Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_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: 3698414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 15
Found at i:2257152 original size:20 final size:21
Alignment explanation
Indices: 2257124--2257195 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
2257114 ATTATTTTAT
*
2257124 TATAGTATTAAAATA-TAATA
1 TATATTATTAAAATATTAATA
2257144 TATATTATTAGAAATATTAATA
1 TATATTATTA-AAATATTAATA
* *
2257166 AATATT-TTAAATATTTTAATA
1 TATATTATTAAA-ATATTAATA
* *
2257187 AATAATATT
1 TATATTATT
2257196 TTGATTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
20 11 0.25
21 21 0.48
22 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
TATATTATTAAAATATTAATA
Found at i:2257450 original size:42 final size:42
Alignment explanation
Indices: 2257394--2257484 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
2257384 TTCCTCCAAC
*
2257394 CAAACACTAGAAAACATTTTCCGTAAAACGAATTACGTGAAA
1 CAAACACTAGAAAACATTTTCCGAAAAACGAATTACGTGAAA
*
2257436 CAAACAC-ATGAAAACATTTTCCGAAAAATGAATTACGTGAAA
1 CAAACACTA-GAAAACATTTTCCGAAAAACGAATTACGTGAAA
2257478 CAAACAC
1 CAAACAC
2257485 GATATTTCGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (42 bp):
CAAACACTAGAAAACATTTTCCGAAAAACGAATTACGTGAAA
Found at i:2260010 original size:23 final size:23
Alignment explanation
Indices: 2259980--2260035 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
2259970 TAACGCTGAC
**
2259980 TGATTCAACAAAACAGTGTTGGT
1 TGATTCAACAAAACAGTGTTGAA
2260003 TGATTCAACAAAACAGTGTTGAA
1 TGATTCAACAAAACAGTGTTGAA
2260026 TGATTCAACA
1 TGATTCAACA
2260036 TCAAAGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (23 bp):
TGATTCAACAAAACAGTGTTGAA
Found at i:2260913 original size:31 final size:32
Alignment explanation
Indices: 2260838--2260923 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
2260828 TAAAAATTAA
* *
2260838 GGTACTAAAATGAAATAAAAATTTAACAGTGT
1 GGTACTAAAATGAAACAAAAAGTTAACAGTGT
* * **
2260870 GGCATTAAAATGAAACAAAAAGTTAATGGTG-
1 GGTACTAAAATGAAACAAAAAGTTAACAGTGT
2260901 GGTACTAAAATGAAACAAAAAGT
1 GGTACTAAAATGAAACAAAAAGT
2260924 AAACGTTAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
31 21 0.46
32 25 0.54
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (32 bp):
GGTACTAAAATGAAACAAAAAGTTAACAGTGT
Found at i:2271935 original size:37 final size:37
Alignment explanation
Indices: 2271885--2271962 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
2271875 AGAACAATGC
2271885 ATCTGCTCAAGATTGTAAGCAACTGCCTAAGT-AGGTT
1 ATCTGCTCAAGATTGTAAGCAACTGCCTAA-TCAGGTT
2271922 ATCTGCTCAAGATTGTAAGCAACTGCCTAATCAGGTT
1 ATCTGCTCAAGATTGTAAGCAACTGCCTAATCAGGTT
2271959 ATCT
1 ATCT
2271963 TACCTGCTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 1 0.03
37 39 0.98
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (37 bp):
ATCTGCTCAAGATTGTAAGCAACTGCCTAATCAGGTT
Found at i:2274365 original size:16 final size:17
Alignment explanation
Indices: 2274344--2274390 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
2274334 TTTAAAAAAA
2274344 TATTAAATT-TTCATTT
1 TATTAAATTATTCATTT
2274360 TATTAATTAATTATTCATTT
1 TATT-A--AATTATTCATTT
*
2274380 TAATAAATTAT
1 TATTAAATTAT
2274391 AAAAATCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
19 5 0.19
20 10 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTAAATTATTCATTT
Found at i:2274749 original size:27 final size:27
Alignment explanation
Indices: 2274709--2274859 Score: 133
Period size: 27 Copynumber: 5.3 Consensus size: 27
2274699 ACCGACCCTG
**
2274709 ACCCGACCAAAATATCACACTTAAAAA
1 ACCCGACCCGAATATCACACTTAAAAA
** *
2274736 ACCCGACTTGAATACCACACTTAAAAAAA
1 ACCCGACCCGAATATCACACTT--AAAAA
2274765 CCTGACCCGAACCCGAATATCACACTTAAAAA
1 ----ACCCG-ACCCGAATATCACACTTAAAAA
* *
2274797 ACCCGACCCGAATACCATACTTAAAAAA
1 ACCCGACCCGAATATCACACTT-AAAAA
* *
2274825 ACCCGACCCGAA-ATCAAATTTAAAAA
1 ACCCGACCCGAATATCACACTTAAAAA
*
2274851 ACCTGACCC
1 ACCCGACCC
2274860 CAAAATTTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
26 13 0.13
27 39 0.38
28 22 0.21
29 5 0.05
32 5 0.05
33 5 0.05
34 14 0.14
ACGTcount: A:0.46, C:0.32, G:0.07, T:0.15
Consensus pattern (27 bp):
ACCCGACCCGAATATCACACTTAAAAA
Found at i:2274773 original size:33 final size:31
Alignment explanation
Indices: 2274736--2274835 Score: 100
Period size: 33 Copynumber: 3.2 Consensus size: 31
2274726 CACTTAAAAA
*
2274736 ACCCGACTTGAATACCACACTTAAAAAAACCTG
1 ACCCGAC--GAATACCACACTTAAAAAAACCCG
*
2274769 ACCCGAACCCGAATATCACACTT-AAAAAACCCG
1 ACCCG-A--CGAATACCACACTTAAAAAAACCCG
*
2274802 A-CC--CGAATACCATACTTAAAAAAACCCG
1 ACCCGACGAATACCACACTTAAAAAAACCCG
2274830 ACCCGA
1 ACCCGA
2274836 AATCAAATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
27 12 0.21
28 11 0.20
29 2 0.04
32 2 0.04
33 15 0.27
34 13 0.23
36 1 0.02
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (31 bp):
ACCCGACGAATACCACACTTAAAAAAACCCG
Found at i:2274789 original size:34 final size:33
Alignment explanation
Indices: 2274745--2274808 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
2274735 AACCCGACTT
*
2274745 GAATACCACACTTAAAAAAACCTGACCCGAACCC
1 GAATACCACACTT-AAAAAACCCGACCCGAACCC
*
2274779 GAATATCACACTTAAAAAACCCGACCCGAA
1 GAATACCACACTTAAAAAACCCGACCCGAA
2274809 TACCATACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.45, C:0.33, G:0.09, T:0.12
Consensus pattern (33 bp):
GAATACCACACTTAAAAAACCCGACCCGAACCC
Found at i:2274796 original size:61 final size:61
Alignment explanation
Indices: 2274705--2274836 Score: 203
Period size: 61 Copynumber: 2.2 Consensus size: 61
2274695 CTAAACCGAC
**
2274705 CCTGACCCG-ACCAAAATATCACACTTAAAAAACCCGACTTGAATACCACACTTAAAAAAA
1 CCTGACCCGAACCAAAATATCACACTTAAAAAACCCGACCCGAATACCACACTTAAAAAAA
** *
2274765 CCTGACCCGAACCCGAATATCACACTTAAAAAACCCGACCCGAATACCATACTTAAAAAAA
1 CCTGACCCGAACCAAAATATCACACTTAAAAAACCCGACCCGAATACCACACTTAAAAAAA
*
2274826 CCCGACCCGAA
1 CCTGACCCGAA
2274837 ATCAAATTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
60 9 0.14
61 56 0.86
ACGTcount: A:0.44, C:0.33, G:0.08, T:0.14
Consensus pattern (61 bp):
CCTGACCCGAACCAAAATATCACACTTAAAAAACCCGACCCGAATACCACACTTAAAAAAA
Found at i:2275420 original size:21 final size:20
Alignment explanation
Indices: 2275382--2275420 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2275372 CTTATCAAGA
*
2275382 ATGTAACTTTTAGATAAATT
1 ATGTAACTCTTAGATAAATT
*
2275402 ATGTAACATCTTAGGTAAA
1 ATGTAAC-TCTTAGATAAA
2275421 AACAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTAACTCTTAGATAAATT
Found at i:2276838 original size:21 final size:19
Alignment explanation
Indices: 2276821--2276880 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
2276811 CAAAATCTCA
*
2276821 AAATTCCCAACCCAAATCC
1 AAATTCCAAACCCAAATCC
*
2276840 TAATTCCAAACCACAAATCCC
1 AAATTCCAAACC-CAAAT-CC
*
2276861 TAAATGCCAAACCCAAATCC
1 -AAATTCCAAACCCAAATCC
2276881 CTTTACATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.29
20 7 0.21
21 7 0.21
22 10 0.29
ACGTcount: A:0.43, C:0.38, G:0.02, T:0.17
Consensus pattern (19 bp):
AAATTCCAAACCCAAATCC
Found at i:2276881 original size:21 final size:20
Alignment explanation
Indices: 2276829--2276882 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
2276819 CAAAATTCCC
*
2276829 AACCCAAAT-CCTAATTCCA
1 AACCCAAATCCCTAATGCCA
2276848 AACCACAAATCCCTAAATGCCA
1 AACC-CAAATCCCT-AATGCCA
2276870 AACCCAAATCCCT
1 AACCCAAATCCCT
2276883 TTACATAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 12 0.39
22 10 0.32
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.17
Consensus pattern (20 bp):
AACCCAAATCCCTAATGCCA
Found at i:2282231 original size:220 final size:219
Alignment explanation
Indices: 2281817--2282254 Score: 700
Period size: 222 Copynumber: 2.0 Consensus size: 219
2281807 GGAGAATTTT
*
2281817 ATGTTTTCCATGACACTGTTAAATTTGAAAAGCTGGATGATTTTGTTGTATGAGTTTCTGCCTTT
1 ATGTTTTCCATGACACTGTTAAATTTGAAAAGCTGGATGATTTTGTTGTATGAGTTTCTGCATTT
* *
2281882 CGAGTGTTTACAGAGTTATCATTTTTAATCGACTCTATTGATTTCGGGAATTTGCTTTTGAGGTT
66 CAAGTGTTTACAGAGTTATCATTTTTAATCGACACTATTGATTTCGGGAATTTGC-TTTGAGGTT
* *
2281947 ATCAATGGAAGTTCCATATTGTTATCACAACCCTACTTAGTATCTCTTCGTTAGGAGCTGTGTAT
130 ATCAATGGAAGTTCCATATTGTTATCACAAACCTACTGAGTATCTCTTCGTTAGGAGCTGTGTAT
2282012 AATAGTAATATGTTTACAATGGATC
195 AATAGTAATATGTTTACAATGGATC
* *
2282037 ATGTTTTCCATGGAACATTGTTAAATTTGAAAAGCTGGTTGATTTTGTTGTATGAGTTTCTGCAT
1 ATGTTTTCCAT-G-ACACTGTTAAATTTGAAAAGCTGGATGATTTTGTTGTATGAGTTTCTGCAT
* *
2282102 TTCAAGTGTTTACGGAGTTAT-AGTTTTTAATCGACACTATTGATTTCGGGAATTTGC-TTGAGT
64 TTCAAGTGTTTACAGAGTTATCA-TTTTTAATCGACACTATTGATTTCGGGAATTTGCTTTGAGG
* * *
2282165 TTATCAATGGAAGTTCCATGTTGTTATCACAAACCTACTGAGTATCTCTTTGTTGGGAGCTGTGT
128 TTATCAATGGAAGTTCCATATTGTTATCACAAACCTACTGAGTATCTCTTCGTTAGGAGCTGTGT
* *
2282230 ATGATAGTAATCTGTTTACAATGGA
193 ATAATAGTAATATGTTTACAATGGA
2282255 GTTGAATAAA
Statistics
Matches: 201, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
220 99 0.49
221 2 0.01
222 100 0.50
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (219 bp):
ATGTTTTCCATGACACTGTTAAATTTGAAAAGCTGGATGATTTTGTTGTATGAGTTTCTGCATTT
CAAGTGTTTACAGAGTTATCATTTTTAATCGACACTATTGATTTCGGGAATTTGCTTTGAGGTTA
TCAATGGAAGTTCCATATTGTTATCACAAACCTACTGAGTATCTCTTCGTTAGGAGCTGTGTATA
ATAGTAATATGTTTACAATGGATC
Found at i:2290271 original size:12 final size:12
Alignment explanation
Indices: 2290254--2290308 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
2290244 GGAAACATAG
2290254 GAATTAAATTGT
1 GAATTAAATTGT
*
2290266 GAATTAAATCGT
1 GAATTAAATTGT
*
2290278 G-A-T-ACTTGT
1 GAATTAAATTGT
*
2290287 GAATTAAATCGT
1 GAATTAAATTGT
*
2290299 GAAATAAATT
1 GAATTAAATT
2290309 TGCTAGCAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
9 5 0.15
10 2 0.06
11 2 0.06
12 24 0.73
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.36
Consensus pattern (12 bp):
GAATTAAATTGT
Found at i:2292134 original size:183 final size:182
Alignment explanation
Indices: 2291627--2292498 Score: 1052
Period size: 183 Copynumber: 4.8 Consensus size: 182
2291617 GATACAAATG
* * * * * * * *
2291627 AAAAATAGATCGCTCCATAGCAATATTACAGGTACAAATATGACAAAACCGGTC-CCAAAATGAC
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGAC
** * * * * *
2291691 AAAACC-GATAAAACACTATCGGCTATGTGTCG--AGTGTTGATAATTTAATATAAGTATCGAAA
66 AAAACCGGA-AAAA-GTTACCAGATATGT-T-GAAAGTGTCGATAATTTAATATAAGTATCGACA
* * * * *
2291753 CTTTCTGAATTTAAAAGATAATAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
127 CTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * *
2291809 AAAAATATATCGATCCACAACAATATAATAAGTAAAAATATGATAAAACTA-GTCTCAAAAATGA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC-AGGTCTCAAAAATGA
* * * *
2291873 CAAAACCGGAAAAAGTTACCAGATATATTGAAAGTATCGATAATTTAATATTAGTATCGACACAT
65 CAAAACCGGAAAAAGTTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
2291938 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * * * * *
2291991 GAAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTAAAAAAATAA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCT-CAAAAATGA
* * *
2292056 CAAAACCGGAAAAAGTTACCGGATATGTTAAAAGTGTAGATAATTTAATATAAGTATCGACACTT
65 CAAAACCGGAAAAAGTTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * *
2292121 TCTGAATTTAAAAGAGAAAAAGTTATTGCGCATAAAAAGTGTCGACACTTTAT
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * * *
2292174 GAAAATGTATCGATCCATAACAAAATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGAC
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGAC
* * * * * *
2292239 AAAACCAGTAAAACGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTT
