Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 107 of 153
Found at i:33306578 original size:87 final size:87
Alignment explanation
Indices: 33306487--33306816 Score: 357
Period size: 87 Copynumber: 3.7 Consensus size: 87
33306477 TTAAGGGTGT
* *
33306487 AAAAAGCCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCACTGCTTTTTTTGCACTCAATTGGAT
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCTCTGCTTTTTTTGCACTCAATTGGAT
33306552 ACTTAAACTTTCAAAATGCATC
66 ACTTAAACTTTCAAAATGCATC
* * * *
33306574 AAAAAG-GCTCTAAACTTTTTCAAAAATAGAAATTAAGCCTCTTCTTTTTTCGCACTCAATTGGA
1 AAAAAGCCCTC-AAACTTTTTCAAAAAAAGAAATTAAGCCTCTGCTTTTTTTGCACTCAATTGGA
33306638 TACTTAAACTTTCAAAATGCATC
65 TACTTAAACTTTCAAAATGCATC
* * *
33306661 AAAAAGACCCT-AAACTTTTTCAAAAATAGAAATTAAGCCTCTGCTCTCTTTTTTTTACACTTAA
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCTCTG----C-TTTTTTTGCACTCAA
* * *
33306725 TTAGG-TACTTGAA-TTGCCAAAATGCATAA
60 TT-GGATACTTAAACTT-TCAAAATGCAT-C
* * **
33306754 AAAAAACCCTCAAACTTTTTC-AAAAAAGCAATTAAGGCC-CTAATTTTTTTTTGCACTCAATTG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAGAAATTAA-GCCTCT--GCTTTTTTTGCACTCAATTG
33306817 CCAAAAATGC
Statistics
Matches: 207, Mismatches: 21, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
86 3 0.01
87 114 0.55
88 1 0.00
89 17 0.08
91 3 0.01
92 49 0.24
93 20 0.10
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (87 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCTCTGCTTTTTTTGCACTCAATTGGAT
ACTTAAACTTTCAAAATGCATC
Found at i:33307015 original size:30 final size:30
Alignment explanation
Indices: 33306965--33307037 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
33306955 AAAGATCAAT
*
33306965 AAAAGTTATAAAAATTATTAAATTTTAATA
1 AAAAGTTATAAAAATAATTAAATTTTAATA
* *
33306995 AAAAG-TATAAGAAATAATTAATTTTTATTA
1 AAAAGTTATAA-AAATAATTAAATTTTAATA
*
33307025 AAAA-TTAGAAAAA
1 AAAAGTTATAAAAA
33307038 GATTATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 8 0.22
30 29 0.78
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAGTTATAAAAATAATTAAATTTTAATA
Found at i:33307080 original size:20 final size:20
Alignment explanation
Indices: 33307051--33307093 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33307041 TATAAAACAT
* * *
33307051 AAAAATGTAAAATTTTATAA
1 AAAAAGGTAAAAATATATAA
33307071 AAAAAGGTAAAAATATATAA
1 AAAAAGGTAAAAATATATAA
33307091 AAA
1 AAA
33307094 TATATAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAAGGTAAAAATATATAA
Found at i:33307118 original size:12 final size:10
Alignment explanation
Indices: 33307078--33307120 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
33307068 TAAAAAAAGG
33307078 TAAAAATATA
1 TAAAAATATA
33307088 TAAAAATATA
1 TAAAAATATA
*
33307098 TAGAAATATA
1 TAAAAATATA
* *
33307108 GAAATATATA
1 TAAAAATATA
33307118 TAA
1 TAA
33307121 TTTTATAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (10 bp):
TAAAAATATA
Found at i:33307226 original size:11 final size:11
Alignment explanation
Indices: 33307210--33307244 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
33307200 ATAAGAAGCA
33307210 TTTTATAATTT
1 TTTTATAATTT
33307221 TTTTATAATTT
1 TTTTATAATTT
*
33307232 TTCTATAACTTT
1 TTTTATAA-TTT
33307244 T
1 T
33307245 ATTGATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:33307424 original size:21 final size:21
Alignment explanation
Indices: 33307400--33307442 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33307390 TTTTTTATGA
*
33307400 TTTTTATAAAATTTTAGAATTT
1 TTTTTAT-AAATTTTACAATTT
*
33307422 TTTTTATATATTTTACAATTT
1 TTTTTATAAATTTTACAATTT
33307443 ATATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTATAAATTTTACAATTT
Found at i:33307471 original size:57 final size:55
Alignment explanation
Indices: 33307383--33307491 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 55
33307373 TTTGATGTAT
*
33307383 TTTATAATTTTTTATGATTTTTATAAAATTTTAGAAT-TTTTTTTATATATTTTACAA
1 TTTATAATTTTTTA-GATTTTTATAAAATTTTA-AATATTCTTTTATAT-TTTTACAA
33307440 TTTATATATTTTTCTA-ATTTTTAGT-AAATTTTAAATATTCTTTTATATTTTT
1 TTTATA-ATTTTT-TAGATTTTTA-TAAAATTTTAAATATTCTTTTATATTTTT
33307492 GTTAAAGTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
56 7 0.15
57 31 0.66
58 7 0.15
59 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (55 bp):
TTTATAATTTTTTAGATTTTTATAAAATTTTAAATATTCTTTTATATTTTTACAA
Found at i:33307503 original size:30 final size:29
Alignment explanation
Indices: 33307440--33307511 Score: 69
Period size: 30 Copynumber: 2.4 Consensus size: 29
33307430 TATTTTACAA
* *
33307440 TTTATATATTTTTCTAATTTTTAGTAAAT
1 TTTAAATATTTTTCTAATTTTTAGTAAAG
33307469 TTTAAATATTCTTT-TATATTTTT-GTTAAAG
1 TTTAAATATT-TTTCTA-ATTTTTAG-TAAAG
33307499 TTT-AATCATTTTT
1 TTTAAAT-ATTTTT
33307512 ATTTTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTAAATATTTTTCTAATTTTTAGTAAAG
Found at i:33307742 original size:89 final size:86
Alignment explanation
Indices: 33307649--33307889 Score: 268
Period size: 89 Copynumber: 2.7 Consensus size: 86
33307639 TACATTTTGG
* * *
33307649 CAATTGAGTGCAAAAAAGAGCAGGGACTTAATTGCTTGTTTTGAAAATTTTTGAGGGTATTTTTG
1 CAATTGAGTGCAAAAAA-AGCAGGGGCTTAATTGCTT-TTTTAAAAATGTTTGAGGGT-TTTTTG
* *
33307714 ATGCATTTTGACAGTTCAAGTACC
63 ATGCATTTTGAAACTTCAAGTACC
* ** **
33307738 CAATTGACTAAG-AAAAAAAGCAGGGGCTTAATTGCTTTTTTTTTAAATGTTTGAAGGCCTTTTT
1 CAATTGAGT--GCAAAAAAAGCAGGGGCTTAATTGC-TTTTTTAAAAATGTTTG-AGGGTTTTTT
33307802 GATGCATTTTGAAACTTCAAGTACC
62 GATGCATTTTGAAACTTCAAGTACC
* ** *
33307827 TAATTGAGTGCAAAAAAAAGGGGGGGCTTAATTGCTTTTTTAAAAAAAGTTTGAGGGTTTTTT
1 CAATTGAGTGC-AAAAAAAGCAGGGGCTTAATTGCTTTTTT-AAAAATGTTTGAGGGTTTTTT
33307890 ACACTCTTAA
Statistics
Matches: 127, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
87 1 0.01
88 14 0.11
89 100 0.79
90 11 0.09
91 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (86 bp):
CAATTGAGTGCAAAAAAAGCAGGGGCTTAATTGCTTTTTTAAAAATGTTTGAGGGTTTTTTGATG
CATTTTGAAACTTCAAGTACC
Found at i:33307960 original size:19 final size:18
Alignment explanation
Indices: 33307914--33307960 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
33307904 TTTAAAATAA
*
33307914 TTTTTAGAATTTTTTATTT
1 TTTTTA-AATTTTTTATAT
33307933 TTTTGTAAATTTTATTATAT
1 TTTT-TAAATTTT-TTATAT
33307953 TTTTTAAA
1 TTTTTAAA
33307961 ATATTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTAAATTTTTTATAT
Found at i:33307962 original size:20 final size:18
Alignment explanation
Indices: 33307914--33307969 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
33307904 TTTAAAATAA
*
33307914 TTTTTAGAATTTTTTATT
1 TTTTTAAAATTTTTTATT
*
33307932 TTTTTGTAAATTTTATTATAT
1 TTTTT-AAAATTTT-TTAT-T
33307953 TTTTTAAAATATTTTTA
1 TTTTTAAAAT-TTTTTA
33307970 ATGGTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 5 0.16
19 6 0.19
20 11 0.35
21 9 0.29
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTAAAATTTTTTATT
Found at i:33309952 original size:46 final size:46
Alignment explanation
Indices: 33309845--33310101 Score: 274
Period size: 46 Copynumber: 5.6 Consensus size: 46
33309835 GATCAGAGGG
* * * * * *
33309845 TGCCATGGTGTCTTTCAA-TCATGGTCTTATTTATTCT-CGACTTGA
1 TGCCATAGTGTCTTTCAACT-ATGGTCTTATTCATTTTCCGTCGTGT
* * *
33309890 TGCCATAGTGTCTTTCAACCATGTTCTTATTCATTTTCCGTTGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
* * *
33309936 TTCCATAGTGCCTTTCAACTATGGTCTTATTCATTTTCCGTCATGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
* *
33309982 TGCCATAGTGTCTTTTAACTATGGTCTTATTCATTTTCCGCCGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
* * *
33310028 TGCCATAGTGTCTTTCAACTATGG-CATTATTTA-TTT-C-TAGTAT
1 TGCCATAGTGTCTTTCAACTATGGTC-TTATTCATTTTCCGTCGTGT
*
33310071 AGTGTCATAGTGTCTTTCAACTATGGTCTTA
1 --TGCCATAGTGTCTTTCAACTATGGTCTTA
33310102 ATAATTTCCT
Statistics
Matches: 180, Mismatches: 26, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 61 0.34
46 115 0.64
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
Found at i:33315166 original size:28 final size:28
Alignment explanation
Indices: 33315126--33315363 Score: 388
Period size: 28 Copynumber: 8.5 Consensus size: 28
33315116 TAAATTGTAC
*
33315126 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315154 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315182 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315210 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315238 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315266 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315294 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315322 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33315349 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33315364 GACTTAATAT
Statistics
Matches: 197, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
27 22 0.11
28 175 0.89
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:33325895 original size:18 final size:18
Alignment explanation
Indices: 33325872--33325926 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
33325862 TTGTTTCAAG
33325872 TTTTTTTTAATTAATAAT
1 TTTTTTTTAATTAATAAT
*
33325890 TTTTTTTTCAATT-TTAAT
1 TTTTTTTT-AATTAATAAT
*
33325908 TCATCTTTTTAATTAATAA
1 T--TTTTTTTAATTAATAA
33325927 ATATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 13 0.43
19 8 0.27
20 9 0.30
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTTTAATTAATAAT
Found at i:33325896 original size:19 final size:20
Alignment explanation
Indices: 33325872--33325926 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
33325862 TTGTTTCAAG
33325872 TTTTTTTTAATTAATAATT-
1 TTTTTTTTAATTAATAATTC
* *
33325891 TTTTTTTCAATT-TTAATTC
1 TTTTTTTTAATTAATAATTC
* *
33325910 ATCTTTTTAATTAATAA
1 TTTTTTTTAATTAATAA
33325927 ATATTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 5 0.18
19 20 0.71
