGATGTGTCGTACGGGGTACA-AACTAAATATAAAAGCGGTGATGTATCATAC
1 ATATGCAAGGA-TGATGTATCGTAC-GGGTACACACCTAAATATGAAAGCGATGATGTATCGTAC
* *
10162027 GTGGCACGCATCTAA
64 G-GGTACACATCTAA
* * * * * * * *
10162042 ATATGTAAGTAGTGATATATCGTGCGAGGTACACACCTAAATACGAAAACAATGATGCATCGTAC
1 ATATGCAAGGA-TGATGTATCGTACG-GGTACACACCTAAATATGAAAGCGATGATGTATCGTAC
10162107 GGGGTACACATCTAA
64 -GGGTACACATCTAA
* *
10162122 TTATGAAAGTGATGATGTATCGT-CTGGGTACACA
1 ATATGCAAG-GATGATGTATCGTAC-GGGTACACA
10162156 TCCAAATTTA
Statistics
Matches: 356, Mismatches: 62, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
78 2 0.01
79 92 0.26
80 228 0.64
81 34 0.10
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (77 bp):
ATATGCAAGGATGATGTATCGTACGGGTACACACCTAAATATGAAAGCGATGATGTATCGTACGG
GTACACATCTAA
Found at i:10161819 original size:120 final size:119
Alignment explanation
Indices: 10161653--10162162 Score: 437
Period size: 120 Copynumber: 4.3 Consensus size: 119
10161643 ATATTCAAGT
* * ** *
10161653 GATGATGTATCGTAC-GAGATATACA-CATAAATATGAAAGT-GATGATGTATCGTACGGATACA
1 GATGATGTATCGTACAG-GGTACACATC-TAAATATGCTAGTAG-TGATATATCGTACGGATACA
* * * * * *
10161715 CATCTAAATATGCAAGCGATGATGTATTCGTACAGGGTACACACCTAAATATGAAAGT
63 CACCTAAATATGAAAACGATGATGT-GTCGTACAGGGTACACATCTAAATATGAAAGC
* * *
10161773 GATCATGTATCGTACAGGGTACACATCTAAATATGCTAGTAGTGATGTATCGTATGGAGTACACA
1 GATGATGTATCGTACAGGGTACACATCTAAATATGCTAGTAGTGATATATCGTACGGA-TACACA
* * *
10161838 CCTAAATATGAAAATGATGATGTGTCGTA-AGGGGTACACATCTAATTATGCAAGC
65 CCTAAATATGAAAACGATGATGTGTCGTACA-GGGTACACATCTAAATATGAAAGC
* * * * * ** * *
10161893 AATGATGTATCGTACATGGTATACATCTAATTATGCAAGCGGTGATATATCGTATGGGGTACACA
1 GATGATGTATCGTACAGGGTACACATCTAAATATGCTAGTAGTGATATATCGTA-CGGATACACA
* * * *
10161958 TCTAAATATG-AAA-GTAGTGATGTGTCGTACGGGGTACA-AACTAAATATAAAAGC
65 CCTAAATATGAAAACG-A-TGATGTGTCGTACAGGGTACACATCTAAATATGAAAGC
* * * * * *
10162012 GGTGATGTATCATAC-GTGGCACGCATCTAAATATG-TAAGTAGTGATATATCGTGCGAGGTACA
1 GATGATGTATCGTACAG-GGTACACATCTAAATATGCT-AGTAGTGATATATCGTACG-GATACA
* * ** * * *
10162075 CACCTAAATACGAAAACAATGATGCATCGTACGGGGTACACATCTAATTATGAAAGT
63 CACCTAAATATGAAAACGATGATGTGTCGTACAGGGTACACATCTAAATATGAAAGC
* *
10162132 GATGATGTATCGT-CTGGGTACACATCCAAAT
1 GATGATGTATCGTACAGGGTACACATCTAAAT
10162163 TTATGAGTAG
Statistics
Matches: 315, Mismatches: 59, Indels: 33
0.77 0.14 0.08
Matches are distributed among these distances:
118 2 0.01
119 105 0.33
120 178 0.57
121 30 0.10
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (119 bp):
GATGATGTATCGTACAGGGTACACATCTAAATATGCTAGTAGTGATATATCGTACGGATACACAC
CTAAATATGAAAACGATGATGTGTCGTACAGGGTACACATCTAAATATGAAAGC
Found at i:10164072 original size:2 final size:2
Alignment explanation
Indices: 10164065--10164092 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10164055 ACTTATTTGA
10164065 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10164093 TATGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10167204 original size:22 final size:22
Alignment explanation
Indices: 10167176--10167225 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10167166 TTTCAGTCAA
*
10167176 AGTCAAAGTT-AACGGTCTGACC
1 AGTCAAA-TTCAACGGTCAGACC
10167198 AGTCAAATTCAACGGTCAGACC
1 AGTCAAATTCAACGGTCAGACC
*
10167220 GGTCAA
1 AGTCAA
10167226 CGGTTCAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (22 bp):
AGTCAAATTCAACGGTCAGACC
Found at i:10171014 original size:22 final size:22
Alignment explanation
Indices: 10170988--10171038 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
10170978 TTACTTTTTT
10170988 CAGTCAAAGTCAACAGTCAAAC
1 CAGTCAAAGTCAACAGTCAAAC
* *
10171010 CAGTCAAAGTCAACGGTCAGAC
1 CAGTCAAAGTCAACAGTCAAAC
