Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 137 of 163
Found at i:44637517 original size:51 final size:51
Alignment explanation
Indices: 44637453--44637576 Score: 212
Period size: 51 Copynumber: 2.4 Consensus size: 51
44637443 CAATTTCCTC
* * *
44637453 TCAATTTTCTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
44637504 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
*
44637555 TCAATTTCTTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
44637577 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
Found at i:44638985 original size:7 final size:7
Alignment explanation
Indices: 44638973--44638997 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44638963 ATTTGATTGA
44638973 TATTTAG
1 TATTTAG
44638980 TATTTAG
1 TATTTAG
44638987 TATTTAG
1 TATTTAG
44638994 TATT
1 TATT
44638998 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:44640155 original size:44 final size:45
Alignment explanation
Indices: 44640106--44640192 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
44640096 ATATTTTGAA
*
44640106 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGC
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGC
* *
44640150 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
44640193 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGC
Found at i:44640227 original size:23 final size:23
Alignment explanation
Indices: 44640198--44640581 Score: 470
Period size: 23 Copynumber: 16.3 Consensus size: 23
44640188 TTTGATGTAA
*
44640198 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
** * **
44640221 CCAAAACCTTAACCTAAAATAAT
1 TAAAAACCCTAACCTAATTTAAT
44640244 TAAAAACCCAAAACCATAACCTAATTTAAT
1 TAAAAA--C----CC-TAACCTAATTTAAT
*
44640274 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
44640297 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
44640320 TAAAAATCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
44640343 TAAAAATCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
44640366 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
44640389 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* *
44640412 TAAAAATCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* *
44640435 TAAAAACCCTAGCTTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
44640458 T-AAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
44640480 TAAAAACCATAAACCCTTAA-TTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
44640504 -AAACCCTAACCCTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
44640530 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
44640553 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
44640576 TAAAAA
1 TAAAAA
44640582 NNNNNNNNNN
Statistics
Matches: 316, Mismatches: 27, Indels: 36
0.83 0.07 0.09
Matches are distributed among these distances:
22 20 0.06
23 243 0.77
24 7 0.02
25 13 0.04
26 5 0.02
27 8 0.03
28 1 0.00
29 1 0.00
30 18 0.06
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:44640254 original size:30 final size:30
Alignment explanation
Indices: 44640218--44640282 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
44640208 AACCTAATTT
*
44640218 AACCCAAAACCTTAACCTAAAATAATTAAA
1 AACCCAAAACCATAACCTAAAATAATTAAA
**
44640248 AACCCAAAACCATAACCTAATTTAATTAAA
1 AACCCAAAACCATAACCTAAAATAATTAAA
44640278 AACCC
1 AACCC
44640283 TAGCCTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (30 bp):
AACCCAAAACCATAACCTAAAATAATTAAA
Found at i:44640501 original size:21 final size:20
Alignment explanation
Indices: 44640475--44640516 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
44640465 CTAACCTAAT
44640475 TTAATTAAAAACCATAAACCC
1 TTAATTAAAAACCAT-AACCC
*
44640496 TTAATTAAAAACCCTAACCC
1 TTAATTAAAAACCATAACCC
44640516 T
1 T
44640517 AACCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAATTAAAAACCATAACCC
Found at i:44641972 original size:20 final size:20
Alignment explanation
Indices: 44641947--44641987 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
44641937 GAAATTTTTC
44641947 CGTATCAATAGTAACTTATA
1 CGTATCAATAGTAACTTATA
44641967 CGTATCAATAGTAACTTATA
1 CGTATCAATAGTAACTTATA
44641987 C
1 C
44641988 ATGTTAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (20 bp):
CGTATCAATAGTAACTTATA
Found at i:44652681 original size:29 final size:29
Alignment explanation
Indices: 44652639--44652695 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
44652629 TACCAAAATT
*
44652639 AGTTATTTTTTGTAATGGCGCTTATCTCG
1 AGTTATTTATTGTAATGGCGCTTATCTCG
44652668 AGTTATTTATTGTAATGGCGCTTATCTC
1 AGTTATTTATTGTAATGGCGCTTATCTC
44652696 AGAGGCGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.47
Consensus pattern (29 bp):
AGTTATTTATTGTAATGGCGCTTATCTCG
Found at i:44653058 original size:14 final size:13
Alignment explanation
Indices: 44653015--44653054 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
44653005 GAGAAAAAAA
*
44653015 AAGAGAGAAAGGAG
1 AAGA-AGAAAGAAG
44653029 AAGAAGAGAAGAAG
1 AAGAAGA-AAGAAG
44653043 AAGAAGAAAGAA
1 AAGAAGAAAGAA
44653055 AGAAAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:44653165 original size:45 final size:45
Alignment explanation
Indices: 44653111--44653199 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
44653101 TTAAAGAGTT
* *
44653111 TAATGTTGGTTTAGACTCGATGACTTTGTAGTCTACTGATATATA
1 TAATATTGGTTTAGACTCGACGACTTTGTAGTCTACTGATATATA
44653156 TAATATTGGTTTAGACTCGACGACTTTGTAGTCTACTGATATAT
1 TAATATTGGTTTAGACTCGACGACTTTGTAGTCTACTGATATAT
44653200 TCATGCTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (45 bp):
TAATATTGGTTTAGACTCGACGACTTTGTAGTCTACTGATATATA
Found at i:44654262 original size:18 final size:18
Alignment explanation
Indices: 44654239--44654273 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44654229 CAAAATACCT
44654239 TATCATTCTTCTTGTTTG
1 TATCATTCTTCTTGTTTG
44654257 TATCATTCTTCTTGTTT
1 TATCATTCTTCTTGTTT
44654274 TCCTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (18 bp):
TATCATTCTTCTTGTTTG
Found at i:44654575 original size:49 final size:50
Alignment explanation
Indices: 44654515--44654619 Score: 158
Period size: 49 Copynumber: 2.1 Consensus size: 50
44654505 TATTAAAAGA
* * *
44654515 AAAAAACTTAATATATAATATTCATTGGCGCCTATCAGATAGGCACCATT
1 AAAAAACTTAATATAAAATAATCATTAGCGCCTATCAGATAGGCACCATT
* *
44654565 AAAAAA-TTAATATAAAATAATCATTAGCGCCTCTCAGATAGGCGCCATT
