Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 7 of 203
Found at i:2152615 original size:137 final size:137
Alignment explanation
Indices: 2152369--2152636 Score: 394
Period size: 137 Copynumber: 2.0 Consensus size: 137
2152359 TTAGGGTTTT
* * * * * *
2152369 CATGTTTCGGGTGCTGGTCTTGAATGTTCTACTGATGGCTGAGATCTGGCATTTTTGTGGATACT
1 CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGATCCGACATTTTTGTGGATACT
* *
2152434 CATCAGCTTGTGTGAGTAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
66 CACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
2152499 AGGTTAC
131 AGGTTAC
*
2152506 CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGTTCCGACATTTTTTGTGGATAC
1 CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGATCCGACA-TTTTTGTGGATAC
* * * * *
2152571 TCGCCCGCTTGTGTGAGCGGCATCGTGCAGC-TACATTTCTACCATCAGCTTGTGTGAGTAGACC
65 TCACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACC
2152635 CA
130 CA
2152637 TTTATGGCTC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 77 0.66
138 39 0.34
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (137 bp):
CATGTTTCAGGTGCTGATCTTGAATGTCCTACCGATGGCTGAGATCCGACATTTTTGTGGATACT
CACCAGCTTGTGTGAGCAGCATCGTGCAGCTTACATTCCGACCATCAGCTTGTGTGAGTAGACCC
AGGTTAC
Found at i:2157500 original size:43 final size:43
Alignment explanation
Indices: 2157437--2157705 Score: 407
Period size: 43 Copynumber: 6.3 Consensus size: 43
2157427 TTATAGAAAT
*
2157437 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
**
2157480 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCTGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* *
2157523 AAACGCAGCTAATGGCCATGTTCTTTAGCGGCGCTTTTCCCGA-
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCC-AC
* *
2157566 AAACGCCGCTAAAGGCCATGTTCTTCACCGGCGCTTTTCCCGA-
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCC-AC
*
2157609 AAACGCCGCTAAAAGCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* * *
2157652 AAACGCCGTTAAAGGTCATATTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
2157695 AAACGCCGCTA
1 AAACGCCGCTA
2157706 TTGTTTGGTG
Statistics
Matches: 205, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 1 0.00
43 204 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
Found at i:2158262 original size:25 final size:26
Alignment explanation
Indices: 2158211--2158272 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
2158201 TTTTACAATG
* *
2158211 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
2158237 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
2158262 ATTAAGTTATG
1 ATTAAGTTATG
2158273 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:2158276 original size:17 final size:17
Alignment explanation
Indices: 2158211--2158425 Score: 72
Period size: 17 Copynumber: 12.2 Consensus size: 17
2158201 TTTTACAATG
* *
2158211 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
2158228 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
2158245 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
2158262 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
*
2158279 ATTATGTGAGTTATGATATAACTT
1 ATTA----AGTTATG---TAAGTT
*
2158303 ATTAAGTTATGTGAGTT
1 ATTAAGTTATGTAAGTT
*
2158320 GTTAA-TTAT-T--G-T
1 ATTAAGTTATGTAAGTT
2158332 ATTTAA-TT-TGTAAGTT
1 A-TTAAGTTATGTAAGTT
* * *
2158348 ATGGAATGATATATTTTAAAATT
1 AT-TAA-G-T-TA-TGT-AAGTT
*
2158371 ATTAAGTTATGTAAATT
1 ATTAAGTTATGTAAGTT
* *
2158388 ATGTGAGTTGT-TAAGTT
1 AT-TAAGTTATGTAAGTT
2158405 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
2158422 ATTA
1 ATTA
2158426 TGTGAATTAT
Statistics
Matches: 149, Mismatches: 23, Indels: 52
0.67 0.10 0.23
Matches are distributed among these distances:
12 2 0.01
13 8 0.05
15 4 0.03
16 18 0.12
17 62 0.42
18 16 0.11
19 3 0.02
20 9 0.06
21 8 0.05
22 4 0.03
23 6 0.04
24 9 0.06
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:2158421 original size:9 final size:8
Alignment explanation
Indices: 2158369--2158425 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
2158359 TATTTTAAAA
2158369 TTATTAAG
1 TTATTAAG
*
2158377 TTATGTAAA
1 TTAT-TAAG
*
2158386 TTATGTGAG
1 TTAT-TAAG
*
2158395 TTGTTAAG
1 TTATTAAG
2158403 TTATTAAG
1 TTATTAAG
2158411 TTATGTAAG
1 TTAT-TAAG
2158420 TTATTA
1 TTATTA
2158426 TGTGAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.49
9 21 0.51
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (8 bp):
TTATTAAG
Found at i:2158448 original size:46 final size:46
Alignment explanation
Indices: 2158377--2158549 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 46
2158367 AATTATTAAG
* * *
2158377 TTATGTAAATTATGTGAGTTGTTAAGTTATTAAGTTATGTAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
* * * *
2158423 TTATGTGAATTATATAAGTTATTAAGTTA-TATGGTATGACATATATATATGTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTA-AGT-T---ATGTA-A-GT-TA
* * * *
2158476 TTATGTAAATTATGTGAGTTGTTAAGTTGTTAAGTTATGTAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
*
2158522 TTATGTGAATTATATAAGTTATTAAGTT
1 TTATGTAAATTATATAAGTTATTAAGTT
2158550 GGACAATTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
45 2 0.02
46 53 0.54
47 2 0.02
48 1 0.01
49 4 0.04
50 4 0.04
51 1 0.01
52 2 0.02
53 28 0.28
54 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (46 bp):
TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
Found at i:2158454 original size:17 final size:17
Alignment explanation
Indices: 2158369--2158454 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
2158359 TATTTTAAAA
* *
2158369 TTATTAAGTTATGTAAA
1 TTATTAAGTTATATAAG
* *
2158386 TTATGTGAGTTGT-TAAG
1 TTAT-TAAGTTATATAAG
*
2158403 TTATTAAGTTATGTAAG
1 TTATTAAGTTATATAAG
*
2158420 TTATTATGTGAATTATATAAG
1 TTATTA----AGTTATATAAG
2158441 TTATTAAGTTATAT
1 TTATTAAGTTATAT
2158455 GGTATGACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
16 6 0.11
17 28 0.51
18 6 0.11
21 15 0.27
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TTATTAAGTTATATAAG
Found at i:2158527 original size:53 final size:54
Alignment explanation
Indices: 2158393--2158549 Score: 128
Period size: 53 Copynumber: 2.9 Consensus size: 54
2158383 AAATTATGTG
* * *
2158393 AGTTGTTAAGTTAT-TAAGTTATGTAAGTTATTATGTGAATTATATAAGTTATTA
1 AGTTGTTAAGTTATGTAAGTTATATATG-TATTATGTAAATTATATAAGTTATTA
* * * * * *
2158447 AGTT-ATATGGTATG-ACA-TATATATATGTATTATGTAAATTATGTGAGTTGTTA
1 AGTTGTTAAGTTATGTA-AGT-TATATATGTATTATGTAAATTATATAAGTTATTA
* *
2158500 AGTTGTTAAGTTATGTAAGTTAT-TATGTGAATTATATAAGTTAT-TAAGTT
1 AGTTGTTAAGTTATGTAAGTTATATATGT--ATTATGTAAATTATATAAGTT
2158550 GGACAATTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
53 39 0.49
54 27 0.34
55 14 0.17
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (54 bp):
AGTTGTTAAGTTATGTAAGTTATATATGTATTATGTAAATTATATAAGTTATTA
Found at i:2159190 original size:21 final size:21
Alignment explanation
Indices: 2159166--2159212 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2159156 TTAACTATTT
* *
2159166 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
2159187 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
2159208 AAATT
1 AAATT
2159213 TCTAGAAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:2161399 original size:199 final size:199
Alignment explanation
Indices: 2161058--2161808 Score: 1315
Period size: 199 Copynumber: 3.8 Consensus size: 199
2161048 ATAGATATAT
* *
2161058 AAACTGAGAACAGAACTTTGCGGCGTTTGTTCCTTAGCGCCGCTAATGACCACTTTTAGCGGCGT
1 AAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGT
* *
2161123 TTTTCCCTTAGTGCCGCAAAACCCATTAAATTCACAGCAAAAAACTGCACCGTTTTGTCTTCATT
66 TTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTTTTGTCTTCATT
* * *
2161188 ATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGCCAAAACGACACCGTTTT
131 ATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAATGACACCATTTT
2161253 ACGA
196 ACGA
2161257 AAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGT
1 AAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGT
* * * *
2161322 TTTTCCCTTAGCGCTGCAAAACCCATTAAATTCATAGCCAAAAATTGCATCGTTTTGTCTTCATT
66 TTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTTTTGTCTTCATT
*
2161387 ATTAA-AAATTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAATGACACCATTTT
131 ATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAATGACACCATTTT
2161451 ACGA
196 ACGA
2161455 AAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGT
1 AAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGT
*
2161520 TTTTCCCTTAGCGCCGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGTCTTCATT
66 TTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTTTTGTCTTCATT
2161585 ATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAATGACACCATTTT
131 ATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAATGACACCATTTT
*
2161650 ATGA
196 ACGA
* *
2161654 AAACTGAGAACAGAACTTTGCAGCGTTTTTTCCTTAGCGCCGTTAATGACCACCTTTAGCGGCGT
1 AAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGT
* *
2161719 TTTTACCTTAGCGCCGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGTCTTCATT
66 TTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTTTTGTCTTCATT
* *
2161784 ATTAAGAATATTTTGTGGCGTTTTT
131 ATTAAGAATTTTTTGCGGCGTTTTT
2161809 AAACGCCACT
Statistics
Matches: 527, Mismatches: 24, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
198 189 0.36
199 338 0.64
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (199 bp):
AAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGT
TTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTTTTGTCTTCATT
ATTAAGAATTTTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAATGACACCATTTT
ACGA
Found at i:2162012 original size:19 final size:19
Alignment explanation
Indices: 2161990--2162032 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2161980 TTTTATTTTT
*
2161990 ATTTTTTATAATTTTTACA
1 ATTTTTTACAATTTTTACA
2162009 ATTTTTTACAATTTTTACA
1 ATTTTTTACAATTTTTACA
2162028 ATTTT
1 ATTTT
2162033 AAATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTTACAATTTTTACA
Found at i:2162012 original size:30 final size:30
Alignment explanation
Indices: 2161955--2162013 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2161945 AATTTTAGTG
* *
2161955 TTTTTATTTCTTTTTAATTTTTTAATTTTA
1 TTTTTATTTCTTTATAATTTTTCAATTTTA
2161985 TTTTTATTT-TTTATAATTTTTACAATTTT
1 TTTTTATTTCTTTATAATTTTT-CAATTTT
2162014 TTACAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (30 bp):
TTTTTATTTCTTTATAATTTTTCAATTTTA
Found at i:2162023 original size:9 final size:9
Alignment explanation
Indices: 2161992--2162032 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
2161982 TTATTTTTAT
*
2161992 TTTTTATAA
1 TTTTTACAA
2162001 TTTTTACAA
1 TTTTTACAA
2162010 TTTTTTACAA
1 -TTTTTACAA
2162020 TTTTTACAA
1 TTTTTACAA
2162029 TTTT
1 TTTT
2162033 AAATTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTACAA
Found at i:2162367 original size:82 final size:81
Alignment explanation
Indices: 2162205--2162381 Score: 257
Period size: 83 Copynumber: 2.2 Consensus size: 81
2162195 CCCTAACTCG
2162205 TAACCCCTAACCCCTAAACTTTATTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAA
1 TAACCCCTAACCCCTAAACTTTATTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAA
* *
2162270 ACCCGACCCCAAATCCC
66 ACCAGAACCCAAAT-CC
* * *
2162287 TAACCCCTAACCCCTAAACTTTATTGACTATATAAATTAAAAAATAGTAATTAATCTAAACCCTA
1 TAACCCCTAACCCCTAAACTTTATT-AATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
*
2162352 AACCATAACCC-AATCC
65 AACCAGAACCCAAATCC
*
2162368 TGAATCCCTAACCC
1 T-AACCCCTAACCC
2162382 TTAACCCCTA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
81 3 0.03
82 39 0.45
83 44 0.51
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.25
Consensus pattern (81 bp):
TAACCCCTAACCCCTAAACTTTATTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAA
ACCAGAACCCAAATCC
Found at i:2163082 original size:114 final size:114
Alignment explanation
Indices: 2162881--2163270 Score: 577
Period size: 114 Copynumber: 3.4 Consensus size: 114
2162871 TTTAAATAAA
* * *
2162881 GTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAATGCTGCTAAAGCCCTGAGCATCAGC
1 GTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
2162946 GGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGC
66 GGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGC
* * *
2162995 ATCGTTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGC
1 GTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* *
2163060 GGCGCTTACCTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAGACGGC
66 GGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGC
* * * * ** *
2163109 GTTGTTAGGCTTAGATTTTTTTATGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
1 GTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * * *
2163174 GGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCCGAAAACGAC
66 GGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGC
*
2163223 GTCGTTGGGCTTAGGTA-TTTTGCGGCGCTTT-CTAGAAAACGCCGCTAA
1 GTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCA-AAAACGCCGCTAA
2163271 TCTTATTTTC
Statistics
Matches: 243, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
112 1 0.00
113 25 0.10
114 217 0.89
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (114 bp):
GTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
GGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGC
Found at i:2167154 original size:83 final size:83
Alignment explanation
Indices: 2167010--2167181 Score: 317
Period size: 83 Copynumber: 2.1 Consensus size: 83
2167000 TTATTCTCGT
2167010 ATATATACACCATTTAGAATAGATGTTTTGTTTATAGACAGTGTATATTGTTATATGTATCCAAC
1 ATAT-TACACCATTTAGAATAGATGTTTTGTTTATAGACAGTGTATATTGTTATATGTATCCAAC
2167075 TCCAAGAAGTTTTGAAAGA
65 TCCAAGAAGTTTTGAAAGA
*
2167094 ATATTACACCATTTAGAATAGATGTTTTGTTTATAGACTGTGTATATTGTTATATGTATCCAACT
1 ATATTACACCATTTAGAATAGATGTTTTGTTTATAGACAGTGTATATTGTTATATGTATCCAACT
*
2167159 CCAATAAGTTTTGAAAGA
66 CCAAGAAGTTTTGAAAGA
2167177 ATATT
1 ATATT
2167182 TGATGTGGAA
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
83 82 0.95
84 4 0.05
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (83 bp):
ATATTACACCATTTAGAATAGATGTTTTGTTTATAGACAGTGTATATTGTTATATGTATCCAACT
CCAAGAAGTTTTGAAAGA
Found at i:2171067 original size:20 final size:21
Alignment explanation
Indices: 2171042--2171081 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2171032 TTTTTATTTT
*
2171042 AATTTATATT-AAATAAATTC
1 AATTTACATTGAAATAAATTC
*
2171062 AATTTACATTGAAGTAAATT
1 AATTTACATTGAAATAAATT
2171082 TTGGTACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
AATTTACATTGAAATAAATTC
Found at i:2183342 original size:89 final size:88
Alignment explanation
Indices: 2183228--2183431 Score: 239
Period size: 89 Copynumber: 2.3 Consensus size: 88
2183218 AGTTATCGTG
* * *
2183228 ACAAATATTATATCCTTGAAGTTGCAGCGAAGCAAATTAAAGCCACAAATCT-TACCTTCCTAAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGCGAAGCAAATTAAAGCCACAAAT-TGTACCTCCCTAAA
*
2183292 GTTGCAATGGAGCAGATTGAAGAC
65 GTTGCAATAGAGCAGATTGAAGAC
* * * * * *
2183316 AGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGCCACAAATTGTATCTCCCTGAA
1 A-CAAATCTTATCTCCTTGAAGTTGCAGCGAAGCAAATTAAAGCCACAAATTGTACCTCCCTAAA
* * * **
2183381 GTTGTAGTAGAGTAGATTGAAGTT
65 GTTGCAATAGAGCAGATTGAAGAC
*
2183405 ACAAATCTTATCTCCTTGAATTTGCAG
1 ACAAATCTTATCTCCTTGAAGTTGCAG
2183432 TGGAGTAGAT
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
88 26 0.27
89 71 0.73
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (88 bp):
ACAAATCTTATCTCCTTGAAGTTGCAGCGAAGCAAATTAAAGCCACAAATTGTACCTCCCTAAAG
TTGCAATAGAGCAGATTGAAGAC
Found at i:2183443 original size:44 final size:44
Alignment explanation
Indices: 2183228--2183716 Score: 331
Period size: 44 Copynumber: 10.9 Consensus size: 44
2183218 AGTTATCGTG
* * * * * * * **
2183228 ACAAATATTATATCCTTGAAGTTGCAGCGAAGCAAATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * **
2183272 ACAAATCTTACCTTCCTAAAGTTGCAATGGAGCAGATTGAAGAC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * **
2183316 AGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGCC
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * *
2183361 ACAAAT-TGTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGTT
1 ACAAATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * *
2183405 ACAAATCTTATCTCCTTGAATTTGCAGTGGAGTAGATTGAA-TAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-T
* * * ** *
2183449 GCGAATCTTAT-TCCTCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTC
1 ACAAATCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATT---G----AAGTT
* * * *
2183500 ACAGATCTTATCTCCCTGAAGTTGCAGTGGGGCA-ATCTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TGAAGTT
* * *
2183544 ACAAATCTTATTTCCCTTAAGTTACAGTGGAGCAGATTGAAGGTGT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GT-T
** * * * **
2183590 GA-ATCTTCTTATTTCCCTGAAGTTGCAGTGGAACAGCTACAAGTT
1 -ACA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
*
2183635 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * *
2183679 ACTAATCTTATCTCCTTGAAGTTGAAGCGGAGTAGATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
2183717 AAAGCGGCAA
Statistics
Matches: 349, Mismatches: 75, Indels: 42
0.75 0.16 0.09
Matches are distributed among these distances:
43 5 0.01
44 234 0.67
45 42 0.12
46 4 0.01
47 32 0.09
50 2 0.01
51 26 0.07
52 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
Found at i:2183638 original size:91 final size:91
Alignment explanation
Indices: 2183505--2183676 Score: 256
Period size: 91 Copynumber: 1.9 Consensus size: 91
2183495 AAGTCACAGA
** * * *
2183505 TCTTATCTCCCTGAAGTTGCAGTGGGGCAATCTAAAGCTACAAATCTTATTTCCCTTAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAAGCTAAAGCTACAAATCTTATCTCCCTGAAGTTACA
2183570 GTGGAGCAGATTGAAGGTGTGAATCT
66 GTGGAGCAGATTGAAGGTGTGAATCT
* * *
2183596 TCTTATTTCCCTGAAGTTGCAGTGGAAC-AGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAAGCTA-AAGCTACAAATCTTATCTCCCTGAAGTTAC
2183660 AGTGGAGCAGATTGAAG
65 AGTGGAGCAGATTGAAG
2183677 CTACTAATCT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 4 0.06
91 68 0.94
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (91 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAAGCTAAAGCTACAAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTGAAGGTGTGAATCT
Found at i:2183686 original size:91 final size:91
Alignment explanation
Indices: 2183505--2183702 Score: 244
Period size: 91 Copynumber: 2.2 Consensus size: 91
2183495 AAGTCACAGA
** * * *
2183505 TCTTATCTCCCTGAAGTTGCAGTGGGGCAATCTAAAGCTACAAATCTTATTTCCCTTAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAAGCTAAAGCTACAAATCTTATCTCCCTGAAGTTACA
* *
2183570 GTGGAGCAGATTGAAGGTGTGAATCT
66 GTGGAGCAGATTGAAGCTCTGAATCT
* * *
2183596 TCTTATTTCCCTGAAGTTGCAGTGGAAC-AGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAAGCTA-AAGCTACAAATCTTATCTCCCTGAAGTTAC
2183660 AGTGGAGCAGATTGAAGCTACT-AA---
65 AGTGGAGCAGATTGAAGCT-CTGAATCT
*
2183684 TCTTATCTCCTTGAAGTTG
1 TCTTATCTCCCTGAAGTTG
2183703 AAGCGGAGTA
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 17 0.18
90 4 0.04
91 71 0.76
92 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (91 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAAGCTAAAGCTACAAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTGAAGCTCTGAATCT
Found at i:2185430 original size:18 final size:17
Alignment explanation
Indices: 2185394--2185430 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
2185384 TGCATTCCTT
2185394 TTATTTATATTTTTATA
1 TTATTTATATTTTTATA
*
2185411 TTATTT-TATCTTT-TA
1 TTATTTATATTTTTATA
2185426 TTATT
1 TTATT
2185431 GTTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTTATATTTTTATA
Found at i:2185598 original size:26 final size:24
Alignment explanation
Indices: 2185535--2185600 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
2185525 ATCATTGTTC
2185535 TATTATGCATATTAGTATCATAATT
1 TATTATGCATATTA-TATCATAATT
* *
2185560 TATTATTGC-TATTATATTTTATATTT
1 TATTA-TGCATATTATA--TCATAATT
2185586 TATTATGCATATTAT
1 TATTATGCATATTAT
2185601 GCCATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 2 0.06
25 13 0.37
26 20 0.57
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTATGCATATTATATCATAATT
Found at i:2187824 original size:5 final size:5
Alignment explanation
Indices: 2187813--2187847 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
2187803 CAACTTCAGT
* *
2187813 GAATA TAATA TAATA GAATA GAATA GAATA GAATA
1 GAATA GAATA GAATA GAATA GAATA GAATA GAATA
2187848 TCAAGGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (5 bp):
GAATA
Found at i:2201247 original size:16 final size:18
Alignment explanation
Indices: 2201226--2201260 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2201216 CTGAAATAAA
2201226 ACTTAA-TTA-ATGACAC
1 ACTTAACTTATATGACAC
2201242 ACTTAACTTATATGACAC
1 ACTTAACTTATATGACAC
2201260 A
1 A
2201261 AACTCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (18 bp):
ACTTAACTTATATGACAC
Found at i:2201354 original size:19 final size:20
Alignment explanation
Indices: 2201325--2201387 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
2201315 CAAACTCTTA
2201325 ATGCAAGACATGTTTTAAAG
1 ATGCAAGACATGTTTTAAAG
*
2201345 ATGC-AGACA-----TATA-
1 ATGCAAGACATGTTTTAAAG
2201358 ATGCAAGACATGTTTTAAAG
1 ATGCAAGACATGTTTTAAAG
2201378 ATGC-AGACAT
1 ATGCAAGACAT
2201388 TTAATGCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
13 4 0.12
14 8 0.24
19 14 0.41
20 8 0.24
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (20 bp):
ATGCAAGACATGTTTTAAAG
Found at i:2201360 original size:33 final size:33
Alignment explanation
Indices: 2201323--2201398 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
2201313 TGCAAACTCT
2201323 TAATGCAAGACATGTTTTAAAGATGCAGACATA
1 TAATGCAAGACATGTTTTAAAGATGCAGACATA
*
2201356 TAATGCAAGACATGTTTTAAAGATGCAGACATT
1 TAATGCAAGACATGTTTTAAAGATGCAGACATA
2201389 TAATGCAAGA
1 TAATGCAAGA
2201399 TATAATTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (33 bp):
TAATGCAAGACATGTTTTAAAGATGCAGACATA
Found at i:2204501 original size:50 final size:50
Alignment explanation
Indices: 2204426--2204665 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
2204416 TTTCTTGTAC
* * * * **
2204426 TGCCAATCCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGG
* * *** *
2204476 TGCCCATGCCATGTCCCAGACATGGTCATATGGGAGACCTCTCATCTTA-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-ATAGG
** * * * *
2204526 TGCCAACACCATGTCCCAGACATTGTCTTACATGTGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGG
* *
2204576 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--T--A-GG
*
2204632 TGCCAATGCCATGTCCCAAACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
2204666 GGATCTCATC
Statistics
Matches: 151, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 1 0.01
50 113 0.75
51 2 0.01
53 1 0.01
56 34 0.23
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGG
Found at i:2206858 original size:21 final size:21
Alignment explanation
Indices: 2206834--2206950 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 21
2206824 CGAAGGTTGC
* *
2206834 ACAGAAGCACATAAGTGCTAA
1 ACAGAAGCCCATAAGAGCTAA
* * *
2206855 ACAGAAACCCATAAGTGTTAA
1 ACAGAAGCCCATAAGAGCTAA
* *
2206876 AC-GAAAGCTCATAAGAGCTGA
1 ACAG-AAGCCCATAAGAGCTAA
* * *
2206897 AC-GAAAACCCATAAGGGTTAA
1 ACAG-AAGCCCATAAGAGCTAA
* *
2206918 ACAGAAGCTCAAAAGAGCTAA
1 ACAGAAGCCCATAAGAGCTAA
* *
2206939 ACGGAAACCCAT
1 ACAGAAGCCCAT
2206951 TAGGGTTAAA
Statistics