20 3 0.11
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTTTAATTAATAATTC
Found at i:33326133 original size:17 final size:17
Alignment explanation
Indices: 33326102--33326135 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33326092 TAATTAATTG
*
33326102 AAATATTTCACATATAA
1 AAATATTTCAAATATAA
*
33326119 AAATATTTGAAATATAA
1 AAATATTTCAAATATAA
33326136 TACTCACAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATATTTCAAATATAA
Found at i:33341146 original size:174 final size:174
Alignment explanation
Indices: 33340856--33341198 Score: 677
Period size: 174 Copynumber: 2.0 Consensus size: 174
33340846 TTTTCACTTT
33340856 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
1 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
*
33340921 ATAACCTAAAAGTTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
66 ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
33340986 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCAGACTA
131 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCAGACTA
33341030 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
1 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
33341095 ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
66 ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
33341160 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCA
131 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCA
33341199 CCCTAAAAAT
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 168 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (174 bp):
AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCAGACTA
Found at i:33344041 original size:24 final size:24
Alignment explanation
Indices: 33343994--33344041 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
33343984 CCGTTCTGTG
**
33343994 GCAAAGGATGAATTGACGGTAAAT
1 GCAAAGGATGAATTGACGACAAAT
33344018 GCAAAGGATGAATTGACGACAAAT
1 GCAAAGGATGAATTGACGACAAAT
33344042 CACCCAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGACAAAT
Found at i:33344220 original size:19 final size:20
Alignment explanation
Indices: 33344169--33344221 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
33344159 ATTTCAACTT
* *
33344169 TTACGGGTTTCTGTTTAGCT
1 TTACGGGCTTCTGTTTAGCC
*
33344189 TTCACGAGCTTCTGTTTAGCC
1 TT-ACGGGCTTCTGTTTAGCC
33344210 TT-CGGGCTTCTG
1 TTACGGGCTTCTG
33344222 AAAACGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 17 0.61
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.43
Consensus pattern (20 bp):
TTACGGGCTTCTGTTTAGCC
Found at i:33347017 original size:12 final size:12
Alignment explanation
Indices: 33347002--33347027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33346992 AAAAATAAAC
33347002 CAAATAAAATAA
1 CAAATAAAATAA
33347014 CAAATAAAATAA
1 CAAATAAAATAA
33347026 CA
1 CA
33347028 GTCCGATAAA
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:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (12 bp):
CAAATAAAATAA
Found at i:33360913 original size:22 final size:22
Alignment explanation
Indices: 33360885--33360961 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
33360875 TTTCTTTTAA
33360885 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
33360907 TTAGGAGATAATATTTTGGTTTAA--
1 TTAGGAGAT--TA-GAT-GCTAAAGT
33360931 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
33360953 TTAGGAGAT
1 TTAGGAGAT
33360962 AATATTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 20 0.49
24 11 0.27
25 1 0.02
26 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:33360934 original size:46 final size:46
Alignment explanation
Indices: 33360880--33360974 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
33360870 TCTCTTTTCT
33360880 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
33360926 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
33360972 TTT
1 TTT
33360975 CTATCTTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:33365492 original size:22 final size:22
Alignment explanation
Indices: 33365462--33365538 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 22
33365452 TCTCTTTTAA
*
33365462 TTAGAAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
33365484 TTAGGAGATAATATTTTGGTTTAA-T
1 TTAGGAGAT--TA-GAT-GCTAAAGT
33365509 T-AGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
33365530 TTAGGAGAT
1 TTAGGAGAT
33365539 AATATTTTGG
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
20 4 0.10
21 3 0.08
22 17 0.43
24 9 0.22
25 3 0.08
26 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:33365511 original size:46 final size:46
Alignment explanation
Indices: 33365457--33365551 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
33365447 TCTCTTCTCT
33365457 TTTAATTAGAAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGAAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
*
33365503 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGAAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
33365549 TTT
1 TTT
33365552 CTATCTTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (46 bp):
TTTAATTAGAAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:33370449 original size:13 final size:13
Alignment explanation
Indices: 33370420--33370462 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
33370410 TTAGTTATAA
33370420 ATTTTTATAACATAT
1 ATTTTTAT-A-ATAT
33370435 ATTTTTATAATAT
1 ATTTTTATAATAT
* *
33370448 ATATTTGTAATAT
1 ATTTTTATAATAT
33370461 AT
1 AT
33370463 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 17 0.65
14 1 0.04
15 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
ATTTTTATAATAT
Found at i:33370462 original size:15 final size:15
Alignment explanation
Indices: 33370415--33370479 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
33370405 AAATTTTAGT
* *
33370415 TATAAATTTTTATAA
1 TATATATTTTAATAA
* *
33370430 CATATATTTTTATAA
1 TATATATTTTAATAA
33370445 TATATATTTGTAATATA
1 TATATATTT-TAATA-A
*
33370462 TATAAATTTTAATAA
1 TATATATTTTAATAA
33370477 TAT
1 TAT
33370480 TTTTTACGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
15 25 0.58
16 9 0.21
17 9 0.21
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TATATATTTTAATAA
Found at i:33370514 original size:10 final size:9
Alignment explanation
Indices: 33370501--33370586 Score: 66
Period size: 10 Copynumber: 9.1 Consensus size: 9
33370491 GCCATTAATA
33370501 TATATTATTT
1 TATA-TATTT
33370511 TATATATATT
1 TATATAT-TT
*
33370521 TCTATGATTT
1 TATAT-ATTT
33370531 TATATATTT
1 TATATATTT
*
33370540 T-TATATAT
1 TATATATTT
*
33370548 TATAGGATTT
1 TATA-TATTT
33370558 TATATATTT
1 TATATATTT
* * *
33370567 AAATAGAATT
1 -TATATATTT
33370577 TATATATTT
1 TATATATTT
33370586 T
1 T
33370587 TCAAAATCAT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
8 7 0.12
9 21 0.36
10 29 0.49
11 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (9 bp):
TATATATTT
Found at i:33370564 original size:27 final size:29
Alignment explanation
Indices: 33370501--33370566 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
33370491 GCCATTAATA
* *
33370501 TATATTATTTTATATATATTTCTATGATTT
1 TATA-TATTTTATATATATTTATAGGATTT
33370531 TATATATTTT-TATATA-TTATAGGATTT
1 TATATATTTTATATATATTTATAGGATTT
33370558 TATATATTT
1 TATATATTT
33370567 AAATAGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 18 0.53
28 6 0.18
29 6 0.18
30 4 0.12
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
TATATATTTTATATATATTTATAGGATTT
Found at i:33384653 original size:25 final size:25
Alignment explanation
Indices: 33384619--33384678 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
33384609 CATTTTACAA
33384619 CTCGTGTGAGCATTTACAATCACAG
1 CTCGTGTGAGCATTTACAATCACAG
**
33384644 CTCGTGTGAGCATTTACCGTCACAG
1 CTCGTGTGAGCATTTACAATCACAG
*
33384669 CTTGTGTGAG
1 CTCGTGTGAG
33384679 TATTGTTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (25 bp):
CTCGTGTGAGCATTTACAATCACAG
Found at i:33384781 original size:26 final size:26
Alignment explanation
Indices: 33384752--33384809 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
33384742 ATGGTTATTC
*
33384752 GAAATGGATA-TATGAAAT-AAACATTT
1 GAAATGGATACT-TGAAATGAAA-ATGT
33384778 GAAATGGATACTTGAAATGAAAATGT
1 GAAATGGATACTTGAAATGAAAATGT
33384804 GAAATG
1 GAAATG
33384810 TGAAATGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (26 bp):
GAAATGGATACTTGAAATGAAAATGT
Found at i:33390328 original size:26 final size:24
Alignment explanation
Indices: 33390293--33390372 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
33390283 TATGGCCATA
33390293 CGAGCATGTAATTGGAAAGCTCTTT
1 CGAGCATGTAA-TGGAAAGCTCTTT
* *
33390318 CGAGCCATGTAATGGGAAGCTCATGT
1 CGAG-CATGTAATGGAAAGCTC-TTT
*
33390344 -GAGC-TGTATAATGGAAAGCTCTTA
1 CGAGCATG--TAATGGAAAGCTCTTT
33390368 CGAGC
1 CGAGC
33390373 CAATTATCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 32 0.71
26 9 0.20
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (24 bp):
CGAGCATGTAATGGAAAGCTCTTT
Found at i:33390445 original size:25 final size:26
Alignment explanation
Indices: 33390319--33390524 Score: 153
Period size: 25 Copynumber: 8.2 Consensus size: 26
33390309 AAGCTCTTTC
* *
33390319 GAGCCATGTAAT-GGGAAGCTCATGT
1 GAGCCATATAATCGGGAAGCTCATGA
** * *
33390344 GAGCTGTATAAT-GGAAAGCTC-TTA
1 GAGCCATATAATCGGGAAGCTCATGA
* * *
33390368 CGAGCCA-ATTATCAGGAAGCTCATGT
1 -GAGCCATATAATCGGGAAGCTCATGA
*
33390394 GAGCCATAT-ATCGGGAAGCTCGTGA
1 GAGCCATATAATCGGGAAGCTCATGA
*
33390419 GAGCCATATAAT-GGGAAGCTCAAGA
1 GAGCCATATAATCGGGAAGCTCATGA
* *
33390444 GAGCTAT-TAATCAGGAAGCTCATGA
1 GAGCCATATAATCGGGAAGCTCATGA
* * * **
33390469 GAGCTAAATAA-CGGCAAGCTTGTGA
1 GAGCCATATAATCGGGAAGCTCATGA
*
33390494 GAGCCA-AGT-ATCGGGAAGCTCGTGA
1 GAGCCATA-TAATCGGGAAGCTCATGA
33390519 GAGCCA
1 GAGCCA
33390525 AATACCTGGA