*
10171032 CGGTCAA
1 CAGTCAA
10171039 CGATTCAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (22 bp):
CAGTCAAAGTCAACAGTCAAAC
Found at i:10177274 original size:14 final size:14
Alignment explanation
Indices: 10177255--10177284 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10177245 TAAGCTACCC
10177255 AAGAAATGATCAAG
1 AAGAAATGATCAAG
10177269 AAGAAATGATCAAG
1 AAGAAATGATCAAG
10177283 AA
1 AA
10177285 ATGGGGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.13
Consensus pattern (14 bp):
AAGAAATGATCAAG
Found at i:10178476 original size:30 final size:32
Alignment explanation
Indices: 10178437--10178501 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
10178427 CAAACTAAAC
10178437 ATGTCTTAACT-C-TAATTCCTAATAAAATAA
1 ATGTCTTAACTACTTAATTCCTAATAAAATAA
*
10178467 ATGTTTTAACTCAACCTTAATTCCTAATAAAATAA
1 ATGTCTTAACT--A-CTTAATTCCTAATAAAATAA
10178502 TAAATCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 10 0.34
34 1 0.03
35 18 0.62
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (32 bp):
ATGTCTTAACTACTTAATTCCTAATAAAATAA
Found at i:10193414 original size:59 final size:59
Alignment explanation
Indices: 10192892--10193407 Score: 798
Period size: 59 Copynumber: 8.7 Consensus size: 59
10192882 TCTCATACAA
* * *
10192892 AAATTCATACACTTAGGATGAATTTTCTTATCATTTTAACACACAAAGTGCCCTATCTGG
1 AAATTCATACACTTAGTATG-ATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
* * * * *
10192952 AAATTCATACACTTACTATGAATTCCTTCTCCTGTTAGCACACAAAGTGCCCTATCTGG
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
* * *
10193011 AAATTAATACATTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTAG
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
* * *
10193070 AAATTCATACACTTAGTATGATTTCCTTATTATTTTAGCACACGAAGTGCCCTATCTAG
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
*
10193129 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGA
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
10193188 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
* *
10193247 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCACTATCTGG
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
* * * *
10193306 AAATTCATACACCTAGTATGATTTCCTTACCATTTTAGCACGCAAAGTGCTCTATCTGG
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
** * *
10193365 AAATTCATACACTTAGTATCTTTTCCTGATCATTTTAACACAC
1 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACAC
10193408 TTAGTGCCAT
Statistics
Matches: 417, Mismatches: 39, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
59 399 0.96
60 18 0.04
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCCTATCTGG
Found at i:10193772 original size:20 final size:20
Alignment explanation
Indices: 10193735--10193788 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
10193725 TCTGGCTTCA
* *
10193735 TAGTATCGATACTACTATCC
1 TAGTACCGATATTACTATCC
* *
10193755 TAGTACCGATATTTCTATGC
1 TAGTACCGATATTACTATCC
10193775 TATGGTACCGATAT
1 TA--GTACCGATAT
10193789 CCCCTTTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 18 0.64
22 10 0.36
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
TAGTACCGATATTACTATCC
Found at i:10194737 original size:16 final size:16
Alignment explanation
Indices: 10194716--10194756 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
10194706 GTATTACCCG
10194716 ACCTGTTTTCAACCTA
1 ACCTGTTTTCAACCTA
*
10194732 ACCTGTTTTCAACCTG
1 ACCTGTTTTCAACCTA
*
10194748 ACATGTTTT
1 ACCTGTTTT
10194757 TAACATGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (16 bp):
ACCTGTTTTCAACCTA
Found at i:10194865 original size:40 final size:40
Alignment explanation
Indices: 10194821--10194945 Score: 103