Matches: 72, Mismatches: 22, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
20 1 0.01
21 70 0.97
22 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.14
Consensus pattern (21 bp):
ACAGAAGCCCATAAGAGCTAA
Found at i:2206905 original size:42 final size:42
Alignment explanation
Indices: 2206838--2206972 Score: 159
Period size: 42 Copynumber: 3.2 Consensus size: 42
2206828 GGTTGCACAG
* * *
2206838 AAGCACATAAGTGCTAAAC-AGAAACCCATAAGTGTTAAACGA
1 AAGCTCATAAGAGCTAAACGA-AAACCCATAAGGGTTAAACGA
*
2206880 AAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAAAC-A
1 AAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTAAACGA
* * *
2206921 GAAGCTCAAAAGAGCTAAACGGAAACCCATTAGGGTTAAACTGA
1 -AAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTAAAC-GA
2206965 AA-CTCATA
1 AAGCTCATA
2206973 TGAGTTAACT
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 75 0.94
43 3 0.04
44 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (42 bp):
AAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTAAACGA
Found at i:2207125 original size:23 final size:23
Alignment explanation
Indices: 2207099--2207142 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2207089 ACTGTACTTG
* *
2207099 TAATATCCCGAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
2207122 TAATACCCCAAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
2207143 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:2216020 original size:29 final size:28
Alignment explanation
Indices: 2215986--2216071 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 28
2215976 CTTCTTTAAT
* *
2215986 AGAGATAGCCACGAAGACTCACTTTTAC
1 AGAGATAGCCACAAAGGCTCACTTTTAC
*
2216014 TTGAGATAGCCACAAAGGCGTC-C-TTT-C
1 -AGAGATAGCCACAAAGGC-TCACTTTTAC
2216041 AGAGATAGCCACAAAGGCTCACTTTTAC
1 AGAGATAGCCACAAAGGCTCACTTTTAC
2216069 AGA
1 AGA
2216072 AATTGGTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.04
26 18 0.37
27 4 0.08
28 7 0.14
29 16 0.33
30 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (28 bp):
AGAGATAGCCACAAAGGCTCACTTTTAC
Found at i:2223741 original size:51 final size:50
Alignment explanation
Indices: 2223665--2223885 Score: 199
Period size: 51 Copynumber: 4.4 Consensus size: 50
2223655 TATAAACACG
* * *
2223665 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGA-AGATAATGATCACA
* * * ** * **
2223716 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAGGTTTTGGTCATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAGATAATGATCACA
* * * * * ** *
2223767 TGTGTAGTACTATGTGCAAGCTACTACGTGAACCAAAAATTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGATAATGATCACA
* *
2223817 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAA-GATAATGATCACA
* * *
2223868 CGGGTGGTACTATGTGCA
1 TGTGTAGTACTATGTGCA
2223886 AACCACCAAA
Statistics
Matches: 137, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
50 43 0.31
51 92 0.67
52 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGATAATGATCACA
Found at i:2229124 original size:33 final size:33
Alignment explanation
Indices: 2229087--2229161 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
2229077 ATCCTGATAA
* *
2229087 ACTATCTTTGTTCTATGTTTACAGTCCAAGTGG
1 ACTATCTCTGTTCTATGTTTACAGTCCAAGCGG
* * * *
2229120 ACTATCTCTGTTTTGTGTTTACTGTCCCAGCGG
1 ACTATCTCTGTTCTATGTTTACAGTCCAAGCGG
2229153 ACTATCTCT
1 ACTATCTCT
2229162 ATTTTGCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (33 bp):
ACTATCTCTGTTCTATGTTTACAGTCCAAGCGG
Found at i:2229167 original size:33 final size:34
Alignment explanation
Indices: 2229102--2229192 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 34
2229092 CTTTGTTCTA
* * *
2229102 TGTTTACAGTCCAAGTGGACTATCTCTGTTTTG-
1 TGTTTACTGTCCAAGCGGACTATCTCTATTTTGC
*
2229135 TGTTTACTGTCCCAGCGGACTATCTCTATTTTGC
1 TGTTTACTGTCCAAGCGGACTATCTCTATTTTGC
* *
2229169 T-TTTACTATCCTAGCAGG-CTATCT
1 TGTTTACTGTCCAAGC-GGACTATCT
2229193 TTGTGGATGC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 47 0.94
34 3 0.06
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (34 bp):
TGTTTACTGTCCAAGCGGACTATCTCTATTTTGC
Found at i:2229273 original size:44 final size:44
Alignment explanation
Indices: 2229210--2229317 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
2229200 TGCTATGGAG
* * *
2229210 TCTTTCATCCATGGTCTTACTCATCATACTTGGCTGTCTTTTCA
1 TCTTTCATCCATGGTCTTACTCATCATACCTAGCTGTCATTTCA
*
2229254 TCTTTCATCCATGGTCTTACTTATCATACCTAGCTGTCATTTCA
1 TCTTTCATCCATGGTCTTACTCATCATACCTAGCTGTCATTTCA
*
2229298 TCTTAT-ATCTATGGTCTTAC
1 TCTT-TCATCCATGGTCTTAC
2229318 ACTGTATACC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (44 bp):
TCTTTCATCCATGGTCTTACTCATCATACCTAGCTGTCATTTCA
Found at i:2231487 original size:50 final size:49
Alignment explanation
Indices: 2231318--2231500 Score: 215
Period size: 51 Copynumber: 3.6 Consensus size: 49
2231308 CCAGTTCACA
* * * *
2231318 TAGTAGCCTACACATAGTACTGCACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-T-TCCGGTACACG
* * * *
2231369 TAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGTTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA--T-TCCGGTACACG
* *
2231420 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCATTCCGGTACACG
2231470 TAGTAGCCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
2231501 TCTAGCAACT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 39 0.35
51 72 0.64
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCATTCCGGTACACG
Found at i:2231496 original size:101 final size:102
Alignment explanation
Indices: 2231316--2231502 Score: 315
Period size: 101 Copynumber: 1.8 Consensus size: 102
2231306 TACCAGTTCA
*
2231316 CATAGTAGCCTACACATAGTACTGCACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
2231381 CATAGTACTACACACGTGATCAAAGTTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAGTTATCCGGTACG
* * *
2231418 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTGC
2231481 ACATAGTACTACACACGTGATC
65 ACATAGTACTACACACGTGATC
2231503 TAGCAACTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
101 42 0.52
102 34 0.43
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAGTTATCCGGTACG
Found at i:2231535 original size:101 final size:102
Alignment explanation
Indices: 2231312--2231538 Score: 289
Period size: 101 Copynumber: 2.2 Consensus size: 102
2231302 ATGATACCAG
*
2231312 TTCACATAGTAGCCTACACATAGTACTGCACATGTGACCATCACTATCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCC
** **
2231377 TGCACATAGTACTACACACGTGATCAAAGTTATCCGG
66 TGCACATAGTACTACACACGTGATCAAAGCAATCCAC
* * * * *
2231414 TACGCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGC
* *
2231477 CTGCACATAGTACTACACACGTGATC-TAGCAACTTCAC
65 CTGCACATAGTACTACACACGTGATCAAAGCAA-TCCAC
* *
2231515 TTCACACAGTGGCCTACACATAGT
1 TTCACATAGTAGCCTACACATAGT
2231539 CCATGCCACA
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
100 3 0.03
101 63 0.59
102 36 0.34
103 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
TTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACGTGATCAAAGCAATCCAC
Found at i:2232413 original size:193 final size:193
Alignment explanation
Indices: 2232084--2232469 Score: 745
Period size: 193 Copynumber: 2.0 Consensus size: 193
2232074 TAAGCTAAAT
2232084 AAAGTTACAGAGACTCCAAAAACGTAAAGAACATTAAAAACGAGGCTCGGAATCACTTACTATGG
1 AAAGTTACAGAGACTCCAAAAACGTAAAGAACATTAAAAACGAGGCTCGGAATCACTTACTATGG
*
2232149 AGCTTGGAAGCGTGAAAACCCTAACTATGGCTTCCCCCTTGCTGATTTCGTTCACCATGGAGAAG
66 AGCTTGGAAGCGTGAAAACCCTAACTATGGCTTCCCCCCTGCTGATTTCGTTCACCATGGAGAAG
*
2232214 ATGGACAAATTTTTGCCTATTTTGGCCTTTTTAATTCTTTTAATTACTAAATGACCAAAATTC
131 ATGGACAAAATTTTGCCTATTTTGGCCTTTTTAATTCTTTTAATTACTAAATGACCAAAATTC
2232277 AAAGTTACAGAGACTCCAAAAACGTAAAGAACATTAAAAACGAGGCTCGGAATCACTTACTATGG
1 AAAGTTACAGAGACTCCAAAAACGTAAAGAACATTAAAAACGAGGCTCGGAATCACTTACTATGG
2232342 AGCTTGGAAGCGTGAAAACCCTAACTATGGCTTCCCCCCTGCTGATTTCGTTCACCATGGAGAAG
66 AGCTTGGAAGCGTGAAAACCCTAACTATGGCTTCCCCCCTGCTGATTTCGTTCACCATGGAGAAG
*
2232407 ATGGACAAAATTTTGCCTATTTTTGCCTTTTTAATTCTTTTAATTACTAAATGACCAAAATTC
131 ATGGACAAAATTTTGCCTATTTTGGCCTTTTTAATTCTTTTAATTACTAAATGACCAAAATTC
2232470 CCCCAACTTA
Statistics
Matches: 190, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
193 190 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (193 bp):
AAAGTTACAGAGACTCCAAAAACGTAAAGAACATTAAAAACGAGGCTCGGAATCACTTACTATGG
AGCTTGGAAGCGTGAAAACCCTAACTATGGCTTCCCCCCTGCTGATTTCGTTCACCATGGAGAAG
ATGGACAAAATTTTGCCTATTTTGGCCTTTTTAATTCTTTTAATTACTAAATGACCAAAATTC
Found at i:2242414 original size:13 final size:12
Alignment explanation
Indices: 2242364--2242405 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
2242354 ATTGGTCATA
2242364 GAGAGATTTGAG
1 GAGAGATTTGAG
* *
2242376 GAGGGATATT-TG
1 GAGAGAT-TTGAG
2242388 GAGAGATTTGAG
1 GAGAGATTTGAG
2242400 GAGAGA
1 GAGAGA
2242406 ATTTTAGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:2243792 original size:50 final size:50
Alignment explanation
Indices: 2243681--2243873 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
2243671 ATTTGGGTAA
* * **
2243681 AGAGATCCCATGTAAGACCATGTCTGGGGCATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGC--CACCGAG---ATG
* * *
2243737 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCGTTGCCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGCCACCGAGATG
** * *
2243787 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGCCACCGAGATG
** * *
2243837 AGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
2243874 TGGCAGTACA
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 77 0.66
53 5 0.04
55 3 0.03
56 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGCCACCGAGATG
Found at i:2244693 original size:139 final size:139
Alignment explanation
Indices: 2244443--2244716 Score: 521
Period size: 139 Copynumber: 2.0 Consensus size: 139
2244433 GCTAAAGGAT
*
2244443 GATGTGTAAATATGTGATAATGTTTAGCTATTAAAATGGCTAAGTAAGAATATGTTTGGTATTAT
1 GATGTGTAAATATGTGATAATATTTAGCTATTAAAATGGCTAAGTAAGAATATGTTTGGTATTAT
2244508 GAATGCCTAGGTGATAGTTTATACCTAGAAATTATGAAAGAGTAAAAATTTGCAATGAAACAGTT
66 GAATGCCTAGGTGATAGTTTATACCTAGAAATTATGAAAGAGTAAAAATTTGCAATGAAACAGTT
2244573 TTGGGTGAC
131 TTGGGTGAC
*
2244582 GATGTGTAAATATGTGATCATATTTAGCTATTAAAATGGCTAAGTAAGAATATGTTTGGTATTAT
1 GATGTGTAAATATGTGATAATATTTAGCTATTAAAATGGCTAAGTAAGAATATGTTTGGTATTAT
*
2244647 GTATGCCTAGGTGATAGTTTATACCTAGAAATTATGAAAGAGTAAAAATTTGCAATGAAACAGTT
66 GAATGCCTAGGTGATAGTTTATACCTAGAAATTATGAAAGAGTAAAAATTTGCAATGAAACAGTT
2244712 TTGGG
131 TTGGG
2244717 ACAGCAGCAG
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 132 1.00
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (139 bp):
GATGTGTAAATATGTGATAATATTTAGCTATTAAAATGGCTAAGTAAGAATATGTTTGGTATTAT
GAATGCCTAGGTGATAGTTTATACCTAGAAATTATGAAAGAGTAAAAATTTGCAATGAAACAGTT
TTGGGTGAC
Found at i:2246024 original size:27 final size:27
Alignment explanation
Indices: 2245987--2246099 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
2245977 AGTGATCGAT
*
2245987 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
2246014 AAACGATCGAAATA-CCCCAGAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
2246040 GAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * *
2246067 AAATGA-CTAAAATAACCCCATAAGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
2246094 AAATGA
1 AAATGA
2246100 CTGTTATACC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
26 24 0.33
27 48 0.67
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:2255283 original size:56 final size:50
Alignment explanation
Indices: 2255195--2255433 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 50
2255185 AAAGAGATCT
* **
2255195 CATGTAAGACCAAGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGGTCC
*
2255251 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * **
2255301 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATACGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * * **
2255351 CATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAAAAATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
* *
2255400 CATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
2255434 TGTTATTATC
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 84 0.53
52 1 0.01
53 3 0.02
56 31 0.19
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:2257633 original size:13 final size:14
Alignment explanation
Indices: 2257617--2257657 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
2257607 CAATCAGATA
2257617 CAGATA-ACAGAAT
1 CAGATATACAGAAT
*
2257630 CAGATATGCAGAA-
1 CAGATATACAGAAT
2257643 CAGATATACAGAAT
1 CAGATATACAGAAT
2257657 C
1 C
2257658 CTACCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:2273245 original size:27 final size:28
Alignment explanation
Indices: 2273214--2273266 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2273204 TATTGTGTTA
* *
2273214 ATTAAT-TATTCGAAATCTTTCAAAACG
1 ATTAATCTATGCGAAAGCTTTCAAAACG
*
2273241 ATTAATCTATGCGAAAGCTTTTAAAA
1 ATTAATCTATGCGAAAGCTTTCAAAA
2273267 TAGATGGCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (28 bp):
ATTAATCTATGCGAAAGCTTTCAAAACG
Found at i:2275296 original size:469 final size:466
Alignment explanation
Indices: 2274411--2275812 Score: 2272
Period size: 469 Copynumber: 3.0 Consensus size: 466
2274401 TAATACCTAC
*
2274411 AATTGAACATTTCAACCTAATTGTTAATCTCAACTCATGATTACCACAACAACACAAAGCCGAAT
1 AATTGAACATTTCAA-CTAATTGTTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAAT
* * *
2274476 GTACTCCCAAATCAATCGCATGATACCTACCTTATAAACCACGGACGTTTCCCTCTATAATTCAG
65 GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTTAG
*
2274541 CACCAGCCCAGCCCTTCACTCCAGAATTTCAGCTGTCATCACAGTTAACAAAAGGTCCCCAATTA
130 CACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACAGTTAACAAAAGGTCCCCAATTA
* * * *
2274606 CTTATTTAAAAACCGAATATTTAAAATACCATTAATAATCTTAAATCAATGATTTAAGTAAGACC
195 CTTATTTAAAAACCAAACATTTAAAACACCATTAATAATCTTAAATCAACGATTTAAGTAAGACC
* * * * *
2274671 CCTATTCCGAAGGCGATTCAATACGCATGATTCACTTACAAACGATAAACATTATCCTTAACGCT
260 CCCATTTCGAAGGCGATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACGCT
* *
2274736 CCAACCTCAGCAGTAGCACAAACCGATCACTACCTTTAGCCTACCACAAGTACAACAATCCCCTT
325 CCAACCTCAGCAGTAGCACAAACCGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCTT
2274801 AGTCACCAACCAAGAAACAAAAGACAAGAGGTAGAAACATTACTTACCGAACGCACAACAACAAA
390 AGTCACCAACCAAGAAACAAAAGACAAGA-G-AGAAACATTACTTACCGAACGCACAACAACAAA
*
2274866 ACAGGAATGACGGG
453 ACGGGAATGACGGG
* *
2274880 AATTGAGCATTTCAACTTAATTGTTAATCTCAACTCATGATTAGTACAACAACACAAAGCCGAAT
1 AATTGAACATTTCAAC-TAATTGTTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAAT
2274945 GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTTAG
65 GTACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTTAG
*
2275010 CACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACTGTTAACAAAAGGTCCCCAATTA
130 CACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACAGTTAACAAAAGGTCCCCAATTA
* *
2275075 CTTATTTAAAAATCAAACATTTAAAACACCATTAATAATATTAAATCAACGATTTAAGTAAGACC
195 CTTATTTAAAAACCAAACATTTAAAACACCATTAATAATCTTAAATCAACGATTTAAGTAAGACC
*
2275140 CCCATTTCGAAGGCGATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACACT
260 CCCATTTCGAAGGCGATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACGCT
**
2275205 CCAACCTCAATAGTAGCACAAACCGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCTT
325 CCAACCTCAGCAGTAGCACAAACCGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCTT
* * *
2275270 AGTCACCAACCAAGAAACAAAAGACAAAAAGCAAAAACATTACTTATCGAACGCACAACAACAAA
390 AGTCACCAACCAAGAAACAAAAGAC-AAGAG-AGAAACATTACTTACCGAACGCACAACAACAAA
* *
2275335 ATGGGAATTACGGG
453 ACGGGAATGACGGG
* * *
2275349 AATTGAACACTTCAAC---TTGTTAATCTCAAGTCATGATTAGCACAACAACACAAAGCTGAATG
1 AATTGAACATTTCAACTAATTGTTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAATG
* * *
2275411 TACTTCCAAAGCAATCCCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTTAGT
66 TACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTTAGC
* *
2275476 ACCAGCCCAGCCCTTCACTCCAGACTTTCAACTGTCATCACAGTTAACAAAAGGGTCCCTAATTA
131 ACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACAGTTAACAAAA-GGTCCCCAATTA
*
2275541 CTTATTTAAAAACCAGACATTTAAAACACCATTAATAATCTTAAATCAACGATTTAAGTAAGACC
195 CTTATTTAAAAACCAAACATTTAAAACACCATTAATAATCTTAAATCAACGATTTAAGTAAGACC
* *
2275606 CCCGTTTTGAAGGCGATTCAATACGCATGATTCACTTACCAATGATAAACATTGT-CTTCAACGC
260 CCCATTTCGAAGGCGATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTT-AACGC
* ** * *
2275670 TCCAACCTCAGCAGTAGCAAAAACTAATCACTGTCTTTCGCCTACCATAAGTACAACAATCCCCT
324 TCCAACCTCAGCAGTAGCACAAACCGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCT
2275735 TAGTCACCAACCAAGAAACAAAAGACAAGAGACGAAAACATTACTTACCGAACGCACAACAACAA
389 TAGTCACCAACCAAGAAACAAAAGACAAGAGA-G-AAACATTACTTACCGAACGCACAACAACAA
2275800 AACGGGAATGACG
452 AACGGGAATGACG
2275813 AGTTGCGGCA
Statistics
Matches: 867, Mismatches: 60, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
464 1 0.00
465 162 0.19
466 254 0.29
468 1 0.00
469 446 0.51
470 3 0.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (466 bp):
AATTGAACATTTCAACTAATTGTTAATCTCAACTCATGATTAGCACAACAACACAAAGCCGAATG
TACTTCCAAATCAATCGCATGATACCTACCTTATGAACCACGGACGTTTCCCTCTATAATTTAGC
ACCAGCCCAGCCCTTCACTCCAGACTTTCAGCTGTCATCACAGTTAACAAAAGGTCCCCAATTAC
TTATTTAAAAACCAAACATTTAAAACACCATTAATAATCTTAAATCAACGATTTAAGTAAGACCC
CCATTTCGAAGGCGATTCAATACGCATGATTCACTTACCAATGATAAACATTGTCCTTAACGCTC
CAACCTCAGCAGTAGCACAAACCGATCACTGCCTTTCGCCTACCACAAGTACAACAATCCCCTTA
GTCACCAACCAAGAAACAAAAGACAAGAGAGAAACATTACTTACCGAACGCACAACAACAAAACG
GGAATGACGGG
Found at i:2281308 original size:25 final size:25
Alignment explanation
Indices: 2281280--2281328 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2281270 TTAAGTGTTT
*
2281280 TCAGTACAGT-CTATCTATAGTAGTC
1 TCAGTACA-TACTACCTATAGTAGTC
*
2281305 TCAGTATATACTACCTATAGTAGT
1 TCAGTACATACTACCTATAGTAGT
2281329 TCCAGGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTACATACTACCTATAGTAGTC
Found at i:2281338 original size:25 final size:25
Alignment explanation
Indices: 2281294--2281342 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2281284 TACAGTCTAT
*
2281294 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGTAGTCTCAGGATATACTAC
2281319 CTATAGTAGT-TCCAGGATATACTA
1 CTATAGTAGTCT-CAGGATATACTA
2281343 TCAATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATAGTAGTCTCAGGATATACTAC
Found at i:2293391 original size:72 final size:72
Alignment explanation
Indices: 2293250--2293427 Score: 214
Period size: 72 Copynumber: 2.5 Consensus size: 72
2293240 TCATATTTGG
* * * *
2293250 GCTACTCACACAAGCTTTAGAGAATTCACAACACGTGCTGAATCTCAAGCCATCGGTAGAGAACA
1 GCTACTCACACAAGCTTTAGAGAATCCACAACACGTGCTGAATCTCAAACCATCGATAAAGAACA
*
2293315 ATTTAAT
66 ATTTAAA
* * * * * *
2293322 GTTGCTCACACAAGCTTTAGAGAATCCACATCATGTGCTTG-ATCTCAAACCATTGATAAAGAAT
1 GCTACTCACACAAGCTTTAGAGAATCCACAACACGTGC-TGAATCTCAAACCATCGATAAAGAAC
*
2293386 GATTTAAA
65 AATTTAAA
* *
2293394 GCTAATCACACAAGCTTCAGAGAATCCACAACAC
1 GCTACTCACACAAGCTTTAGAGAATCCACAACAC
2293428 ATCTTGGATC
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 85 0.98
73 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (72 bp):
GCTACTCACACAAGCTTTAGAGAATCCACAACACGTGCTGAATCTCAAACCATCGATAAAGAACA
ATTTAAA
Found at i:2295168 original size:24 final size:24
Alignment explanation
Indices: 2295117--2295168 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2295107 TTTGGGATCG
* *
2295117 TAAACATGAGGTCCACTGGTACAG
1 TAAACATGAGGTCCACTGGGACAA
* *
2295141 TAAACATGAGGTCTATTGGGACAA
1 TAAACATGAGGTCCACTGGGACAA
2295165 TAAA
1 TAAA
2295169 GACGAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (24 bp):
TAAACATGAGGTCCACTGGGACAA
Found at i:2295468 original size:25 final size:25
Alignment explanation
Indices: 2295404--2295468 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
2295394 CTAAAAGAAA
*
2295404 TATGTGGCATATTGTCTAGAAAGCC
1 TATGTGGCATATTATCTAGAAAGCC
* * *
2295429 TTTATGGCGA-GTTATCT-GAAAGACC
1 TATGTGGC-ATATTATCTAGAAAG-CC
2295454 TATGTGGCATATTAT
1 TATGTGGCATATTAT
2295469 TGGGGAAGGC
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
24 6 0.20
25 23 0.77
26 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (25 bp):
TATGTGGCATATTATCTAGAAAGCC
Found at i:2296149 original size:27 final size:27
Alignment explanation
Indices: 2296091--2296142 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
2296081 GTCCAAAATC
*
2296091 TTTAAGTTGAGGAAACATAAAATAACA
1 TTTAAGTCGAGGAAACATAAAATAACA
2296118 TTTAAGTCGAGGAAACATAAAATAA
1 TTTAAGTCGAGGAAACATAAAATAA
2296143 TGTTTAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (27 bp):
TTTAAGTCGAGGAAACATAAAATAACA
Found at i:2301038 original size:30 final size:31
Alignment explanation
Indices: 2300994--2301054 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
2300984 TAGTAAAAAT
*
2300994 AAAATTATATTTTAATTACTTT-AAAATTATA
1 AAAATTATAATTTAATT-CTTTAAAAATTATA
*
2301025 AAAATT-TAATTTAATTTTTTAAAAATTATA
1 AAAATTATAATTTAATTCTTTAAAAATTATA
2301055 TAGATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 18 0.67
31 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
AAAATTATAATTTAATTCTTTAAAAATTATA
Found at i:2304089 original size:21 final size:21
Alignment explanation
Indices: 2304065--2304109 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2304055 TTTTTATTGG
* *
2304065 ATTTGTGATTTAATATATATA
1 ATTTATGATTTAACATATATA
* *
2304086 ATTTATTATTTAGCATATATA
1 ATTTATGATTTAACATATATA
2304107 ATT
1 ATT
2304110 AATATAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTATGATTTAACATATATA
Found at i:2321620 original size:79 final size:79
Alignment explanation
Indices: 2321489--2321650 Score: 315
Period size: 79 Copynumber: 2.1 Consensus size: 79
2321479 ATATATTTAG
*
2321489 TCATAACATAGGTAAGTTCAACCATAACATACGTAATTTCTCATATATAAGTACATTATTCAACT
1 TCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAAGTACATTATTCAACT
2321554 CATCAATCCTTTTT
66 CATCAATCCTTTTT
2321568 TCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAAGTACATTATTCAACT
1 TCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAAGTACATTATTCAACT
2321633 CATCAATCCTTTTT
66 CATCAATCCTTTTT
2321647 TCAT
1 TCAT
2321651 CATATTACAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (79 bp):
TCATAACATAGGTAAGTTCAACCATAACATACGCAATTTCTCATATATAAGTACATTATTCAACT
CATCAATCCTTTTT
Found at i:2322168 original size:21 final size:21
Alignment explanation
Indices: 2322142--2322203 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
2322132 CGAACACACC
2322142 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
2322163 AACAGAAGCTCAAAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
2322184 AACAGAAGCTCATAAGAGCT
1 AACAGAAGCTCATAAGAGCT
2322204 GATCCACCCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:2324765 original size:22 final size:22
Alignment explanation
Indices: 2324740--2324787 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2324730 CCAAAATAAA
* *
2324740 AAATTGATC-TAATAAATCAATT
1 AAATTGAACATAA-AAACCAATT
2324762 AAATTGAACATAAAAACCAATT
1 AAATTGAACATAAAAACCAATT
2324784 AAAT
1 AAAT
2324788 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATTGAACATAAAAACCAATT
Found at i:2324965 original size:24 final size:25
Alignment explanation
Indices: 2324935--2324996 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
2324925 CTAGAATTTG
2324935 ATAGCCTATTTCTTTAT-G-TAATTA
1 ATAGCCTATTT-TTTATAGTTAATTA
* * *
2324959 ATAGCCTGTTTTTTTTAGTTGATTA
1 ATAGCCTATTTTTTATAGTTAATTA