1 AAAAAACTTAATATAAAATAATCATTAGCGCCTATCAGATAGGCACCATT
44654614 AAAAAA
1 AAAAAA
44654620 ATAACCCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 44 0.88
50 6 0.12
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (50 bp):
AAAAAACTTAATATAAAATAATCATTAGCGCCTATCAGATAGGCACCATT
Found at i:44655040 original size:18 final size:18
Alignment explanation
Indices: 44655017--44655051 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44655007 CGCCATGTTT
44655017 GTCTCTATTGATATGAAG
1 GTCTCTATTGATATGAAG
*
44655035 GTCTCTATTGGTATGAA
1 GTCTCTATTGATATGAA
44655052 AGAGCTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (18 bp):
GTCTCTATTGATATGAAG
Found at i:44668739 original size:21 final size:23
Alignment explanation
Indices: 44668689--44668743 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
44668679 TTTTGCTTAT
*
44668689 TCAAATAAAATCATAATTTATACA
1 TCAAATAAAAT-ATAATCTATACA
44668713 TCAAATAAAAT-TAATCTA-ACA
1 TCAAATAAAATATAATCTATACA
*
44668734 TGAAATAAAA
1 TCAAATAAAA
44668744 CACGGTGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.41
22 6 0.21
24 11 0.38
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (23 bp):
TCAAATAAAATATAATCTATACA
Found at i:44669096 original size:8 final size:8
Alignment explanation
Indices: 44669047--44669098 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
44669037 ATATGTATGT
44669047 ATATATAA
1 ATATATAA
44669055 AT-TATAA
1 ATATATAA
44669062 AGTATA-AA
1 A-TATATAA
44669070 ATATATAA
1 ATATATAA
* *
44669078 GTATGTAA
1 ATATATAA
44669086 ATATATAA
1 ATATATAA
44669094 ATATA
1 ATATA
44669099 CACTTATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 10 0.27
8 25 0.68
9 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (8 bp):
ATATATAA
Found at i:44669137 original size:16 final size:16
Alignment explanation
Indices: 44669118--44669151 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
44669108 AAATTAAAAT
44669118 ATATATGTAGACATAA
1 ATATATGTAGACATAA
*
44669134 ATATATGTATACATAA
1 ATATATGTAGACATAA
44669150 AT
1 AT
44669152 TATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (16 bp):
ATATATGTAGACATAA
Found at i:44669173 original size:22 final size:23
Alignment explanation
Indices: 44669130--44669173 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
44669120 ATATGTAGAC
* * *
44669130 ATAAATATATGTATACATAAATT
1 ATAAATATATATATAAAAAAATT
44669153 ATAAA-ATATATATAAAAAAAT
1 ATAAATATATATATAAAAAAAT
44669174 ATATGAGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAATATATATATAAAAAAATT
Found at i:44670186 original size:20 final size:20
Alignment explanation
Indices: 44670148--44670186 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44670138 TGCAAAGAAA
*
44670148 AAAATAAAACAAAATAAGAT
1 AAAATAAAACAAAAGAAGAT
44670168 AAAATAAAA-AACAAGAAGA
1 AAAATAAAACAA-AAGAAGA
44670187 AATAGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (20 bp):
AAAATAAAACAAAAGAAGAT
Found at i:44675794 original size:31 final size:30
Alignment explanation
Indices: 44675736--44675807 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
44675726 TAATTTGATA
44675736 CATAAAATTTTATTTAGTGTAAATGTAT-T
1 CATAAAATTTTATTTAGTGTAAATGTATAT
*
44675765 CATAAAATTTTGATTGTGGT-TCAAATGTATAT
1 CATAAAATTTT-ATT-TAGTGT-AAATGTATAT
*
44675797 -ATAAAACTTTA
1 CATAAAATTTTA
44675808 ATTTTGATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 11 0.30
30 5 0.14
31 20 0.54
32 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (30 bp):
CATAAAATTTTATTTAGTGTAAATGTATAT
Found at i:44675819 original size:31 final size:31
Alignment explanation
Indices: 44675756--44675819 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
44675746 TATTTAGTGT
* * *
44675756 AAATGTATTCATAAAATTTTGATTGTGGTTC
1 AAATGTATTCATAAAACTTTAATTGTGATTC
*
44675787 AAATGTATAT-ATAAAACTTTAATTTTGATTC
1 AAATGTAT-TCATAAAACTTTAATTGTGATTC
44675818 AA
1 AA
44675820 TCATACACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (31 bp):
AAATGTATTCATAAAACTTTAATTGTGATTC
Found at i:44678001 original size:22 final size:22
Alignment explanation
Indices: 44677976--44678024 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
44677966 TATTTAACGT
*
44677976 ATTTGATAAAAAT-ATATATTTA
1 ATTTAATAAAAATAATAT-TTTA
*
44677998 ATTTTAATTAAAATAATATTTTA
1 A-TTTAATAAAAATAATATTTTA
44678021 ATTT
1 ATTT
44678025 TTTTCTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTAATAAAAATAATATTTTA
Found at i:44679732 original size:14 final size:14
Alignment explanation
Indices: 44679713--44679748 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
44679703 GAAAAATAAG
44679713 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
* *
44679727 TCATTTTCCGAAAG
1 TCATTTTCCAAAAA
44679741 TCATTTTC
1 TCATTTTC
44679749 AGTGAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:44686922 original size:16 final size:14
Alignment explanation
Indices: 44686885--44686915 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44686875 GTCTAGAATC
44686885 ATTCTAGACAAATG
1 ATTCTAGACAAATG
44686899 ATTCTAGACAAATG
1 ATTCTAGACAAATG
44686913 ATT
1 ATT
44686916 GTCTAGATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
ATTCTAGACAAATG
Found at i:44687513 original size:21 final size:20
Alignment explanation
Indices: 44687484--44687548 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
44687474 TTTTAAAACT
*
44687484 TATAGAAAATAGAATTAAATA
1 TATAAAAAATAGAA-TAAATA
**
44687505 TATAAAAAATTCAA-AAATA
1 TATAAAAAATAGAATAAATA
44687524 TATAACAAAATAGAAATAAAT-
1 TATAA-AAAATAG-AATAAATA
44687545 TATA
1 TATA
44687549 GATTATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 10 0.28
20 5 0.14
21 17 0.47
22 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
TATAAAAAATAGAATAAATA
Found at i:44689948 original size:19 final size:17
Alignment explanation
Indices: 44689917--44689954 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
44689907 ACCTATAATA
44689917 ATTTAAAAAAAAAAGAC
1 ATTTAAAAAAAAAAGAC
44689934 ATTTATAAAATAAAAAGAC
1 ATTTA-AAAA-AAAAAGAC
44689953 AT
1 AT
44689955 AAAGTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
ATTTAAAAAAAAAAGAC
Found at i:44689962 original size:20 final size:19
Alignment explanation
Indices: 44689920--44689962 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
44689910 TATAATAATT
**
44689920 TAAAAAAAAAAGACATTTA