Period size: 42 Copynumber: 3.0 Consensus size: 40
10194811 TGGACGAAAT
10194821 TATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGA
1 TATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGA
* * * * * * *
10194861 TAT-A-A-TTAAAAAATTAATATAATTACTTTTTAAATGTTATAA
1 TATAAGATTTTAATAA--AAT-T-ATGAGTTTTTTAGT-TTATGA
10194903 TAAATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGA
1 T--ATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGA
10194945 T
1 T
10194946 GTAATTAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 18
0.66 0.15 0.19
Matches are distributed among these distances:
37 6 0.10
38 1 0.02
39 4 0.07
40 4 0.07
41 10 0.16
42 12 0.20
43 10 0.16
44 3 0.05
45 4 0.07
46 1 0.02
47 6 0.10
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (40 bp):
TATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGA
Found at i:10194878 original size:44 final size:44
Alignment explanation
Indices: 10194830--10194970 Score: 148
Period size: 44 Copynumber: 3.3 Consensus size: 44
10194820 TTATAAGATT
10194830 TTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAA
1 TTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAA
* * * * * * **
10194874 TTAATATAA-T-T-ACTTTTTAAATGTTAT-A-ATAAATAAGATT
1 TTAATAAAATTATGAGTTTTTTAGT-TTATGATATAATTAAAAAA
*
10194914 TTAATAAAATTATGAGTTTTTTAGTTTATGATGTAATTAAAAAA
1 TTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAA
*
10194958 TTAATATAATTAT
1 TTAATAAAATTAT
10194971 TTTTTAAATG
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
40 16 0.22
41 10 0.14
42 10 0.14
43 10 0.14
44 27 0.37
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.47
Consensus pattern (44 bp):
TTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAA
Found at i:10195009 original size:84 final size:84
Alignment explanation
Indices: 10194822--10194990 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
10194812 GGACGAAATT
10194822 ATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAATTAATATAATTAC
1 ATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAATTAATATAATTAC
10194887 TTTTTAAATGTTATAATAA
66 TTTTTAAATGTTATAATAA
* *
10194906 ATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGATGTAATTAAAAAATTAATATAATTAT
1 ATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAATTAATATAATTAC
10194971 TTTTTAAATGTTATAATAA
66 TTTTTAAATGTTATAATAA
10194990 A
1 A
10194991 ATATTTTTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.47
Consensus pattern (84 bp):
ATAAGATTTTAATAAAATTATGAGTTTTTTAGTTTATGATATAATTAAAAAATTAATATAATTAC
TTTTTAAATGTTATAATAA
Found at i:10195294 original size:14 final size:14
Alignment explanation
Indices: 10195277--10195328 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
10195267 GCTATTTATA
*
10195277 TTAGGGTTTAGGGT
1 TTAGAGTTTAGGGT
*
10195291 TTAGTA-TTTATGGT
1 TTAG-AGTTTAGGGT
*
10195305 TTAAAGTTTAGGGT
1 TTAGAGTTTAGGGT
*
10195319 TTAGAATTTA
1 TTAGAGTTTA
10195329 TAATTGGGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 1 0.03
14 29 0.97
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (14 bp):
TTAGAGTTTAGGGT
Found at i:10195462 original size:15 final size:13
Alignment explanation
Indices: 10195429--10195460 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10195419 GTAAATTACT
10195429 TATATAGTTTATA
1 TATATAGTTTATA
*
10195442 TATATAGGTTATA
1 TATATAGTTTATA
10195455 TATATA
1 TATATA
10195461 TATATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:10195788 original size:21 final size:21
Alignment explanation
Indices: 10195759--10195800 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10195749 TTTTGAATGG
10195759 TTTTACTTTTTCCCCAATTAA