*
2324984 ATAGCCTAATTTT
1 ATAGCCTATTTTT
2324997 ACAACAACAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 16 0.52
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (25 bp):
ATAGCCTATTTTTTATAGTTAATTA
Found at i:2326019 original size:55 final size:55
Alignment explanation
Indices: 2325946--2326062 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 55
2325936 TAATAAGGTT
* *
2325946 ATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
2326001 ATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
2326056 ATTATTA
1 ATTATTA
2326063 TTATATGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 22 0.40
55 33 0.60
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (55 bp):
ATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:2326089 original size:58 final size:54
Alignment explanation
Indices: 2325946--2326093 Score: 163
Period size: 55 Copynumber: 2.6 Consensus size: 54
2325936 TAATAAGGTT
* * * *
2325946 ATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATTTTAACATA
1 ATTATTAAATATAATTTAA-AAAAATAATATATAATTTAACAAAATTTTAACATA
* * *
2326001 ATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTAAATATAATTTAAAAAAATAATATATAATTTAACAAAATT-TTAACATA
*
2326056 ATTATTATTATATGAA-TTAAAAAATTATAATATATAAT
1 ATTATTA-AATAT-AATTTAAAAAA--ATAATATATAAT
2326094 ACTATAAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
54 22 0.28
55 32 0.41
56 11 0.14
57 2 0.03
58 12 0.15
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (54 bp):
ATTATTAAATATAATTTAAAAAAATAATATATAATTTAACAAAATTTTAACATA
Found at i:2328628 original size:36 final size:36
Alignment explanation
Indices: 2328581--2328652 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
2328571 ATACCTTGAA
*
2328581 CCATTTCCACCTTGGATCTGTAGAGTTAGCTGTAAT
1 CCATTTCCACCTTGGATCTGTAGAATTAGCTGTAAT
*
2328617 CCATTTCCACCTTGGGTCTGTAGAATTAGCTGTAAT
1 CCATTTCCACCTTGGATCTGTAGAATTAGCTGTAAT
2328653 TGGCTCTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (36 bp):
CCATTTCCACCTTGGATCTGTAGAATTAGCTGTAAT
Found at i:2329388 original size:21 final size:21
Alignment explanation
Indices: 2329363--2329402 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2329353 AAAATGAACA
2329363 ATACATATTAAGAATCTTTTG
1 ATACATATTAAGAATCTTTTG
2329384 ATACATATTAAGAATCTTT
1 ATACATATTAAGAATCTTT
2329403 ACAATACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (21 bp):
ATACATATTAAGAATCTTTTG
Found at i:2329651 original size:23 final size:23
Alignment explanation
Indices: 2329610--2329964 Score: 204
Period size: 23 Copynumber: 15.6 Consensus size: 23
2329600 ACATAGTTTC
* *
2329610 CAACACTTAAACACTTCAATTTA
1 CAACAATTAAACACCTCAATTTA
* * *
2329633 CATCAGTTGAACACCTCAATTTA
1 CAACAATTAAACACCTCAATTTA
*
2329656 CAGA-AATTAAACACTTCAATTTA
1 CA-ACAATTAAACACCTCAATTTA
*
2329679 CAACAATTAAACACCTCAACTTA
1 CAACAATTAAACACCTCAATTTA
* * *
2329702 CAACACTTTAACATCC-CAATTAA
1 CAACAATTAAACA-CCTCAATTTA
* *
2329725 CAACATTTATACACCTCAA-TTA
1 CAACAATTAAACACCTCAATTTA
* * * *
2329747 CAGCGA-TAAACATCTCAAATT-
1 CAACAATTAAACACCTCAATTTA
* * ** *
2329768 CTAGCAACTAAACAATTCAATTTG
1 C-AACAATTAAACACCTCAATTTA
*** * *
2329792 TTGCACTTAAACACTTCAATTTA
1 CAACAATTAAACACCTCAATTTA
* * * * *
2329815 CATCATTTGAGCACCTCCATTTA
1 CAACAATTAAACACCTCAATTTA
* *
2329838 CAGCAATTAAACACTTCAATTTA
1 CAACAATTAAACACCTCAATTTA
* *
2329861 CAACATTTAAACACCTCAACTTA
1 CAACAATTAAACACCTCAATTTA
* * *
2329884 CAACACTTTAACATCC-CAATTAA
1 CAACAATTAAACA-CCTCAATTTA
* *
2329907 CAACATTTATACACCTCAA-TTA
1 CAACAATTAAACACCTCAATTTA
** * *
2329929 CAATGA-TAAACATCTCAATTTT
1 CAACAATTAAACACCTCAATTTA
* *
2329951 CAGCAACTAAACAC
1 CAACAATTAAACAC
2329965 TTTAAATTGC
Statistics
Matches: 251, Mismatches: 69, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
21 21 0.08
22 26 0.10
23 200 0.80
24 4 0.02
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (23 bp):
CAACAATTAAACACCTCAATTTA
Found at i:2329920 original size:182 final size:182
Alignment explanation
Indices: 2329613--2329963 Score: 614
Period size: 182 Copynumber: 1.9 Consensus size: 182
2329603 TAGTTTCCAA
2329613 CACTTAAACACTTCAATTTACATCAGTTGAACACCTCAATTTACAGAAATTAAACACTTCAATTT
1 CACTTAAACACTTCAATTTACATCAGTTGAACACCTCAATTTACAGAAATTAAACACTTCAATTT
2329678 ACAACAATTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
66 ACAACAATTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
*
2329743 ATTACAGCGATAAACATCTCAAATTCT-AGCAACTAAACAATTCAATTTGTTG
131 ATTACAACGATAAACATCTC-AATTCTCAGCAACTAAACAATTCAATTTGTTG
* * * *
2329795 CACTTAAACACTTCAATTTACATCATTTGAGCACCTCCATTTACAGCAATTAAACACTTCAATTT
1 CACTTAAACACTTCAATTTACATCAGTTGAACACCTCAATTTACAGAAATTAAACACTTCAATTT
*
2329860 ACAACATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
66 ACAACAATTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
* *
2329925 ATTACAATGATAAACATCTCAATTTTCAGCAACTAAACA
131 ATTACAACGATAAACATCTCAATTCTCAGCAACTAAACA
2329964 CTTTAAATTG
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
181 5 0.03
182 155 0.97
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (182 bp):
CACTTAAACACTTCAATTTACATCAGTTGAACACCTCAATTTACAGAAATTAAACACTTCAATTT
ACAACAATTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTCA
ATTACAACGATAAACATCTCAATTCTCAGCAACTAAACAATTCAATTTGTTG
Found at i:2330497 original size:15 final size:15
Alignment explanation
Indices: 2330473--2330503 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2330463 GTTTTAAGAT
2330473 AACATAAATACTTAC
1 AACATAAATACTTAC
*
2330488 AACATGAATACTTAC
1 AACATAAATACTTAC
2330503 A
1 A
2330504 TTTTAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (15 bp):
AACATAAATACTTAC
Found at i:2331413 original size:15 final size:14
Alignment explanation
Indices: 2331386--2331412 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2331376 AGAAATACAA
2331386 GGAAAAATTTTTTG
1 GGAAAAATTTTTTG
2331400 GGAAAAATTTTTT
1 GGAAAAATTTTTT
2331413 TCTATTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (14 bp):
GGAAAAATTTTTTG
Found at i:2332781 original size:23 final size:21
Alignment explanation
Indices: 2332733--2332781 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
2332723 TAATATGAAT
*
2332733 TATATGTATATGTATGTACAA
1 TATATGTATATATATGTACAA
*
2332754 AATATGTATATATATAAGTACAA
1 TATATGTATATATAT--GTACAA
2332777 TATAT
1 TATAT
2332782 AAGTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (21 bp):
TATATGTATATATATGTACAA
Found at i:2333143 original size:3 final size:3
Alignment explanation
Indices: 2333135--2333187 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
2333125 TGTACATGGA
* * *
2333135 AAT AAT AAT TAT GAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2333183 AAT AA
1 AAT AA
2333188 GAAAAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:2336083 original size:23 final size:21
Alignment explanation
Indices: 2336035--2336083 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
2336025 TAATATGAAT
*
2336035 TATATGTATATGTATGTACAA
1 TATATGTATATATATGTACAA
*
2336056 AATATGTATATATATAAGTACAA
1 TATATGTATATATAT--GTACAA
2336079 TATAT
1 TATAT
2336084 AAGTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (21 bp):
TATATGTATATATATGTACAA
Found at i:2336445 original size:3 final size:3
Alignment explanation
Indices: 2336437--2336489 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
2336427 TGTACATGGA
* * *
2336437 AAT AAT AAT TAT GAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2336485 AAT AA
1 AAT AA
2336490 GAAAAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:2337257 original size:15 final size:16
Alignment explanation
Indices: 2337237--2337272 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2337227 AAACAAAAAC
2337237 AAAAATAA-AATAATG
1 AAAAATAATAATAATG
2337252 AAAAATAATAATAATG
1 AAAAATAATAATAATG
2337268 AAAAA
1 AAAAA
2337273 ACTATCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATAATAATAATG
Found at i:2337975 original size:45 final size:45
Alignment explanation
Indices: 2337911--2338582 Score: 740
Period size: 45 Copynumber: 15.1 Consensus size: 45
2337901 TTTTTTTTTG
* *
2337911 TCTTTGATGTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
2337956 TCTTTGATCTATTTTGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
2338001 TCTTTGATCTACTTCGCTGCCAGTATAGGAAGACAAGAGCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *
2338046 TCTTCGATCTACTT--C-ACAAATATAAGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
2338088 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *** * ***
2338133 T-TTTCAACCTACTCCACTGCTGCT-CAGGGAGATGGGA-CTTG-TGA
1 TCTTT-GATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT-A
* * *
2338177 -CTTTGGTCTACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
*
2338221 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *** * * *
2338266 T-TTTCAACCTACTCCACTGCTGCT-CAGGGAGATAGGA-CTTG-TGA
1 TCTTT-GATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT-A
* *
2338310 -CTTTGATCTACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
2338354 TCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
2338399 TCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
2338444 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
*
2338489 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
2338534 TATTTGATCTACTTCGCTACCAGTACAGGAAGACAAGATCTGTTA
1 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
2338579 TCTT
1 TCTT
2338583 CAGTCTGCTC
Statistics
Matches: 527, Mismatches: 81, Indels: 38
0.82 0.13 0.06
Matches are distributed among these distances:
42 35 0.07
43 28 0.05
44 64 0.12
45 400 0.76
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:2338240 original size:133 final size:133
Alignment explanation
Indices: 2337912--2338534 Score: 706
Period size: 133 Copynumber: 4.7 Consensus size: 133
2337902 TTTTTTTTGT
* * * * * *
2337912 CTTTGATGTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTATTTTGCTGCC
1 CTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCC
* * * * * * * * * *
2337977 AATATAGGAAGACAAGATCTGCTATCTTT-GATCTACTTCGCTGCCAG-TATAGGAAGACAAGAG
66 AATACAGGAAGACAAGATCTGCTAT-TTTCAACCTACTCCACTG-CTGCT-CAGGGAGATAGGA-
2338040 C-TGCT-A
127 CTTG-TGA
* * * * * * *
2338046 TCTTCGATCTACTT--C-ACAAATATAAGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
1 -CTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
*
2338108 CAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATGGGACTT
65 CAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTT
2338173 GTGA
130 GTGA
* *
2338177 CTTTGGTCTACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTCGATCTACTTCGCTGCC
1 CTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCC
2338242 AATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTTG
66 AATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTTG
2338307 TGA
131 TGA
*
2338310 CTTTGATCTACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTCGATCTACTTCGCTGCC
1 CTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCC
* * * * * * *** * * * *
2338375 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGA-TC
66 AATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCT-CAGGGAGATAGGACT-
2338439 TGCT-A
129 TG-TGA
* * *
2338444 TCTTTGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
1 -CTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
2338509 CAATACAGGAAGACAAGATCTGCTAT
65 CAATACAGGAAGACAAGATCTGCTAT
2338535 ATTTGATCTA
Statistics
Matches: 428, Mismatches: 49, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
130 13 0.03
131 16 0.04
132 78 0.18
133 213 0.50
134 12 0.03
135 96 0.22
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (133 bp):
CTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCC
AATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTTG
TGA
Found at i:2338609 original size:45 final size:45
Alignment explanation
Indices: 2337923--2338755 Score: 732
Period size: 45 Copynumber: 18.8 Consensus size: 45
2337913 TTTGATGTAT
* *
2337923 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTAT
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *
2337968 TTTGCTGCCAATATAGGAAGACAAGATCTGCTATCTTTGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *
2338013 TTCGCTGCCAGTATAGGAAGACAAGAGCTGCTATCTTCGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * * *
2338058 TT--C-ACAAATATAAGAAGACAAGATCTGCTATCTTTGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *
2338100 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *** * *** * *
2338145 TCCACTGCTGCT-CAGGGAGATGGGA-CTTG-TGA-CTTTGGTCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATC-TGCT-ATCTTCGATCTAC
* *
2338188 TTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTCGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *
2338233 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *** * * * *
2338278 TCCACTGCTGCT-CAGGGAGATAGGA-CTTG-TGA-CTTTGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATC-TGCT-ATCTTCGATCTAC
* *
2338321 TTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTCGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
*
2338366 TTCGCTGCCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* *
2338411 TTCGCTGCCAATATAGGAAGACAAGATCTGCTATCTTTGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* *
2338456 TTCACTGCCAATACAGAAAGACAAGATCTGCTATCTTCGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* *
2338501 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * *
2338546 TTCGCTACCAGTACAGGAAGACAAGATCTGTTATCTTC-AGTCTGC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTAC
* * * * * *
2338591 TCCGCTG-CAACT-CAAGGAAGTC-AGA-CTAG-TGTTTTTGATCCAC
1 TTCGCTGCCAA-TAC-AGGAAGACAAGATCT-GCTATCTTCGATCTAC
** * * * * *
2338634 TTCATTGCCAATACAGGAAGACAATATTTGCTATTTTCAACCTAC
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * *** * * *** *
2338679 TCCACCGCTGCT-CAGGAAGATAAGGT-TGAGGTCTTCGATCTAT
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* *
2338722 TTTGCTGCTAATACAGGAAGACAAGATCTGCTAT
1 TTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
2338756 TTTCAACCTA
Statistics
Matches: 626, Mismatches: 135, Indels: 54
0.77 0.17 0.07
Matches are distributed among these distances:
42 35 0.06
43 69 0.11
44 92 0.15
45 430 0.69
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
TTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
Found at i:2339728 original size:26 final size:26
Alignment explanation
Indices: 2339699--2339748 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2339689 AGTGTCATGA
2339699 AAAGAAAAAAGTATTCCAAGAACAGC
1 AAAGAAAAAAGTATTCCAAGAACAGC
* *
2339725 AAAGAATAAAGTATTTCAAGAACA
1 AAAGAAAAAAGTATTCCAAGAACA
2339749 AACAAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (26 bp):
AAAGAAAAAAGTATTCCAAGAACAGC
Found at i:2343925 original size:16 final size:16
Alignment explanation
Indices: 2343901--2343935 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2343891 TTCTATGATG
*
2343901 AAATATCATGCAGTCA
1 AAATATCATGCAGCCA
*
2343917 AAATGTCATGCAGCCA
1 AAATATCATGCAGCCA
2343933 AAA
1 AAA
2343936 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (16 bp):
AAATATCATGCAGCCA
Found at i:2363389 original size:4 final size:4
Alignment explanation
Indices: 2363371--2364046 Score: 825
Period size: 4 Copynumber: 169.5 Consensus size: 4
2363361 CCTAGCTACG
* * * * *
2363371 TACA TATA TATA TACA TACA TACA TGCA TACA TGCA TACA TGCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * ** *
2363419 TACA TACA TACA TACA TACA TACA TACG TACG TACG TATG TACA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * *
2363467 TGCG TACG TACG TACA CACA TACG TACA TACA TACA TATA TACA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
2363515 TACA TACA TACA TACA TACG TACG TACA CACA TACA TACG TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
2363563 CACA TACA TACG TACG TACA CACA TACA TACA TACC TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2363611 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2363659 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
2363707 TACA TACA TATA TACA TACA TACG TACA CACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2363755 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
2363803 TACA TACA TACA TACA TACA TACA TACT TACA TACA TACA TACA TACT
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * ** *
2363851 TAGA TACG TACA TATG TACA CACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
2363899 TACG TACG TACG TACG TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * **
2363947 TACA TACA TACA TACA TACG TACG TACG TACA CACA TACA TACA GATG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** * * * * *
2363995 TATG TACA CACA TAC- -ACA CACA TACG TACA CACA TACA TACA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2364041 TACA TA
1 TACA TA
2364047 AATGCCTCAT
Statistics
Matches: 589, Mismatches: 81, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
2 2 0.00
4 587 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:2367415 original size:6 final size:6
Alignment explanation
Indices: 2367404--2367431 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2367394 TTTTTCTTTC
2367404 TATGGT TATGGT TATGGT TATGGT TATG
1 TATGGT TATGGT TATGGT TATGGT TATG
2367432 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (6 bp):
TATGGT
Found at i:2373218 original size:16 final size:16
Alignment explanation
Indices: 2373194--2373224 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2373184 TAAAATTAAG
2373194 ATCGAAAGATAAAATA
1 ATCGAAAGATAAAATA
*
2373210 ATCGGAAGATAAAAT
1 ATCGAAAGATAAAAT
2373225 GGAGCCACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.06, G:0.16, T:0.19
Consensus pattern (16 bp):
ATCGAAAGATAAAATA
Found at i:2374910 original size:22 final size:21
Alignment explanation
Indices: 2374885--2374927 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2374875 ATGATAGTTA
2374885 TATGATAGAT-TAATGATGAATT
1 TATGATA-ATGTAATG-TGAATT
2374907 TATGATAATGTAATGTGAATT
1 TATGATAATGTAATGTGAATT
2374928 GAATATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (21 bp):
TATGATAATGTAATGTGAATT
Found at i:2384145 original size:770 final size:770
Alignment explanation
Indices: 2382666--2384207 Score: 3084
Period size: 770 Copynumber: 2.0 Consensus size: 770
2382656 ACATCCAACG
2382666 TTTACCATGTCATCAAGATGCTTCTTGTAAGCATCTCTATTAGCCCTTGAGGCATTAGCGAGTGG
1 TTTACCATGTCATCAAGATGCTTCTTGTAAGCATCTCTATTAGCCCTTGAGGCATTAGCGAGTGG
2382731 TTCATTAGGAAGCGGTTGTTCAATGACATATAATTTCCATTCTTGTTTGAGGACAATCCTCAAGT
66 TTCATTAGGAAGCGGTTGTTCAATGACATATAATTTCCATTCTTGTTTGAGGACAATCCTCAAGT
2382796 TACAGAACCAGTCAAGAAAATTCAAACCATTCAATTTGTCTTTCTCAAGGACCGATCGCAATGAG
131 TACAGAACCAGTCAAGAAAATTCAAACCATTCAATTTGTCTTTCTCAAGGACCGATCGCAATGAG
2382861 AGTTTATTAGTTTTTGCAGCCATAATATATCTACAACAATAAAATATGCATGTGTAAATTTACCA
196 AGTTTATTAGTTTTTGCAGCCATAATATATCTACAACAATAAAATATGCATGTGTAAATTTACCA
2382926 AGTTTATATCAATGATTAAAAGGACTTTATTAAATGATGTTCCCACTATTTTATTACAAAATTAA
261 AGTTTATATCAATGATTAAAAGGACTTTATTAAATGATGTTCCCACTATTTTATTACAAAATTAA
2382991 TAACCCTCATATATTAGTTTCAGAAAGACTTTCTCAAAAAGTATTTCAAGTGGGTTAAGGATCCA
326 TAACCCTCATATATTAGTTTCAGAAAGACTTTCTCAAAAAGTATTTCAAGTGGGTTAAGGATCCA
2383056 TATTTCACCTCCTCTTAAGTCAGTTTTGGCTTTACTCTCAAGATTATGGTTATCTAGGTAAGCAA
391 TATTTCACCTCCTCTTAAGTCAGTTTTGGCTTTACTCTCAAGATTATGGTTATCTAGGTAAGCAA
2383121 CACTTGCTAATTACATCATATGTAACTCCTAAAGTTTAGTGAACTCTTGTTCTAATCATCTTATG
456 CACTTGCTAATTACATCATATGTAACTCCTAAAGTTTAGTGAACTCTTGTTCTAATCATCTTATG
2383186 ATTTATCCAAATTACTTGCCTCTAGGTTTCTAGTCCTATTAGAATAAGTTAAGTCATTAACCAAT
521 ATTTATCCAAATTACTTGCCTCTAGGTTTCTAGTCCTATTAGAATAAGTTAAGTCATTAACCAAT
2383251 TTTAACCAACGAATATCACTTGTTTATTCTTCGTGTATAACCAAGATAAATACTAGTACTTCACT
586 TTTAACCAACGAATATCACTTGTTTATTCTTCGTGTATAACCAAGATAAATACTAGTACTTCACT
2383316 TTAGCAGAACCTACACAGTATTGATCGAGGCCTTACTGAGGGCAAAATTGGAAGGCTATATTGAC
651 TTAGCAGAACCTACACAGTATTGATCGAGGCCTTACTGAGGGCAAAATTGGAAGGCTATATTGAC
2383381 TTAATATTTTAATAGAGGGATTTTGTTAAGGTTGTTCCATCTCACCAATTATGGT
716 TTAATATTTTAATAGAGGGATTTTGTTAAGGTTGTTCCATCTCACCAATTATGGT
2383436 TTTACCATGTCATCAAGATGCTTCTTGTAAGCATCTCTATTAGCCCTTGAGGCATTAGCGAGTGG
1 TTTACCATGTCATCAAGATGCTTCTTGTAAGCATCTCTATTAGCCCTTGAGGCATTAGCGAGTGG
2383501 TTCATTAGGAAGCGGTTGTTCAATGACATATAATTTCCATTCTTGTTTGAGGACAATCCTCAAGT
66 TTCATTAGGAAGCGGTTGTTCAATGACATATAATTTCCATTCTTGTTTGAGGACAATCCTCAAGT
2383566 TACAGAACCAGTCAAGAAAATTCAAACCATTCAATTTGTCTTTCTCAAGGACCGATCGCAATGAG
131 TACAGAACCAGTCAAGAAAATTCAAACCATTCAATTTGTCTTTCTCAAGGACCGATCGCAATGAG
2383631 AGTTTATTAGTTTTTGCAGCCATAATATATCTACAACAATAAAATATGCATGTGTAAATTTACCA
196 AGTTTATTAGTTTTTGCAGCCATAATATATCTACAACAATAAAATATGCATGTGTAAATTTACCA
2383696 AGTTTATATCAATGATTAAAAGGACTTTATTAAATGATGTTCCCACTATTTTATTACAAAATTAA
261 AGTTTATATCAATGATTAAAAGGACTTTATTAAATGATGTTCCCACTATTTTATTACAAAATTAA
2383761 TAACCCTCATATATTAGTTTCAGAAAGACTTTCTCAAAAAGTATTTCAAGTGGGTTAAGGATCCA
326 TAACCCTCATATATTAGTTTCAGAAAGACTTTCTCAAAAAGTATTTCAAGTGGGTTAAGGATCCA
2383826 TATTTCACCTCCTCTTAAGTCAGTTTTGGCTTTACTCTCAAGATTATGGTTATCTAGGTAAGCAA
391 TATTTCACCTCCTCTTAAGTCAGTTTTGGCTTTACTCTCAAGATTATGGTTATCTAGGTAAGCAA
2383891 CACTTGCTAATTACATCATATGTAACTCCTAAAGTTTAGTGAACTCTTGTTCTAATCATCTTATG
456 CACTTGCTAATTACATCATATGTAACTCCTAAAGTTTAGTGAACTCTTGTTCTAATCATCTTATG
2383956 ATTTATCCAAATTACTTGCCTCTAGGTTTCTAGTCCTATTAGAATAAGTTAAGTCATTAACCAAT
521 ATTTATCCAAATTACTTGCCTCTAGGTTTCTAGTCCTATTAGAATAAGTTAAGTCATTAACCAAT
2384021 TTTAACCAACGAATATCACTTGTTTATTCTTCGTGTATAACCAAGATAAATACTAGTACTTCACT
586 TTTAACCAACGAATATCACTTGTTTATTCTTCGTGTATAACCAAGATAAATACTAGTACTTCACT
2384086 TTAGCAGAACCTACACAGTATTGATCGAGGCCTTACTGAGGGCAAAATTGGAAGGCTATATTGAC
651 TTAGCAGAACCTACACAGTATTGATCGAGGCCTTACTGAGGGCAAAATTGGAAGGCTATATTGAC
2384151 TTAATATTTTAATAGAGGGATTTTGTTAAGGTTGTTCCATCTCACCAATTATGGT
716 TTAATATTTTAATAGAGGGATTTTGTTAAGGTTGTTCCATCTCACCAATTATGGT
2384206 TT
1 TT
2384208 ACTTTAGTCC
Statistics
Matches: 772, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
770 772 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (770 bp):
TTTACCATGTCATCAAGATGCTTCTTGTAAGCATCTCTATTAGCCCTTGAGGCATTAGCGAGTGG
TTCATTAGGAAGCGGTTGTTCAATGACATATAATTTCCATTCTTGTTTGAGGACAATCCTCAAGT
TACAGAACCAGTCAAGAAAATTCAAACCATTCAATTTGTCTTTCTCAAGGACCGATCGCAATGAG
AGTTTATTAGTTTTTGCAGCCATAATATATCTACAACAATAAAATATGCATGTGTAAATTTACCA
AGTTTATATCAATGATTAAAAGGACTTTATTAAATGATGTTCCCACTATTTTATTACAAAATTAA
TAACCCTCATATATTAGTTTCAGAAAGACTTTCTCAAAAAGTATTTCAAGTGGGTTAAGGATCCA
TATTTCACCTCCTCTTAAGTCAGTTTTGGCTTTACTCTCAAGATTATGGTTATCTAGGTAAGCAA
CACTTGCTAATTACATCATATGTAACTCCTAAAGTTTAGTGAACTCTTGTTCTAATCATCTTATG
ATTTATCCAAATTACTTGCCTCTAGGTTTCTAGTCCTATTAGAATAAGTTAAGTCATTAACCAAT
TTTAACCAACGAATATCACTTGTTTATTCTTCGTGTATAACCAAGATAAATACTAGTACTTCACT
TTAGCAGAACCTACACAGTATTGATCGAGGCCTTACTGAGGGCAAAATTGGAAGGCTATATTGAC
TTAATATTTTAATAGAGGGATTTTGTTAAGGTTGTTCCATCTCACCAATTATGGT
Found at i:2386902 original size:20 final size:20
Alignment explanation
Indices: 2386877--2386953 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
2386867 AAGACGATGA
2386877 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
2386897 ACCATTCCATTTATTTACTT
1 ACCATTCCATTTACTTACTT
*
2386917 TCCACTT-CATTTACTTACTT
1 ACCA-TTCCATTTACTTACTT
*
2386937 TCCATTCCATTTACTTA
1 ACCATTCCATTTACTTA
2386954 GCATAAGCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 2 0.04
20 48 0.92
21 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:2403759 original size:23 final size:23
Alignment explanation