Statistics
Matches: 143, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
24 11 0.08
25 124 0.87
26 8 0.06
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (26 bp):
GAGCCATATAATCGGGAAGCTCATGA
Found at i:33406263 original size:27 final size:27
Alignment explanation
Indices: 33406233--33406339 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 27
33406223 AAACGACCGT
* *
33406233 AATACCCTCAAAGGATAAAATTACTGA
1 AATACCCTCGAAGGGTAAAATTACTGA
* * **
33406260 AATACCTTCGATGGGTAAAATTACCAA
1 AATACCCTCGAAGGGTAAAATTACTGA
*
33406287 AATACCCCCGAAGGGTAAAATTA-TCGA
1 AATACCCTCGAAGGGTAAAATTACT-GA
** *
33406314 AATAATCTC-ATAGGGTAAAATGACTG
1 AATACCCTCGA-AGGGTAAAATTACTG
33406340 TTATACCCCT
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
26 1 0.02
27 60 0.97
28 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (27 bp):
AATACCCTCGAAGGGTAAAATTACTGA
Found at i:33407845 original size:39 final size:40
Alignment explanation
Indices: 33407802--33407885 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
33407792 ACCTGAATAT
* *
33407802 AATAAATAT-ATATTTTTTATTTTTA-TTTTTTAATTTTAA
1 AATAAATATAATA-TATATATTTTTATTTTTTTAATTTTAA
* * *
33407841 AATAATTTTAATATATATATTTTTATTTTTTTATTTTTAA
1 AATAAATATAATATATATATTTTTATTTTTTTAATTTTAA
33407881 AATAA
1 AATAA
33407886 TTTTTTAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (40 bp):
AATAAATATAATATATATATTTTTATTTTTTTAATTTTAA
Found at i:33408596 original size:13 final size:13
Alignment explanation
Indices: 33408562--33408596 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33408552 AGTTTCTTCT
*
33408562 AAAAAAATTTGAA
1 AAAAAAATTCGAA
*
33408575 AAAAGAATTCGAA
1 AAAAAAATTCGAA
33408588 AAAAAAATT
1 AAAAAAATT
33408597 ATTTCCATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (13 bp):
AAAAAAATTCGAA
Found at i:33416101 original size:18 final size:19
Alignment explanation
Indices: 33416060--33416103 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
33416050 ATTTTAAAAA
33416060 AAAAAGGTTAGTTGGCTAT
1 AAAAAGGTTAGTTGGCTAT
33416079 AAAAAGGTTAGTTGGCTAT
1 AAAAAGGTTAGTTGGCTAT
33416098 AAAAAG
1 AAAAAG
33416104 CCACACCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (19 bp):
AAAAAGGTTAGTTGGCTAT
Found at i:33419152 original size:80 final size:81
Alignment explanation
Indices: 33419018--33419188 Score: 229
Period size: 80 Copynumber: 2.1 Consensus size: 81
33419008 CCCCAAAATA
* * * *
33419018 GGTAAAATGACCAAAATACCCCTATATGGTAGAATTATCGAAGTACCCCTATAGGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCCTATAGGGTAGAATGACCGAAATACCCCTATAGGGTAAAATGAC
33419083 CGAAATACCCCCATAG
66 CGAAATACCCCCATAG
* * * *
33419099 GGTAAAATGACCGAAATACTCC-GTAGGGTAGAATGACCGAAATAACTCC-ATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCCTATAGGGTAGAATGACCGAAAT-ACCCCTATAGGGTAAAATGA
* *
33419162 TCGAAATACCCCTATAG
65 CCGAAATACCCCCATAG
33419179 GGTAAAATGA
1 GGTAAAATGA
33419189 TTGTTGTACA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 55 0.70
81 24 0.30
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (81 bp):
GGTAAAATGACCAAAATACCCCTATAGGGTAGAATGACCGAAATACCCCTATAGGGTAAAATGAC
CGAAATACCCCCATAG
Found at i:33419189 original size:27 final size:27
Alignment explanation
Indices: 33419018--33419188 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
33419008 CCCCAAAATA
* *
33419018 GGTAAAATGACCAAAATACCCCTATAT
1 GGTAAAATGACCGAAATACCCCTATAG
* * * *
33419045 GGTAGAATTATCGAAGTACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
33419072 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33419099 GGTAAAATGACCGAAATACTCC-GTAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
33419125 GGTAGAATGACCGAAATAACTCC-ATAG
1 GGTAAAATGACCGAAAT-ACCCCTATAG
*
33419152 GGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
33419179 GGTAAAATGA
1 GGTAAAATGA
33419189 TTGTTGTACA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.19
27 101 0.81
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:33423135 original size:32 final size:31
Alignment explanation
Indices: 33423077--33423207 Score: 103
Period size: 30 Copynumber: 4.3 Consensus size: 31
33423067 TGTGTATACA
* *
33423077 AATATATATATTAATGG-G-TGTTATATATAT
1 AATATATATATGAGTGGAGTTG-TATATATAT
33423107 AATATATATATGAG-GGAGTTGGTA-ATATA-
1 AATATATATATGAGTGGAGTT-GTATATATAT
* * *
33423136 CATATATATATGAGTGGGGTTGTATCTATAT
1 AATATATATATGAGTGGAGTTGTATATATAT
* * * *
33423167 ACATATATATATGTG-GGTGATTATACATATAT
1 A-ATATATATATGAGTGGAG-TTGTATATATAT
33423199 AATATATAT
1 AATATATAT
33423208 GCATGTTTCT
Statistics
Matches: 82, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
29 18 0.22
30 27 0.33
31 14 0.17
32 23 0.28
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (31 bp):
AATATATATATGAGTGGAGTTGTATATATAT
Found at i:33437127 original size:10 final size:10
Alignment explanation
Indices: 33437109--33437138 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
33437099 TTTTTAATCC
33437109 TTCATTACCA
1 TTCATTACCA
*
33437119 TTTATTACCA
1 TTCATTACCA
33437129 TTCATTACCA
1 TTCATTACCA
33437139 AAAGTCCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (10 bp):
TTCATTACCA
Found at i:33445031 original size:15 final size:15
Alignment explanation
Indices: 33444997--33445031 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
33444987 ACCCGAATCT
33444997 ATTTTTAGGTAAGAA
1 ATTTTTAGGTAAGAA
*
33445012 ATTTTGAGG-AAGAA
1 ATTTTTAGGTAAGAA
33445026 ATTTTT
1 ATTTTT
33445032 TAAGGGGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (15 bp):
ATTTTTAGGTAAGAA
Found at i:33453260 original size:16 final size:16
Alignment explanation
Indices: 33453239--33453269 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33453229 TCAAAAAGAT
33453239 AAATTAAAAACTAAAA
1 AAATTAAAAACTAAAA
*
33453255 AAATTAAAAATTAAA
1 AAATTAAAAACTAAA
33453270 CTAAACAAAA
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:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATTAAAAACTAAAA
Found at i:33453735 original size:8 final size:8
Alignment explanation
Indices: 33453724--33453762 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
33453714 CAAAAACTTA
33453724 AAAATTAT
1 AAAATTAT
33453732 AAAATTAT
1 AAAATTAT
33453740 AAAA--A-
1 AAAATTAT
33453745 AAAATTAT
1 AAAATTAT
33453753 AAAATTAT
1 AAAATTAT
33453761 AA
1 AA
33453763 GAAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 1 0.04
8 22 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAATTAT
Found at i:33453748 original size:21 final size:21
Alignment explanation
Indices: 33453723--33453762 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
33453713 ACAAAAACTT
33453723 AAAAATTATAAAATTATAAAA
1 AAAAATTATAAAATTATAAAA
33453744 AAAAATTATAAAATTATAA
1 AAAAATTATAAAATTATAA
33453763 GAAATATATA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATTATAAAATTATAAAA
Found at i:33453750 original size:13 final size:13
Alignment explanation
Indices: 33453732--33453756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33453722 TAAAAATTAT
33453732 AAAATTATAAAAA
1 AAAATTATAAAAA
33453745 AAAATTATAAAA
1 AAAATTATAAAA
33453757 TTATAAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTATAAAAA
Found at i:33453774 original size:19 final size:20
Alignment explanation
Indices: 33453723--33453775 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
33453713 ACAAAAACTT
33453723 AAAAAT-TATAAAATTATAA
1 AAAAATATATAAAATTATAA
*
33453742 AAAAAAATTATAAAATTAT-A
1 AAAAATA-TATAAAATTATAA
*
33453762 AGAAATATATAAAA
1 AAAAATATATAAAA
33453776 AAATCAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 12 0.41
20 6 0.21
21 11 0.38
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAATATATAAAATTATAA
Found at i:33453776 original size:30 final size:28
Alignment explanation
Indices: 33453715--33453779 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
33453705 AAGACATCAC
* *
33453715 AAAAACTTAAAAATTATAAAATTATAAA
1 AAAAAATTAAAAATTATAAAAATATAAA
*
33453743 AAAAAATTATAAAATTATAAGAAATATATA
1 AAAAAATTA-AAAATTATAA-AAATATAAA
33453773 AAAAAAT
1 AAAAAAT
33453780 CAATACCTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 8 0.25
29 10 0.31
30 14 0.44
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAAATTAAAAATTATAAAAATATAAA
Found at i:33460848 original size:26 final size:26
Alignment explanation
Indices: 33460819--33460868 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
33460809 TGGTAAAATG
* * *
33460819 AAATGTTTAGATGAAACAATTATACA
1 AAATGGTTAGAGGAAAAAATTATACA
*
33460845 AAATGGTTATAGGAAAAAATTATA
1 AAATGGTTAGAGGAAAAAATTATA
33460869 TGGAATGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.30
Consensus pattern (26 bp):
AAATGGTTAGAGGAAAAAATTATACA
Found at i:33462309 original size:19 final size:18
Alignment explanation
Indices: 33462266--33462320 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 18
33462256 CATATTTCAA
33462266 ATAGGTTCACACATGC--
1 ATAGGTTCACACATGCAT
* *
33462282 ATCGGTTCACATATAGCAT
1 ATAGGTTCACACAT-GCAT
33462301 ATAGGTTCACACATGCAT
1 ATAGGTTCACACATGCAT
33462319 AT
1 AT
33462321 TGGATCTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.38
17 2 0.06
18 6 0.19
19 12 0.38
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (18 bp):
ATAGGTTCACACATGCAT
Found at i:33462533 original size:18 final size:18
Alignment explanation
Indices: 33462512--33462555 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33462502 GCTTATATAC
33462512 ATAGGCTCAAATAAATGA
1 ATAGGCTCAAATAAATGA
*
33462530 ATAGGCTCACATAAATGA
1 ATAGGCTCAAATAAATGA
*
33462548 ATATGCTC
1 ATAGGCTC
33462556 GCATGCATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (18 bp):
ATAGGCTCAAATAAATGA
Found at i:33465346 original size:9 final size:9
Alignment explanation