1 TTTTACTTTTTCCCCAATTAA
* * *
10195780 TTTTGCTTTTTTCCCACTTAA
1 TTTTACTTTTTCCCCAATTAA
10195801 GTGCATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTACTTTTTCCCCAATTAA
Found at i:10196493 original size:21 final size:21
Alignment explanation
Indices: 10196469--10196547 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
10196459 TCCATTTATA
*
10196469 TTAGGGTTTATGGTTTAGTGT
1 TTAGGGTTTATGGTTTAGAGT
* * *
10196490 TTAGTGTGTATGGTTTAAAGT
1 TTAGGGTTTATGGTTTAGAGT
* *
10196511 TTAGGATTTTATTGTTTAGAGT
1 TTAGG-GTTTATGGTTTAGAGT
10196533 TTAGGGTTTA-GGTTT
1 TTAGGGTTTATGGTTT
10196548 TTTTTAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 4 0.09
21 25 0.54
22 17 0.37
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAGAGT
Found at i:10197086 original size:2 final size:2
Alignment explanation
Indices: 10197079--10197119 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
10197069 ACTTTGAATA
10197079 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10197119 A
1 A
10197120 AATTAGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10197098 original size:17 final size:17
Alignment explanation
Indices: 10197076--10197119 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
10197066 CTCACTTTGA
10197076 ATAATATATATATATAT
1 ATAATATATATATATAT
10197093 ATAATATATATATATAT
1 ATAATATATATATATAT
*
10197110 ATATTATATA
1 ATAATATATA
10197120 AATTAGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATATATATATATAT
Found at i:10197171 original size:13 final size:13
Alignment explanation
Indices: 10197146--10197190 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10197136 ATATACTTTT
10197146 TATA-ATTTATACA
1 TATATATTT-TACA
10197159 TATATATTTTACA
1 TATATATTTTACA
* *
10197172 TATATAATTTATA
1 TATATATTTTACA
10197185 TATATA
1 TATATA
10197191 GTTCATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 25 0.86
14 4 0.14
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATATTTTACA
Found at i:10198048 original size:2 final size:2
Alignment explanation
Indices: 10198036--10198065 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10198026 GTTGTTGTGT
10198036 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10198066 TATTTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10198737 original size:16 final size:16
Alignment explanation
Indices: 10198716--10198770 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
10198706 GTTTTGACCT
10198716 GAACTGACATCGATCC
1 GAACTGACATCGATCC
*
10198732 GAACTGAAAAT-GA-CC
1 GAACTG-ACATCGATCC
*
10198747 TGACCTGACATCGATCC
1 -GAACTGACATCGATCC
10198764 GAACTGA
1 GAACTGA
10198771 AAATGACCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 5 0.16
16 21 0.68
17 5 0.16
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (16 bp):
GAACTGACATCGATCC
Found at i:10198747 original size:32 final size:32
Alignment explanation
Indices: 10198710--10198786 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
10198700 TGAACTGTTT
*
10198710 TGACCTGAACTGACATCGATCCGAACTGAAAA
1 TGACCTGACCTGACATCGATCCGAACTGAAAA
10198742 TGACCTGACCTGACATCGATCCGAACTGAAAA
1 TGACCTGACCTGACATCGATCCGAACTGAAAA
10198774 TGACCTGACCTGA
1 TGACCTGACCTGA
10198787 ACCCGATCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (32 bp):
TGACCTGACCTGACATCGATCCGAACTGAAAA
Found at i:10198786 original size:16 final size:16
Alignment explanation
Indices: 10198735--10198787 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
10198725 TCGATCCGAA
10198735 CTGAAAATGACCTGAC
1 CTGAAAATGACCTGAC
* *
10198751 CTG-ACATCGATCC-GAA
1 CTGAAAAT-GA-CCTGAC
10198767 CTGAAAATGACCTGAC
1 CTGAAAATGACCTGAC
10198783 CTGAA
1 CTGAA