66 AAAACC-GGAAAAAGTTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * * *
2292304 TCTGAATTTAAAAGAGAAGAAGTTATAGAGCCTATAAAGTGTCGATACTTTAA
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* * * * * * *
2292357 AAAAATATATTGATCAACAACAATAAAACATGTAAAAATATGATAAAACAGGTCCCAAAATTGAC
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGAC
* * *
2292422 AAAACCAGTAAAACGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
66 AAAACC-GGAAAAAGTTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* *
2292487 TTTGAAATTAAA
130 TCTGAATTTAAA
2292499 CTAAAAGTGT
Statistics
Matches: 601, Mismatches: 81, Indels: 15
0.86 0.12 0.02
Matches are distributed among these distances:
180 1 0.00
181 2 0.00
182 186 0.31
183 410 0.68
184 2 0.00
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGAC
AAAACCGGAAAAAGTTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
Found at i:2292808 original size:182 final size:181
Alignment explanation
Indices: 2292501--2292997 Score: 714
Period size: 182 Copynumber: 2.7 Consensus size: 181
2292491 AAATTAAACT
* *
2292501 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAATATGTAAAAATATGATAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAA
* * *
2292566 AACTGGTCTAAAAAATGAAAAAACCA-GAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTT
66 AACT-GTCTCAAAAATGAAAAAA-CAGGAAAAAATTACCGGATATGTTGAAAGTGTCGATAATTT
* *
2292630 AATATTAGTATCGACACTTTCCGAATTTAAAAGAGAATAAGTTATAGCGCTTA
129 AATATAAGTATCGACACTTTCCGAATTTAAAAGAGAAGAAGTTATAGCGCTTA
* * *
2292683 AAAAGTGTCGACACTTTATAAAAATATATCGAT-CATTACCAATATAACAGGTAAAAATATGATA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCA-TAACAATATAACAGGTAAAAATATGATA
* * *
2292747 AAACATGTCTCAAAAATGAAAAAACTGGAAAAAATTATCAGATATGTTGAAAGTGTCGATAATTT
65 AAAC-TGTCTCAAAAATGAAAAAACAGGAAAAAATTACCGGATATGTTGAAAGTGTCGATAATTT
*
2292812 AATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCTTA
129 AATATAAGTATCGACACTTTCCGAATTTAAAAGAGAAGAAGTTATAGCGCTTA
* *
2292865 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCAGAACAATATAACAGGTAAAAATATTATAA
1 AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAA
* * * * *
2292930 AACCGGTCTC-AAAATGACAAAACCAGTAAATAGA-TACCGGATATGTTGAAAGTGTCGATACTT
66 AA-CTGTCTCAAAAATGA-AAAAACAGGAAA-AAATTACCGGATATGTTGAAAGTGTCGATAATT
2292993 TAATA
128 TAATA
2292998 AGTACGCGTA
Statistics
Matches: 281, Mismatches: 27, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
181 10 0.04
182 265 0.94
183 6 0.02
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (181 bp):
AAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAA
AACTGTCTCAAAAATGAAAAAACAGGAAAAAATTACCGGATATGTTGAAAGTGTCGATAATTTAA
TATAAGTATCGACACTTTCCGAATTTAAAAGAGAAGAAGTTATAGCGCTTA
Found at i:2293408 original size:18 final size:19
Alignment explanation
Indices: 2293385--2293429 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
2293375 TAGTTAATAT
2293385 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
2293403 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
2293422 TTTTAGGT
1 TTATAGGT
2293430 TGTATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:2293715 original size:18 final size:18
Alignment explanation
Indices: 2293680--2293718 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2293670 TTGAAATGGT
2293680 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
2293698 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
2293716 AAT
1 AAT
2293719 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:2294732 original size:22 final size:22
Alignment explanation
Indices: 2294681--2294736 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
2294671 AATGTTTTTG
*
2294681 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
2294704 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
2294726 CTTTTATTATA
1 -TTTTATTATA
2294737 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:2295444 original size:22 final size:18
Alignment explanation
Indices: 2295396--2295433 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2295386 AAAAAATTTT
*
2295396 AAGAAGAGAAGATGGAGG
1 AAGAAGAAAAGATGGAGG
2295414 AAGAAGAAAAGATGGAGG
1 AAGAAGAAAAGATGGAGG
2295432 AA
1 AA
2295434 ATGAGGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.05
Consensus pattern (18 bp):
AAGAAGAAAAGATGGAGG
Found at i:2296926 original size:19 final size:19
Alignment explanation
Indices: 2296900--2296948 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
2296890 AAATGCATGG
2296900 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
2296918 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
2296937 ATAATTTTGTAT
1 TTAATTTTGTAT
2296949 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:2297721 original size:227 final size:227
Alignment explanation
Indices: 2297326--2297758 Score: 749
Period size: 227 Copynumber: 1.9 Consensus size: 227
2297316 ACAAGTATCG
* *
2297326 ATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTAGCAATATAACCGGTCTAA
1 ATCCCAAAAACATCGAAAACCATAATTATAATGTAATACGTAAACTAGCAATATAACCGGTCTAA
2297391 ATATACCGGTTTTTGAGAAAACAAGTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATA
66 ATATACCGGTTTTTGAGAAAACAAGTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATA
2297456 CTTTTGGTCCATAATATATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTATAACAAGT
131 CTTTTGGTCCATAATATATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTATAACAAGT
2297521 GTCGATCCCAATCCTTTCAAAAAAAAGTGTCA
196 GTCGATCCCAATCCTTTCAAAAAAAAGTGTCA
* *
2297553 ATCCCAAAAACATCGAAAATCATAATTATAATGTAATACGTAAACTAGCAATATAACTGGTCTAA
1 ATCCCAAAAACATCGAAAACCATAATTATAATGTAATACGTAAACTAGCAATATAACCGGTCTAA
* * * *
2297618 ATATACCGGTTTTTGAGAAAACAGGTGTACAAAACGTATCGACACAAATCGAACAAGTGTCGATA
66 ATATACCGGTTTTTGAGAAAACAAGTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATA
* * * * *
2297683 CTTTTTGTTCATAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATTCATTTGTAACAAGT
131 CTTTTGGTCCATAATATATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTATAACAAGT
2297748 GTCGATCCCAA
196 GTCGATCCCAA
2297759 AAACATCAAA
Statistics
Matches: 193, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
227 193 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (227 bp):
ATCCCAAAAACATCGAAAACCATAATTATAATGTAATACGTAAACTAGCAATATAACCGGTCTAA
ATATACCGGTTTTTGAGAAAACAAGTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATA
CTTTTGGTCCATAATATATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTATAACAAGT
GTCGATCCCAATCCTTTCAAAAAAAAGTGTCA
Found at i:2297900 original size:199 final size:199
Alignment explanation
Indices: 2297545--2298028 Score: 704
Period size: 199 Copynumber: 2.4 Consensus size: 199
2297535 TTTCAAAAAA
* * * *
2297545 AAGTGTCAATCCCAAAAACATCGAAAA-TCATAATTATAATGTAATACGTAAACTAGCAATATAA
1 AAGTGTCGATCCCAAAAACATCAAAAACT-ATAATTATAATGTAATAAGTAAATTAGCAATATAA
* * *
2297609 CTGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAACGTATCGACACAAATCGAACAA
65 CTGGTCTAAATATACCAGTTTTTGAAAAAACAGGTGTACAAAAAGTATCGACACAAATCGAACAA
* * * * *
2297674 GTGTCGATACTTTTTGTTCATAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATTCATTT
130 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAAAAGTGTCGATACATTT
*
2297739 GTAAC
195 ATAAC
2297744 AAGTGTCGATCCCAAAAACATCAAAAACTATAATTATAATGTAATAAGTAAATTAGCAATATAA-
1 AAGTGTCGATCCCAAAAACATCAAAAACTATAATTATAATGTAATAAGTAAATTAGCAATATAAC
*
2297808 TCAGTCTAAATATACCAGTTTTTGAAAAAA-ACGGTGTACAAAAAGTATCGACACAAATCGAACA
66 T-GGTCTAAATATACCAGTTTTTGAAAAAACA-GGTGTACAAAAAGTATCGACACAAATCGAACA
*
2297872 AGTGTCGATCCTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAAAAGTGTCGATACATT
129 AGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAAAAGTGTCGATACATT
2297937 TATAAC
194 TATAAC
* * * * * * *
2297943 AAGTGTCGATCCAAAAAAAATTTAAAAACCATAATTATAATATAATAGGTAAATTAACAATATAA
1 AAGTGTCGATCCCAAAAACA-TCAAAAACTATAATTATAATGTAATAAGTAAATTAGCAATATAA
*
2298008 CTGGTCTAAATATACTAGTTT
65 CTGGTCTAAATATACCAGTTT
2298029 AAATTGAAAA
Statistics
Matches: 256, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
198 2 0.01
199 196 0.77
200 57 0.22
201 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (199 bp):
AAGTGTCGATCCCAAAAACATCAAAAACTATAATTATAATGTAATAAGTAAATTAGCAATATAAC
TGGTCTAAATATACCAGTTTTTGAAAAAACAGGTGTACAAAAAGTATCGACACAAATCGAACAAG
TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAAAAGTGTCGATACATTTA
TAAC
Found at i:2298396 original size:15 final size:15
Alignment explanation
Indices: 2298376--2298433 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
2298366 TTTCTCAAAT
*
2298376 CTCTTCTTAACCCAC
1 CTCTTCTCAACCCAC
* *
2298391 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
2298406 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
2298423 CTCATTCTCAA
1 CTC-TTCTCAA
2298434 ACAATCAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 23 0.66
16 1 0.03
17 4 0.11
18 7 0.20
ACGTcount: A:0.24, C:0.47, G:0.02, T:0.28
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:2300995 original size:21 final size:21
Alignment explanation
Indices: 2300971--2301016 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2300961 ACAAAATTTA
2300971 TCGACACAAATAAAACAAGTG
1 TCGACACAAATAAAACAAGTG
* **
2300992 TCGATACATTTAAAACAAGTG
1 TCGACACAAATAAAACAAGTG
2301013 TCGA
1 TCGA
2301017 TCCCTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (21 bp):
TCGACACAAATAAAACAAGTG
Found at i:2301026 original size:19 final size:21
Alignment explanation
Indices: 2300981--2301027 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2300971 TCGACACAAA
**
2300981 TAAAACAAGTGTCGATACATT
1 TAAAACAAGTGTCGATACACC
2301002 TAAAACAAGTGTCGAT-C-CC
1 TAAAACAAGTGTCGATACACC
2301021 TAAAACA
1 TAAAACA
2301028 TCGAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 1 0.04
21 16 0.67
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (21 bp):
TAAAACAAGTGTCGATACACC
Found at i:2301327 original size:199 final size:198
Alignment explanation
Indices: 2300987--2301843 Score: 1148
Period size: 199 Copynumber: 4.3 Consensus size: 198
2300977 CAAATAAAAC
* *
2300987 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCTAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * * *
2301052 TAGGTAAATTATTCATGTAAAAGGTTTAAATATATCGGTTTTTGAGAAACCAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAG
* *
2301117 TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
2301182 TAAA
196 -AAA
* *
2301186 AAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * *
2301251 TAGGTAAATTA-GCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAACA
66 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAA
* ** *
2301315 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
130 GTATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCA
2301380 CATAA
195 CA-AA
* * *
2301385 AAGTGTCGATACATTTAAAACAAATGTCGATCCC-GAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* ** *
2301449 TAGGTAAATTATTCATGTAAACAGTCTAAATATACTGGTTTTTGAGAAAAAATGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAG
*
2301514 TATCGACACAAATATAACAAGTGTCAATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
2301579 TAAA
196 -AAA
2301583 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCG-AAAACTATAATTATAATGTA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATGTA
* * * * * * **
2301647 ATAGGTAAATTA-ACAATGTAACCGGTCTAAATGTACCAGTTTATAAGAAAACA-GATATACATG
65 ATAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATG-TGTACAAA
* * * * * * *
2301710 AAGTATCGACACAAATACATCAAGTTTCGATACATTTTTGTCCAGACTATATTTTAAAAACCAAG