Indices: 33465332--33465381 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
33465322 AGTTTTCTTG
33465332 TAATTTTTA
1 TAATTTTTA
33465341 TAATTTTTA
1 TAATTTTTA
*
33465350 TAA-TTTTG
1 TAATTTTTA
33465358 TAATTTTTA
1 TAATTTTTA
33465367 T-A-TTTTA
1 TAATTTTTA
33465374 T-ATTTTTA
1 TAATTTTTA
33465382 AAAAATTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.19
8 13 0.35
9 17 0.46
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TAATTTTTA
Found at i:33465347 original size:26 final size:26
Alignment explanation
Indices: 33465329--33465380 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
33465319 TTTAGTTTTC
33465329 TTGTAATTTTTATAATTTTTATAATT
1 TTGTAATTTTTATAATTTTTATAATT
*
33465355 TTGTAATTTTTAT-A-TTTTATATTT
1 TTGTAATTTTTATAATTTTTATAATT
33465379 TT
1 TT
33465381 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 1 0.04
26 13 0.52
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (26 bp):
TTGTAATTTTTATAATTTTTATAATT
Found at i:33465356 original size:17 final size:16
Alignment explanation
Indices: 33465336--33465381 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
33465326 TTCTTGTAAT
33465336 TTTTATAATTTTTATAA
1 TTTTATAATTTTTAT-A
*
33465353 TTTTGTAATTTTTATA
1 TTTTATAATTTTTATA
33465369 TTTTAT-ATTTTTA
1 TTTTATAATTTTTA
33465382 AAAAATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 7 0.26
16 6 0.22
17 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTATAATTTTTATA
Found at i:33465757 original size:25 final size:26
Alignment explanation
Indices: 33465716--33465764 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
33465706 CTTTTTTATA
33465716 TGAAGAAACAATAATCTCATTTTTGT
1 TGAAGAAACAATAATCTCATTTTTGT
* *
33465742 TGAA-AAATAATAATCTTATTTTT
1 TGAAGAAACAATAATCTCATTTTT
33465765 CTCATGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (26 bp):
TGAAGAAACAATAATCTCATTTTTGT
Found at i:33467016 original size:9 final size:9
Alignment explanation
Indices: 33467002--33467051 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
33466992 AGTTTTCTTG
33467002 TAATTTTTA
1 TAATTTTTA
33467011 TAATTTTTA
1 TAATTTTTA
*
33467020 TAA-TTTTG
1 TAATTTTTA
33467028 TAATTTTTA
1 TAATTTTTA
33467037 T-A-TTTTA
1 TAATTTTTA
33467044 T-ATTTTTA
1 TAATTTTTA
33467052 AAAAATTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.19
8 13 0.35
9 17 0.46
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TAATTTTTA
Found at i:33467017 original size:26 final size:26
Alignment explanation
Indices: 33466999--33467050 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
33466989 TTTAGTTTTC
33466999 TTGTAATTTTTATAATTTTTATAATT
1 TTGTAATTTTTATAATTTTTATAATT
*
33467025 TTGTAATTTTTAT-A-TTTTATATTT
1 TTGTAATTTTTATAATTTTTATAATT
33467049 TT
1 TT
33467051 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 1 0.04
26 13 0.52
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (26 bp):
TTGTAATTTTTATAATTTTTATAATT
Found at i:33467026 original size:17 final size:16
Alignment explanation
Indices: 33467006--33467051 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
33466996 TTCTTGTAAT
33467006 TTTTATAATTTTTATAA
1 TTTTATAATTTTTAT-A
*
33467023 TTTTGTAATTTTTATA
1 TTTTATAATTTTTATA
33467039 TTTTAT-ATTTTTA
1 TTTTATAATTTTTA
33467052 AAAAATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 7 0.26
16 6 0.22
17 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTATAATTTTTATA
Found at i:33467427 original size:25 final size:26
Alignment explanation
Indices: 33467386--33467434 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
33467376 CTTTTTTATA
33467386 TGAAGAAACAATAATCTCATTTTTGT
1 TGAAGAAACAATAATCTCATTTTTGT
* *
33467412 TGAA-AAATAATAATCTTATTTTT
1 TGAAGAAACAATAATCTCATTTTT
33467435 CTCATGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (26 bp):
TGAAGAAACAATAATCTCATTTTTGT
Found at i:33471122 original size:19 final size:19
Alignment explanation
Indices: 33471048--33471119 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
33471038 AATATTCAAG
33471048 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33471067 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33471086 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
33471107 GATATGCAATCTT
1 GATATGCAATCTT
33471120 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33476791 original size:6 final size:6
Alignment explanation
Indices: 33476777--33476811 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
33476767 AAAATATTTC
*
33476777 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAG CAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
33476812 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:33478157 original size:43 final size:43
Alignment explanation
Indices: 33478110--33478245 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 43
33478100 AGCAGATCGG
*
33478110 AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGA
1 AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTAGA
* * * *** * * * *
33478153 AGATAGCAGATCTTGCCTTCCTACATCGACAGTGAAGCAGATCA-A
1 AGATACCAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGT-AGA
*
33478198 AGATACCAGCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTAGA
1 AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTAGA
33478241 AGATA
1 AGATA
33478246 GCTGATAGAG
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
42 1 0.01
43 24 0.36
44 23 0.34
45 19 0.28
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (43 bp):
AGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTAGA
Found at i:33478190 original size:88 final size:88
Alignment explanation
Indices: 33478053--33478247 Score: 293
Period size: 88 Copynumber: 2.2 Consensus size: 88
33478043 GGTTTGCAAC
* * * * **
33478053 GGAGTAGGTTGAAAATAACAGATCTTGCCTTCCTACACTGACGGCGAAGCAGATCGGAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACACTGACAGCGAAGCAGATCAAAGATACCA
33478118 GCCTTGCCTCCCTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
*
33478141 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACA-TCGACAGTGAAGCAGATCAAAGATACC
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACACT-GACAGCGAAGCAGATCAAAGATACC
*
33478205 AGCCTTGCCTCCTTGGGTTGTAGT
65 AGCCTTGCCTCCCTGGGTTGTAGT
*
33478229 GGAGCAGGTAGAAGATAGC
1 GGAGCAGGTTGAAGATAGC
33478248 TGATAGAGGG
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 1 0.01
88 96 0.99
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (88 bp):
GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACACTGACAGCGAAGCAGATCAAAGATACCA
GCCTTGCCTCCCTGGGTTGTAGT
Found at i:33484081 original size:88 final size:88
Alignment explanation
Indices: 33483641--33484063 Score: 657
Period size: 88 Copynumber: 4.8 Consensus size: 88
33483631 ACTAGTATCA
* * *
33483641 ATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
33483706 GGTTGTAGTGGAGCAGGTTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* ** * *
33483729 ATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGATACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
*
33483794 GGTTGTAGTGGAGCAGATTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* * *
33483817 ATAGCAGATCTTGCCTTCCTGTACCGACAATGAAGTAGATCGAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
* *
33483882 GGTCGTAGTGGAGTAGGTTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* * *
33483905 ATAGCAGATCTTGCCTTCCTATACCGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCTCTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
*
33483970 GGTTGTAGTTGAGCAGGTTGAAG
66 GGTTGTAGTGGAGCAGGTTGAAG
* * *
33483993 ATAGCAGATTTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
33484058 GGTTGT
66 GGTTGT
33484064 CGCGAAGTAG
Statistics
Matches: 306, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 306 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTG
GGTTGTAGTGGAGCAGGTTGAAG
Found at i:33484117 original size:44 final size:44
Alignment explanation
Indices: 33484067--33484450 Score: 461
Period size: 44 Copynumber: 8.7 Consensus size: 44
33484057 AGGTTGTCGC
* * * *
33484067 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* *
33484111 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATATATTGGCAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* *** * * *
33484155 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGG-CGT
*
33484200 GAAGTAGATCGAAA-AAAGTAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATC-AAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
*
33484244 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * *
33484288 GAAGTAGATCAAAGATAGTAGATCTTGTCTTTC-TATACTGGCGGC
1 GAAGTAGATCAAAGATAGTAGATCTTGTC-TTCATGTATTGGC-GT
*
33484333 GAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTATTGGC--
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * * * *
33484375 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGGCAT
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
* * *
33484419 GAAATAGATCAAAGGTAGCAGATCTTGTCTTC
1 GAAGTAGATCAAAGATAGTAGATCTTGTCTTC
33484451 CCGTACTGGT
Statistics
Matches: 295, Mismatches: 37, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
42 39 0.13
43 3 0.01
44 180 0.61
45 71 0.24
46 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
GAAGTAGATCAAAGATAGTAGATCTTGTCTTCATGTATTGGCGT
Found at i:33484211 original size:264 final size:263
Alignment explanation
Indices: 33483670--33484481 Score: 727
Period size: 264 Copynumber: 3.1 Consensus size: 263
33483660 TGCATCGACA
* * *
33483670 GCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCA
1 GCGAAGCAGATCGAAGATACCAACCTTGCCTCTCTGGGTTGTAGTTGAGCAGGTTGAAGATAGCA
* * ** *
33483735 GATCTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGATACCAGCCTTGCCTCCCTGGGTTGT
66 GATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTAGGTTGT
* * * * * * * * ** *