10198788 CCCGATCTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 5 0.17
16 19 0.66
17 5 0.17
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (16 bp):
CTGAAAATGACCTGAC
Found at i:10199016 original size:2 final size:2
Alignment explanation
Indices: 10199009--10199049 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10198999 AAAATCTGTT
10199009 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10199050 TCTTCCATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10201611 original size:17 final size:17
Alignment explanation
Indices: 10201567--10201638 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
10201557 ATTCATTCAT
10201567 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
* * *
10201584 GTTATTTCATTAATTATA
1 -CTAGTTCATTAATTAAA
* *
10201602 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
*
10201619 CTAGTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
10201636 CTA
1 CTA
10201639 ACTCTTAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
17 32 0.74
18 11 0.26
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:10207141 original size:33 final size:35
Alignment explanation
Indices: 10207098--10207193 Score: 119
Period size: 35 Copynumber: 2.8 Consensus size: 35
10207088 TATTAAATTT
*
10207098 TAAAAAATATTAAAATAAATAAATGAAAAT-AA-A
1 TAAAAAATATTAAAATAAATAAATAAAAATAAATA
* **
10207131 TGAAAAATATTAAAATTCATAAA-AAAAATAAAATA
1 TAAAAAATATTAAAATAAATAAATAAAAAT-AAATA
10207166 TAAAAAATATTAAAATAAA-AAATAAAAA
1 TAAAAAATATTAAAATAAATAAATAAAAA
10207194 AACAAAACAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
32 5 0.10
33 20 0.38
34 5 0.10
35 22 0.42
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (35 bp):
TAAAAAATATTAAAATAAATAAATAAAAATAAATA
Found at i:10207165 original size:5 final size:5
Alignment explanation
Indices: 10207149--10207255 Score: 51
Period size: 5 Copynumber: 20.2 Consensus size: 5
10207139 ATTAAAATTC
*
10207149 ATAAA A-AAA ATAAA ATATAA A-AAA TATTAAA ATAAA A-AATA AAAAA
1 ATAAA ATAAA ATAAA ATA-AA ATAAA -A-TAAA ATAAA ATAA-A ATAAA
* * *
10207195 ACAAA ACAAA ATAAA ATAAA A-AAGA AGTGGAAAA ATAAAA ATAAA ACAAA
1 ATAAA ATAAA ATAAA ATAAA ATAA-A A-T---AAA AT-AAA ATAAA ATAAA
*
10207245 ACAAA ATAAA A
1 ATAAA ATAAA A
10207256 AAGTGTTAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
4 10 0.12
5 55 0.65
6 12 0.14
7 3 0.04
8 1 0.01
9 2 0.02
10 2 0.02
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (5 bp):
ATAAA
Found at i:10207172 original size:15 final size:14
Alignment explanation
Indices: 10207149--10207255 Score: 81
Period size: 15 Copynumber: 7.1 Consensus size: 14
10207139 ATTAAAATTC
10207149 ATAAAAAAAATAAA
1 ATAAAAAAAATAAA
10207163 ATATAAAAAATATTAAA
1 ATA-AAAAAA-A-TAAA
*
10207180 ATAAAAAATAAAAAA
1 ATAAAAAA-AATAAA
*
10207195 ACAAAACAAAATAAA
1 ATAAAA-AAAATAAA
*
10207210 ATAAAAAAGAAGTGGAA
1 ATAAAAAA-AA-T-AAA
*
10207227 A-AATAAAAATAAA
1 ATAAAAAAAATAAA
*
10207240 ACAAAACAAAATAAA
1 ATAAAA-AAAATAAA
10207255 A
1 A
10207256 AAGTGTTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 19
0.74 0.08 0.19
Matches are distributed among these distances:
13 3 0.04
14 9 0.12
15 37 0.49
16 15 0.20
17 11 0.15
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (14 bp):
ATAAAAAAAATAAA
Found at i:10207372 original size:18 final size:18
Alignment explanation
Indices: 10207351--10207393 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10207341 GTTTTCTTTA
*
10207351 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
* *
10207369 AAATAAAATAAAATAATT
1 AAATAAAAGAAAAGAATT
10207387 AAATAAA
1 AAATAAA
10207394 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:10208949 original size:199 final size:200