128 AAGTATCGACACAAATATAACAAGTGTCGATAC-TTTTTCTCCAGAATGTA-TTTCAAAACCAAG
2301775 TGCACAACA
191 TGCACAA-A
* * * * * *
2301784 AAGTTTTGATACATTTATAACAATTGTTGATCTCAAAACCATCGAAAAACATAATTATAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
2301844 CCAAATATCT
Statistics
Matches: 579, Mismatches: 67, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
198 186 0.32
199 306 0.53
200 16 0.03
201 66 0.11
202 5 0.01
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (198 bp):
AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAG
TATCGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
AAA
Found at i:2304622 original size:196 final size:197
Alignment explanation
Indices: 2304367--2305051 Score: 736
Period size: 198 Copynumber: 3.4 Consensus size: 197
2304357 TTTTCAAAAA
* * * ** * *
2304367 GTATCGACCCCAAAAACATCAAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCA
1 GTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * *
2304432 GTATACATATACCGG-TTAATTATAAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGT
66 GTATAAATATACCGGTTTAATGAGAAAATATGTCAA-ATAAAGTATCGACACTTTTTAAGTTTGT
* * * *
2304496 GTTGATACTTTTTTCCA-AAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCGATACATTTAAA
130 GTCGATACTTTTTTCCAGAATGAAAGCACAAACAGGTGCAAGCATAAAGTGTCGATACATTTAAA
2304560 ATT
195 ATT
* * *
2304563 GTATCGATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * * *
2304628 GTCTAAATTTACCGGTTTTATGAGAAAATAGGTCAGAATAAAGTATCGACACTTGTGTAA-TTTG
66 GTATAAATATACCGGTTTAATGAGAAAATATGTCA-AATAAAGTATCGACACTT-TTTAAGTTTG
* * ** * ** * *
2304692 TGTCGATACATTTTGTCCATAATGAATCCCCAATGAGGTGCAAGAATAACGTGTCGATACATTTA
129 TGTCGATAC-TTTTTTCCAGAATGAAAGCACAAACAGGTGCAAGCATAAAGTGTCGATACATTTA
2304757 AAATT
193 AAATT
* * * * * * * *
2304762 GTATCGATCCCAAAAATATCGAAA-CAAAAATTACAATGTTATAGATATATATACAATGTACCCG
1 GTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * *
2304826 GTATAAATATACCGGTTTTATGAGAAAATATGTCTAAATAATGTATCGACAC-CTTTATAGTTTG
66 GTATAAATATACCGGTTTAATGAGAAAATATGTC-AAATAAAGTATCGACACTTTTTA-AGTTTG
* *
2304890 TGTCGATACTTTTTTCCAGAATGAATTAGGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATA
129 TGTCGATACTTTTTTCCAGAATGAA--A-GCA---CAAAC-AGGTGCAAGCATAAAGTGTCGATA
2304955 CATTTAAAATT
187 CATTTAAAATT
* * * *
2304966 GTATCGATCCAAAAAACAACGAAACCAAT-ATTATAATGCAAGAGGTAAATTTACAATGCT-ACC
1 GTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATG-TAACC
* *
2305029 GGTATAAATATATCGGTTAAATG
65 GGTATAAATATACCGGTTTAATG
2305052 CATATTTTAT
Statistics
Matches: 398, Mismatches: 74, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
196 70 0.18
197 58 0.15
198 103 0.26
199 63 0.16
203 2 0.01
204 98 0.25
205 4 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (197 bp):
GTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
GTATAAATATACCGGTTTAATGAGAAAATATGTCAAATAAAGTATCGACACTTTTTAAGTTTGTG
TCGATACTTTTTTCCAGAATGAAAGCACAAACAGGTGCAAGCATAAAGTGTCGATACATTTAAAA
TT
Found at i:2304874 original size:198 final size:195
Alignment explanation
Indices: 2304367--2305046 Score: 745
Period size: 204 Copynumber: 3.4 Consensus size: 195
2304357 TTTTCAAAAA
* * ** * *
2304367 GTATCGACCCCAAAAACATCAAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCA
1 GTATCGATCCCAAAAACATCGAAACAAA-AATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * * * *
2304432 GTATACATATACCGG-TTAATTATAAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGT
65 GTATAAATATACCGGTTTTATGAGAAAATATGTCAA-ATAAAGTATCGACACTTTATAA-TTTGT
* * * * * * *
2304496 GTTGATACTTTTTTCCA-AAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCGATACATTTAAA
128 GTCGATACTTTTTTCCATAATGAATGCCCAAAGAGGTGCAAGCATAAAGTGTCGATACATTTAAA
2304560 ATT
193 ATT
* * * *
2304563 GTATCGATCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAA-CAAAAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * *
2304628 GTCTAAATTTACCGGTTTTATGAGAAAATAGGTCAGAATAAAGTATCGACACTTGTGTAATTTGT
65 GTATAAATATACCGGTTTTATGAGAAAATATGTCA-AATAAAGTATCGACACTT-TATAATTTGT
* * * * *
2304693 GTCGATACATTTTGTCCATAATGAATCCCCAATGAGGTGCAAGAATAACGTGTCGATACATTTAA
128 GTCGATAC-TTTTTTCCATAATGAATGCCCAAAGAGGTGCAAGCATAAAGTGTCGATACATTTAA
2304758 AATT
192 AATT
* * * * * * *
2304762 GTATCGATCCCAAAAATATCGAAACAAAAATTACAATGTTATAGATATATATACAATGTACCCGG
1 GTATCGATCCCAAAAACATCGAAACAAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGG
* *
2304827 TATAAATATACCGGTTTTATGAGAAAATATGTCTAAATAATGTATCGACACCTTTATAGTTTGTG
66 TATAAATATACCGGTTTTATGAGAAAATATGTC-AAATAAAGTATCGACA-CTTTATAATTTGTG
*
2304892 TCGATACTTTTTTCCAGAATGAATTAGGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACA
129 TCGATACTTTTTTCC---AT-AA-T--GAATGCCCAAAGAGGTGCAAGCATAAAGTGTCGATACA
2304957 TTTAAAATT
187 TTTAAAATT
* * * * * *
2304966 GTATCGATCCAAAAAACAACGAAACCAATATTATAATGCAAGAGGTAAATTTACAATGCT-ACCG
1 GTATCGATCCCAAAAACATCGAAACAAAAATTATAATGTAATAGGTAAATTTACAATG-TAACCG
*
2305030 GTATAAATATATCGGTT
65 GTATAAATATACCGGTT
2305047 AAATGCATAT
Statistics
Matches: 401, Mismatches: 67, Indels: 24
0.82 0.14 0.05
Matches are distributed among these distances:
196 64 0.16
197 52 0.13
198 105 0.26
199 66 0.16
200 2 0.00
201 2 0.00
202 1 0.00
204 108 0.27
205 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (195 bp):
GTATCGATCCCAAAAACATCGAAACAAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGG
TATAAATATACCGGTTTTATGAGAAAATATGTCAAATAAAGTATCGACACTTTATAATTTGTGTC
GATACTTTTTTCCATAATGAATGCCCAAAGAGGTGCAAGCATAAAGTGTCGATACATTTAAAATT
Found at i:2305110 original size:23 final size:23
Alignment explanation
Indices: 2305060--2305104 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2305050 TGCATATTTT
* *
2305060 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGATACATAATAC
*
2305083 ATTATATAAGCGATACCTAATA
1 ATTATATAAGCGATACATAATA
2305105 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGATACATAATAC
Found at i:2320731 original size:64 final size:63
Alignment explanation
Indices: 2320636--2320776 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
2320626 CATATTCAAT
* *
2320636 GTGCATCGATGCACTCTTTAAAGAAGAAACATCAAATGCAATTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCAAAGGCAATTGGTGCATCGATGCAT-AGGTA
* * * * * *
2320699 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCAAAGGCAATTGGTGCATCGATGCATAGGTA
*
2320763 GAGCATCGATGCAC
1 GTGCATCGATGCAC
2320777 TATAGAATGC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 18 0.27
64 48 0.73
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCAAAGGCAATTGGTGCATCGATGCATAGGTA
Found at i:2324981 original size:20 final size:20
Alignment explanation
Indices: 2324956--2324993 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2324946 CACATGTTAA
2324956 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
2324976 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
2324994 TCAAGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:2329267 original size:42 final size:42
Alignment explanation
Indices: 2329203--2329330 Score: 229
Period size: 42 Copynumber: 3.0 Consensus size: 42
2329193 TGGAACCAGT
* *
2329203 TCCTCTCCTGCAGGCTAGGCTTTCTTCTAATCATTTAAGGGA
1 TCCTTTCCTGCAGGTTAGGCTTTCTTCTAATCATTTAAGGGA
2329245 TCCTTTCCTGCAGGTTAGGCTTTCTTCTAATCATTTAAGGGA
1 TCCTTTCCTGCAGGTTAGGCTTTCTTCTAATCATTTAAGGGA
*
2329287 TCCTTTCCTGCAGGTTAGGCTTTCTTCTAATCATTTAAAGGA
1 TCCTTTCCTGCAGGTTAGGCTTTCTTCTAATCATTTAAGGGA
2329329 TC
1 TC
2329331 TGCAATAAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (42 bp):
TCCTTTCCTGCAGGTTAGGCTTTCTTCTAATCATTTAAGGGA
Found at i:2330598 original size:26 final size:26
Alignment explanation
Indices: 2330542--2330613 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
2330532 GATCATTTCG
* *
2330542 TAAATTATTATGATATATAATACATTA
1 TAAATTATTAT-ATATATAATAAATAA
2330569 -AAATTATTATATATA-AATAAATAAA
1 TAAATTATTATATATATAATAAAT-AA
2330594 TAAATATATATATATATATA
1 TAAAT-TAT-TATATATATA
2330614 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 6 0.16
25 6 0.16
26 14 0.37
27 3 0.08
28 8 0.21
29 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (26 bp):
TAAATTATTATATATATAATAAATAA
Found at i:2330604 original size:4 final size:4
Alignment explanation
Indices: 2330576--2330627 Score: 68
Period size: 4 Copynumber: 13.0 Consensus size: 4
2330566 TTAAAATTAT
* * * *
2330576 TATA TATA AATA AATA AATA AATA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
2330624 TATA
1 TATA
2330628 CCATAGTCCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (4 bp):
TATA
Found at i:2338053 original size:51 final size:50
Alignment explanation
Indices: 2337990--2338096 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 50
2337980 GTAACAGTAA
* * * *
2337990 AGCGCGCTCCCTGCCCCGCACTATATGTTGATTTGGCT-CCACGTGAGGTAT
1 AGCGCGCCCCCTGACCCGCACTATA-GTTG-TTTAGCTGACACGTGAGGTAT
* * * *
2338041 AGCGCGCCCCCTGATCCGCGCTATAGTTGTTTATCTGACACGTGGGGTAT
1 AGCGCGCCCCCTGACCCGCACTATAGTTGTTTAGCTGACACGTGAGGTAT
2338091 AGCGCG
1 AGCGCG
2338097 ATACAGAGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
49 5 0.11
50 21 0.45
51 21 0.45
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (50 bp):
AGCGCGCCCCCTGACCCGCACTATAGTTGTTTAGCTGACACGTGAGGTAT
Found at i:2338293 original size:17 final size:18
Alignment explanation
Indices: 2338257--2338297 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2338247 ATATTATGTA
*
2338257 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
2338275 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
2338292 TTTACT
1 TTTACT
2338298 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:2339991 original size:18 final size:18
Alignment explanation
Indices: 2339965--2339999 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2339955 CAGCGACCAC
* *
2339965 CGCAGCCATTTATGATGT
1 CGCAACCATATATGATGT
2339983 CGCAACCATATATGATG
1 CGCAACCATATATGATG
2340000 CCGTCGTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
CGCAACCATATATGATGT
Found at i:2341256 original size:51 final size:51
Alignment explanation
Indices: 2341156--2341267 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
2341146 GATAAAAAAG
**
2341156 TATAGCGCGGATCAGGGGGCGCACTATACCCACGTGTAAGCCATGTCAGCA
1 TATAGCGCGGATCAGGGGGCGCACTATACCCACGTGTAAGCCAAATCAGCA
* ** *
2341207 TATAGCGCGG-TACATGGGGCGCACTATACCCCACGTG-GCGTCAAATCAGCA
1 TATAGCGCGGAT-CAGGGGGCGCACTATA-CCCACGTGTAAGCCAAATCAGCA
*
2341258 TATAACGCGG
1 TATAGCGCGG
2341268 GGTAAGGAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 43 0.83
52 8 0.15
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.18
Consensus pattern (51 bp):
TATAGCGCGGATCAGGGGGCGCACTATACCCACGTGTAAGCCAAATCAGCA
Found at i:2341430 original size:7 final size:7
Alignment explanation
Indices: 2341418--2341444 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2341408 ATTTTCTATG
2341418 AAAAATT
1 AAAAATT
2341425 AAAAATT
1 AAAAATT
2341432 AAAAATT
1 AAAAATT
2341439 AAAAAT
1 AAAAAT
2341445 AAACATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:2341814 original size:2 final size:2
Alignment explanation
Indices: 2341809--2341847 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2341799 TTTCCCTCTC
* * *
2341809 TA TA TA TA TA CA TA CA TA CA 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 T
2341848 TACCCAGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:2344116 original size:4 final size:4
Alignment explanation
Indices: 2344109--2344926 Score: 1636
Period size: 4 Copynumber: 204.5 Consensus size: 4
2344099 CATATGTGTG