33483800 AGTGGAGCAGATTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAATGAAGTAGATCGAAGATA
131 CGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC--TGAAGTAGATCGAAGATA
* * * * * ** * * * * * * *
33483865 CCAG-CCTTGCCTCCCTA-GGTCGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTATA
194 GCAGATCTTGTCTTCATATATTGGCA-TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA
* ***
33483928 CCGACA
258 CTGGTG
*
33483934 GTGAAGCAGATCGAAGATACCAACCTTGCCTCTCTGGGTTGTAGTTGAGCAGGTTGAAGATAGCA
1 GCGAAGCAGATCGAAGATACCAACCTTGCCTCTCTGGGTTGTAGTTGAGCAGGTTGAAGATAGCA
* **
33483999 GATTTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTAGGTTGT
66 GATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTAGGTTGT
* *
33484064 CGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
131 CGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC-TGAAGTAGATCGAAGATAG
* *
33484129 TAGATCTTGTCTTCATATATTGGCATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACT
195 CAGATCTTGTCTTCATATATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
33484194 GGTG
260 GGTG
* * * ** * * ** ** * * **
33484198 GCGAAGTAGATCGAAAAAAGTAGATCTTGTCT-TCATGTATTGGCG-TGAAGTAGATCAAAGATA
1 GCGAAGCAGATCGAAGATACCA-ACCTTGCCTCTC-TGGGTTGTAGTTG-AGCAGGTTGAAGATA
* * * * ** * * ** **
33484261 GCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGTAGATCTTGTCTTTCTATA
63 GCAGATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTAGG
* * * *
33484325 CTGGCGGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTATTGGC-GAAGTAGATCGAAG
127 TTGTC-GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCTGAAGTAGATCGAAG
* * * * * * *
33484389 AAAGCAGATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCG
191 ATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCA
33484454 TACTGGTG
256 TACTGGTG
* * *
33484462 GCGAAGTAGACCAAAGATAC
1 GCGAAGCAGATCGAAGATAC
33484482 AAGTCTTATC
Statistics
Matches: 444, Mismatches: 97, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
263 19 0.04
264 326 0.73
265 58 0.13
266 41 0.09
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (263 bp):
GCGAAGCAGATCGAAGATACCAACCTTGCCTCTCTGGGTTGTAGTTGAGCAGGTTGAAGATAGCA
GATCTTGCCTTCCTGTATTGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTAGGTTGT
CGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCTGAAGTAGATCGAAGATAGC
AGATCTTGTCTTCATATATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
GTG
Found at i:33484231 original size:89 final size:89
Alignment explanation
Indices: 33484067--33484478 Score: 451
Period size: 89 Copynumber: 4.7 Consensus size: 89
33484057 AGGTTGTCGC
* * * * * * * *
33484067 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTA
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGTGGCGAAGTAGATCAAAGAAAGTA
33484131 GATCTTGTCTTCATATATTGGCAT
66 GATCTTGTCTTCATATATTGGCAT
* * * *
33484155 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAA-AAAGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGTGGCGAAGTAGATC-AAAGAAAGT
* *
33484219 AGATCTTGTCTTCATGTATTGGCGT
65 AGATCTTGTCTTCATATATTGGCAT
* * * * *
33484244 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTA
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGTGGCGAAGTAGATCAAAGAAAGTA
* **
33484308 GATCTTGTCTTTC-TATACTGGCGGC
66 GATCTTGTC-TTCATATATTGGC-AT
* * * * *
33484333 GAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTA-T--TGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGTGGCGAAGTAGATCAAAGAAAGTA
* *
33484395 GATCTTGTCTTCATGTATCGGCAT
66 GATCTTGTCTTCATATATTGGCAT
* * * *
33484419 GAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCGTACTGGTGGCGAAGTAGACCAAAGA
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGTGGCGAAGTAGATCAAAGA
33484479 TACAAGTCTT
Statistics
Matches: 270, Mismatches: 44, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
86 34 0.13
87 37 0.14
88 67 0.25
89 129 0.48
90 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (89 bp):
GAAGTAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGTGGCGAAGTAGATCAAAGAAAGTA
GATCTTGTCTTCATATATTGGCAT
Found at i:33484303 original size:133 final size:133
Alignment explanation
Indices: 33484065--33484471 Score: 631
Period size: 133 Copynumber: 3.1 Consensus size: 133
33484055 CTAGGTTGTC
* * * *
33484065 GCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGT
1 GCGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
* *
33484130 AGATCTTGTCTTCATATATTGGCATGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTG
66 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTG
33484195 GTG
131 GTG
33484198 GCGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
1 GCGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
* * *
33484263 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTTCTATACTG
66 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTG
*
33484328 GCG
131 GTG
* *
33484331 GCGAAGTAGATC-AAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGAAAG
1 GCGAAGTAGATCGAAA-AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
* * * * *
33484393 CAGATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCGTACT
65 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACT
33484458 GGTG
130 GGTG
33484462 GCGAAGTAGA
1 GCGAAGTAGA
33484472 CCAAAGATAC
Statistics
Matches: 252, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 86 0.34
132 3 0.01
133 163 0.65
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (133 bp):
GCGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTG
GTG
Found at i:33484516 original size:175 final size:177
Alignment explanation
Indices: 33484071--33484496 Score: 473
Period size: 175 Copynumber: 2.4 Consensus size: 177
33484061 TGTCGCGAAG
* * * * * * * **
33484071 TAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCT
1 TAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGCGCGAAGTAGACCAAAGATACAAGATCT
* * * * * * * *
33484136 TGTCTTCATATATTGGCA-TGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTGGTGGC
66 TATCTCCCTATACTGGCAGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTT-CCATACTAGTGGC
* * * *
33484200 GAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAG
130 GAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATCGGCATGAAA
* * * * **
33484248 TAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCT
1 TAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGCGCGAAGTAGACCAAAGATACAAGATCT
* ** * * *
33484313 TGTCTTTCTATACTGGCGGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTT-CAT-GTATTGGCG
66 TATCTCCCTATACTGGCAGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCCATACTAGTGGCG
*
33484376 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGGCATGAAA
131 AAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATCGGCATGAAA
* * *
33484423 TAGATCAAAGGTAGCAGATCTTGTCTTCCCGTACTGGTGGCGAAGTAGACCAAAGATACAAG-TC
1 TAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGG-CGCGAAGTAGACCAAAGATACAAGATC
33484487 TTATCTCCCT
65 TTATCTCCCT
33484497 TAAGTTGCAG
Statistics
Matches: 217, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
175 90 0.41
176 22 0.10
177 76 0.35
178 29 0.13
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (177 bp):
TAGATCAAAGATAGCAGATCTTGTCTTCACGTACTGGCGCGAAGTAGACCAAAGATACAAGATCT
TATCTCCCTATACTGGCAGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCCATACTAGTGGCG
AAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATCGGCATGAAA
Found at i:33490010 original size:14 final size:14
Alignment explanation
Indices: 33489991--33490018 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33489981 TGGGAGATCA
33489991 GGTTTTCCTTAAGG
1 GGTTTTCCTTAAGG
33490005 GGTTTTCCTTAAGG
1 GGTTTTCCTTAAGG
33490019 TATCACCGTG
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:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (14 bp):
GGTTTTCCTTAAGG
Found at i:33493745 original size:31 final size:29
Alignment explanation
Indices: 33493694--33493752 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
33493684 TACCACTCTA
33493694 TGTCATTTTAAATTTATATTATTATTTTAGG
1 TGTCATTTTAAATTTATATTA--ATTTTAGG
* * *
33493725 TGTCGTTTTAAGTTTTTATTAATTTTAG
1 TGTCATTTTAAATTTATATTAATTTTAG
33493753 ATATTTTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (29 bp):
TGTCATTTTAAATTTATATTAATTTTAGG
Found at i:33496989 original size:24 final size:24
Alignment explanation
Indices: 33496961--33497017 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
33496951 TTCAACAGCT
33496961 TTGTAATAGCACAAGTTCATAGTC
1 TTGTAATAGCACAAGTTCATAGTC
* *
33496985 TTGTAACAACACAAGTTCATAGTC
1 TTGTAATAGCACAAGTTCATAGTC
*
33497009 ATGTAATAG
1 TTGTAATAG
33497018 TTTTGTAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (24 bp):
TTGTAATAGCACAAGTTCATAGTC
Found at i:33499679 original size:43 final size:45
Alignment explanation
Indices: 33499560--33499709 Score: 187
Period size: 45 Copynumber: 3.4 Consensus size: 45
33499550 AGGAGGAAGA
* * * *
33499560 ATTGGTGGCTTCTTCCACAACCTACATGACAACTTGTCTGCAAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGCAGCTTGTCTGCGAAT
* * **
33499605 ATTGGTGGCTTCGTCCACAACCTACAAGGCAGCTTGTCTATGAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGCAGCTTGTCTGCGAAT
* *
33499650 -TTGGTGG-TTTATCCACAACCTACATGGCAGTTTGTCTGCGAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGCAGCTTGTCTGCGAAT
*
33499693 ATTGGTGGCTCCATCCA
1 ATTGGTGGCTTCATCCA
33499710 TATATATTAG
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 30 0.34
44 14 0.16
45 44 0.50
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (45 bp):
ATTGGTGGCTTCATCCACAACCTACATGGCAGCTTGTCTGCGAAT
Found at i:33502195 original size:4 final size:4
Alignment explanation
Indices: 33502186--33502219 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33502176 AAGTTTTATT