Alignment explanation
Indices: 10208259--10209039 Score: 1010
Period size: 200 Copynumber: 3.9 Consensus size: 200
10208249 AGGTGGCTTC
* * ** * * ** *
10208259 TTGTTGCCAAATCGTAGTCAACCTTGGTCTTCTTCTCGGTTTAAAGACCTCAGTTTGAAAATTCA
1 TTGTTGCTAAATCGCAACCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCAGTTT-AAACTTCA
* * * * * *
10208324 ACCGGAAAGTAGTTCCTCGATGTTACCATATGGTTGATATGCCCTCGAGCTGAATGAAATCGAAC
65 ACCGAAAAGTAGTTCCTCGTTGCTACCATACGGTTGATATGCCTTCAAGCTGAATGAAATCGAAC
* * * * * * * *
10208389 TCGAAGGTTTTTATTGACATATAGCCATTTTCGTCTTGAGCTATGCTGTAAATTCGGCT-AAGAG
130 TCGAAAG-TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGGA-AG
*
10208453 ATAATTCA
193 ATAGTTCA
* * *
10208461 TTGTTGTTAAATCGCAACCAACCTAGGTCTTCATCTTGACTTAAAGACCTCAGTTTAAACTTTAA
1 TTGTTGCTAAATCGCAACCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCAGTTTAAACTTCAA
*
10208526 CCGAAAAGTAGTTCCTCGTTGCTACCATACGGTTGATATACCTTCAAGCTGAAT-ATAATCGAAC
66 CCGAAAAGTAGTTCCTCGTTGCTACCATACGGTTGATATGCCTTCAAGCTGAATGA-AATCGAAC
* * * *
10208590 TCGAAAGTTTTGTTGAGAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCAGCTGGGAGAT
130 TCGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGGAAGAT
*
10208655 AGTTCC
195 AGTTCA
* * * *
10208661 TTGTTGCTAAATTGCAGCCAACCTAGGTCTTATCCTTGACTTAAAGACCTCAGTTTAAACTTCAA
1 TTGTTGCTAAATCGCAACCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCAGTTTAAACTTCAA
* ** *
10208726 CCGAAAAGTAGTTCCTCATTGCTACCATGTGGTTGATATGCCTTCAAGCTGAATGGAATCGAACT
66 CCGAAAAGTAGTTCCTCGTTGCTACCATACGGTTGATATGCCTTCAAGCTGAATGAAATCGAACT
* *
10208791 CGAAAGTTTTGTTGA-AGATAACCCTTATCGCCTTAAGCTATGCTGTAAATTCGGCTGGAAGATA
131 CGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGGAAGATA
10208855 GTTCA
196 GTTCA
* * *
10208860 TTGTTGCTAAATCGCAACCAACCTAGGTATTCTTCTTGACTTAAAGACCTCGGTTTAAACTTTAA
1 TTGTTGCTAAATCGCAACCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCAGTTTAAACTTCAA
* * * * * * * *
10208925 CTGGAAAGTATTTCCCCGTTGCTACTATGCGGTTGATATGCCTTCGAGCTGAATGAAACCGAACT
66 CCGAAAAGTAGTTCCTCGTTGCTACCATACGGTTGATATGCCTTCAAGCTGAATGAAATCGAACT
*
10208990 CGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTACGCTGTAAA
131 CGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAA
10209040 CGGTTCCTCT
Statistics
Matches: 506, Mismatches: 69, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
199 176 0.35
200 216 0.43
201 68 0.13
202 46 0.09
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (200 bp):
TTGTTGCTAAATCGCAACCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCAGTTTAAACTTCAA
CCGAAAAGTAGTTCCTCGTTGCTACCATACGGTTGATATGCCTTCAAGCTGAATGAAATCGAACT
CGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGGAAGATA
GTTCA
Found at i:10209219 original size:86 final size:86
Alignment explanation
Indices: 10209104--10209473 Score: 537
Period size: 86 Copynumber: 4.3 Consensus size: 86
10209094 TCTTTAGTTA
* * * * * *
10209104 ACTCCCCTTCACGGGAGAGCCAAGTGGTATATCCTTCAGGTGGTTCCCCTTCACGGGTTTGAACC
1 ACTCCCCTTCACGAGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCACGGGTCTGAACC
10209169 AGGTGAGATGATCTTTGGATG
66 AGGTGAGATGATCTTTGGATG
* * *
10209190 ACTCCCCATCACGAGAAACTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCTCGGGTCTGAACC
1 ACTCCCCTTCACGAGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCACGGGTCTGAACC
*
10209255 AGGTGAGATAATCTTTGGATG
66 AGGTGAGATGATCTTTGGATG
* **
10209276 ACTCCCCTTCACCAGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTTGCGGGTCTGAACC
1 ACTCCCCTTCACGAGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCACGGGTCTGAACC
10209341 AGGTGAGATGATCTTTGGATG
66 AGGTGAGATGATCTTTGGATG
* * * *
10209362 ACTCCCCTTCACGGGTAAGTCATGTGATATATTCTTCAGGTGGTTCCCCTTCGA-GGGTATGAAC
1 ACTCCCCTTCACGAGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTC-ACGGGTCTGAAC
* *
10209426 CAGGTGAGATTATCTTTGGAGG
65 CAGGTGAGATGATCTTTGGATG
10209448 ACTCCCCTTCAC-AGGAAAGTCATGTG
1 ACTCCCCTTCACGA-GAAAGTCATGTG
10209474 AGATGTTCTT
Statistics
Matches: 255, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
86 255 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (86 bp):
ACTCCCCTTCACGAGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCACGGGTCTGAACC
AGGTGAGATGATCTTTGGATG
Found at i:10209456 original size:44 final size:44
Alignment explanation
Indices: 10209320--10209457 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 44
10209310 TTCAGGTGGT
* * * * *
10209320 TCCCCTTTGCGGGTCTGAACCAGGTGAGATGATCTTTGGATGAC
1 TCCCCTTCGAGGGTATGAACCAGGTGAGATTATCTTTGGAGGAC
** * * * * *
10209364 TCCCCTTC-ACGGGTA--AGTCATGTGATA-TATTCTTCAGGTGG-T
1 TCCCCTTCGA-GGGTATGAACCAGGTGAGATTA-TCTT-TGGAGGAC
10209406 TCCCCTTCGAGGGTATGAACCAGGTGAGATTATCTTTGGAGGAC
1 TCCCCTTCGAGGGTATGAACCAGGTGAGATTATCTTTGGAGGAC
10209450 TCCCCTTC
1 TCCCCTTC
10209458 ACAGGAAAGT
Statistics
Matches: 67, Mismatches: 19, Indels: 16
0.66 0.19 0.16
Matches are distributed among these distances:
41 1 0.01
42 25 0.37
43 8 0.12
44 31 0.46
45 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (44 bp):
TCCCCTTCGAGGGTATGAACCAGGTGAGATTATCTTTGGAGGAC
Found at i:10213488 original size:41 final size:42
Alignment explanation
Indices: 10213443--10213547 Score: 103
Period size: 41 Copynumber: 2.5 Consensus size: 42
10213433 GAAAATTAAT
10213443 AAAATATAAAAAAATGTTAAAATAGAAAAT-A-AAAATAAAAC
1 AAAATATAAAAAAATGTTAAAATA-AAAATAACAAAATAAAAC
**
10213484 AAAATA-AAAAAGAAGTGGAAAAATAAAAATAAAACAAAATAAAAC
1 AAAATATAAAAA-AA-TGTTAAAATAAAAAT--AACAAAATAAAAC
*
10213529 -AAA-ATAAAAAAGTGTTAAA
1 AAAATATAAAAAAATGTTAAA
10213548 TTTTAATGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
40 5 0.10
41 13 0.25
42 13 0.25
43 2 0.04
44 9 0.17
45 10 0.19
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (42 bp):
AAAATATAAAAAAATGTTAAAATAAAAATAACAAAATAAAAC
Found at i:10213489 original size:10 final size:10
Alignment explanation
Indices: 10213474--10213537 Score: 58
Period size: 10 Copynumber: 5.9 Consensus size: 10
10213464 ATAGAAAATA
10213474 AAAATAAAAC
1 AAAATAAAAC
10213484 AAAATAAAA-
1 AAAATAAAAC
*
10213493 AAGAAGTGGAAAAAT
1 AA-AA-T---AAAAC
10213508 AAAAATAAAAC
1 A-AAATAAAAC
10213519 AAAATAAAAC
1 AAAATAAAAC
10213529 AAAATAAAA
1 AAAATAAAA
10213538 AAGTGTTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
9 2 0.04
10 29 0.63
11 6 0.13
14 5 0.11
15 3 0.07
16 1 0.02
ACGTcount: A:0.78, C:0.05, G:0.06, T:0.11
Consensus pattern (10 bp):
AAAATAAAAC
Found at i:10213538 original size:16 final size:16
Alignment explanation
Indices: 10213468--10213527 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
10213458 GTTAAAATAG
10213468 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
10213484 AAAATAAAAA-AGAAGTGGA-
1 AAAATAAAAATA-AA----AC
10213503 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
10213519 AAAATAAAA
1 AAAATAAAA
10213528 CAAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
15 2 0.05
16 21 0.57
19 12 0.32
20 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:10213661 original size:18 final size:18
Alignment explanation
Indices: 10213640--10213682 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10213630 GTTGTTTTAA
*
10213640 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
10213658 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
10213676 AAATAAA
1 AAATAAA
10213683 TAAGCTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:10214510 original size:2 final size:2