2344109 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344157 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344205 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344253 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344301 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344349 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344397 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344445 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344493 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344541 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344589 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344637 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344685 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344733 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344781 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344829 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344877 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2344925 TG
1 TG
2344927 CATGCATGAA
Statistics
Matches: 814, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 814 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:2351744 original size:38 final size:38
Alignment explanation
Indices: 2351675--2351747 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
2351665 ATATTTTCAA
2351675 TTTTATAAAAAAATTATATAATTTTTATTAATTTAAAT
1 TTTTATAAAAAAATTATATAATTTTTATTAATTTAAAT
* *
2351713 TTTTTTAAGAAAA-TATATAAATATTTT-TTAATTTA
1 TTTTATAAAAAAATTATAT-AAT-TTTTATTAATTTA
2351748 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 5 0.16
38 22 0.71
39 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (38 bp):
TTTTATAAAAAAATTATATAATTTTTATTAATTTAAAT
Found at i:2366841 original size:2 final size:2
Alignment explanation
Indices: 2366786--2366826 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2366776 TGCAAAAAAC
2366786 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
2366827 CTTTTTTTAA
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:2370405 original size:72 final size:71
Alignment explanation
Indices: 2370321--2370465 Score: 222
Period size: 71 Copynumber: 2.0 Consensus size: 71
2370311 GAAGGTGAAT
* *
2370321 AAGAAGAACGAAAGGAAGCATTAG-CACTTTTGATTCAAAGTGAACGGAAGGAAGCAT-CGATAC
1 AAGAAGAACGAAAGGAAGCA-TAGACACTTTCGATTC-AAGTGAACGGAAGGAAGCATCCG-CAC
2370384 TTTCGATTC
63 TTTCGATTC
*
2370393 AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTCAAGTGAACGGAAGGAAGCATCCGCACTTT
1 AAGAAGAACGAAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGAAGCATCCGCACTTT
2370458 CGATTC
66 CGATTC
2370464 AA
1 AA
2370466 TTGTTCATCT
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
71 35 0.51
72 33 0.49
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (71 bp):
AAGAAGAACGAAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGAAGCATCCGCACTTT
CGATTC
Found at i:2370441 original size:31 final size:33
Alignment explanation
Indices: 2370369--2370465 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 33
2370359 AGTGAACGGA
*
2370369 AGGAAGCATCGATACTTTCGATTCAAGAAGAAC
1 AGGAAGCATCGACACTTTCGATTCAAGAAGAAC
*
2370402 GAAAGGAAGCATCGACACTTTCGATTCAAG-TGAAC
1 ---AGGAAGCATCGACACTTTCGATTCAAGAAGAAC
2370437 GGAAGGAAGCATCCG-CACTTTCGATTCAA
1 ---AGGAAGCAT-CGACACTTTCGATTCAA
2370466 TTGTTCATCT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
35 29 0.51
36 28 0.49
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (33 bp):
AGGAAGCATCGACACTTTCGATTCAAGAAGAAC
Found at i:2370444 original size:35 final size:35
Alignment explanation
Indices: 2370326--2370465 Score: 176
Period size: 36 Copynumber: 3.9 Consensus size: 35
2370316 TGAATAAGAA
* *
2370326 GAACGAAAGGAAGCAT-TAGCACTTTTGATTCAAAGT
1 GAACGAAAGGAAGCATCGA-CACTTTCGATTC-AAGT
* * *
2370362 GAACGGAAGGAAGCATCGATACTTTCGATTCAAGAA
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAG-T
2370398 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
1 GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
*
2370433 GAACGGAAGGAAGCATCCG-CACTTTCGATTCAA
1 GAACGAAAGGAAGCAT-CGACACTTTCGATTCAA
2370466 TTGTTCATCT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
35 32 0.35
36 59 0.64
37 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (35 bp):
GAACGAAAGGAAGCATCGACACTTTCGATTCAAGT
Found at i:2370465 original size:71 final size:72
Alignment explanation
Indices: 2370321--2370465 Score: 224
Period size: 72 Copynumber: 2.0 Consensus size: 72
2370311 GAAGGTGAAT
* * *
2370321 AAGAAGAACGAAAGGAAGCATTAGCACTTTTGATTCAAAGTGAACGGAAGGAAGCATCGATACTT
1 AAGAAGAACGAAAGGAAGCATGAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTT
2370386 TCGATTC
66 TCGATTC
2370393 AAGAAGAACGAAAGGAAGCATCGA-CACTTTCGATTC-AAGTGAACGGAAGGAAGCATCCG-CAC
1 AAGAAGAACGAAAGGAAGCAT-GAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCAT-CGACAC
2370455 TTTCGATTC
64 TTTCGATTC
2370464 AA
1 AA
2370466 TTGTTCATCT
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
71 33 0.49
72 34 0.50
73 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATGAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTT
TCGATTC
Found at i:2371652 original size:31 final size:31
Alignment explanation
Indices: 2371592--2371653 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
2371582 GTCGAGTATC
*
2371592 AAAAATTGATGATGTAATATATGTACATGTA
1 AAAAATTGATGATGTAATACATGTACATGTA
*
2371623 AAAAATTGATGATGTGATAACATGT-CATGTA
1 AAAAATTGATGATGTAAT-ACATGTACATGTA
2371654 TCAAAAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.34
Consensus pattern (31 bp):
AAAAATTGATGATGTAATACATGTACATGTA
Found at i:2371660 original size:34 final size:34
Alignment explanation
Indices: 2371587--2371660 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 34
2371577 CATGTGTCGA
*
2371587 GTATC-AAAAATTGATGATGTAATATATGTACAT
1 GTATCAAAAAATTGATGATGTAATACATGTACAT
*
2371620 G--T-AAAAAATTGATGATGTGATAACATGT-CAT
1 GTATCAAAAAATTGATGATGTAAT-ACATGTACAT
2371651 GTATCAAAAA
1 GTATCAAAAA
2371661 GAGATAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
31 22 0.65
32 5 0.15
33 2 0.06
34 5 0.15
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (34 bp):
GTATCAAAAAATTGATGATGTAATACATGTACAT
Found at i:2371820 original size:25 final size:25
Alignment explanation
Indices: 2371783--2371830 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2371773 TCACGTGTTG
*
2371783 AAAGGGATTATATGATACATGTCGA
1 AAAGGGATGATATGATACATGTCGA
* *
2371808 AAAGTGATGATATGATATATGTC
1 AAAGGGATGATATGATACATGTC
2371831 ATGTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (25 bp):
AAAGGGATGATATGATACATGTCGA
Found at i:2373502 original size:18 final size:18
Alignment explanation
Indices: 2373479--2373514 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2373469 TCCGAAATTC
*
2373479 TAAAATATAATTTATTAT
1 TAAAATATAACTTATTAT
2373497 TAAAATATAACTTATTAT
1 TAAAATATAACTTATTAT
2373515 GTACGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAATATAACTTATTAT
Found at i:2387315 original size:2 final size:2
Alignment explanation
Indices: 2387308--2387342 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2387298 AATTTGAGAA
2387308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2387343 AGAATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2388902 original size:30 final size:29
Alignment explanation
Indices: 2388851--2388907 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
2388841 AAGTTGATTT
2388851 TTGTTTGATTAATGTTCATTTATTTAAAA
1 TTGTTTGATTAATGTTCATTTATTTAAAA
* *
2388880 TTGTTTAGATTCATGTTTATTTATTTAA
1 TTGTTT-GATTAATGTTCATTTATTTAA
2388908 TGTCTACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.58
Consensus pattern (29 bp):
TTGTTTGATTAATGTTCATTTATTTAAAA
Found at i:2390810 original size:3 final size:3
Alignment explanation
Indices: 2390804--2390832 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2390794 TATTATAAGT
2390804 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2390833 GATATATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2391574 original size:18 final size:18
Alignment explanation
Indices: 2391551--2391585 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2391541 TATCAGATGT
2391551 CATTTTTAAATGTATATA
1 CATTTTTAAATGTATATA
*
2391569 CATTTTTAAGTGTATAT
1 CATTTTTAAATGTATAT
2391586 CAGATGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (18 bp):
CATTTTTAAATGTATATA
Found at i:2394721 original size:15 final size:15
Alignment explanation
Indices: 2394676--2394726 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 15
2394666 CACACCCATA
2394676 ATTAACATCTAAGAT
1 ATTAACATCTAAGAT
*
2394691 ATTAGGTATAATCTAAGAT
1 ATTA---A-CATCTAAGAT
2394710 ATTAACATCTAAGAT
1 ATTAACATCTAAGAT
2394725 AT
1 AT
2394727 AAATGTTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 15 0.50
16 1 0.03
18 1 0.03
19 13 0.43
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (15 bp):
ATTAACATCTAAGAT
Found at i:2395642 original size:11 final size:11
Alignment explanation
Indices: 2395626--2395657 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2395616 TGAACTTTTT
2395626 ATAATAATTTA
1 ATAATAATTTA
2395637 ATAATAATTT-
1 ATAATAATTTA
2395647 ATAAT-ATTTA
1 ATAATAATTTA
2395657 A
1 A
2395658 AAATTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.20
10 6 0.30
11 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATAATTTA
Found at i:2396021 original size:14 final size:15
Alignment explanation
Indices: 2396002--2396030 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2395992 ATATCATATA
2396002 TGATTATA-TAAAAT
1 TGATTATATTAAAAT
2396016 TGATTATATTAAAAT
1 TGATTATATTAAAAT
2396031 CATTAGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
TGATTATATTAAAAT
Found at i:2396101 original size:26 final size:26
Alignment explanation
Indices: 2396072--2396130 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
2396062 ATTATATTAA
*
2396072 AATAAAAATTTGAATA-ACTTAACTCG
1 AATAAAAATTT-AATACACTTAACTAG
*
2396098 AAT-AAAATTTTATACACTTAACTAG
1 AATAAAAATTTAATACACTTAACTAG
*
2396123 ACTAAAAA
1 AATAAAAA
2396131 ATCAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.11
25 18 0.64
26 7 0.25
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.31
Consensus pattern (26 bp):
AATAAAAATTTAATACACTTAACTAG
Found at i:2396770 original size:24 final size:23
Alignment explanation
Indices: 2396729--2396774 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2396719 TCCGAGACAA
*
2396729 TCTCTCTTCATTTTCCAGGAAAAT
1 TCTCTCTTCATTTCCCA-GAAAAT
2396753 TCTCTCTT-ATTTCCCCAGAAAA
1 TCTCTCTTCATTT-CCCAGAAAA
2396775 GTTGTGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (23 bp):
TCTCTCTTCATTTCCCAGAAAAT
Found at i:2397691 original size:20 final size:21
Alignment explanation
Indices: 2397653--2397697 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
2397643 CTACTTTTGA
2397653 ATATTTTTTAAAATATT-AAT
1 ATATTTTTTAAAATATTAAAT
*
2397673 ATATTTTTTATGAAT-TTAAAT
1 ATATTTTTTA-AAATATTAAAT
2397694 ATAT
1 ATAT
2397698 AAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTTTTTAAAATATTAAAT
Found at i:2402882 original size:15 final size:16
Alignment explanation
Indices: 2402859--2402898 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
2402849 AAACGAAAAC
*
2402859 AATAAATAAA-AAATA
1 AATATATAAATAAATA
2402874 AATATATAAATAAATA
1 AATATATAAATAAATA
2402890 ATATATATA
1 A-ATATATA
2402899 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 6 0.27
17 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATATATAAATAAATA
Found at i:2402884 original size:19 final size:19