33502186 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
33502220 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:33502227 original size:22 final size:22
Alignment explanation
Indices: 33502169--33502228 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
33502159 AAGTGGCCCA
*
33502169 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
33502193 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
33502214 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
33502229 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:33508019 original size:20 final size:22
Alignment explanation
Indices: 33507994--33508034 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
33507984 ATAATAATAA
33507994 TAATAAT-AAT-AATAAATTTT
1 TAATAATCAATCAATAAATTTT
33508014 TAATAATCAATGCAATAAATT
1 TAATAATCAAT-CAATAAATT
33508035 ACAAAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
23 8 0.44
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TAATAATCAATCAATAAATTTT
Found at i:33508020 original size:3 final size:3
Alignment explanation
Indices: 33507983--33508008 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33507973 AACATTTTAA
33507983 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
33508009 ATTTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33508795 original size:31 final size:31
Alignment explanation
Indices: 33508750--33508817 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
33508740 TTACAAAATG
* *
33508750 GTCACTGAATTATTCAGAAGTTTTTAT-TCAA
1 GTCACTGAACTATTCAAAAGTTTTTATGT-AA
*
33508781 GTCATTGAACTATTCAAAAGTTTTTATGTAA
1 GTCACTGAACTATTCAAAAGTTTTTATGTAA
33508812 GTCACT
1 GTCACT
33508818 AGGCAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTTATGTAA
Found at i:33519067 original size:57 final size:57
Alignment explanation
Indices: 33519000--33519283 Score: 402
Period size: 57 Copynumber: 5.1 Consensus size: 57
33518990 ATTTTTTAGG
* * * *
33519000 TCATTTTCATTTTA-GAGAAAACCACATTCATTTTCAAATGATTACATTTCTCCATTT
1 TCATTTTCA-TTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
* *
33519057 TCATTTTCATTTAGGAGAAAACCTTATTTATTTCCAAATGATTCCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
*
33519114 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTTCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
*
33519171 TCATTTTCATTTTGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
* *
33519228 TCA---T--TTT-GGAGAAAAGCATAATAATTTCCAAATGATTTCTCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGA-TTC-CATTTCTCCATTT
33519281 TCA
1 TCA
33519284 CCCGTTCTAT
Statistics
Matches: 212, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
51 26 0.12
52 6 0.03
53 16 0.08
54 1 0.00
56 4 0.02
57 159 0.75
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.44
Consensus pattern (57 bp):
TCATTTTCATTTAGGAGAAAACCATATTAATTTCCAAATGATTCCATTTCTCCATTT
Found at i:33523050 original size:19 final size:21
Alignment explanation
Indices: 33523026--33523064 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
33523016 ATTCAAACCC
33523026 CAAGATTAAA-AA-ATAAAAG
1 CAAGATTAAATAAGATAAAAG
33523045 CAAGATTAAATAAGATAAAA
1 CAAGATTAAATAAGATAAAA
33523065 TTTAACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.18
Consensus pattern (21 bp):
CAAGATTAAATAAGATAAAAG
Found at i:33524634 original size:24 final size:24
Alignment explanation
Indices: 33524597--33524645 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33524587 TCACAACAGA
* * * *
33524597 ATCTTCCTTTACTTTTTCTTTTTC
1 ATCTTCATTAACTTCTTCTTCTTC
33524621 ATCTTCATTAACTTCTTCTTCTTC
1 ATCTTCATTAACTTCTTCTTCTTC
33524645 A
1 A
33524646 GTAACAACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.14, C:0.27, G:0.00, T:0.59
Consensus pattern (24 bp):
ATCTTCATTAACTTCTTCTTCTTC
Found at i:33526289 original size:26 final size:26
Alignment explanation
Indices: 33526266--33526340 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
33526256 ATATTATCGT
*
33526266 AACAAAGCTACTAGTAACAGTATCAC
1 AACAAAGCTACTAGTAACAATATCAC
* *
33526292 AGCAAAGCTGCTAGTAACAATATCAC
1 AACAAAGCTACTAGTAACAATATCAC
** **
33526318 AGTAAAGCTGGTAGTAACAATAT
1 AACAAAGCTACTAGTAACAATAT
33526341 AGTTCCTCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (26 bp):
AACAAAGCTACTAGTAACAATATCAC
Found at i:33526554 original size:26 final size:27
Alignment explanation
Indices: 33526485--33526584 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
33526475 TTTCATCTCT
**
33526485 TAGGGGTATAATAGTCATTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTA
** *
33526512 T-GAGGGTATTTCGGTCATTTTATCCTA
1 TAG-GGGTATTTTAGTCATTTTACCCTA
33526539 TA-GGGTATTTTAGTCATTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTA
*
33526565 TAGGGGTATTTTGGTCATTT
1 TAGGGGTATTTTAGTCATTT
33526585 ATTAACCTCT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 24 0.39
27 37 0.61
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (27 bp):
TAGGGGTATTTTAGTCATTTTACCCTA
Found at i:33526585 original size:26 final size:27
Alignment explanation
Indices: 33526498--33526584 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
33526488 GGGTATAATA
*
33526498 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTTG
* *
33526525 GTCATTTTATCCTATA-GGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTTG
33526551 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
33526578 GTCATTT
1 GTCATTT
33526585 ATTAACCTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 23 0.43
27 30 0.57
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTG
Found at i:33539437 original size:18 final size:18
Alignment explanation
Indices: 33539401--33539445 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
33539391 TTACATATGC
*
33539401 ATAAAGGTTCCCATACAT
1 ATAAAGGTTACCATACAT
* *
33539419 ATAAAGGTTAGCATGCAT
1 ATAAAGGTTACCATACAT
*
33539437 ATAAGGGTT
1 ATAAAGGTT
33539446 TGTCAATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (18 bp):
ATAAAGGTTACCATACAT
Found at i:33554712 original size:27 final size:27
Alignment explanation
Indices: 33554661--33554756 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
33554651 CCAGACTTTT
* *
33554661 CCGTGTTTAATGTCCTGTCGGACTATC
1 CCGTGTTTAATGTCCTATCGAACTATC
**
33554688 TTGTGTTTAATGT-CTCATCGAACTATC
1 CCGTGTTTAATGTCCT-ATCGAACTATC
* *
33554715 CCATGTTTAACGTCCTATCGAACTATC
1 CCGTGTTTAATGTCCTATCGAACTATC
* *
33554742 CCGTGCTTATTGTCC
1 CCGTGTTTAATGTCC
33554757 CGTCAAACCT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 2 0.04
27 51 0.93
28 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.39
Consensus pattern (27 bp):
CCGTGTTTAATGTCCTATCGAACTATC
Found at i:33554834 original size:45 final size:45
Alignment explanation
Indices: 33554770--33554943 Score: 215
Period size: 45 Copynumber: 3.9 Consensus size: 45
33554760 CAAACCTTCA
* * * *
33554770 CATGATGTCATAGCGTCTTTTAGCTATAGTCTTACTCATTATTAC
1 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCATTATTAT
* *
33554815 CATGATGTCATAGCATCTTTCAGCCATGGTCTTACTCATTTTTAT
1 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCATTATTAT
* * *
33554860 CATGATGTCATAACATCTTTCAGCTATGGTCTTACACATCAATT-T
1 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCAT-TATTAT
** * *
33554905 GGTGATGTCATAGCATCTTTTAACTATGGTCTTACTCAT
1 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCAT
33554944 CTTTAGGTGT
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 109 0.98
46 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.41
Consensus pattern (45 bp):
CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCATTATTAT
Found at i:33558295 original size:15 final size:15
Alignment explanation
Indices: 33558277--33558307 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33558267 TTAAAGCTTC
33558277 TATTTTAAACTGATG
1 TATTTTAAACTGATG
33558292 TATTTTAAACTGATG
1 TATTTTAAACTGATG
33558307 T
1 T
33558308 CAACACATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (15 bp):
TATTTTAAACTGATG
Found at i:33562404 original size:22 final size:21
Alignment explanation
Indices: 33562363--33562412 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
33562353 AATTAATGTC
33562363 ATATATATATTTAAAAATATAG
1 ATAT-TATATTTAAAAATATAG
*
33562385 ATATTATCTTTAAAAGATATAG
1 ATATTATATTTAAAA-ATATAG
*
33562407 AAATTA
1 ATATTA
33562413 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (21 bp):
ATATTATATTTAAAAATATAG
Found at i:33562517 original size:21 final size:21
Alignment explanation
Indices: 33562493--33562532 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33562483 CATTTTTATT
*
33562493 TAATTTCTATATCTTTAAAGA
1 TAATATCTATATCTTTAAAGA
* *
33562514 TAATATCTATGTTTTTAAA
1 TAATATCTATATCTTTAAA
33562533 TTTCAATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATATCTATATCTTTAAAGA
Found at i:33565782 original size:50 final size:49
Alignment explanation
Indices: 33565677--33565918 Score: 277
Period size: 50 Copynumber: 4.7 Consensus size: 49
33565667 TAAAGAGATC
* *
33565677 CCATGTAATACCATGTCTGGGACATGGAATTGGCATCCTTGAGATCATGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGT
* * *
33565732 CTCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCTAGATGAGAGGT
1 C-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
*
33565782 CTCATGAAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
1 C-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
* * * **
33565832 CCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGTACAT
1 CCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGT
*
33565883 ACCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33565919 TGTTATTATC
Statistics
Matches: 165, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
49 2 0.01
50 94 0.57
51 31 0.19