1 TAAAAAAAAAAGACATAAA
*
44689939 TAAAATAAAAAGACATAAA
1 TAAAAAAAAAAGACATAAA
44689958 GTAAA
1 -TAAA
44689963 GAGAAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.19
Consensus pattern (19 bp):
TAAAAAAAAAAGACATAAA
Found at i:44697224 original size:33 final size:32
Alignment explanation
Indices: 44697182--44697279 Score: 90
Period size: 33 Copynumber: 3.0 Consensus size: 32
44697172 ATTTATATCT
44697182 ATATATATATATATACATACATACATTTTCATA
1 ATATATATATATATACATACATA-ATTTTCATA
* * * * *
44697215 ATATATATATGTACACATATATATTTTTTATA
1 ATATATATATATATACATACATAATTTTCATA
* * *
44697247 ATTTA-ATACATATATATACATATATTTTTCATA
1 ATATATATATATATACATACATA-A-TTTTCATA
44697280 TTTTCATAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
31 12 0.24
32 11 0.22
33 27 0.54
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.47
Consensus pattern (32 bp):
ATATATATATATATACATACATAATTTTCATA
Found at i:44697289 original size:41 final size:41
Alignment explanation
Indices: 44697239--44697317 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
44697229 ACATATATAT
* * *
44697239 TTTTTATAATTTAATACATATATATACATATATTTTTCATA
1 TTTTCATAATTTAATACATATACATACATATATATTTCATA
* **
44697280 TTTTCATAATTTTATGTATATACATACATATATATTTC
1 TTTTCATAATTTAATACATATACATACATATATATTTC
44697318 TCTTATATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (41 bp):
TTTTCATAATTTAATACATATACATACATATATATTTCATA
Found at i:44698935 original size:375 final size:375
Alignment explanation
Indices: 44698245--44698994 Score: 1500
Period size: 375 Copynumber: 2.0 Consensus size: 375
44698235 CATTAAAAAA
44698245 ATTGGTGGCGACTCCCGTATTCATTTACTTTTTTCAAAATCCAAGTCGACCCCGTTTTATCAAAA
1 ATTGGTGGCGACTCCCGTATTCATTTACTTTTTTCAAAATCCAAGTCGACCCCGTTTTATCAAAA
44698310 AAATAGTGTCAACAAGTGATCTTGTTTTTAGTTTCGATATCAATCTTGTTGACACCATTTTTTGT
66 AAATAGTGTCAACAAGTGATCTTGTTTTTAGTTTCGATATCAATCTTGTTGACACCATTTTTTGT
44698375 AAAACGGGGTCGACTTGGATTTTTGAAAACAAAAACGAACATTAGAGTCGCGACCAATCTTTTTT
131 AAAACGGGGTCGACTTGGATTTTTGAAAACAAAAACGAACATTAGAGTCGCGACCAATCTTTTTT
44698440 TGATGAGGTGTGATCGGGTCACCTCGTAAAACAGTTGTTTTAAATAAACAGTTTAAATTTATTAA
196 TGATGAGGTGTGATCGGGTCACCTCGTAAAACAGTTGTTTTAAATAAACAGTTTAAATTTATTAA
44698505 AATAATGCTTTTGGTCTGCAAAATTCAGAAAGATAGGTTCGAAAGTCAGTTACGTATGAGGAAGG
261 AATAATGCTTTTGGTCTGCAAAATTCAGAAAGATAGGTTCGAAAGTCAGTTACGTATGAGGAAGG
44698570 ATTAGCATCCTCGTAACGCCCAAAAATTAGTACCTAGTTGATTAATTAGT
326 ATTAGCATCCTCGTAACGCCCAAAAATTAGTACCTAGTTGATTAATTAGT
44698620 ATTGGTGGCGACTCCCGTATTCATTTACTTTTTTCAAAATCCAAGTCGACCCCGTTTTATCAAAA
1 ATTGGTGGCGACTCCCGTATTCATTTACTTTTTTCAAAATCCAAGTCGACCCCGTTTTATCAAAA
44698685 AAATAGTGTCAACAAGTGATCTTGTTTTTAGTTTCGATATCAATCTTGTTGACACCATTTTTTGT
66 AAATAGTGTCAACAAGTGATCTTGTTTTTAGTTTCGATATCAATCTTGTTGACACCATTTTTTGT
44698750 AAAACGGGGTCGACTTGGATTTTTGAAAACAAAAACGAACATTAGAGTCGCGACCAATCTTTTTT
131 AAAACGGGGTCGACTTGGATTTTTGAAAACAAAAACGAACATTAGAGTCGCGACCAATCTTTTTT
44698815 TGATGAGGTGTGATCGGGTCACCTCGTAAAACAGTTGTTTTAAATAAACAGTTTAAATTTATTAA
196 TGATGAGGTGTGATCGGGTCACCTCGTAAAACAGTTGTTTTAAATAAACAGTTTAAATTTATTAA
44698880 AATAATGCTTTTGGTCTGCAAAATTCAGAAAGATAGGTTCGAAAGTCAGTTACGTATGAGGAAGG
261 AATAATGCTTTTGGTCTGCAAAATTCAGAAAGATAGGTTCGAAAGTCAGTTACGTATGAGGAAGG
44698945 ATTAGCATCCTCGTAACGCCCAAAAATTAGTACCTAGTTGATTAATTAGT
326 ATTAGCATCCTCGTAACGCCCAAAAATTAGTACCTAGTTGATTAATTAGT
44698995 GTCTTAATAT
Statistics
Matches: 375, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
375 375 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (375 bp):
ATTGGTGGCGACTCCCGTATTCATTTACTTTTTTCAAAATCCAAGTCGACCCCGTTTTATCAAAA
AAATAGTGTCAACAAGTGATCTTGTTTTTAGTTTCGATATCAATCTTGTTGACACCATTTTTTGT
AAAACGGGGTCGACTTGGATTTTTGAAAACAAAAACGAACATTAGAGTCGCGACCAATCTTTTTT
TGATGAGGTGTGATCGGGTCACCTCGTAAAACAGTTGTTTTAAATAAACAGTTTAAATTTATTAA
AATAATGCTTTTGGTCTGCAAAATTCAGAAAGATAGGTTCGAAAGTCAGTTACGTATGAGGAAGG
ATTAGCATCCTCGTAACGCCCAAAAATTAGTACCTAGTTGATTAATTAGT
Found at i:44699941 original size:112 final size:113
Alignment explanation
Indices: 44699814--44700021 Score: 400
Period size: 112 Copynumber: 1.8 Consensus size: 113
44699804 ACAGATATGT
44699814 ATGTAAATAAAAAATACATACAAAAAAATAACTATGTATATATATATACGAATATAAATAAGTTA
1 ATGTAAAT-AAAAATACATACAAAAAAATAACTATGTATATATATATACGAATATAAATAAGTTA
44699879 TAAAAATATATATATGCATATATGTATATGTAAATTATAAAGTATGAAA
65 TAAAAATATATATATGCATATATGTATATGTAAATTATAAAGTATGAAA
44699928 ATGTAAAT-AAAATACATACAAAAAAATAACTATGTATATATATATACGAATATAAATAAGTTAT
1 ATGTAAATAAAAATACATACAAAAAAATAACTATGTATATATATATACGAATATAAATAAGTTAT
44699992 AAAAATATATATATGCATATATGTATATGT
66 AAAAATATATATATGCATATATGTATATGT
44700022 GNNNNNNNNN
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
112 86 0.91
114 8 0.09
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (113 bp):
ATGTAAATAAAAATACATACAAAAAAATAACTATGTATATATATATACGAATATAAATAAGTTAT
AAAAATATATATATGCATATATGTATATGTAAATTATAAAGTATGAAA
Found at i:44706955 original size:45 final size:44
Alignment explanation
Indices: 44706891--44707144 Score: 190
Period size: 44 Copynumber: 5.7 Consensus size: 44
44706881 AAGCTACAAG
* * * * *
44706891 TCTTATCTCACTGATGTTGCAGTAGAGTAGACTGAAGATAGCAGA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATACCA-A
* * * *
44706936 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCACACCATAACAA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGA-A-GATACCAA
* * *
44706981 GTATTATCTCCCTAAAATTGCAGTGGAGCAGACTGAAGATAACCAA
1 -TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGAT-ACCAA
* * * ** *
44707027 CCTTATCTCTCTAAA-TTGCAGTGGAGCAGGTTGAAGAAACCAA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATACCAA
* * * * **
44707070 TCTTATCTCCCTGAAGTTGTAGT-GAAGCAGATTGAAGCTATTAA
1 TCTTATCTCCCTAAAGTTGCAGTAG-AGCAGACTGAAGATACCAA
* * *
44707114 TCCTATCTCCTTAAAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGA
44707145 TTAAAACGAT
Statistics
Matches: 168, Mismatches: 33, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
43 18 0.11
44 67 0.40
45 44 0.26
46 37 0.22
47 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATACCAA
Found at i:44707160 original size:44 final size:44
Alignment explanation
Indices: 44707068--44707404 Score: 123
Period size: 44 Copynumber: 7.5 Consensus size: 44
44707058 TGAAGAAACC
* * * * * * *
44707068 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGCTATT
1 AATCCTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAACGATG
* *
44707112 AATCCTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAACGATG
1 AATCCTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAACGATG
* * * * *
44707156 AATCCTAT-ACCTCTGAAGTTGCAGT-AGGTCGGATTAAATCTACCATAAA
1 AATCCTATCTCCT-TGAAGTTGCAGTGAAG-CAGATTAAA---ACGAT--G
* * * * * * *
44707205 AAGTCTTATCTCCCTGACGTTGCAGTGGAGCAGACTAAAACCA-C
1 AA-TCCTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAACGATG
* * * * * *
44707249 AAACCTTATCTCCCTGAAGTTGTAGTGAAACA-AGTTGAAGATACTA-A
1 AATCC-TATCTCCTTGAAGTTGCAGTGAAGCAGA-TT-AA-A-ACGATG
* * * * * * * *
44707296 AAT--TTTCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTATT
1 AATCCTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAACGATG
* * * * *
44707338 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAACAATG
1 AATCCTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAACGATG
*
44707382 AATCCTAT-ACCTCTGAAGTTGCA
1 AATCCTATCTCCT-TGAAGTTGCA
44707405 CCAGGTCGGA
Statistics
Matches: 220, Mismatches: 53, Indels: 40
0.70 0.17 0.13
Matches are distributed among these distances:
41 3 0.01
42 4 0.02
43 9 0.04
44 159 0.72
45 3 0.01
46 1 0.00
47 13 0.06
49 2 0.01
50 23 0.10
51 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
AATCCTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAACGATG
Found at i:44707288 original size:226 final size:226
Alignment explanation
Indices: 44706971--44707467 Score: 672
Period size: 226 Copynumber: 2.2 Consensus size: 226
44706961 AGCAGATCAC
* * * * *
44706971 ACCATAACAAGTATTATCTCCCTAAAATTGCAGTGGAGCAGACTGAAGATAACCAACCTTATCTC
1 ACCATAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAACAACAAACCTTATCTC
* * * * ** * *
44707036 TCTAAATTGCAGTGGAGCAGGTTGAAGAAACCAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGA
66 CCTAAATTGCAGTGAAACAAGTTGAAGAAACCAAAATTATCTCCCTGAAGTTGCAATGAAGCAGA
* * *
44707101 TTGAAGCTATTAATCCTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAACGATGAATCCTATAC
131 TTGAAGCTATTAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAACAATGAATCCTATAC
**
44707166 CTCTGAAGTTGCAGTAGGTCGGATTAAATCT
196 CTCTGAAGTTGCACCAGGTCGGATTAAATCT
* * * *
44707197 ACCATAAAAAGTCTTATCTCCCTGACGTTGCAGTGGAGCAGACT-AAAACCACAAACCTTATCTC
1 ACCATAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAACAACAAACCTTATCTC
* * * * * *
44707261 CCTGAAGTTGTAGTGAAACAAGTTGAAGATACTAAAATTTTCTCCCTGAAGTTGCAATGGAGCAG
66 CCT-AAATTGCAGTGAAACAAGTTGAAGAAACCAAAATTATCTCCCTGAAGTTGCAATGAAGCAG
* *
44707326 ATTGAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAACAATGAATCCTATA
130 ATTGAAGCTATTAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAACAATGAATCCTATA
*
44707391 CCTCTGAAGTTGCACCAGGTCGGATTAAGTCT
195 CCTCTGAAGTTGCACCAGGTCGGATTAAATCT
* * *
44707423 ATCATAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTG
1 ACCATAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTG
44707468 TAGATAGCAG
Statistics
Matches: 232, Mismatches: 37, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
225 18 0.08
226 214 0.92
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (226 bp):
ACCATAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAACAACAAACCTTATCTC
CCTAAATTGCAGTGAAACAAGTTGAAGAAACCAAAATTATCTCCCTGAAGTTGCAATGAAGCAGA
TTGAAGCTATTAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAACAATGAATCCTATAC
CTCTGAAGTTGCACCAGGTCGGATTAAATCT
Found at i:44708031 original size:3 final size:3
Alignment explanation
Indices: 44708023--44708050 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44708013 CAAAATTTGT
44708023 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
44708051 ATTTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44710544 original size:3 final size:3
Alignment explanation
Indices: 44710538--44710587 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
44710528 TAATACTTAC
* *
44710538 AAT AAT AAT AAT AAT AAT AAT AAT -CT AATT AGTT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T A-AT AAT AAT AAT AAT
44710583 AAT AA
1 AAT AA
44710588 CAATGAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 3 0.08
3 32 0.82
4 4 0.10
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:44720413 original size:26 final size:28
Alignment explanation
Indices: 44720348--44720419 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
44720338 ATAAGAAAAT
* *
44720348 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
44720378 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
44720405 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
44720420 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:44720620 original size:15 final size:15
Alignment explanation
Indices: 44720585--44720636 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44720575 TTAAGAATTT
*
44720585 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44720599 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44720613 TATTTAATAATAAT-
1 TATTTAATTATAATA
44720627 TATGTTAATT
1 TAT-TTAATT
44720637 TATATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:44720843 original size:45 final size:44
Alignment explanation
Indices: 44720762--44720851 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
44720752 AACTCTATTC
44720762 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* * *
44720806 CATTCAACCAAACA-ATTGATTTGCTATTACGTCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
44720851 C
1 C
44720852 GCCTCTAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.39
45 24 0.59
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:44732460 original size:17 final size:17
Alignment explanation
Indices: 44732423--44732459 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
44732413 GGAGGAAAAC
44732423 AAAATGAGAAACAGAAG
1 AAAATGAGAAACAGAAG
44732440 AAAATG-GAAA-ATGAAG
1 AAAATGAGAAACA-GAAG
44732456 AAAA
1 AAAA
44732460 AAAAAGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 12 0.63
17 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.08
Consensus pattern (17 bp):
AAAATGAGAAACAGAAG
Found at i:44738130 original size:162 final size:162
Alignment explanation
Indices: 44737863--44738183 Score: 520
Period size: 162 Copynumber: 2.0 Consensus size: 162
44737853 GAAGGAAGAT
*
44737863 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGGAAAAGAAAACCTGCAAAG
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGAAAACCTGCAAAG
**
44737928 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACGCTGCAGATGAGATTAA
66 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
44737993 GCAAACAACATATAGGACTGAAACTCCACCGC
131 GCAAACAACATATAGGACTGAAACTCCACCGC
* **
44738025 CTGCAAAGCTAGCTGGTACTGTCAATGGTGGTTCATTGTTGCCCCAGAAAAAGGGAA-CTG-AGA
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCC-GAAAAAGAAAACCTGCA-A
* *
44738088 AGAAAAGTTCTAAAATTGATCCACATCAGTTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
64 AGAAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
* *
44738153 AAGCAAACAACATGTAGGAGTGAAACTCCAC
129 AAGCAAACAACATATAGGACTGAAACTCCAC
44738184 TTCCTGCAGA
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
161 1 0.01
162 138 0.94
163 8 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (162 bp):
CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGAAAACCTGCAAAG
AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
GCAAACAACATATAGGACTGAAACTCCACCGC
Found at i:44751844 original size:14 final size:17
Alignment explanation
Indices: 44751825--44751862 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
44751815 ATTTATTTCT
44751825 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
44751839 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
44751856 TAATATA
1 TAATATA
44751863 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:44751870 original size:12 final size:11
Alignment explanation
Indices: 44751842--44751885 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
44751832 ATATTTATAA
44751842 TATAATTAATT
1 TATAATTAATT
*
44751853 TAATAATATACTT
1 T-ATAAT-TAATT
44751866 TATAATTAATT
1 TATAATTAATT
44751877 TATATATTA
1 TATA-ATTA
44751886 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:44751889 original size:20 final size:23
Alignment explanation
Indices: 44751837--44751899 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
44751827 ATATAATATT
44751837 TATA-ATATAATTAATTTAATAA
1 TATATATATAATTAATTTAATAA
* *
44751859 TATACTTTATAATTAATTTATATAT
1 TATA-TATATAATTAATTTA-ATAA
* *
44751884 TATATAAATAAATAAT
1 TATATATATAATTAAT
44751900 ATAAATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATAATTAATTTAATAA
Found at i:44751901 original size:20 final size:20
Alignment explanation
Indices: 44751854--44751902 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
44751844 TAATTAATTT
*
44751854 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* *
44751874 ATTTATATA-TTATATAAATA
1 AATAATATACTT-TATAAATA
44751894 AATAATATA
1 AATAATATA
44751903 AATATCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:44753861 original size:3 final size:3
Alignment explanation
Indices: 44753853--44753900 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
44753843 TAATATTTTC
* *
44753853 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ACTC A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
44753898 ATT
1 ATT
44753901 GATACTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.92
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:44753869 original size:12 final size:12
Alignment explanation
Indices: 44753854--44753911 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
44753844 AATATTTTCA
44753854 TTATTATTATTG
1 TTATTATTATTG
*
44753866 TTATTATTATTA
1 TTATTATTATTG
* *
44753878 TTATTATTACTC
1 TTATTATTATTG
*
44753890 ATATTATTATTG
1 TTATTATTATTG
* *
44753902 ATACTATTAT
1 TTATTATTAT
44753912 ATTTAGTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:44757104 original size:22 final size:21
Alignment explanation
Indices: 44757069--44757109 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44757059 CTTAATTGAC
* *
44757069 AATATTTTTTTTAAGATAAAT
1 AATATTTATTTTAAAATAAAT
44757090 AATATTATATTTTAAAATAA
1 AATATT-TATTTTAAAATAA
44757110 GTATCATCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTTATTTTAAAATAAAT
Found at i:44764581 original size:76 final size:76
Alignment explanation
Indices: 44764501--44764653 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
44764491 ATTAAAAAAT
*
44764501 ATTAAATTCTAAAAATTTCTATAAAAATGTTAAATTTTTAAAAAAATTGAAAATGATGAATTTGA
1 ATTAAATTCTAAAAAATTCTATAAAAATGTTAAATTTTTAAAAAAATTGAAAATGATGAATTTGA
44764566 GACCTTAAACA
66 GACCTTAAACA
44764577 ATTAAATTCTAAAAAATTCTATAAAAATGTTAAATTTTTAAAAAAATTGAAAATGATGAATTTGA
1 ATTAAATTCTAAAAAATTCTATAAAAATGTTAAATTTTTAAAAAAATTGAAAATGATGAATTTGA
44764642 GACCTTAAACA
66 GACCTTAAACA
44764653 A
1 A
44764654 ATACATTGCC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.35
Consensus pattern (76 bp):
ATTAAATTCTAAAAAATTCTATAAAAATGTTAAATTTTTAAAAAAATTGAAAATGATGAATTTGA
GACCTTAAACA
Found at i:44773163 original size:23 final size:25
Alignment explanation
Indices: 44773132--44773188 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
44773122 AATTTCATAG
*
44773132 TGTACATTTTTAAAT-AAA-TAA-TA
1 TGTA-ATTTTGAAATGAAATTAATTA
44773155 TGTTAATTTTGAAATGAAATTAATTA
1 TG-TAATTTTGAAATGAAATTAATTA
44773181 TGTAATTT
1 TGTAATTT
44773189 ATTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 11 0.38
24 5 0.17
25 9 0.31
26 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (25 bp):
TGTAATTTTGAAATGAAATTAATTA
Found at i:44779609 original size:14 final size:13
Alignment explanation
Indices: 44779586--44779627 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
44779576 TAATCTTTGA
44779586 TTTATTATTTTAT
1 TTTATTATTTTAT
44779599 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
44779612 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
44779626 TT
1 TT
44779628 GACTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:44780270 original size:36 final size:35
Alignment explanation
Indices: 44780220--44780290 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
44780210 GATGTTGGAG
44780220 ATATTTTAGATTAATTAAATAAATATTAGTTTATTA
1 ATATTTTAGATTAATT-AATAAATATTAGTTTATTA
** *
44780256 ATATTTTA-ATTTAATTTTTAAATATTATTTTATTA
1 ATATTTTAGA-TTAATTAATAAATATTAGTTTATTA
44780291 TTTTATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (35 bp):
ATATTTTAGATTAATTAATAAATATTAGTTTATTA
Found at i:44782411 original size:25 final size:25
Alignment explanation
Indices: 44782232--44782402 Score: 252
Period size: 25 Copynumber: 6.8 Consensus size: 25
44782222 GGAGTTTAGC
*
44782232 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