Alignment explanation
Indices: 2402860--2402900 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2402850 AACGAAAACA
2402860 ATAAATAAAAAATAAATAT
1 ATAAATAAAAAATAAATAT
* *
2402879 ATAAATAAATAATATATAT
1 ATAAATAAAAAATAAATAT
2402898 ATA
1 ATA
2402901 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAATAAAAAATAAATAT
Found at i:2402888 original size:23 final size:23
Alignment explanation
Indices: 2402859--2402904 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2402849 AAACGAAAAC
2402859 AATAAATAAAAAATAAATATATA
1 AATAAATAAAAAATAAATATATA
* * *
2402882 AATAAATAATATATATATATATA
1 AATAAATAAAAAATAAATATATA
2402905 TATATACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAAATAAAAAATAAATATATA
Found at i:2403408 original size:37 final size:37
Alignment explanation
Indices: 2403354--2403502 Score: 244
Period size: 37 Copynumber: 4.0 Consensus size: 37
2403344 ACGCTTGTGG
* *
2403354 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
2403391 ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
2403428 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* * *
2403465 ATCCTATTTTTAAGAGTTTGAATCCTAATAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
2403502 A
1 A
2403503 ACGTTGTGTT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:2404258 original size:15 final size:15
Alignment explanation
Indices: 2404228--2404256 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2404218 ATGATTTTTT
2404228 TTTTCATTTGAGAAA
1 TTTTCATTTGAGAAA
2404243 TTTT-ATTTGAGAAA
1 TTTTCATTTGAGAAA
2404257 ATATTAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.48
Consensus pattern (15 bp):
TTTTCATTTGAGAAA
Found at i:2407075 original size:16 final size:18
Alignment explanation
Indices: 2407051--2407085 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2407041 AAAAAGTTAG
2407051 ATAACGAAAACA-AAAAT
1 ATAACGAAAACATAAAAT
2407068 ATAA-GAAAACATAAAAT
1 ATAACGAAAACATAAAAT
2407085 A
1 A
2407086 CGAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.14
Consensus pattern (18 bp):
ATAACGAAAACATAAAAT
Found at i:2407546 original size:2 final size:2
Alignment explanation
Indices: 2407491--2407531 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2407481 AATGTCCATT
2407491 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
2407532 TGGAAAATGA
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:2408494 original size:3 final size:3
Alignment explanation
Indices: 2408486--2408521 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2408476 AAATATTAAT
2408486 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2408522 CGTATCACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2414753 original size:2 final size:2
Alignment explanation
Indices: 2414737--2414780 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2414727 GTCAACAAAC
* *
2414737 AT AT AT AC AT TT AT 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 AT AT AT AT AT AT AT
2414779 AT
1 AT
2414781 TAGGATTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2421158 original size:24 final size:24
Alignment explanation
Indices: 2421123--2421173 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
2421113 ACACCCTCGA
2421123 CGGCATCCACTGAAGCAT-TCTCAT
1 CGGCATCCACTGAAGCATCT-TCAT
* *
2421147 CGGCATCGACTGCAGCATCTTCAT
1 CGGCATCCACTGAAGCATCTTCAT
2421171 CGG
1 CGG
2421174 AAGGCTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.24
Consensus pattern (24 bp):
CGGCATCCACTGAAGCATCTTCAT
Found at i:2421199 original size:39 final size:38
Alignment explanation
Indices: 2421156--2421406 Score: 135
Period size: 39 Copynumber: 6.4 Consensus size: 38
2421146 TCGGCATCGA
* * * *
2421156 CTGCAGCATCTTCATCGGAAGGCTCCATAGTAACCTTCG
1 CTGCAGCACCATCATCGGAA-GCTCCACAATAACCTTCG
* * *
2421195 CTGCATCACCATCATCGGAAGCTCCACAATAACCTCCA
1 CTGCAGCACCATCATCGGAAGCTCCACAATAACCTTCG
** * * * ** *
2421233 CTATAGCACCCTCATCGGCAGGGTCGGCAATAACCTCCG
1 CTGCAGCACCATCATCGG-AAGCTCCACAATAACCTTCG
* * * *** *
2421272 CTGCAGCACCCTCATCGGCAGGGTCGGTAATAACCTCCG
1 CTGCAGCACCATCATCGG-AAGCTCCACAATAACCTTCG
* * * *
2421311 CTGCAGCACCCTCATCGGCAGGGT-CAGCAATAACCTCCG
1 CTGCAGCACCATCATCGG-AAGCTCCA-CAATAACCTTCG
* * * *
2421350 TTGCAGCACCCTCATCGGGAACCTCCAGAATAACCTCCTCCG
1 CTGCAGCACCATCATC-GGAAGCTCCACAATAACCT--T-CG
*
2421392 CTGCAGCACCCTCAT
1 CTGCAGCACCATCAT
2421407 TGGCAAGGTC
Statistics
Matches: 176, Mismatches: 29, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
38 28 0.16
39 128 0.73
40 4 0.02
42 16 0.09
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.19
Consensus pattern (38 bp):
CTGCAGCACCATCATCGGAAGCTCCACAATAACCTTCG
Found at i:2421327 original size:78 final size:78
Alignment explanation
Indices: 2421186--2421422 Score: 271
Period size: 78 Copynumber: 3.0 Consensus size: 78
2421176 GGCTCCATAG
* * * * * * **
2421186 TAACCTTCGCTGCATCACCATCATCGG-AAGCTCCACAATAACCTCCACTATAGCACCCTCATCG
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCCAGAATAACCTCCGCTGCAGCACCCTCATCG
2421250 GCAGGGTCGGCAA
66 GCAGGGTCGGCAA
*** *
2421263 TAACCTCCGCTGCAGCACCCTCATCGGCAGGGT-CGGTAATAACCTCCGCTGCAGCACCCTCATC
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCCAG-AATAACCTCCGCTGCAGCACCCTCATC
*
2421327 GGCAGGGTCAGCAA
65 GGCAGGGTCGGCAA
* *
2421341 TAACCTCCGTTGCAGCACCCTCATCGGGAACCTCCAGAATAACCTCCTCCGCTGCAGCACCCTCA
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCCAGAATAA---CCTCCGCTGCAGCACCCTCA
* *
2421406 TTGGCAAGGTCGGCAA
63 TCGGCAGGGTCGGCAA
2421422 T
1 T
2421423 TGTTGGATCT
Statistics
Matches: 134, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
77 25 0.19
78 73 0.54
79 2 0.01
81 34 0.25
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.19
Consensus pattern (78 bp):
TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCCAGAATAACCTCCGCTGCAGCACCCTCATCG
GCAGGGTCGGCAA
Found at i:2421403 original size:42 final size:39
Alignment explanation
Indices: 2421186--2421412 Score: 190
Period size: 39 Copynumber: 5.8 Consensus size: 39
2421176 GGCTCCATAG
* * * *
2421186 TAACCTTCGCTGCATCACCATCATCGG-AAGCTCCA-CAA
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCT-CAGCAA
* ** *** *
2421224 TAACCTCCACTATAGCACCCTCATCGGCAGGGTCGGCAA
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCAGCAA
*** * *
2421263 TAACCTCCGCTGCAGCACCCTCATCGGCAGGGTCGGTAA
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCAGCAA
***
2421302 TAACCTCCGCTGCAGCACCCTCATCGGCAGGGTCAGCAA
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCAGCAA
* *
2421341 TAACCTCCGTTGCAGCACCCTCATCGGGAACCTCCAG-AA
1 TAACCTCCGCTGCAGCACCCTCATCGGCAACCT-CAGCAA
*
2421380 TAACCTCCTCCGCTGCAGCACCCTCATTGGCAA
1 TAA---CCTCCGCTGCAGCACCCTCATCGGCAA
2421413 GGTCGGCAAT
Statistics
Matches: 160, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 22 0.14
39 111 0.69
40 3 0.02
42 24 0.15
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (39 bp):
TAACCTCCGCTGCAGCACCCTCATCGGCAACCTCAGCAA
Found at i:2424332 original size:12 final size:12
Alignment explanation
Indices: 2424283--2424338 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
2424273 ATCATTTTAA
*
2424283 TAATAATATTAAT
1 TAATAATA-TATT
* *
2424296 TATTAACATATT
1 TAATAATATATT
2424308 TAA-AATATATT
1 TAATAATATATT
* *
2424319 TATTAATATTTT
1 TAATAATATATT
2424331 TAATAATA
1 TAATAATA
2424339 AAATATAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
11 9 0.26
12 19 0.56
13 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATAATATATT
Found at i:2424778 original size:23 final size:21
Alignment explanation
Indices: 2424751--2424803 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
2424741 TAGTCTAATA
2424751 ATATTATAAAAATTACTTAAAAT
1 ATATTATAAAAATT--TTAAAAT
*
2424774 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
2424797 ATATTAT
1 ATATTAT
2424804 GATATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
22 3 0.11
23 13 0.48
24 3 0.11
25 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:2425535 original size:93 final size:93
Alignment explanation
Indices: 2425375--2425591 Score: 263
Period size: 93 Copynumber: 2.3 Consensus size: 93
2425365 AGCCATTTTT
* * * * *
2425375 GAAAAGTGAAGAGAGCAAGTGTTTGATGAAAGCAACCAGTGTTAAGAGAGCAACAAAAAAGAGCA
1 GAAAAGGGAAGAGAGCAAATGTTTGATGAAAACAACCAGTGTGAAGAGAGCAACAAAAAAGAACA
* * * *
2425440 CAAGGTGTGAAGAGAGCGACGAAAGAGA
66 CAAAGTGTGAAGAGAGCAAAGAAAGAAA
* * * *
2425468 GAAAAGGGAAGATATCAAATGTTTGATGAAAACAACCAGTGTGAAGAGAGCAACAGAAGAGAACA
1 GAAAAGGGAAGAGAGCAAATGTTTGATGAAAACAACCAGTGTGAAGAGAGCAACAAAAAAGAACA
*
2425533 CAAAGTGTGAAGAGAGCAAAGGAAGAAA
66 CAAAGTGTGAAGAGAGCAAAGAAAGAAA
* * * **
2425561 GAAAAGGAAAAAGAGTAAGCGTTTGATGAAA
1 GAAAAGGGAAGAGAGCAAATGTTTGATGAAA
2425592 GCAATCAACC
Statistics
Matches: 103, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
93 103 1.00
ACGTcount: A:0.49, C:0.09, G:0.29, T:0.12
Consensus pattern (93 bp):
GAAAAGGGAAGAGAGCAAATGTTTGATGAAAACAACCAGTGTGAAGAGAGCAACAAAAAAGAACA
CAAAGTGTGAAGAGAGCAAAGAAAGAAA
Found at i:2426347 original size:30 final size:30
Alignment explanation
Indices: 2426313--2427602 Score: 676
Period size: 30 Copynumber: 43.2 Consensus size: 30
2426303 GAATTAAAAA
* *
2426313 AATGTATGATGAAAAGGGAAGAGAGCACCC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* *
2426343 AATGTTTGATGAATAA-GGAATAGAGAAACC
1 AATGTTTGATGAA-AAGGGAAGAGAGCAACC
* * * *
2426373 AACGTTTGATGAAAAGGAAAGATAGC-ACGT
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
* * * *
2426403 AGTGTTTGATGAAAAGGAAATATAGCAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * *
2426433 ATTGTTTGATGAAAAGGAAAGAGTGC-ACGC
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
* * * * *
2426463 AGTGTTTGATCAAAAAGGAGGAGATCAA-C
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * * * *
2426492 AACCGTTTCATGAAAATGGAGGAGAACAACC
1 AA-TGTTTGATGAAAAGGGAAGAGAGCAACC
* *
2426523 AGTATTTGATGAAAAGGGAAGAGAGCAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * *
2426553 AATGTTTAATGAAAAGGGAAGAGAGTATCC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
** * * *
2426583 GGTATTTGATGAAAATGGAAGAGAACAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * * * * ** *
2426613 AATGTTTAATAAAAATGAAATAGAATAACT
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * ** *
2426643 AGTGTTTAAAAAAAAGGGAAGAGAGTAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * * * * *
2426673 AGTGTTCGATGAAAAGGGAAAAGGGTACCC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* *
2426703 AATGTTTGATGAAAAGGAAAAAGAGCAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * *
2426733 -ATAGTTTGACGAAAAGGGAAGAAAAC-ACGC
1 AAT-GTTTGATGAAAAGGGAAGAGAGCAAC-C
* * * * *
2426763 ATTGTTTGATAAAAAAGAGAATA-AGTAACC
1 AATGTTTGAT-GAAAAGGGAAGAGAGCAACC
* * * * *
2426793 AGTGTTTGATGAAAAGGGAAAAAAACTACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * *
2426823 AATATTTGATGAACAGGGAA-A-A--ATATC
1 AATGTTTGATGAAAAGGGAAGAGAGCA-ACC
* * **
2426850 AATGTTTGATGAAAATGTGAA-AGAGTATGC
1 AATGTTTGATGAAAA-GGGAAGAGAGCAACC
* *
2426880 ATTGTTTGATGAAAAGGGAAGAGAGTAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * * *
2426910 AATGTTTGATAAAAAAAGGAAAGAAAGCAACT
1 AATGTTTGAT--GAAAAGGGAAGAGAGCAACC
* * *
2426942 AGTTTTTGATGAAAA--AAAGAGAGC-ACAC
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
*
2426970 AATGTTTGATGAAAAGGGAAGAGAACAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * * *
2427000 AGTGTTTGATAAAAAGAGAAGTGAGC-ACGC
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
** * * *
2427030 GGTGCTTGATGAAAAGGGATGAGGGCAA-C
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * * * * *
2427059 ATTTTTTTAATGAAAAGGGAAGATATCAATC
1 A-ATGTTTGATGAAAAGGGAAGAGAGCAACC
* **
2427090 GATGTTTGATGAAAAAAGAA-AGAGC-ACAC
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
* * * * *
2427119 AATATTTAATGAGAATGGAAGAGAACAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* ** ** *
2427149 ATTGTTTGATGAAAATTGAAGAGATTAACG
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * ** *
2427179 AGTGTTTAATGAAAATAGAAGAGATC-ACAC
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
* * * * *
2427209 AATGTTTGATGAATATGAAAGATAGAAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * * *
2427239 AATGTTTGATGAAAAAGGAATAAAACAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* *
2427269 AGTGTTTGACT-AAAAGGAAAGAGAGCAACC
1 AATGTTTGA-TGAAAAGGGAAGAGAGCAACC
* *
2427299 AATGTTTGATGCAATA-GGAAGAGAGCAATC
1 AATGTTTGATG-AAAAGGGAAGAGAGCAACC
* **
2427329 AGTGTTTGATGAAAAGAAAAGAGA-CAAACC
1 AATGTTTGATGAAAAGGGAAGAGAGC-AACC
* * * * *
2427359 AAGGTTTGATGAAAAAGAAAGAGGGCAATC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* *
2427389 AATGTTTGATGAAAAAGGAAAAGAGC-ACTC
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
* * * *
2427419 AGTGTTTGATGAAAATGGAATAGA-CTAACA
1 AATGTTTGATGAAAAGGGAAGAGAGC-AACC
* *
2427449 AATGTTTGATGAAAAGGAAAGAGAGCACCC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* *
2427479 AATGTTTTATGAAAAGGG--TAGAGC-ACAC
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
* * * * * *
2427507 AATATTTAACGAAAAAGGAATAGAGC-ACAA
1 AATGTTTGATGAAAAGGGAAGAGAGCAAC-C
** * * *
2427537 AATGTTTGACAAAAAGAGAAGAGAACAATC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
* * *
2427567 AGTGTTTGATGAAAAGTGAAGAGAGAAACC
1 AATGTTTGATGAAAAGGGAAGAGAGCAACC
*
2427597 AGTGTT
1 AATGTT
2427603 AGAGCAACCA
Statistics
Matches: 957, Mismatches: 254, Indels: 98
0.73 0.19 0.07
Matches are distributed among these distances:
27 18 0.02
28 48 0.05
29 57 0.06
30 774 0.81
31 37 0.04
32 23 0.02
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.21
Consensus pattern (30 bp):
AATGTTTGATGAAAAGGGAAGAGAGCAACC
Found at i:2426966 original size:28 final size:28
Alignment explanation
Indices: 2426929--2426984 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
2426919 TAAAAAAAGG
* *
2426929 AAAGAAAGCA-ACTAGTTTTTGATGAAAA
1 AAAGAAAGCACAC-AATGTTTGATGAAAA
*
2426957 AAAGAGAGCACACAATGTTTGATGAAAA
1 AAAGAAAGCACACAATGTTTGATGAAAA
2426985 GGGAAGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.21
Consensus pattern (28 bp):
AAAGAAAGCACACAATGTTTGATGAAAA
Found at i:2427681 original size:28 final size:29
Alignment explanation
Indices: 2427603--2427708 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 29
2427593 AACCAGTGTT
2427603 AGAGCAACCAATGTTTGATGAAAAGGGAA
1 AGAGCAACCAATGTTTGATGAAAAGGGAA
* * * * *
2427632 AAAACATA-CAATATTTAATGAAAAGGG-G
1 AGAGCA-ACCAATGTTTGATGAAAAGGGAA
2427660 AGAGCAACCAATGTTTGATGAAAAGGGAA
1 AGAGCAACCAATGTTTGATGAAAAGGGAA
* *
2427689 ACGAACACCCAATGTTTGAT
1 A-GAGCAACCAATGTTTGAT
2427709 AATATTATTA
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.02
28 21 0.34
29 22 0.36
30 17 0.28
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (29 bp):
AGAGCAACCAATGTTTGATGAAAAGGGAA
Found at i:2427703 original size:30 final size:29
Alignment explanation
Indices: 2427607--2427708 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 29
2427597 AGTGTTAGAG
*
2427607 CAACCAATGTTTGATGAAAAGGGAAAAAA
1 CAACCAATGTTTGATGAAAAGGGAAAGAA
* * * *
2427636 CATA-CAATATTTAATGAAAAGGG-GAGAG
1 CA-ACCAATGTTTGATGAAAAGGGAAAGAA
2427664 CAACCAATGTTTGATGAAAAGGGAAACGAA
1 CAACCAATGTTTGATGAAAAGGGAAA-GAA
*
2427694 CACCCAATGTTTGAT
1 CAACCAATGTTTGAT
2427709 AATATTATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.02
28 21 0.36
29 20 0.34
30 17 0.29
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.21
Consensus pattern (29 bp):
CAACCAATGTTTGATGAAAAGGGAAAGAA
Found at i:2427752 original size:21 final size:21
Alignment explanation
Indices: 2427710--2427782 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
2427700 ATGTTTGATA
* *
2427710 ATATTATTAATAATTTATTAT
1 ATATTATTAATAATTAAATAT
2427731 ATATTATTAA-AATTAAA-AT
1 ATATTATTAATAATTAAATAT
* *
2427750 ATATAATACAATAAATTAAA-AT
1 ATATTAT-TAAT-AATTAAATAT
2427772 -TATTATTAATA
1 ATATTATTAATA
2427783 TATTTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.21
20 10 0.23
21 15 0.35
22 9 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATTAATAATTAAATAT
Found at i:2427796 original size:17 final size:16
Alignment explanation
Indices: 2427771--2427804 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2427761 TAAATTAAAA
*
2427771 TTATTATTAATATATTT
1 TTATAATTAATAT-TTT
2427788 TTATAATTAATATTTT
1 TTATAATTAATATTTT
2427804 T
1 T
2427805 ATTAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATAATTAATATTTT
Found at i:2428068 original size:30 final size:30
Alignment explanation
Indices: 2428032--2428365 Score: 130
Period size: 30 Copynumber: 11.1 Consensus size: 30
2428022 ACGTTTTCCA
* * * *
2428032 AAAAAGAGCATGTAGTGCTTGATGAAAAGG
1 AAAAAGAGCAAGCAATGTTTGATGAAAAGG
* *
2428062 AAAAAGAGCACGCAATGTTTGATGAAAAATG
1 AAAAAGAGCAAGCAATGTTTGATG-AAAAGG
* * *
2428093 AAATAGAGCAACCATTGTTTGATGAAAAGG
1 AAAAAGAGCAAGCAATGTTTGATGAAAAGG
* ** *
2428123 GAAAAGAGCACA-CTGTGTTTGATCAAAAGG
1 AAAAAGAGCA-AGCAATGTTTGATGAAAAGG
* * * *
2428153 AAAGAA-AACAACCAGTGTTTCATGAAAAGG
1 AAA-AAGAGCAAGCAATGTTTGATGAAAAGG
** * * ** * *
2428183 GTATATAATAACCAATATTTGATGAAAATGG
1 AAAAAGAGCAAGCAATGTTTGATGAAAA-GG
* ** *
2428214 -AAGAGATTAA-CAAGTGTTTGATGAAAA-T
1 AAAAAGAGCAAGCAA-TGTTTGATGAAAAGG
* * * *
2428242 AGAAGAGAACAACCACTGTTTGATGAAAA-G
1 A-AAAAGAGCAAGCAATGTTTGATGAAAAGG
* **
2428272 AGAATAGAGCACCCAATGTTTGATGAAAA-G
1 A-AAAAGAGCAAGCAATGTTTGATGAAAAGG
* *
2428302 AAAAGAGAACAA-CCATAGTTTGATGAAAAGTG
1 AAAA-AGAGCAAGCAAT-GTTTGATGAAAAG-G
* *
2428334 AAGAAA-A-CACGCAATGTTTGATAAAAATGG
1 AA-AAAGAGCAAGCAATGTTTGATGAAAA-GG
2428364 AA
1 AA
2428366 GAAGTAACCA
Statistics
Matches: 239, Mismatches: 48, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
29 10 0.04
30 186 0.78
31 37 0.15
32 4 0.02
33 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.21
Consensus pattern (30 bp):
AAAAAGAGCAAGCAATGTTTGATGAAAAGG
Found at i:2428256 original size:60 final size:60
Alignment explanation
Indices: 2428192--2428360 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 60
2428182 GGTATATAAT
** * *
2428192 AACCAATATTTGATGAAAATG-GAAGAGATTA-ACAAGTGTTTGATGAAAATAGAAGAGAAC
1 AACCAATATTTGATGAAAA-GAGAAGAGAGCACACAA-TGTTTGATGAAAAGAAAAGAGAAC
* * * *
2428252 AACCACTGTTTGATGAAAAGAGAATAGAGCACCCAATGTTTGATGAAAAGAAAAGAGAAC
1 AACCAATATTTGATGAAAAGAGAAGAGAGCACACAATGTTTGATGAAAAGAAAAGAGAAC
* * * * *
2428312 AACC-ATAGTTTGATGAAAAGTGAAGAAAACACGCAATGTTTGATAAAAA
1 AACCAATA-TTTGATGAAAAGAGAAGAGAGCACACAATGTTTGATGAAAA
2428361 TGGAAGAAGT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
59 2 0.02
60 85 0.94
61 3 0.03
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (60 bp):
AACCAATATTTGATGAAAAGAGAAGAGAGCACACAATGTTTGATGAAAAGAAAAGAGAAC
Found at i:2428323 original size:90 final size:89
Alignment explanation
Indices: 2428074--2428360 Score: 253
Period size: 90 Copynumber: 3.2 Consensus size: 89
2428064 AAAGAGCACG
* * *
2428074 CAATGTTTGATGAAAA-ATGAAATAGAGCAACCATTGTTTGATGAAAAGGGAAAAGAGCAC-ACT
1 CAATGTTTGATGAAAAGA-G-AATAGAGCAACCAATGTTTGATGAAAA-GGAAAAGAGAACAACA
* * *
2428137 GTGTTTGATCAAAAGGAAAGAAAACAAC
63 ATGTTTGATGAAAATG-AAGAAAACAAC
* * * * * ** * **
2428165 CAGTGTTTCATGAAAAGGGTATATAATAACCAATATTTGATGAAAATGG--AAGAGATTAACAAG
1 CAATGTTTGATGAAAAGAGAATAGAGCAACCAATGTTTGATGAAAA-GGAAAAGAGAACAACAA-
*
2428228 TGTTTGATGAAAATAGAAGAGAACAAC
64 TGTTTGATGAAAAT-GAAGAAAACAAC
* * *
2428255 CACTGTTTGATGAAAAGAGAATAGAGCACCCAATGTTTGATGAAAA-GAAAAGAGAACAACCATA
1 CAATGTTTGATGAAAAGAGAATAGAGCAACCAATGTTTGATGAAAAGGAAAAGAGAACAACAAT-
2428319 GTTTGATGAAAAGTGAAGAAAAC-AC
65 GTTTGATGAAAA-TGAAGAAAACAAC
*
2428344 GCAATGTTTGATAAAAA
1 -CAATGTTTGATGAAAA
2428361 TGGAAGAAGT
Statistics
Matches: 154, Mismatches: 33, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
88 6 0.04
89 5 0.03
90 126 0.82
91 17 0.11
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.22
Consensus pattern (89 bp):
CAATGTTTGATGAAAAGAGAATAGAGCAACCAATGTTTGATGAAAAGGAAAAGAGAACAACAATG
TTTGATGAAAATGAAGAAAACAAC
Found at i:2428707 original size:16 final size:17
Alignment explanation
Indices: 2428674--2428707 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2428664 AAAGCAACCA
2428674 GTGTGAAGAGAGCACAAG
1 GTGTGAAGAGAG-ACAAG
2428692 GTGTGAAGAGAG-CAAG
1 GTGTGAAGAGAGACAAG
2428708 TGTTTGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
18 12 0.75
ACGTcount: A:0.38, C:0.09, G:0.41, T:0.12
Consensus pattern (17 bp):
GTGTGAAGAGAGACAAG
Found at i:2429565 original size:30 final size:28
Alignment explanation
Indices: 2429505--2429580 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 28
2429495 AAAAATGTAC
* * *
2429505 GATGAAAAGGGAATAGAGCCCAATGTTT
1 GATGAAAAGGGAAAAGAGACCAACGTTT
2429533 GATGAAAAGGGAAAAGAGAAACCAACGTTT
1 GATGAAAAGGGAAAAGAG--ACCAACGTTT
**
2429563 GATGAAAAGAAAAAAGAG
1 GATGAAAAGGGAAAAGAG
2429581 CATGTAGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 17 0.41
30 24 0.59
ACGTcount: A:0.50, C:0.08, G:0.28, T:0.14
Consensus pattern (28 bp):
GATGAAAAGGGAAAAGAGACCAACGTTT
Found at i:2429628 original size:30 final size:30
Alignment explanation
Indices: 2429524--2429877 Score: 164
Period size: 30 Copynumber: 11.8 Consensus size: 30
2429514 GGAATAGAGC
* * *
2429524 CCAATGTTTGATGAAAAGGGAAA-AGAGAAA
1 CCAATGTTTAATGAAAA-AGAAAGAGAGCAA
* * * *
2429554 CCAACGTTTGATG-AAAAGAAAAAAGAGCAT
1 CCAATGTTTAATGAAAAAG-AAAGAGAGCAA
** * ** *
2429584 GTAGTGTTGGATGAAAAAGAAATAGAGCAA
1 CCAATGTTTAATGAAAAAGAAAGAGAGCAA
* * *
2429614 CCATTGTTTAATGAAAAGGAAATAGAGC-A
1 CCAATGTTTAATGAAAAAGAAAGAGAGCAA
* * * * * *
2429643 CACAGTTTTTAATCAAAATGGAAGAAAGCAA
1 C-CAATGTTTAATGAAAAAGAAAGAGAGCAA
* * * * **
2429674 CCACTGTTTCATGAAAAAGGAGGAGAATAA
1 CCAATGTTTAATGAAAAAGAAAGAGAGCAA
* *
2429704 CCAGTATTTAATGAAAAATG-AAGAGTA-C-A
1 CCAATGTTTAATGAAAAA-GAAAGAG-AGCAA
* ** *
2429733 CACAATGTTTGATGGGAAAGGAAGAGAGCAA
1 C-CAATGTTTAATGAAAAAGAAAGAGAGCAA
* * * *
2429764 CCAATGTTTAATGAAAAGGGAAGATAGTAA
1 CCAATGTTTAATGAAAAAGAAAGAGAGCAA
* * * * * *
2429794 CCAATGTTTGATGAAAAGGGAAGATAACAC
1 CCAATGTTTAATGAAAAAGAAAGAGAGCAA
* *
2429824 CCAATGTTTGATGAAAAAGAAAAAGAGCAA
1 CCAATGTTTAATGAAAAAGAAAGAGAGCAA
* *
2429854 CC-ATAGTTTGATGAAAAGGAAAGA
1 CCAAT-GTTTAATGAAAAAGAAAGA
2429878 AATCACATAA
Statistics
Matches: 251, Mismatches: 61, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
28 1 0.00
29 14 0.06
30 225 0.90
31 11 0.04
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (30 bp):
CCAATGTTTAATGAAAAAGAAAGAGAGCAA
Found at i:2429742 original size:60 final size:59
Alignment explanation
Indices: 2429650--2429934 Score: 195
Period size: 60 Copynumber: 4.8 Consensus size: 59
2429640 GCACACAGTT
* * * * * * * *
2429650 TTTAATCAAAATGGAAGAAAGCAACCACTGTTTCATGAAAAAGGAGGAGAATAACCAGTA
1 TTTAATGAAAAAGGAAG-AAGTAACCAATGTTTGATGAAAAAGGAAGAGAACAACCAATA
* ** * *
2429710 TTTAATGAAAAATGAAG-AGTACACACAATGTTTGATGGGAAAGGAAGAGAGCAACCAATG
1 TTTAATGAAAAAGGAAGAAGTA-AC-CAATGTTTGATGAAAAAGGAAGAGAACAACCAATA
* * * * *
2429770 TTTAATGAAAAGGGAAGATAGTAACCAATGTTTGATGAAAAGGGAAGATAACACCCAATG
1 TTTAATGAAAAAGGAAGA-AGTAACCAATGTTTGATGAAAAAGGAAGAGAACAACCAATA
* * * * * *
2429830 TTTGATGAAAAAGAAAAAGAGCAACC-ATAGTTTGATG-AAAAGGAA-AGAA-ATCACATAATG
1 TTTAATGAAAAAGGAAGA-AGTAACCAAT-GTTTGATGAAAAAGGAAGAGAACA--AC-CAATA