52 3 0.02
53 2 0.01
55 3 0.02
56 30 0.18
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT
Found at i:33568844 original size:32 final size:33
Alignment explanation
Indices: 33568798--33568860 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
33568788 GTGATTTTTC
*
33568798 TAATTAAATTTTTTTA-TTTTAAATTTTTTAGT
1 TAATTAAATATTTTTAGTTTTAAATTTTTTAGT
**
33568830 TAATTAAATATTTTTAGTTTTATTTTTTTTA
1 TAATTAAATATTTTTAGTTTTAAATTTTTTA
33568861 CTTACCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (33 bp):
TAATTAAATATTTTTAGTTTTAAATTTTTTAGT
Found at i:33568845 original size:18 final size:17
Alignment explanation
Indices: 33568798--33568848 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
33568788 GTGATTTTTC
33568798 TAATTAAATTTTTTTA-T
1 TAATTAAA-TTTTTTAGT
33568815 T--TTAAATTTTTTAGT
1 TAATTAAATTTTTTAGT
33568830 TAATTAAATATTTTTAGT
1 TAATTAAAT-TTTTTAGT
33568848 T
1 T
33568849 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.23
15 7 0.23
17 7 0.23
18 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TAATTAAATTTTTTAGT
Found at i:33580164 original size:47 final size:47
Alignment explanation
Indices: 33580079--33580197 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
33580069 CTTCGGGACT
* * * * *
33580079 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * * *
33580126 TGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
33580173 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
33580198 ACCAACCCTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:33580459 original size:40 final size:39
Alignment explanation
Indices: 33580422--33580513 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
33580412 GCTACTCGTT
*
33580422 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
33580462 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
33580501 CAAATGCCTTCGG
1 CAAATGCCTTCGG
33580514 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:33580493 original size:39 final size:40
Alignment explanation
Indices: 33580403--33580563 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
33580393 CGGAATTTAA
** *
33580403 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
33580443 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33580482 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33580522 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33580562 CC
1 CC
33580564 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33584178 original size:40 final size:40
Alignment explanation
Indices: 33584121--33584303 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
33584111 CCAGCATGAT
* * *
33584121 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
33584161 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
33584201 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * * *
33584242 TGC-CTTCGGATCTTAGTCCAGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
33584282 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
33584304 CATCATTCGA
Statistics
Matches: 115, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 98 0.85
41 17 0.15
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:33584207 original size:80 final size:80
Alignment explanation
Indices: 33584108--33584257 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
33584098 CGAATACACG
* * * *
33584108 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCACGAATGCTCTTCGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGC-CTTCGGA
33584172 ACTTAGCCCGGATACA
65 ACTTAGCCCGGATACA
* * * * *
33584188 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGCCTTCGGAA
33584253 CTTAG
66 CTTAG
33584258 TCCAGATATG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 47 0.78
81 13 0.22
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGCCTTCGGAA
CTTAGCCCGGATACA
Found at i:33584654 original size:29 final size:29
Alignment explanation
Indices: 33584615--33584693 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
33584605 CTTAATAATC
*
33584615 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
33584645 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
33584674 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33584694 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:33584736 original size:43 final size:43
Alignment explanation
Indices: 33584675--33584777 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
33584665 TGCATTTCAA
33584675 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33584718 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
33584761 GCCCGTACACTTAGTGC
1 GCCCGCACACTTAGTGC
33584778 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:33588217 original size:21 final size:20
Alignment explanation
Indices: 33588188--33588233 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33588178 CGAAATGCAA
33588188 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
33588209 TCAATCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
33588229 T-AACC
1 TCAACC
33588234 ATTCCAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:33588639 original size:21 final size:20
Alignment explanation
Indices: 33588610--33588655 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33588600 CGGAATGCAA
33588610 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
33588631 TCAATCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
33588651 T-AACC
1 TCAACC
33588656 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:33588819 original size:422 final size:422
Alignment explanation
Indices: 33588035--33588878 Score: 1580
Period size: 422 Copynumber: 2.0 Consensus size: 422
33588025 GTCCATTAAT
*
33588035 TACAATTTCAATCTATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
1 TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
*
33588100 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAATATAAACACAATTTTAA
66 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
33588165 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
131 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
* *
33588230 AACCATTCCAGCAACATAAATATTCATATATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
196 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
*
33588295 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCGTTCTTCCTTCTC
261 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTC
33588360 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
326 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
33588425 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
391 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
*
33588457 TACAATTTCAATCCGTTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
1 TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
*
33588522 TTAGTCATGATTTTACTTAATCAAGCATCTTATTGAGGCCTATAACAACATAAACACAATTTTAA
66 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
*
33588587 TAACTTTAACAAACGGAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
131 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
33588652 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
196 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
* *
33588717 TAGGGAACAAGAATCAAATCCGGTGTTATTCCGTGGCTTGACTAGTTGCTTCATTCTTCCTTCTC
261 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTC
* *
33588782 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGGTGCTCCAAATATCTGATGAATGC
326 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
33588847 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
391 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
33588879 CAAGGGAATT
Statistics
Matches: 410, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
422 410 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (422 bp):
TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTC
TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
Found at i:33592461 original size:13 final size:12
Alignment explanation
Indices: 33592431--33592473 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
33592421 AATTTTTTTA
*
33592431 TTTTTT-AAATT
1 TTTTTTCAAAAT
33592442 TTCTTTTCAAAAGT
1 TT-TTTTCAAAA-T
33592456 TTTTTTCAAAAT
1 TTTTTTCAAAAT
33592468 TTTTTT
1 TTTTTT
33592474 AAATAACATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 2 0.07
12 11 0.39
13 12 0.43
14 3 0.11
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTTTTCAAAAT
Found at i:33596859 original size:27 final size:27
Alignment explanation
Indices: 33596829--33597148 Score: 339
Period size: 27 Copynumber: 11.9 Consensus size: 27
33596819 GGTAGAAAAG
*
33596829 TCATTTTACTCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
33596856 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
33596883 TCATTTTACCCTATAGGGTTAATTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
33596910 TCATTTTACCCTATTGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* * *
33596937 TCATTTTATCCTAT-GAGGGTATATCGG
1 TCATTTTACCCTATAG-GGGTATTTCGA
* *
33596964 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
33596991 TCATTTTACCCTAT-GAGGGTATTTAGG
1 TCATTTTACCCTATAG-GGGTATTTCGA
**
33597018 TCATTTTACCCTAT-GAGGGTATTTTAA
1 TCATTTTACCCTATAG-GGGTATTTCGA
* * *
33597045 TCATTCTACCATAT-GGAGGTATTTCGG
1 TCATTTTACCCTATAGG-GGTATTTCGA
* *
33597072 TCATTTTGCCCT-T-GCAGGTATTTCTG-
1 TCATTTTACCCTATAG-GGGTATTTC-GA
* *
33597098 TCATTCTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
*
33597125 TCATTTTACCCTATAGAGGTATTT
1 TCATTTTACCCTATAGGGGTATTT
33597149 TGGTCATAAC
Statistics
Matches: 252, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
26 24 0.10
27 226 0.90
28 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:33598798 original size:89 final size:88
Alignment explanation