Indices: 2403739--2403783 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2403729 TTTCTTACTA
2403739 TAGTAATTTTCAGGG-TATTACAG
1 TAGTAATTTTC-GGGATATTACAG
2403762 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
2403784 TAATGTGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:2404356 original size:16 final size:16
Alignment explanation
Indices: 2404330--2404369 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2404320 TTATTGTTCT
*
2404330 ATTGAATATACGTGAAG
1 ATTG-ATATACATGAAG
2404347 ATTGATATACATGAAG
1 ATTGATATACATGAAG
2404363 ATT-ATAT
1 ATTGATAT
2404370 TGCTTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (16 bp):
ATTGATATACATGAAG
Found at i:2405903 original size:101 final size:102
Alignment explanation
Indices: 2405768--2405952 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
2405758 AAAGTGATGG
*
2405768 TCACGTGTGTAGTACTAGATGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCACTTGTGTAGT
1 TCACGTGTGTAGTACTAGATGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
* *
2405831 ACTATGTGCAGGCTATTATGCGTACCAGATAGTTTCGA
65 ACTACGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
* * *
2405869 TCACTTGTGTAGTACTATG-TGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTA-GATGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGT
2405933 ACTACGTGCAGGCTACTATG
65 ACTACGTGCAGGCTACTATG
2405953 TGAACCGAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTAGATGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTACGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
Found at i:2405929 original size:51 final size:50
Alignment explanation
Indices: 2405764--2405959 Score: 216
Period size: 51 Copynumber: 3.9 Consensus size: 50
2405754 AGTAAAAGTG
* *
2405764 ATGGTCACGTGTGTAGTACTA-GATGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACTTGTGTAGTACTATG-TGCAGGCTACTACGTGTACCGG-ATGGT
* * * * *
2405815 A-GGTCACTTGTGTAGTACTATGTGCAGGCTATTATGCGTACCAGATAGT
1 ATGGTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
* * *
2405864 TTCGATCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
1 AT-GGTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
* * * *
2405915 AATGGTCACATGTGTAGTACTACGTGCAGGCTACTATGTGAACCG
1 -ATGGTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
2405960 AATATCATTG
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.03
50 36 0.30
51 79 0.66
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGGTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
Found at i:2413159 original size:18 final size:18
Alignment explanation
Indices: 2413122--2413160 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2413112 TTATCCAAAA
*
2413122 ATTATTAAATCAAATTTT
1 ATTATTAAATCAAATATT
* *
2413140 ATTATTACATCACATATT
1 ATTATTAAATCAAATATT
2413158 ATT
1 ATT
2413161 TACACGCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTAAATCAAATATT
Found at i:2418864 original size:31 final size:31
Alignment explanation
Indices: 2418821--2418916 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
2418811 AGATCCGTAC
*
2418821 TTTTCTGGGACTGGCGGGATATTATTGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
* *
2418852 TTTTTTGGGACTGGCAGGATATTATTGATGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
*
2418883 TTTTTTGGGACTGGCGGGATATTATCGACGA
1 TTTTTTGGGACTGGCGGGATATTATTGACGA
2418914 TTT
1 TTT
2418917 GTAGAGGGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (31 bp):
TTTTTTGGGACTGGCGGGATATTATTGACGA
Found at i:2421019 original size:79 final size:81
Alignment explanation
Indices: 2420883--2421067 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
2420873 TTGAATGATG
*
2420883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
2420947 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
2420962 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
2421024 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
2421042 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2421068 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:2421081 original size:40 final size:40
Alignment explanation
Indices: 2420884--2421067 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
2420874 TGAATGATGT
* * * *
2420884 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
2420924 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
2420964 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
2421002 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
2421043 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
2421068 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:2421089 original size:79 final size:79
Alignment explanation
Indices: 2420884--2421100 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
2420874 TGAATGATGT
** * * * **
2420884 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
2420947 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
2420964 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
2421029 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
2421043 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
2421101 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:2429091 original size:40 final size:40
Alignment explanation
Indices: 2428853--2429077 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
2428843 TTGAATGATG
* * * *
2428853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
2428893 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
2428933 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
2428972 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
2429012 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
2429053 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2429078 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:2434039 original size:84 final size:83
Alignment explanation
Indices: 2433889--2434126 Score: 255
Period size: 84 Copynumber: 2.8 Consensus size: 83
2433879 TTATAGAAAT
* * * * *
2433889 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGCTATAGATAAAACGCCACTAAAGGTCATGTTC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTACA-AAAAAACGCCGCTAAA-GTCATGTTC
2433954 TTTAGCGGCAC-TTAAAAAG
64 TTTAGCGGCACTTTAAAAAG
* *
2433973 AAATGCCGCTAAAGATCATGTTTTTTAGCTGG-GCTACAAAAAAATCGCCGCTAAATGTCATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGC-GGCGCTACAAAAAAA-CGCCGCTAAA-GTCATGTT
* * *
2434037 CTTTAGCGGCGCTTTTAAAAT
63 CTTTAGCGGCACTTTAAAAAG
* * * * * * *
2434058 AAACGCCACTAAAGAACATGATCTATAGCGGCGCAACCAACAAACGCCGCTAAAGCTCATGTTCT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTACAAAAAAACGCCGCTAAAG-TCATGTTCT
2434123 TTAG
65 TTAG
2434127 TGGCGTTTCC
Statistics
Matches: 129, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
83 6 0.05
84 83 0.64
85 40 0.31
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (83 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTACAAAAAAACGCCGCTAAAGTCATGTTCTT
TAGCGGCACTTTAAAAAG
Found at i:2434107 original size:126 final size:125
Alignment explanation
Indices: 2433892--2434126 Score: 294
Period size: 126 Copynumber: 1.9 Consensus size: 125
2433882 TAGAAATAAA
* * ** * *
2433892 CGCCGTTAAAGGTCATGTTCTTTAGCGGCGCTATAGATAAAACGCCACTAAAGGTCATGTTCTTT
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATAAATAAAACGCCACTAAAGAACATGATCTAT
* * *
2433957 AGCGGCACTTAAAAAGAAATGCCGCTAAAGATCATGTTTTTTAGCTGGGCTACAAAAAAAT
66 AGCGGCAC-TAAAAACAAACGCCGCTAAAGATCATGTTCTTTAGCTGGGCTACAAAAAAAT
* *
2434018 CGCCGCTAAATGTCATGTTCTTTAGCGGCGCTTTTAAA-ATAAACGCCACTAAAGAACATGATCT
1 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TATAAATA-AAACGCCACTAAAGAACATGATCT
* * *
2434082 ATAGCGGCGC-AACCAACAAACGCCGCTAAAGCTCATGTTCTTTAG
64 ATAGCGGCACTAA-AAACAAACGCCGCTAAAGATCATGTTCTTTAG
2434127 TGGCGTTTCC
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
125 2 0.02
126 57 0.62
127 33 0.36
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (125 bp):
CGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATAAATAAAACGCCACTAAAGAACATGATCTAT
AGCGGCACTAAAAACAAACGCCGCTAAAGATCATGTTCTTTAGCTGGGCTACAAAAAAAT
Found at i:2434630 original size:21 final size:21
Alignment explanation
Indices: 2434606--2434656 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
2434596 TTCTTTTGAA
*
2434606 CCTCTGCTTCTCTCGCT-CCAG
1 CCTCTGCTTCCCTCGCTGCC-G
2434627 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCCG
*
2434648 CCTATGCTT
1 CCTCTGCTT
2434657 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.04, C:0.47, G:0.16, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCCG
Found at i:2437327 original size:24 final size:23
Alignment explanation
Indices: 2437300--2437348 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2437290 TGCTATCAAC
*
2437300 AAACAAGGCTCATCTTTTTTTTTA
1 AAACAA-GCTCATCTTTTTTTCTA
* *
2437324 AAACTAGCTCTTCTTTTTTTCTA
1 AAACAAGCTCATCTTTTTTTCTA
2437347 AA
1 AA
2437349 CCATTTGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (23 bp):
AAACAAGCTCATCTTTTTTTCTA
Found at i:2438665 original size:15 final size:14
Alignment explanation
Indices: 2438644--2438671 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2438634 ATTTTAGGGT
2438644 TTTGGGGGAGAATG
1 TTTGGGGGAGAATG
2438658 TTTGGGGGAGAATG
1 TTTGGGGGAGAATG
2438672 GGATTTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
TTTGGGGGAGAATG
Found at i:2439015 original size:148 final size:148
Alignment explanation
Indices: 2438838--2439141 Score: 448
Period size: 148 Copynumber: 2.1 Consensus size: 148
2438828 AAACTAAAAC
* * *
2438838 TTGTGGCGCTTAGAGTAAAAACGCCACTAATAACATGGACAAAACAACACCGTTATAAGATAACC
1 TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAACAACACCGTTATAAGATAACC
* *
2438903 TTAAACATTTTTACGACGTTTTATCAAAAGCACCACTAATAAAAATAGGAAACGACGCCGTTACC
66 TTAAACATTTTTACGACGCTTTAGCAAAAGCACCACTAATAAAAATAGGAAACGACGCCGTTACC
2438968 TCAAC-CACTAATAAATAT
131 TCAACTC-CTAATAAATAT
***
2438986 TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAATGGCACCGTTATAAGATAACC
1 TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAACAACACCGTTATAAGATAACC
* * * * * *
2439051 TTAAACATTTTTGCGACGCTTTAGCTAAAGCGCCACTAATAAAAATAGGAAACGATGCCTTTTCC
66 TTAAACATTTTTACGACGCTTTAGCAAAAGCACCACTAATAAAAATAGGAAACGACGCCGTTACC
*
2439116 TCAACTCGTAATAAATAT
131 TCAACTCCTAATAAATAT
*
2439134 TTGCGGCG
1 TTGTGGCG
2439142 TTTCTAAAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
148 138 0.99
149 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (148 bp):
TTGTGGCGCTTACACTAAAAACGCCACTAATAACATGGAAAAAACAACACCGTTATAAGATAACC
TTAAACATTTTTACGACGCTTTAGCAAAAGCACCACTAATAAAAATAGGAAACGACGCCGTTACC
TCAACTCCTAATAAATAT
Found at i:2439176 original size:148 final size:146
Alignment explanation
Indices: 2438885--2439185 Score: 374
Period size: 148 Copynumber: 2.0 Consensus size: 146
2438875 GACAAAACAA
* *
2438885 CACCGTTATAAGATAACCTTAAACATTTTTACGACGTTTTATCAAAAGCACCACTAATAAAAATA
1 CACCGTTATAAGATAACCTTAAACATTTTTACGACGCTTTAGCAAAAGCACCACTAATAAAAATA
*
2438950 GGAAACGACGCCGTTACCTCAACCACTAATAAATATTTGTGGCGCTTACACTAAAAACGCCACTA
66 GGAAACGACGCCGTTACCTCAACCACTAATAAATATTTGCGGCGCTTA-ACTAAAAACGCCACTA
* *** *
2439015 ATAACATGGAAAAAATGG
130 AGAA-AACAAAAAAACGG
* * *
2439033 CACCGTTATAAGATAACCTTAAACATTTTTGCGACGCTTTAGCTAAAGCGCCACTAATAAAAATA
1 CACCGTTATAAGATAACCTTAAACATTTTTACGACGCTTTAGCAAAAGCACCACTAATAAAAATA
* * * * * *
2439098 GGAAACGATGCCTTTTCCTCAACTC-GTAATAAATATTTGCGGCG-TT-TCTAAAATGCGCCACT
66 GGAAACGACGCCGTTACCTCAAC-CACTAATAAATATTTGCGGCGCTTAACTAAAA-ACGCCACT
2439160 AAAAGAAAACAAAAAAACGG
129 --AAGAAAACAAAAAAACGG
2439180 CACCGT
1 CACCGT
2439186 CTTTGTTACA
Statistics
Matches: 132, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
145 6 0.05
146 7 0.05
147 17 0.13
148 101 0.77
149 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.25