* * *
2429890 TTTGAT-AAAAAGGGAAGAAGTAACCAGTGTTTGATGAAAAGGGAA
1 TTTAATGAAAAA-GGAAGAAGTAACCAATGTTTGATGAAAAAGGAA
2429935 AATATATACT
Statistics
Matches: 178, Mismatches: 36, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
57 1 0.01
58 6 0.03
59 31 0.17
60 134 0.75
61 2 0.01
62 4 0.02
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (59 bp):
TTTAATGAAAAAGGAAGAAGTAACCAATGTTTGATGAAAAAGGAAGAGAACAACCAATA
Found at i:2429756 original size:90 final size:88
Alignment explanation
Indices: 2429620--2429878 Score: 222
Period size: 90 Copynumber: 2.9 Consensus size: 88
2429610 GCAACCATTG
* * * *
2429620 TTTAATG-AAAAGGAA-ATAGAGCACACAGTTTTTAATCAAAATGGAAGAAAGCAACCACTGTTT
1 TTTAATGAAAAAGGAAGATA-A-CACACAATGTTTGATGAAAA-GGAAGAAAGCAACCA-TGTTT
* * *
2429683 CATGAAAAAGGAGGAGAATAACCAGTA
62 AATGAAAAAGGAAGAGAATAACCAATA
* * *
2429710 TTTAATGAAAAATGAAGAGT-ACACACAATGTTTGATGGGAAAGGAAGAGAGCAACCAATGTTTA
1 TTTAATGAAAAAGGAAGA-TAACACACAATGTTTGAT-GAAAAGGAAGAAAGCAACC-ATGTTTA
* * * *
2429774 ATGAAAAGGGAAGATAGTAACCAATG
63 ATGAAAAAGGAAGAGAATAACCAATA
* * * * * *
2429800 TTTGATGAAAAGGGAAGATAACACCCAATGTTTGATGAAAAAGAAAAAGAGCAACCATAGTTTGA
1 TTTAATGAAAAAGGAAGATAACACACAATGTTTGATGAAAAGGAAGAA-AGCAACCAT-GTTTAA
2429865 TG-AAAAGGAA-AGAA
64 TGAAAAAGGAAGAGAA
2429879 ATCACATAAT
Statistics
Matches: 135, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
88 2 0.01
89 18 0.13
90 101 0.75
91 12 0.09
92 1 0.01
93 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.20
Consensus pattern (88 bp):
TTTAATGAAAAAGGAAGATAACACACAATGTTTGATGAAAAGGAAGAAAGCAACCATGTTTAATG
AAAAAGGAAGAGAATAACCAATA
Found at i:2429890 original size:90 final size:87
Alignment explanation
Indices: 2429730--2430056 Score: 243
Period size: 90 Copynumber: 3.7 Consensus size: 87
2429720 AATGAAGAGT
* ** * * * * *
2429730 ACACACAATGTTTGATGGGAAAGGAAGAGAGCAACCAATGTTTAATGAAAAGGGAAGATAGTA-A
1 ACACCCAATGTTTGATGAAAAAGGAAAAGAGCAACC-ATATTTGATGAAAAGGAAAGA-AATACA
*
2429794 CCAATGTTTGATGAAAAGGGAAGATA
64 -TAATGTTTGATGAAAAGGGAAGA-A
*
2429820 ACACCCAATGTTTGATGAAAAAGAAAAAGAGCAACCATAGTTTGATGAAAAGGAAAGAAATCACA
1 ACACCCAATGTTTGATGAAAAAGGAAAAGAGCAACCATA-TTTGATGAAAAGGAAAGAAAT-ACA
*
2429885 TAATGTTTGATAAAAAGGGAAGAA
64 TAATGTTTGATGAAAAGGGAAGAA
** * * * * * * *
2429909 GTAACCAGTGTTTGATGAAAAGGGAAAATA-TATACTAGTATTTGAT-AAACAGGGAA-AAAT--
1 ACACCCAATGTTTGATGAAAAAGGAAAAGAGCA-ACCA-TATTTGATGAAA-AGGAAAGAAATAC
*
2429969 ATCAATGTTTGATGAAAAGGGAATAGA
63 AT-AATGTTTGATGAAAAGGGAAGA-A
* ** * * ** *
2429996 GCATGCATTGTTTGATGAAAAGGGAAAAGAATAACCAATATTTGATAAAAAGGAAAGAAAT
1 ACACCCAATGTTTGATGAAAAAGGAAAAGAGCAACC-ATATTTGATGAAAAGGAAAGAAAT
2430057 TAACTAGCGT
Statistics
Matches: 195, Mismatches: 30, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
85 2 0.01
86 20 0.10
87 41 0.21
88 18 0.09
89 42 0.22
90 71 0.36
91 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (87 bp):
ACACCCAATGTTTGATGAAAAAGGAAAAGAGCAACCATATTTGATGAAAAGGAAAGAAATACATA
ATGTTTGATGAAAAGGGAAGAA
Found at i:2429893 original size:30 final size:30
Alignment explanation
Indices: 2429731--2430056 Score: 142
Period size: 30 Copynumber: 11.0 Consensus size: 30
2429721 ATGAAGAGTA
* * *
2429731 CACACAATGTTTGATGGGAAAGG-AAGAGAG
1 CACACAATGTTTGAT-GAAAAGGAAAGAAAT
* * *
2429761 CA-ACCAATGTTTAATGAAAAGGGAAGATAGT
1 CACA-CAATGTTTGATGAAAAGGAAAGA-AAT
* *
2429792 AAC-CAATGTTTGATGAAAAGGGAAGATAA-
1 CACACAATGTTTGATGAAAAGGAAAGA-AAT
* * *
2429821 CACCCAATGTTTGATGAAAAAGAAA-AAGAG
1 CACACAATGTTTGATGAAAAGGAAAGAA-AT
*
2429851 CA-ACCATAGTTTGATGAAAAGGAAAGAAAT
1 CACACAAT-GTTTGATGAAAAGGAAAGAAAT
* * * *
2429881 CACATAATGTTTGATAAAAAGGGAAGAAGT
1 CACACAATGTTTGATGAAAAGGAAAGAAAT
* * *
2429911 AAC-CAGTGTTTGATGAAAAGGGAAA-ATAT
1 CACACAATGTTTGATGAAAA-GGAAAGAAAT
* * * *
2429940 -ATACTAGTATTTGAT-AAACAGGGAA-AAAT
1 CACAC-AATGTTTGATGAAA-AGGAAAGAAAT
* * * * *
2429969 -A-TCAATGTTTGATGAAAAGGGAATAGAG
1 CACACAATGTTTGATGAAAAGGAAAGAAAT
** *
2429997 CATGCATTGTTTGATGAAAAGGGAAA-AGAAT
1 CACACAATGTTTGATGAAAA-GGAAAGA-AAT
* * *
2430028 AAC-CAATATTTGATAAAAAGGAAAGAAAT
1 CACACAATGTTTGATGAAAAGGAAAGAAAT
2430057 TAACTAGCGT
Statistics
Matches: 229, Mismatches: 46, Indels: 43
0.72 0.14 0.14
Matches are distributed among these distances:
27 14 0.06
28 8 0.03
29 50 0.22
30 145 0.63
31 12 0.05
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (30 bp):
CACACAATGTTTGATGAAAAGGAAAGAAAT
Found at i:2430844 original size:31 final size:31
Alignment explanation
Indices: 2430806--2430961 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
2430796 CCCGAAGGAC
* *
2430806 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
2430837 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2430868 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
2430899 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2430930 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2430961 C
1 C
2430962 CCTCGACCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2431165 original size:23 final size:24
Alignment explanation
Indices: 2431139--2431185 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
2431129 ATATACTTGT
*
2431139 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
2431162 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
2431186 CAGGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:2431726 original size:21 final size:21
Alignment explanation
Indices: 2431696--2431739 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2431686 ATTCTGTCGT
* *
2431696 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2431717 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2431738 TT
1 TT
2431740 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2434751 original size:31 final size:31
Alignment explanation
Indices: 2434713--2434868 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
2434703 CCCGAAGGAC
* *
2434713 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
2434744 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2434775 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
2434806 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2434837 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2434868 C
1 C
2434869 CCTCGACCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2435072 original size:23 final size:24
Alignment explanation
Indices: 2435046--2435092 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
2435036 ATATACTTGT
*
2435046 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
2435069 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
2435093 CAGGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:2435634 original size:21 final size:21
Alignment explanation
Indices: 2435604--2435647 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2435594 ATTCTGTCGT
* *
2435604 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2435625 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2435646 TT
1 TT
2435648 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2436382 original size:30 final size:30
Alignment explanation
Indices: 2436348--2437009 Score: 317
Period size: 30 Copynumber: 22.1 Consensus size: 30
2436338 GAGCACGCAA
*
2436348 TGTTTGATGAAAAGGAAATAGAACAACCAG
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
* * *
2436378 TGTTTGTTGAAAAGGGAAGTGAAC-ACGCAG
1 TGTTTGATGAAAAGGAAAGAGAACAAC-CAG
* * * ** *
2436408 TGTTTGATGAAAAGGGATGAGGACAATAAT
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
* * * *
2436438 TTTTTAATGAAAAGGGAAA-AGAGCAATCAG
1 TGTTTGATGAAAA-GGAAAGAGAACAACCAG
**
2436468 TGTTTGATGAAAAAGG-AA-AGAACATGCAG
1 TGTTTGATG-AAAAGGAAAGAGAACAACCAG
* * *
2436497 TATTTGATGAAAAGGGAAGAGAACAACCAT
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
** *
2436527 TGTTTGAT-ACAAATGG-AAGAGATTAACGAG
1 TGTTTGATGA-AAA-GGAAAGAGAACAACCAG
* *
2436557 TGTTTGATGAAAA-TAGAAGA-AAGC-ACACAA
1 TGTTTGATGAAAAGGA-AAGAGAA-CAAC-CAG
* * * * *
2436587 TGTTTGATGAATATGAATGA-AAGAAATCAG
1 TGTTTGATGAAAAGGAAAGAGAA-CAACCAG
*
2436617 TGTTTGATGAAAAATGAATAGAG--CAACCAG
1 TGTTTGATG-AAAAGGAA-AGAGAACAACCAG
* * *
2436647 TGTTTGATTAAATA-GAAAGAGAGCAACCAA
1 TGTTTGATGAAA-AGGAAAGAGAACAACCAG
* * *
2436677 TGTTTGATGCAATGGGAAGAGAACAACCAG
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
** * * *
2436707 TGTTTGACAAAAAGGGAAGAGACCAACCAA
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
* * * *
2436737 TGTTTGACGAAAAGGGAAGAGACCAACCAA
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
* **
2436767 TGTTTGATGAAAAAGGAATA-A-ATCAATTAG
1 TGTTTGATG-AAAAGGAA-AGAGAACAACCAG
*
2436797 TGTTTGATGAAAAAGGAAA-AGAGC-ACTCAG
1 TGTTTGATG-AAAAGGAAAGAGAACAAC-CAG
* * ** * *
2436827 TGTTGGATGAAAATGAAAGAGAGTAACTAA
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
* * * *
2436857 TGTTTGATGAAAAAGAAATAGAGC-ACCAAA
1 TGTTTGATGAAAAGGAAAGAGAACAACC-AG
* ** * *
2436887 TGTTTTATGAAAAAGGGTAGAGCACAA--AA
1 TGTTTGATG-AAAAGGAAAGAGAACAACCAG
** * *
2436916 TGTTTGACAAAAAGGGAAGAGAGCACAA--AA
1 TGTTTGATGAAAA-GGAA-AGAGAACAACCAG
** *
2436946 TGTTTGACAAAAAGGGAAGAGAACAACCAG
1 TGTTTGATGAAAAGGAAAGAGAACAACCAG
* *
2436976 TGTTTGATGAAAAGTG-ATGAGAAAAACCAG
1 TGTTTGATGAAAAG-GAAAGAGAACAACCAG
2437006 TGTT
1 TGTT
2437010 AGAGCAACTA
Statistics
Matches: 495, Mismatches: 101, Indels: 72
0.74 0.15 0.11
Matches are distributed among these distances:
28 22 0.04
29 58 0.12
30 371 0.75
31 40 0.08
32 4 0.01
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (30 bp):
TGTTTGATGAAAAGGAAAGAGAACAACCAG
Found at i:2436708 original size:90 final size:90
Alignment explanation
Indices: 2436348--2436988 Score: 361
Period size: 90 Copynumber: 7.1 Consensus size: 90
2436338 GAGCACGCAA
* * * * * * *
2436348 TGTTTGATG-AAAAGGAAATAGAACAACCAGTGTTTGTTGAAAAGGGAAGTGAAC-ACGCAGTGT
1 TGTTTGATGAAAAAGG-AAGAGAGCAACCAGTGTTTGATGAAAAGGAAAGAGAGCAAC-CAATGT
* * * ** *
2436411 TTGATGAAAAGGGATG-AGGACAATAAT
64 TTGATGAAAAAGGAAGAAAG-CAACCAG
* * * * * ** * *
2436438 TTTTTAATGAAAAGGGAAAAGAGCAATCAGTGTTTGATGAAAAAGGAAAGA-A-CATGCAGTATT
1 TGTTTGATGAAAAAGGAAGAGAGCAACCAGTGTTTGATG-AAAAGGAAAGAGAGCAACCAATGTT
* *
2436501 TGATGAAAAGGGAAGAGAA-CAACCAT
65 TGATGAAAAAGGAAGA-AAGCAACCAG
* ** * * *
2436527 TGTTTGAT-ACAAATGGAAGAGATTAACGAGTGTTTGATGAAAA-TAGAAGAAAGC-ACACAATG
1 TGTTTGATGA-AAAAGGAAGAGAGCAACCAGTGTTTGATGAAAAGGA-AAGAGAGCAAC-CAATG
* * * *
2436589 TTTGATG-AATATGAATGAAAGAAATCAG
63 TTTGATGAAAAAGGAA-GAAAGCAACCAG
* * *
2436617 TGTTTGATGAAAAATGAATAGAGCAACCAGTGTTTGATTAAATA-GAAAGAGAGCAACCAATGTT
1 TGTTTGATGAAAAAGGAAGAGAGCAACCAGTGTTTGATGAAA-AGGAAAGAGAGCAACCAATGTT
* **
2436681 TGATGCAATGGGAAGAGAA-CAACCAG
65 TGATGAAAAAGGAAGA-AAGCAACCAG
* * * * * *
2436707 TGTTTGA-CAAAAAGGGAAGAGACCAACCAATGTTTGACGAAAAGGGAAGAGACCAACCAATGTT
1 TGTTTGATGAAAAA-GGAAGAGAGCAACCAGTGTTTGATGAAAAGGAAAGAGAGCAACCAATGTT
* * **
2436771 TGATGAAAAAGGAATAAATCAATTAG
65 TGATGAAAAAGGAAGAAAGCAACCAG
* * * * *
2436797 TGTTTGATGAAAAAGGAAAAGAGC-ACTCAGTGTTGGATGAAAATGAAAGAGAGTAACTAATGTT
1 TGTTTGATGAAAAAGGAAGAGAGCAAC-CAGTGTTTGATGAAAAGGAAAGAGAGCAACCAATGTT
* * * *
2436861 TGATGAAAAAGAAATAGAGC-ACCAAA
65 TGATGAAAAAGGAAGAAAGCAACC-AG
* * * ** * *
2436887 TGTTTTATGAAAAAGG--GTAGAGC-ACAAAATGTTTGACAAAAAGGGAAGAGAGC-ACAAAATG
1 TGTTTGATGAAAAAGGAAG-AGAGCAAC-CAGTGTTTGATGAAAAGGAAAGAGAGCAAC-CAATG
*
2436948 TTTGA-CAAAAAGGGAAGAGAA-CAACCAG
63 TTTGATGAAAAA-GGAAGA-AAGCAACCAG
2436976 TGTTTGATGAAAA
1 TGTTTGATGAAAA
2436989 GTGATGAGAA
Statistics
Matches: 425, Mismatches: 98, Indels: 57
0.73 0.17 0.10
Matches are distributed among these distances:
87 1 0.00
88 16 0.04
89 127 0.30
90 248 0.58
91 33 0.08