* * *
44782257 GTGCTTTCTGATTATTAGTACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
44782282 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
44782307 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
44782332 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
* * *
44782357 GTGCTCTCTGATTACTAGTATGTTA
1 GTGCTCTCTGATTACTAGCACGTCA
* * *
44782382 ATGCTCTCCGATTATTAGCAC
1 GTGCTCTCTGATTACTAGCAC
44782403 ATTCGTGCTA
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 133 1.00
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.36
Consensus pattern (25 bp):
GTGCTCTCTGATTACTAGCACGTCA
Found at i:44783233 original size:15 final size:17
Alignment explanation
Indices: 44783213--44783244 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44783203 CTCCTGCAAC
44783213 AAACAA-CA-GCAACAA
1 AAACAACCACGCAACAA
44783228 AAACAACCACGCAACAA
1 AAACAACCACGCAACAA
44783245 GAAAGATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.62, C:0.31, G:0.06, T:0.00
Consensus pattern (17 bp):
AAACAACCACGCAACAA
Found at i:44789185 original size:20 final size:18
Alignment explanation
Indices: 44789162--44789206 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44789152 AGAATTTGGG
44789162 AAAAATATATAAAATCTAGA
1 AAAAATATAT-AAAT-TAGA
* *
44789182 AAAAAAATATAAATTATA
1 AAAAATATATAAATTAGA
44789200 AAAAATA
1 AAAAATA
44789207 AAAAAATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 9 0.41
19 4 0.18
20 9 0.41
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATATATAAATTAGA
Found at i:44789214 original size:24 final size:24
Alignment explanation
Indices: 44789182--44789228 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
44789172 AAAATCTAGA
* * *
44789182 AAAAAAATATAAATTATAAAAAAT
1 AAAAAAATACAAAATACAAAAAAT
44789206 AAAAAAATACAAAATACAAAAAA
1 AAAAAAATACAAAATACAAAAAA
44789229 ATACGACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAAAATACAAAATACAAAAAAT
Found at i:44789219 original size:17 final size:17
Alignment explanation
Indices: 44789199--44789232 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44789189 TATAAATTAT
*
44789199 AAAAAATAAAAAAATAC
1 AAAAAACAAAAAAATAC
*
44789216 AAAATACAAAAAAATAC
1 AAAAAACAAAAAAATAC
44789233 GACAATTAGA
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:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAACAAAAAAATAC
Found at i:44789344 original size:15 final size:15
Alignment explanation
Indices: 44789321--44789351 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44789311 GTTTTTTTCT
44789321 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
44789336 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
44789351 T
1 T
44789352 TCTAAAAAGG
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:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:44796462 original size:40 final size:40
Alignment explanation
Indices: 44796398--44796474 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
44796388 ATTTTTCGGC
* * *
44796398 GAAATCGCGTCCACGTCGGCGCGATGTCAGGGTACGCCAA
1 GAAATCGCGTCCACGCCAGAGCGATGTCAGGGTACGCCAA
*
44796438 GAAATCGCGTCCACGCCAGAGCGATGTCATGGTACGC
1 GAAATCGCGTCCACGCCAGAGCGATGTCAGGGTACGC
44796475 GCCAGGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.31, T:0.16
Consensus pattern (40 bp):
GAAATCGCGTCCACGCCAGAGCGATGTCAGGGTACGCCAA
Found at i:44817495 original size:23 final size:23
Alignment explanation
Indices: 44817460--44817518 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
44817450 CCGAGCTGAT
* * *
44817460 AAACAGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
* *
44817483 AGACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
44817506 AAACGGTAAGCTC
1 AAACGGTAAGCTC
44817519 ATACAAGCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:44817527 original size:23 final size:23
Alignment explanation
Indices: 44817460--44817527 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
44817450 CCGAGCTGAT
* * **
44817460 AAACAGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAAAGCTG
* * *
44817483 AGACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAAAGCTG
44817506 AAACGGTAAGCT-CATACAAGCT
1 AAACGGTAAGCTCCATA-AAGCT
44817528 ATGGTGAGTC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAAAGCTG
Found at i:44841030 original size:16 final size:17
Alignment explanation
Indices: 44841000--44841032 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44840990 AGTACCATTC
*
44841000 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
44841017 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
44841033 GTAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:44845003 original size:11 final size:12
Alignment explanation
Indices: 44844977--44845004 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44844967 CAAAACAGGC
44844977 TTTTAGCGGCGT
1 TTTTAGCGGCGT
44844989 TTTTAGCGGCGT
1 TTTTAGCGGCGT
44845001 TTTT
1 TTTT
44845005 GCACCGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:44845062 original size:19 final size:20
Alignment explanation
Indices: 44845026--44845065 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
44845016 ACTTAAGTGG
*
44845026 TTTTACACAATTTTATAATT
1 TTTTACACAATTTAATAATT
*
44845046 TTTTATACAA-TTAATAATT
1 TTTTACACAATTTAATAATT
44845065 T
1 T
44845066 AACAATCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTACACAATTTAATAATT
Found at i:44846431 original size:2 final size:2
Alignment explanation
Indices: 44846424--44846473 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
44846414 ATTGTTAATA
*
44846424 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44846466 AT AT AT AT
1 AT AT AT AT
44846474 CCTAAATGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44858187 original size:21 final size:20
Alignment explanation
Indices: 44858161--44858200 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
44858151 AAATGCATTC
44858161 ATGTTTAAATGGTTGTGATTT
1 ATGTTTAAATGG-TGTGATTT
* *
44858182 ATGTTTGAATTGTGTGATT
1 ATGTTTAAATGGTGTGATT
44858201 AATGAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (20 bp):
ATGTTTAAATGGTGTGATTT
Found at i:44869664 original size:2 final size:2
Alignment explanation
Indices: 44869659--44869685 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44869649 AAAAAAAAAA
44869659 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