Indices: 33598627--33598801 Score: 255
Period size: 89 Copynumber: 2.0 Consensus size: 88
33598617 TTATTTATTT
33598627 AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
1 AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
*
33598692 TACTACAATGATCCTAGTTATCG
66 TACTACAACGATCCTAGTTATCG
* ** *
33598715 AGATCAAGATAAACCACAATC-AGACTTAATTCAAGGAAAAGTTAAAGCTTCGGATTAGTTCGAC
1 AGATCAAGATAAACCACAATCGA-ACTTAA-TAAAGGAAAAACTAAAGCTTAGGATTAGTTCGAC
*
33598779 TCTACTACTACGA-CACTAGTTAT
64 TCTACTACAACGATC-CTAGTTAT
33598802 TGAGGTAAGT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
87 1 0.01
88 28 0.36
89 49 0.63
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (88 bp):
AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
TACTACAACGATCCTAGTTATCG
Found at i:33603237 original size:31 final size:31
Alignment explanation
Indices: 33603202--33603265 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
33603192 GACCTCAAAA
* * *
33603202 TAGGTAATATAACTGAAATACCCCCATAGGG
1 TAGGTAAAATAACTAAAATACCCCCATAAGG
*
33603233 TAGGTAAAATGACTAAAATACCCCCATAAGG
1 TAGGTAAAATAACTAAAATACCCCCATAAGG
33603264 TA
1 TA
33603266 AAATGATCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (31 bp):
TAGGTAAAATAACTAAAATACCCCCATAAGG
Found at i:33603339 original size:81 final size:81
Alignment explanation
Indices: 33603235--33603434 Score: 305
Period size: 81 Copynumber: 2.5 Consensus size: 81
33603225 CCATAGGGTA
* *
33603235 GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGATCGAAATA-CCCTCATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCCCATAAGGTAAAATGACCGAAATACCCCT-ATAGGGTAAAATGA
33603299 CAGAAATACCCCTATAG
65 CAGAAATACCCCTATAG
33603316 GGTAAAATGACCAAAATACCCCCAT-AGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCCCATAAGG-TAAAATGACCGAAATACCCCTATAGGGTAAAATGA
* *
33603380 CTGAAATACCCTTATAG
65 CAGAAATACCCCTATAG
* * *
33603397 GGTAAAATGATCGAAATACCCCTATAAGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCCCATAAGGTAAAATGAC
33603435 TGTTATACCC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
80 3 0.03
81 99 0.91
82 7 0.06
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (81 bp):
GGTAAAATGACCAAAATACCCCCATAAGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
AGAAATACCCCTATAG
Found at i:33603442 original size:27 final size:27
Alignment explanation
Indices: 33603234--33603447 Score: 238
Period size: 27 Copynumber: 7.9 Consensus size: 27
33603224 CCCATAGGGT
* *
33603234 AGGTAAAATGACTAAAATACCCCCATA
1 AGGTAAAATGACTGAAATACCCCTATA
33603261 AGGTAAAATGA-TCGAAATA-CCCTCATA
1 AGGTAAAATGACT-GAAATACCCCT-ATA
* *
33603288 GGGTAAAATGACAGAAATACCCCTATA
1 AGGTAAAATGACTGAAATACCCCTATA
* ** *
33603315 GGGTAAAATGACCAAAATACCCCCAT-
1 AGGTAAAATGACTGAAATACCCCTATA
*
33603341 AGGATAAAATGACCGAAATACCCCTATA
1 AGG-TAAAATGACTGAAATACCCCTATA
* *
33603369 GGGTAAAATGACTGAAATACCCTTATA
1 AGGTAAAATGACTGAAATACCCCTATA
*
33603396 GGGTAAAATGA-TCGAAATACCCCTATA
1 AGGTAAAATGACT-GAAATACCCCTATA
**
33603423 AGGTAAAATGACTGTTATACCCCTA
1 AGGTAAAATGACTGAAATACCCCTA
33603448 GGAGATGAAA
Statistics
Matches: 162, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.04
27 148 0.91
28 7 0.04
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACTGAAATACCCCTATA
Found at i:33603444 original size:54 final size:54
Alignment explanation
Indices: 33603203--33603436 Score: 276
Period size: 54 Copynumber: 4.3 Consensus size: 54
33603193 ACCTCAAAAT
* * * *
33603203 AGGTAATATAACTGAAATACCCCCATAGGGTAGGTAAAATGACTA-AAATACCCCCATA
1 AGGTAAAATGACTGAAATACCCTCATA--G--GGTAAAATGAC-AGAAATACCCCTATA
33603261 AGGTAAAATGA-TCGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
1 AGGTAAAATGACT-GAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
* ** * * *
33603315 GGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCTATA
1 AGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
* *
33603369 GGGTAAAATGACTGAAATACCCTTATAGGGTAAAATGATC-GAAATACCCCTATA
1 AGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGA-CAGAAATACCCCTATA
33603423 AGGTAAAATGACTG
1 AGGTAAAATGACTG
33603437 TTATACCCCT
Statistics
Matches: 156, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
53 1 0.01
54 130 0.83
55 1 0.01
56 1 0.01
57 1 0.01
58 22 0.14
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (54 bp):
AGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
Found at i:33606984 original size:30 final size:30
Alignment explanation
Indices: 33606916--33607001 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 30
33606906 GATTAAATCA
*
33606916 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * *
33606946 ACAATTAAAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
* *
33606977 AAATTAAAG-TTCATGCATACAATTG
1 AAATTAAAGTTTCAAGTATACAATTG
33607002 CACATTAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 12 0.26
30 9 0.20
31 25 0.54
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:33608057 original size:19 final size:19
Alignment explanation
Indices: 33608033--33608073 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
33608023 AACACGTGTG
*
33608033 ATAATTTTTCAATTTTGTA
1 ATAATTTATCAATTTTGTA
*
33608052 ATAATTTATCAGTTTTGTA
1 ATAATTTATCAATTTTGTA
33608071 ATA
1 ATA
33608074 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (19 bp):
ATAATTTATCAATTTTGTA
Found at i:33623588 original size:12 final size:12
Alignment explanation
Indices: 33623571--33623595 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33623561 ATTGTAAGGT
33623571 GGTAGCCTATGC
1 GGTAGCCTATGC
33623583 GGTAGCCTATGC
1 GGTAGCCTATGC
33623595 G
1 G
33623596 TCTCATCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTAGCCTATGC
Found at i:33651744 original size:6 final size:6
Alignment explanation
Indices: 33651721--33651764 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
33651711 ATTTACAATG
* *
33651721 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
33651765 ATGGCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:33651749 original size:20 final size:19
Alignment explanation
Indices: 33651722--33651766 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
33651712 TTTACAATGT
*
33651722 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
33651741 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
33651761 AAAAAT
1 AAAAAT
33651767 GGCTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:33653220 original size:29 final size:30
Alignment explanation
Indices: 33653175--33653239 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
33653165 CCAGCCTAAA
*
33653175 TATATTATGTTATAAAAATATTATAT-TAAT
1 TATA-TATGTTAAAAAAATATTATATATAAT
* *
33653205 TATATATGTTAAAAAATTATTATATATATT
1 TATATATGTTAAAAAAATATTATATATAAT
33653235 TATAT
1 TATAT
33653240 TAAATCGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATGTTAAAAAAATATTATATATAAT
Found at i:33654208 original size:31 final size:31
Alignment explanation
Indices: 33654172--33654230 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
33654162 ATTTAACAGA
*
33654172 GAGTGACCAAAATAGAAACAATCTAAAATGT
1 GAGTGACAAAAATAGAAACAATCTAAAATGT
**
33654203 GAGTGACAAAAATAGAAATTATCTAAAA
1 GAGTGACAAAAATAGAAACAATCTAAAA
33654231 CACCAGTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.20
Consensus pattern (31 bp):
GAGTGACAAAAATAGAAACAATCTAAAATGT
Found at i:33663220 original size:16 final size:16
Alignment explanation
Indices: 33663199--33663229 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33663189 CCTTTCAATT
*
33663199 TTTTTTCTCGTTTTTA
1 TTTTTTCTCATTTTTA
33663215 TTTTTTCTCATTTTT
1 TTTTTTCTCATTTTT
33663230 CTAATTTCAA
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:0.06, C:0.13, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTCTCATTTTTA
Found at i:33663419 original size:34 final size:35
Alignment explanation
Indices: 33663367--33663434 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
33663357 CACTCCATTA
*
33663367 TGAAGTTAGCCATTGTCGACGTCCCTCAGGCCAAT
1 TGAAGTTAGCCATCGTCGACGTCCCTCAGGCCAAT
*
33663402 TGAA-TTAGCCATCGTCGACGTCCCTCGGGCCAA
1 TGAAGTTAGCCATCGTCGACGTCCCTCAGGCCAA
33663435 CTGGCAGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (35 bp):
TGAAGTTAGCCATCGTCGACGTCCCTCAGGCCAAT
Found at i:33665772 original size:64 final size:64
Alignment explanation
Indices: 33665650--33665777 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
33665640 ACAAATAGCC
* * * * ** * * *
33665650 TATATCAGGACGCTCATAAAGAGTTGTGGTATGTCCGCATTATATACAGGATCCATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
*
33665714 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATGCAAGATCAATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
33665778 GGATGCTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
Found at i:33670534 original size:50 final size:50
Alignment explanation
Indices: 33670455--33670676 Score: 189
Period size: 50 Copynumber: 4.3 Consensus size: 50
33670445 TATCCCAAAT
* * ** * * *
33670455 ATGGTCTTGCATGGGAGTTCTCATATCGGTGCCCATGCCATCTCCTAGAC
1 ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCTAGAC
* * * *
33670505 ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCGTGTCCCAAAC
1 ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCTAGAC
*
33670555 ATGGTCTTACATGGGG-CCTCTCATCTCGGTGCCAACT-CCATGT-CTCAGAG
1 ATGGTCTTACA-GGGGACCTCTCATCTCGGTGCCAA-TGCCATGTCCT-AGAC
* * * *
33670605 ATGGTCTTACATGGGACATCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACAGGGGAC--CTC-TCATCTC---GGTGCCAATGCCATGTCCTAGAC
*
33670661 ATGGTCTTACATGGGA
1 ATGGTCTTACAGGGGA
33670677 TCTATTTACC
Statistics
Matches: 139, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
49 4 0.03
50 88 0.63
51 4 0.03
52 3 0.02
53 6 0.04
55 1 0.01
56 32 0.23
57 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCTAGAC
Done.