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (90 bp):
TGTTTGATGAAAAAGGAAGAGAGCAACCAGTGTTTGATGAAAAGGAAAGAGAGCAACCAATGTTT
GATGAAAAAGGAAGAAAGCAACCAG
Found at i:2437061 original size:75 final size:75
Alignment explanation
Indices: 2436944--2437084 Score: 178
Period size: 75 Copynumber: 1.9 Consensus size: 75
2436934 GAGAGCACAA
* * *
2436944 AATGTTTGACAAAAAGGGAAGAGAACAACCAGTGTTTGATGAAAAGTGATGAGA-AA-AACCAGT
1 AATGTTTGACAAAAAGGGAAGAGAACAACCAATATTTAATGAAAA-TGA-GAGAGAACAACCAGT
2437007 GTTAGAGCAACT
64 GTTAGAGCAACT
** ** *
2437019 AATGTTTGATGAAAAGGGAAGAGAACATGCAATATTTAATGAAAATGAGAGAGAACACCCAGTGT
1 AATGTTTGACAAAAAGGGAAGAGAACAACCAATATTTAATGAAAATGAGAGAGAACAACCAGTGT
2437084 T
66 T
2437085 TGATAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 4 0.07
74 5 0.09
75 47 0.84
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (75 bp):
AATGTTTGACAAAAAGGGAAGAGAACAACCAATATTTAATGAAAATGAGAGAGAACAACCAGTGT
TAGAGCAACT
Found at i:2437094 original size:30 final size:29
Alignment explanation
Indices: 2437060--2437180 Score: 107
Period size: 30 Copynumber: 4.1 Consensus size: 29
2437050 ATATTTAATG
*
2437060 AAAATGAGAGAGAACACCCAGTGTTTGAT
1 AAAAAGAGAGAGAACACCCAGTGTTTGAT
* * *
2437089 AAAAATAGAAGAGAACACCTAGTGCTTGAT
1 AAAAAGAG-AGAGAACACCCAGTGTTTGAT
* * * *
2437119 CAAAAAGAAAGAGAGCAACCAATGTTTGAT
1 -AAAAAGAGAGAGAACACCCAGTGTTTGAT
* * * *
2437149 GAAAAGGGAAACGAGCACCCAGTGTTTGAT
1 AAAAAGAGAGA-GAACACCCAGTGTTTGAT
2437179 AA
1 AA
2437181 TATTATTAAT
Statistics
Matches: 71, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
29 13 0.18
30 52 0.73
31 6 0.08
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (29 bp):
AAAAAGAGAGAGAACACCCAGTGTTTGAT
Found at i:2437178 original size:60 final size:60
Alignment explanation
Indices: 2437010--2437178 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 60
2437000 AACCAGTGTT
* ** * * * * * *
2437010 AGAGCAACTAATGTTTGATGAAAAGGGAAGAGAACATGCAATATTTAATGAAAATGAGAG
1 AGAGCAACCAATGTTTGATGAAAAGGGAAGAGAACACCCAGTGTTTGATCAAAAAGAAAG
* * * * ** * *
2437070 AGAACACCCAGTGTTTGATAAAAATAGAAGAGAACACCTAGTGCTTGATCAAAAAGAAAG
1 AGAGCAACCAATGTTTGATGAAAAGGGAAGAGAACACCCAGTGTTTGATCAAAAAGAAAG
*
2437130 AGAGCAACCAATGTTTGATGAAAAGGGAA-ACGAGCACCCAGTGTTTGAT
1 AGAGCAACCAATGTTTGATGAAAAGGGAAGA-GAACACCCAGTGTTTGAT
2437179 AATATTATTA
Statistics
Matches: 82, Mismatches: 26, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
59 1 0.01
60 81 0.99
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (60 bp):
AGAGCAACCAATGTTTGATGAAAAGGGAAGAGAACACCCAGTGTTTGATCAAAAAGAAAG
Found at i:2437263 original size:16 final size:15
Alignment explanation
Indices: 2437239--2437273 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2437229 TAAATTAAAA
*
2437239 TTATTATTAATATATT
1 TTATAATTAATAT-TT
2437255 TTATAATTAATATTT
1 TTATAATTAATATTT
2437270 TTAT
1 TTAT
2437274 TAAATTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATAATTAATATTT
Found at i:2437768 original size:30 final size:30
Alignment explanation
Indices: 2437732--2438051 Score: 173
Period size: 30 Copynumber: 10.7 Consensus size: 30
2437722 GCACAACCAA
2437732 TGTTTGATGAAAAGGAAAGAGAACACACAG
1 TGTTTGATGAAAAGGAAAGAGAACACACAG
* * *
2437762 TGTTTGATGAAAAGGAAATAGAGCA-ACCAT
1 TGTTTGATGAAAAGGAAAGAGAACACA-CAG
* *
2437792 TGTTTGATGAAAAGGGAAGAGAACACGCAG
1 TGTTTGATGAAAAGGAAAGAGAACACACAG
* * *
2437822 TGTTTGATCAAAAGGGAAGA-AAGCA-ACCAA
1 TGTTTGATGAAAAGGAAAGAGAA-CACA-CAG
* * *
2437852 TGTTTCATGAAAAAAGAATAGA-ATA-AC-CAA
1 TGTTTGATG-AAAAGGAA-AGAGA-ACACACAG
* * *
2437882 TATTTGATGAAAAGGGAAGAAAGTAATA-A-A-
1 TGTTTGATGAAAA-GGAA-AGAG-AACACACAG
* *
2437912 TGTTTGATGAAAATAGAATAGAGCA-AC-CAG
1 TGTTTGATGAAAA-GGAA-AGAGAACACACAG
* * * * *
2437942 TGTCTGATGAAAAGGGAAGAGAGCACCCAA
1 TGTTTGATGAAAAGGAAAGAGAACACACAG
*
2437972 TGTTTGATGAAAAGGAAAGAAAACA-ACCA-
1 TGTTTGATGAAAAGGAAAGAGAACACA-CAG
* *
2438001 TAGTTTGATGAAAAGGAAAGCA-AGCACGCAG
1 T-GTTTGATGAAAAGGAAAG-AGAACACACAG
* * *
2438032 TGCTTGATAAAAAGGGAAGA
1 TGTTTGATGAAAAGGAAAGA
2438052 AGTAACCAGA
Statistics
Matches: 225, Mismatches: 42, Indels: 47
0.72 0.13 0.15
Matches are distributed among these distances:
28 5 0.02
29 15 0.07
30 187 0.83
31 11 0.05
32 6 0.03
33 1 0.00
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.19
Consensus pattern (30 bp):
TGTTTGATGAAAAGGAAAGAGAACACACAG
Found at i:2437823 original size:60 final size:59
Alignment explanation
Indices: 2437725--2438051 Score: 307
Period size: 60 Copynumber: 5.5 Consensus size: 59
2437715 TTCTTTTGCA
* * * *
2437725 CAACCAATGTTTGATGAAAAGGAAAGAGAACACACAGTGTTTGATGAAAAGGAAATAGAG
1 CAACCAATGTTTGATGAAAAGGGAAGAGAACAC-CAGTGTTTGATGAAAAGGGAAGAAAG
* *
2437785 CAACCATTGTTTGATGAAAAGGGAAGAGAACACGCAGTGTTTGATCAAAAGGGAAGAAAG
1 CAACCAATGTTTGATGAAAAGGGAAGAGAACAC-CAGTGTTTGATGAAAAGGGAAGAAAG
* ** * * * *
2437845 CAACCAATGTTTCATGAAAAAAGAATAGAATAACCAATATTTGATGAAAAGGGAAGAAAG
1 CAACCAATGTTTGATGAAAAGGGAAGAGAA-CACCAGTGTTTGATGAAAAGGGAAGAAAG
* ** ** * * * *
2437905 TAATAAATGTTTGATGAAAATAGAATAGAGCAACCAGTGTCTGATGAAAAGGGAAGAGAG
1 CAACCAATGTTTGATGAAAAGGGAAGAGAAC-ACCAGTGTTTGATGAAAAGGGAAGAAAG
* * * * *
2437965 CACCCAATGTTTGATGAAAAGGAAAGAAAACAACCA-TAGTTTGATGAAAAGGAAAGCAAG
1 CAACCAATGTTTGATGAAAAGGGAAGAGAAC-ACCAGT-GTTTGATGAAAAGGGAAGAAAG
* * *
2438025 C-ACGCAGTGCTTGATAAAAAGGGAAGA
1 CAAC-CAATGTTTGATGAAAAGGGAAGA
2438052 AGTAACCAGA
Statistics
Matches: 217, Mismatches: 46, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
59 2 0.01
60 213 0.98
61 2 0.01
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (59 bp):
CAACCAATGTTTGATGAAAAGGGAAGAGAACACCAGTGTTTGATGAAAAGGGAAGAAAG
Found at i:2438047 original size:90 final size:90
Alignment explanation
Indices: 2437724--2438059 Score: 278
Period size: 90 Copynumber: 3.7 Consensus size: 90
2437714 TTTCTTTTGC
* * * *
2437724 ACAACCA-ATGTTTGATGAAAAGGAAAG-AGAACACACAGTGTTTGATGAAAAGGAAATAGAGCA
1 ACAACCATATGTTTGATGAAAAGGAAAGAAGCA-AC-CAGTGTTTGATAAAAAGGGAAGAGAGCA
* *
2437787 ACCATTGTTTGATGAAAAGGGAAGAGA
64 ACCAATGTTTGATGAAAAGGGAAGAAA
* * * * * * * **
2437814 AC-ACGCA-GTGTTTGATCAAAAGGGAAGAAAGCAACCAATGTTTCATGAAAAA-AGAATAGAAT
1 ACAAC-CATATGTTTGATGAAAAGGAAAG-AAGCAACCAGTGTTTGAT-AAAAAGGGAAGAGAGC
*
2437876 AACCAATATTTGATGAAAAGGGAAGAAA
63 AACCAATGTTTGATGAAAAGGGAAGAAA
** * * * * *
2437904 GTAA-TAAATGTTTGATGAAAATAGAATAG-AGCAACCAGTGTCTGATGAAAAGGGAAGAGAGCA
1 ACAACCATATGTTTGATGAAAA-GGAA-AGAAGCAACCAGTGTTTGATAAAAAGGGAAGAGAGCA
* *
2437967 CCCAATGTTTGATGAAAAGGAAAGAAA
64 ACCAATGTTTGATGAAAAGGGAAGAAA
* *
2437994 ACAACCATA-GTTTGATGAAAAGGAAAGCAAGC-ACGCAGTGCTTGATAAAAAGGGAAGA-AGTA
1 ACAACCATATGTTTGATGAAAAGGAAAG-AAGCAAC-CAGTGTTTGATAAAAAGGGAAGAGAGCA
2438056 ACCA
64 ACCA
2438060 GAAAGCTTTG
Statistics
Matches: 191, Mismatches: 42, Indels: 27
0.73 0.16 0.10
Matches are distributed among these distances:
88 2 0.01
89 18 0.09
90 155 0.81
91 11 0.06
92 5 0.03
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.18
Consensus pattern (90 bp):
ACAACCATATGTTTGATGAAAAGGAAAGAAGCAACCAGTGTTTGATAAAAAGGGAAGAGAGCAAC
CAATGTTTGATGAAAAGGGAAGAAA
Found at i:2450579 original size:3 final size:3
Alignment explanation
Indices: 2450573--2450611 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2450563 CAAAATTACG
2450573 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2450612 TAAATTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2455470 original size:21 final size:21
Alignment explanation
Indices: 2455444--2455486 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2455434 TTTCTGGGTT
* *
2455444 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
2455465 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
2455486 A
1 A
2455487 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:2455561 original size:67 final size:67
Alignment explanation
Indices: 2455466--2455616 Score: 207
Period size: 67 Copynumber: 2.3 Consensus size: 67
2455456 ACCCATTCAA
* * *
2455466 GGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC-TAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTA-AGGGGAATCGATA-CCCCA
2455530 -GGG
64 GGGG
* * *
2455533 GGGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
2455598 GG
66 GG
*
2455600 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
2455617 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
66 5 0.07
67 68 0.91
68 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
GG
Found at i:2455955 original size:29 final size:29
Alignment explanation
Indices: 2455921--2455992 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
2455911 CATATTATGA
**
2455921 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
2455950 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
2455979 TACATGACATGAAT
1 TACATGACATGAAT
2455993 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:2456047 original size:30 final size:31
Alignment explanation
Indices: 2456007--2456065 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
2455997 AGAAAAGTTC
*
2456007 TATGCACTATGTGATAAAAGTATGTAAATGA
1 TATGCACTATGTGATAAAAGTATGGAAATGA
* *
2456038 TATGC-CTATGTGTTAAAGGTATGGAAAT
1 TATGCACTATGTGATAAAAGTATGGAAAT
2456066 ACTATGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (31 bp):
TATGCACTATGTGATAAAAGTATGGAAATGA
Found at i:2456359 original size:22 final size:22
Alignment explanation
Indices: 2456285--2456351 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
2456275 TTATGGACAA
2456285 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2456307 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2456329 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2456351 A
1 A
2456352 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:2462402 original size:21 final size:21
Alignment explanation
Indices: 2462376--2462418 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2462366 TTTCTGGGTT
* *
2462376 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
2462397 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
2462418 A
1 A
2462419 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:2462493 original size:67 final size:67
Alignment explanation
Indices: 2462398--2462548 Score: 207
Period size: 67 Copynumber: 2.3 Consensus size: 67
2462388 ACCCATTCAA
* * *
2462398 GGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC-TAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTA-AGGGGAATCGATA-CCCCA
2462462 -GGG
64 GGGG
* * *
2462465 GGGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
2462530 GG
66 GG
*
2462532 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
2462549 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
66 5 0.07
67 68 0.91
68 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
GG
Found at i:2462884 original size:29 final size:29
Alignment explanation
Indices: 2462850--2462921 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
2462840 CATATTATGA
**
2462850 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
2462879 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
2462908 TACATGACATGAAT
1 TACATGACATGAAT
2462922 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:2462976 original size:30 final size:31
Alignment explanation
Indices: 2462936--2462994 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
2462926 AGAAAAGTTC
*
2462936 TATGCACTATGTGATAAAAGTATGTAAATGA
1 TATGCACTATGTGATAAAAGTATGGAAATGA
* *
2462967 TATGC-CTATGTGTTAAAGGTATGGAAAT
1 TATGCACTATGTGATAAAAGTATGGAAAT
2462995 ACTATGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (31 bp):
TATGCACTATGTGATAAAAGTATGGAAATGA
Done.