44869686 GCTTCCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44876226 original size:75 final size:76
Alignment explanation
Indices: 44876120--44876272 Score: 222
Period size: 75 Copynumber: 2.0 Consensus size: 76
44876110 AAACAACAAC
* * *
44876120 AAATATCGTTACTAGGGAATTGATGTCTTTTAAAATTTTATATAAAATC-TTTAAAACAAA-CTG
1 AAATATCATTACTAGAGAATTGATGTATTTTAAAATTTTATATAAAATCTTTTAAAA-AAATCTG
*
44876183 CTTAAAAAACAT
65 ATTAAAAAACAT
*
44876195 AAATATCATTACTAGAGAATAT-ATGTATTTTAAATTTTTATATAAAATCTTTTAAAAAAATCTG
1 AAATATCATTACTAGAGAAT-TGATGTATTTTAAAATTTTATATAAAATCTTTTAAAAAAATCTG
44876259 ATTAAAAAACAT
65 ATTAAAAAACAT
44876271 AA
1 AA
44876273 TACCAAAGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
75 46 0.66
76 24 0.34
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (76 bp):
AAATATCATTACTAGAGAATTGATGTATTTTAAAATTTTATATAAAATCTTTTAAAAAAATCTGA
TTAAAAAACAT
Found at i:44879883 original size:73 final size:72
Alignment explanation
Indices: 44879758--44879929 Score: 238
Period size: 73 Copynumber: 2.4 Consensus size: 72
44879748 AAAATAAGCA
* *
44879758 TTAGAGGCGTTTTTCAAAAAGCGCTGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTTT
1 TTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTTT
44879823 TGGGGAT
66 TGGGGAT
* * * * * * *
44879830 TTAGCGGCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTCAAAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTT
44879895 TTGGGGAT
65 TTGGGGAT
44879903 TTAGCGGCGTTTTT-AATAAAGCGCCGC
1 TTAGCGGCGTTTTTCAA-AAAGCGCCGC
44879930 TAATGGTCAG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
72 23 0.26
73 64 0.74
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTTT
TGGGGAT
Found at i:44879975 original size:114 final size:114
Alignment explanation
Indices: 44879829--44880391 Score: 820
Period size: 114 Copynumber: 4.9 Consensus size: 114
44879819 CTTTTGGGGA
* * * *
44879829 TTTAGCGGCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
* *
44879894 TTTGGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGGTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
44879943 TTTAGCGGCGTTTTTGAAAAAGCACCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
* *
44880008 TTTTGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
44880057 TTTAGCGGCATTTTTGAGAAAGCGCCACAAAAAAATATAAGCCCAATGACGCCGTTTTTTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
* *
44880122 TTTGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
44880171 TTTAGCGGCGTTTTTGAAAAAGCACCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
* * * * * * *
44880236 TTTAGGGATTTAGCTGCATTTTTAAGAAAGTGTCGCTAATACTTAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * *
44880285 TTTAACGGCGTTTTTGAGAAATCGCCGCAAAAAAAACCTAAGCCCAATGACGCCATTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGC
*
44880350 TTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATG
65 TTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATG
44880392 ATTTATTTAA
Statistics
Matches: 400, Mismatches: 48, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
114 331 0.83
115 69 0.17
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:44880433 original size:15 final size:15
Alignment explanation
Indices: 44880413--44880457 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
44880403 ATTTAAGGCC
*
44880413 GGTTTAGGGAGTATG
1 GGTTTAGGGATTATG
44880428 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
*
44880442 GGATTAGGGATTATG
1 GGTTTAGGGATTATG
44880457 G
1 G
44880458 ATTAGGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:44880450 original size:14 final size:14
Alignment explanation
Indices: 44880416--44880464 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
44880406 TAAGGCCGGT
* *
44880416 TTAGGGAGTATGGGT
1 TTAGGGATTAT-GGA
44880431 TTAGGGATTATGGA
1 TTAGGGATTATGGA
44880445 TTAGGGATTATGGA
1 TTAGGGATTATGGA
44880459 TTAGGG
1 TTAGGG
44880465 GTTGGGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:44880489 original size:7 final size:7
Alignment explanation
Indices: 44880431--44880513 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
44880421 GAGTATGGGT
*
44880431 TTAGGGA
1 TTAGGGG
* *
44880438 TTATGGA
1 TTAGGGG
*
44880445 TTAGGGA
1 TTAGGGG
* *
44880452 TTATGGA
1 TTAGGGG
44880459 TTAGGGG
1 TTAGGGG
*
44880466 TT-GGGAT
1 TTAGGG-G
*
44880473 TTAAGGG
1 TTAGGGG
44880480 TTAGGGG
1 TTAGGGG
44880487 TTAGAGGG
1 TTAG-GGG
44880495 TTAGGGG
1 TTAGGGG
*
44880502 TTTAAGGG
1 -TTAGGGG
44880510 TTAG
1 TTAG
44880514 ACGTGCTAGG
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
6 3 0.05
7 43 0.70
8 15 0.25
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:44880494 original size:15 final size:15
Alignment explanation
Indices: 44880463--44880513 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
44880453 TATGGATTAG
*
44880463 GGGTT-GGGATTTAA
1 GGGTTAGGGGTTTAA
44880477 GGGTTAGGGG-TTAGA
1 GGGTTAGGGGTTTA-A
44880492 GGGTTAGGGGTTTAA
1 GGGTTAGGGGTTTAA
44880507 GGGTTAG
1 GGGTTAG
44880514 ACGTGCTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 8 0.24
15 22 0.67
16 3 0.09
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (15 bp):
GGGTTAGGGGTTTAA
Found at i:44880741 original size:15 final size:15
Alignment explanation
Indices: 44880714--44880777 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 15
44880704 TATTTTAAGG
*
44880714 TTTAAGGAGTATGGA
1 TTTAAGGATTATGGA
*
44880729 TTTAGGGATTAT-GA
1 TTTAAGGATTATGGA
*
44880743 ATTAAGGATTATGG-
1 TTTAAGGATTATGGA
44880757 TTTAAGTG-TT-TGGA
1 TTTAAG-GATTATGGA
44880771 TTTAAGG
1 TTTAAGG
44880778 TTTAGGGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 4 0.10
14 25 0.61
15 12 0.29
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (15 bp):
TTTAAGGATTATGGA
Found at i:44880796 original size:15 final size:14
Alignment explanation
Indices: 44880772--44880842 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 14
44880762 GTGTTTGGAT
44880772 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
44880786 TTAAGGGTTTAGGGG
1 TTAA-GGTTTAGGGG
*
44880801 TT-AGATGTTAGGGG
1 TTAAGGT-TTAGGGG
*
44880815 TTAAGAG-TTAGGGAT
1 TTAAG-GTTTAGGG-G
*
44880830 TTAAGGCTTAGGG
1 TTAAGGTTTAGGG
44880843 ATTCAAGGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.04
14 21 0.44
15 25 0.52
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.34