Consensus pattern (146 bp):
CACCGTTATAAGATAACCTTAAACATTTTTACGACGCTTTAGCAAAAGCACCACTAATAAAAATA
GGAAACGACGCCGTTACCTCAACCACTAATAAATATTTGCGGCGCTTAACTAAAAACGCCACTAA
GAAAACAAAAAAACGG
Found at i:2439809 original size:20 final size:21
Alignment explanation
Indices: 2439764--2439815 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2439754 TCTTCAATTT
2439764 CCAAACT-AAACCTTAAAACC
1 CCAAACTCAAACCTTAAAACC
* *
2439784 CTAAACTCAAACCTT-AACCC
1 CCAAACTCAAACCTTAAAACC
2439804 CCAAACTCAAAC
1 CCAAACTCAAAC
2439816 TCTAACACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (21 bp):
CCAAACTCAAACCTTAAAACC
Found at i:2440017 original size:38 final size:36
Alignment explanation
Indices: 2439958--2440041 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 36
2439948 GCAGCATTGA
*
2439958 AACCCTAAATCCCCTAACCCCTAAAGTATAAC-CCTT
1 AACCCTAAATCCCCTAACCCCTAAAGCATAACACC-T
*
2439994 AACCCATAAATCCCTTTAACCCCTAAAGCATAACACCT
1 AACCC-TAAATCCC-CTAACCCCTAAAGCATAACACCT
2440032 AACCCCTAAA
1 AA-CCCTAAA
2440042 CCTCAAATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 5 0.12
37 8 0.19
38 24 0.57
39 5 0.12
ACGTcount: A:0.39, C:0.38, G:0.02, T:0.20
Consensus pattern (36 bp):
AACCCTAAATCCCCTAACCCCTAAAGCATAACACCT
Found at i:2440730 original size:113 final size:113
Alignment explanation
Indices: 2440276--2440732 Score: 540
Period size: 113 Copynumber: 4.0 Consensus size: 113
2440266 TAAATTATTT
* * * * * *
2440276 TAAATCCCTGAGCATTAGCTGCGCTTTCTTAAAAACGCCGCTAAATCAC-CGAAAAGCTCCAGAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATC-CTCG-AAAGCTCAAAAA
* * * * * *
2440340 ATGGCGCCATTGGGCTTAGTTTTTTTGCGGCGATTTCCCAAAAATGCCGC
64 ACGGCGCCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCACAAAAACGCCGC
* * * *
2440390 TAAAGCCCTGAGCATTAGCGGCGCTTCCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATCCTCGAAAGCTCAAAAAAC
*** * * *
2440455 GGTAACGTTGGGCTTATGTTTTTTGCGGCGCTTTCACAAAAACACCAC
66 GGCGCCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCACAAAAACGCCGC
* *
2440503 TAAAGCCCTGAGCATTAGCGGCGCTTCCCTAAAAACGCTGCTAAATTCCT-GAAAGCTCAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAA-TCCTCGAAAGCTCAAAAAA
* * * * *
2440567 CGGTGCCGTTGGGCTTATGTTTTTTGCGGCGCTTTCATAAAAAAGTCGC
65 CGGCGCCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCACAAAAACGCCGC
* ** *
2440616 TAAAGCCCTGAGCATTAGCAGCGCTTCCCTAAAAACGTTGCTAAATCCTCGAAATCTCAAAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATCCTCGAAAGCTCAAAAAAC
* ***
2440681 GGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTTGAAAACGCCGC
66 GGCGCCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCACAAAAACGCCGC
2440729 TAAA
1 TAAA
2440733 TCCCCAAAAG
Statistics
Matches: 296, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
112 4 0.01
113 245 0.83
114 47 0.16
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (113 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTCCCTAAAAACGCCGCTAAATCCTCGAAAGCTCAAAAAAC
GGCGCCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCACAAAAACGCCGC
Found at i:2440887 original size:12 final size:12
Alignment explanation
Indices: 2440870--2440895 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2440860 TTTTTTATCT
2440870 AAACGCCGCTAA
1 AAACGCCGCTAA
2440882 AAACGCCGCTAA
1 AAACGCCGCTAA
2440894 AA
1 AA
2440896 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:2444297 original size:23 final size:23
Alignment explanation
Indices: 2444271--2444320 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2444261 AATTGAAAAT
* * *
2444271 GTAATATCTCGAAAATTACTACC
1 GTAATACCCCGAAAATTACTACA
2444294 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
2444317 GTAA
1 GTAA
2444321 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:2451319 original size:49 final size:49
Alignment explanation
Indices: 2451263--2451361 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
2451253 CAACCCATGA
2451263 TAGTTCTCATCAGGATTAACTCATTATGTTCATTCTCAAAAATTGTAAT
1 TAGTTCTCATCAGGATTAACTCATTATGTTCATTCTCAAAAATTGTAAT
2451312 TAGTTCTCATCAGGATTAACTCATTATGTTCATTCTCAAAAATTGTAAT
1 TAGTTCTCATCAGGATTAACTCATTATGTTCATTCTCAAAAATTGTAAT
2451361 T
1 T
2451362 CCACCTTTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.41
Consensus pattern (49 bp):
TAGTTCTCATCAGGATTAACTCATTATGTTCATTCTCAAAAATTGTAAT
Found at i:2455576 original size:16 final size:16
Alignment explanation
Indices: 2455534--2455569 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
2455524 GCTAGGCAAA
*
2455534 GAAAGAAGGAAGAAAAT
1 GAAAGAATGAA-AAAAT
2455551 GAAAGAATGAAAAAAT
1 GAAAGAATGAAAAAAT
2455567 GAA
1 GAA
2455570 TGGATGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (16 bp):
GAAAGAATGAAAAAAT
Found at i:2471205 original size:233 final size:233
Alignment explanation
Indices: 2470798--2471265 Score: 900
Period size: 233 Copynumber: 2.0 Consensus size: 233
2470788 AATGGTTATG
2470798 TGAAATTGATTGTGACTGATGAAATTGTATTTATGTTTTGACACTCATGCTATGTGATGTAATGA
1 TGAAATTGATTGTGACTGATGAAATTGTATTTATGTTTTGACACTCATGCTATGTGATGTAATGA
* *
2470863 CATCTTCTGTTTAGTAAAAGTTGATACTACGATAAATTATGAATACCATATTTTGATTTGATAAA
66 CATCTTCTGTTTAGTAAAAGTTGATACTACAATAAATTATGAATACCATATTTTGATTTGACAAA
2470928 GCATGAAAAGAAAACCATCTTGGTAATCTCTGTTAATGAATATTTGGTTCGTATGCTAAGCATGT
131 GCATGAAAAGAAAACCATCTTGGTAATCTCTGTTAATGAATATTTGGTTCGTATGCTAAGCATGT
2470993 CTATTGAAAATTTTGTTCTGTATGTCATATCACATGCA
196 CTATTGAAAATTTTGTTCTGTATGTCATATCACATGCA
2471031 TGAAATTGATTGTGACTGATGAAATTGTATTTATGTTTTGACACTCATGCTATGTGATGTAATGA
1 TGAAATTGATTGTGACTGATGAAATTGTATTTATGTTTTGACACTCATGCTATGTGATGTAATGA
*
2471096 CATCTTCTGTTTAGTAAAAGTTGATACTACAATAAATTATGAATACCATATTTTGATTTTACAAA
66 CATCTTCTGTTTAGTAAAAGTTGATACTACAATAAATTATGAATACCATATTTTGATTTGACAAA
*
2471161 GCATGAAAAGAAAACCATGTTGGTAATCTCTGTTAATGAATATTTGGTTCGTATGCTAAGCATGT
131 GCATGAAAAGAAAACCATCTTGGTAATCTCTGTTAATGAATATTTGGTTCGTATGCTAAGCATGT
2471226 CTATTGAAAATTTTGTTCTGTATGTCATATCACATGCA
196 CTATTGAAAATTTTGTTCTGTATGTCATATCACATGCA
2471264 TG
1 TG
2471266 GGATTGGGAT
Statistics
Matches: 231, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
233 231 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (233 bp):
TGAAATTGATTGTGACTGATGAAATTGTATTTATGTTTTGACACTCATGCTATGTGATGTAATGA
CATCTTCTGTTTAGTAAAAGTTGATACTACAATAAATTATGAATACCATATTTTGATTTGACAAA
GCATGAAAAGAAAACCATCTTGGTAATCTCTGTTAATGAATATTTGGTTCGTATGCTAAGCATGT
CTATTGAAAATTTTGTTCTGTATGTCATATCACATGCA
Found at i:2477917 original size:21 final size:22
Alignment explanation
Indices: 2477879--2477923 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
2477869 ATTATGAATA
*
2477879 TTAATTTATAATATAATTAATT
1 TTAATTTATAATACAATTAATT
*
2477901 TTAATTT-TAATACAATTTATT
1 TTAATTTATAATACAATTAATT
2477922 TT
1 TT
2477924 GGGTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATAATACAATTAATT
Found at i:2492709 original size:50 final size:50
Alignment explanation
Indices: 2492651--2492756 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
2492641 TATTGAGGTT
* * *
2492651 ATGAGAGGTCCCACATAAGACCATGTCTTGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCCTGGACATGGCATGGGCACCGAG
* * * *
2492701 ATGAGAGGTCCCCCGTAAGACCATGTCCTGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCACATAAGACCATGTCCTGGACATGGCATGGGCACCGAG
2492751 ATGAGA
1 ATGAGA
2492757 ACTCCCATGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCCTGGACATGGCATGGGCACCGAG
Found at i:2492774 original size:50 final size:50
Alignment explanation
Indices: 2492659--2492774 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 50
2492649 TTATGAGAGG
* * * * * **
2492659 TCCCACATAAGACCATGTCTTGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAAACCATGTCCTGGACATGGCATGGGCACCGAGATGAGAAC
* * * *
2492709 TCCCCCGTAAGACCATGTCCTGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCACGTAAAACCATGTCCTGGACATGGCATGGGCACCGAGATGAGAAC
*
2492759 TCCCATGTAAAACCAT
1 TCCCACGTAAAACCAT
2492775 ATCTGGGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.21
Consensus pattern (50 bp):
TCCCACGTAAAACCATGTCCTGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:2495731 original size:14 final size:14
Alignment explanation
Indices: 2495712--2495739 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2495702 CCAATTTATT
2495712 AATGAATTATTAAA
1 AATGAATTATTAAA
2495726 AATGAATTATTAAA
1 AATGAATTATTAAA
2495740 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:2500167 original size:19 final size:20
Alignment explanation
Indices: 2500127--2500172 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2500117 CGGAAAATGA
*
2500127 TTTCTGGAAAATGACTTAAT
1 TTTCTGGAAAATGACTAAAT
2500147 TTTCTGGAAAA-G-CTAATAT
1 TTTCTGGAAAATGACTAA-AT
2500166 TTTCTGG
1 TTTCTGG
2500173 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (20 bp):
TTTCTGGAAAATGACTAAAT
Found at i:2500687 original size:19 final size:19
Alignment explanation
Indices: 2500665--2500721 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
2500655 AAAATAAAAT
2500665 TTAAATATTCAATAATTTA
1 TTAAATATTCAATAATTTA
*
2500684 TTAAA-AAT-AATAATTTATA
1 TTAAATATTCAATAA-TT-TA
*
2500703 TTAATTATATCAATAATTT
1 TTAAATAT-TCAATAATTT
2500722 CTTATATCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
17 5 0.17
18 4 0.13
19 11 0.37
20 2 0.07
21 3 0.10
22 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATATTCAATAATTTA
Found at i:2502020 original size:3 final size:3
Alignment explanation
Indices: 2502012--2502052 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
2502002 CTCTATGGGG
* *
2502012 TCT TCT TCT TCT TCT TTT TCT TCT TTT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
2502053 AGGATCCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:2512201 original size:22 final size:22
Alignment explanation
Indices: 2512175--2512221 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2512165 TCATTTTTTT
2512175 TACCAAAAAC-CAAACCATTTCG
1 TACC-AAAACTCAAACCATTTCG
* *
2512197 TACCAAAACTTATACCATTTCG
1 TACCAAAACTCAAACCATTTCG
2512219 TAC
1 TAC
2512222 TTACACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.40, C:0.30, G:0.04, T:0.26
Consensus pattern (22 bp):
TACCAAAACTCAAACCATTTCG
Found at i:2512279 original size:45 final size:44
Alignment explanation
Indices: 2512181--2512279 Score: 103
Period size: 45 Copynumber: 2.2 Consensus size: 44
2512171 TTTTTACCAA
* *
2512181 AAACCAAA-CCATTTCGTACCAAAACTTATACCATTTCGTACTT
1 AAACCAAACCCATTTCGTACCAAAACCTATACCATTCCGTACTT
* * * *
2512224 ACACCAAAACCCATTTCGTGCCAAAACCTATTCCATTCCTTAAC-T
1 AAACC-AAACCCATTTCGTACCAAAACCTATACCATTCCGT-ACTT
2512269 AAACCTAAACC
1 AAACC-AAACC
2512280 ATATTCGACG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.09
44 3 0.07
45 36 0.80
46 2 0.04
ACGTcount: A:0.37, C:0.32, G:0.04, T:0.26
Consensus pattern (44 bp):
AAACCAAACCCATTTCGTACCAAAACCTATACCATTCCGTACTT
Found at i:2512610 original size:19 final size:19
Alignment explanation
Indices: 2512588--2512636 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
2512578 TAAACGAAAT
*
2512588 AAAAAAAATTCGTGATATA
1 AAAAAAAATTCGGGATATA
* *
2512607 AAAAAATATTCGGGATTTA
1 AAAAAAAATTCGGGATATA
2512626 AAAAAACAATT
1 AAAAAA-AATT
2512637 TGTTTACAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (19 bp):
AAAAAAAATTCGGGATATA
Found at i:2516785 original size:34 final size:34
Alignment explanation
Indices: 2516742--2516817 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
2516732 AAAATCTACA
* *
2516742 TACAGTAGGACAATTTTTAAAGTTTAGTTTATTT
1 TACATTAGGAAAATTTTTAAAGTTTAGTTTATTT
*
2516776 TACATTAGGAAAATTTTTAAAGTTTAGTTTGTTT
1 TACATTAGGAAAATTTTTAAAGTTTAGTTTATTT
2516810 TACATTAG
1 TACATTAG
2516818 AAATGCAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47
Consensus pattern (34 bp):
TACATTAGGAAAATTTTTAAAGTTTAGTTTATTT
Done.