Alignment explanation
Indices: 10214454--10214495 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
10214444 CGTTTTCTTT
10214454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10214495 T
1 T
10214496 TTTTAATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10220086 original size:32 final size:32
Alignment explanation
Indices: 10220039--10220353 Score: 256
Period size: 32 Copynumber: 9.8 Consensus size: 32
10220029 ATAGTCTAGC
* * *
10220039 ATTGCATTTAGATAATGCATAGTAGAGTCAAT
1 ATTGCATTCAGATAATGCATAGCAGAGCCAAT
* * *
10220071 ATTGTATTCACATAATGCATAACAGAGCCAAT
1 ATTGCATTCAGATAATGCATAGCAGAGCCAAT
* * * * *
10220103 ATTGAATTAAGGTAATGCATAGCAGAGCTAGT
1 ATTGCATTCAGATAATGCATAGCAGAGCCAAT
* *
10220135 ATTACATTCAGATAATGTATAGCAGAGCCAAT
1 ATTGCATTCAGATAATGCATAGCAGAGCCAAT
* * ***
10220167 ATTACATTCA-AGTAATGCATAGCACAGCTTGT
1 ATTGCATTCAGA-TAATGCATAGCAGAGCCAAT
* * * * * *
10220199 ATTTCATACATATAATGCATAGTAGAGTCAGT
1 ATTGCATTCAGATAATGCATAGCAGAGCCAAT
* * *
10220231 ATTGTATTCA-AGTAATGCATAGCAGAGCTAGT
1 ATTGCATTCAGA-TAATGCATAGCAGAGCCAAT
* * * *
10220263 ATTGCATTCAGACATTGTATAGAAGAGCCAAT
1 ATTGCATTCAGATAATGCATAGCAGAGCCAAT
* * ** *
10220295 ATTGCATTCAGACATTGCATAAAAGAACCAAT
1 ATTGCATTCAGATAATGCATAGCAGAGCCAAT
* *
10220327 ATTGCATTCAGATAATGTATAGTAGAG
1 ATTGCATTCAGATAATGCATAGCAGAG
10220354 TAGTATTGCA
Statistics
Matches: 225, Mismatches: 54, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
31 2 0.01
32 221 0.98
33 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (32 bp):
ATTGCATTCAGATAATGCATAGCAGAGCCAAT
Found at i:10220161 original size:64 final size:64
Alignment explanation
Indices: 10220051--10220353 Score: 283
Period size: 64 Copynumber: 4.7 Consensus size: 64
10220041 TGCATTTAGA
* * * * * *
10220051 TAATGCATAGTAGAG-TCAATATTGTATTCACATAATGCATAACAGAGCCAATATTGAATT-AAG
1 TAATGCATAGCAGAGCT-AGTATTGCATTCAGATAATGTATAGCAGAGCCAATATTGAATTCAA-
10220114 G
64 G
*
10220115 TAATGCATAGCAGAGCTAGTATTACATTCAGATAATGTATAGCAGAGCCAATATT-ACATTCAAG
1 TAATGCATAGCAGAGCTAGTATTGCATTCAGATAATGTATAGCAGAGCCAATATTGA-ATTCAAG
* * * * * * * * * *
10220179 TAATGCATAGCACAGCTTGTATTTCATACATATAATGCATAGTAGAGTCAGTATTGTATTCAAG
1 TAATGCATAGCAGAGCTAGTATTGCATTCAGATAATGTATAGCAGAGCCAATATTGAATTCAAG
* * * *
10220243 TAATGCATAGCAGAGCTAGTATTGCATTCAGACATTGTATAGAAGAGCCAATATTGCATTC-AG
1 TAATGCATAGCAGAGCTAGTATTGCATTCAGATAATGTATAGCAGAGCCAATATTGAATTCAAG
** * * * *
10220306 -ACATTGCATAAAAGAACCAATATTGCATTCAGATAATGTATAGTAGAG
1 TA-A-TGCATAGCAGAGCTAGTATTGCATTCAGATAATGTATAGCAGAG
10220354 TAGTATTGCA
Statistics
Matches: 196, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
62 1 0.01
63 4 0.02
64 188 0.96
65 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (64 bp):
TAATGCATAGCAGAGCTAGTATTGCATTCAGATAATGTATAGCAGAGCCAATATTGAATTCAAG
Found at i:10222969 original size:21 final size:21
Alignment explanation
Indices: 10222911--10222969 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
10222901 TGGGAGCATC
** *
10222911 GGTGTATAAGTACACTATCAA
1 GGTGTATCGGTACACTCTCAA
10222932 GGTGTATCGGTACACTCTCAA
1 GGTGTATCGGTACACTCTCAA
10222953 GGTGTATCGGTACACTC
1 GGTGTATCGGTACACTC
10222970 AGTGTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (21 bp):
GGTGTATCGGTACACTCTCAA
Found at i:10223332 original size:18 final size:19
Alignment explanation
Indices: 10223309--10223345 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10223299 TTTTTTATAT
*
10223309 TCGAATATATAAT-TTAAA
1 TCGAATATAAAATCTTAAA
10223327 TCGAATATAAAATCTTAAA
1 TCGAATATAAAATCTTAAA
10223346 ATTTAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (19 bp):
TCGAATATAAAATCTTAAA
Done.