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:44881677 original size:15 final size:16
Alignment explanation
Indices: 44881648--44881678 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44881638 TTGCGGCATT
44881648 TTTTAAAATAAATCAA
1 TTTTAAAATAAATCAA
44881664 TTTTAAAA-AAATCAA
1 TTTTAAAATAAATCAA
44881679 AAAAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTTAAAATAAATCAA
Found at i:44881988 original size:123 final size:121
Alignment explanation
Indices: 44881837--44882065 Score: 404
Period size: 123 Copynumber: 1.9 Consensus size: 121
44881827 AAATTTTTTT
* *
44881837 GCGGCGTTTTTATGAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTTTAGCATA
1 GCGGCGTTTTTATAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAACCCCCTTTTAGCATA
44881902 GCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTTTTTAGGTAAGCAATA
66 GCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTTTTTAGGTAAGCAATA
*
44881958 GCGGCGTTTTTATAAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAACCCCCTTTTAGGA
1 GCGGCGTTTTTAT--AAAAACGCCACAAAATAATTTTACTTTAAAAAAATAACCCCCTTTTAGCA
*
44882023 TAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAAATTTT
64 TAGCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTT
44882066 CATAAAAACG
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
121 13 0.13
123 89 0.87
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (121 bp):
GCGGCGTTTTTATAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAACCCCCTTTTAGCATA
GCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTTTTTAGGTAAGCAATA
Found at i:44882193 original size:22 final size:21
Alignment explanation
Indices: 44882168--44882208 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
44882158 AATCCCTCTT
44882168 CTAAAATTCCC-AACTTTCCCCC
1 CTAAAA-TCCCTAA-TTTCCCCC
44882190 CTAAAATCCCTAATTTCCC
1 CTAAAATCCCTAATTTCCC
44882209 ACATCCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (21 bp):
CTAAAATCCCTAATTTCCCCC
Found at i:44883562 original size:15 final size:15
Alignment explanation
Indices: 44883542--44883571 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44883532 CTTATAGGTT
*
44883542 TAAATTATTATATAG
1 TAAATTAGTATATAG
44883557 TAAATTAGTATATAG
1 TAAATTAGTATATAG
44883572 AATCATCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TAAATTAGTATATAG
Found at i:44884203 original size:19 final size:21
Alignment explanation
Indices: 44884165--44884203 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44884155 CAGTGATATT
*
44884165 TTTTTATATATTGTTCTAAAG
1 TTTTTATATATTCTTCTAAAG
44884186 TTTTTATAT-TTCTT-TAAA
1 TTTTTATATATTCTTCTAAA
44884204 TTTGCATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTATATATTCTTCTAAAG
Found at i:44885905 original size:43 final size:42
Alignment explanation
Indices: 44885818--44886106 Score: 337
Period size: 43 Copynumber: 6.7 Consensus size: 42
44885808 TTTTTGCTAG
* * * * * *
44885818 AAGCGCCGCTAAAGGT-TTGTTCTTTAGTGGCGTTTATAATAA
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
** *
44885860 AAGCGACGCTAAAGGTCATGACCTTTAGCGGCATTTGTGACAA
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
* *
44885903 AAGCGCCGCTAAAGTTCATGGTCTTTTAGCGGCGTTTGTAACAA
1 AAGCG-CGCTAAAGGTCATGGTC-TTTAGCGGCGTTTGTGACAA
*
44885947 AAGCGCAGCGAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
1 AAGCGC-GCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
* *
44885990 AAGCGCTGCTAAAGCTCATGGTCTTTAGCGGCGTTTGTGACAG
1 AAGCGC-GCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
**
44886033 ACCCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
* *
44886076 ACGCGATGCTAAAGGTCATGGTCTTTAGCGG
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGG
44886107 TGTCTTCTGT
Statistics
Matches: 214, Mismatches: 29, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
42 15 0.07
43 161 0.75
44 38 0.18
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (42 bp):
AAGCGCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
Found at i:44886206 original size:22 final size:22
Alignment explanation
Indices: 44886172--44886213 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44886162 AGTGGCGCTT
* *
44886172 AAAAGCGCCGCTAAAGGCCTAG
1 AAAAACGCCGCTAAAAGCCTAG
*
44886194 AAAAACGCTGCTAAAAGCCT
1 AAAAACGCCGCTAAAAGCCT
44886214 GTTTTAGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAACGCCGCTAAAAGCCTAG
Found at i:44887983 original size:28 final size:29
Alignment explanation
Indices: 44887926--44887984 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
44887916 GTTGGGAGGG
**
44887926 GAGTAAAAGTTTTTTGGGAAAAGTGGAAAA
1 GAGTAAAAGTTTTGAGGGAAAAGT-GAAAA
44887956 GAGTAAAAGTTTTGAGGGAAAAGT-AAAA
1 GAGTAAAAGTTTTGAGGGAAAAGTGAAAA
44887984 G
1 G
44887985 GGTTTGGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 5 0.19
30 22 0.81
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.24
Consensus pattern (29 bp):
GAGTAAAAGTTTTGAGGGAAAAGTGAAAA
Found at i:44888042 original size:9 final size:9
Alignment explanation
Indices: 44888028--44888064 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44888018 TATAGTTTGA
44888028 TATTCGAAT
1 TATTCGAAT
44888037 TATTCGAAT
1 TATTCGAAT
*
44888046 TATTCGAGT
1 TATTCGAAT
44888055 TATTCGAAT
1 TATTCGAAT
44888064 T
1 T
44888065 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44896113 original size:198 final size:197
Alignment explanation
Indices: 44895774--44896163 Score: 448
Period size: 198 Copynumber: 2.0 Consensus size: 197
44895764 ACTACCCATT
* * *
44895774 CAAGTTCGAAAGCCTACCTGAAATTTAGGAAGATTTGAGCCAAAATATTAGGCTCAAAAATAAGC
1 CAAGTTCGAAAGCCCACCTGAAATTTAGGAAGATTTGAGCCAAAATATTAGACTAAAAAATAAGC
* **
44895839 TTGGGCAAAAAAACAAAATTAGACTATTTAAACCTGGGCTTAAATTCAAACATTCAAGGCTTGGG
66 TTGGGCAAAAAAACAAAATGAGACTATTTAAACCTGGGCTTAAATTCAAACATTCAAGGCTTGAA
* ** * * * *
44895904 CCCGACCCCACTCAGCCTGTTTTTTAAGTTTGTATTATATTATATTATGTTACGTTTATATAGTA
131 CCCGACCCCACTCAACCCATTCTCTAAGTTTGTAATATATTATATTATGCTACGTTTATATAGTA
44895969 TC
196 TC
* * **
44895971 CAAGTTCTAAAGCCCACTTGAAATTTA-GAAGGATTTG-GATTAAAATATTAGACTAAAAAAATA
1 CAAGTTCGAAAGCCCACCTGAAATTTAGGAA-GATTTGAG-CCAAAATATTAGACT-AAAAAATA
* * * * * *
44896034 GGCTTGGGCAAAAAAA-AAAA-GAGACCATTTTTAAGCTTGGG-TTCAGATTCAAACATTCAATG
63 AGCTTGGGCAAAAAAACAAAATGAGA-C-TATTTAAACCTGGGCTT-AAATTCAAACATTCAAGG
* * * *
44896096 CTTGAACCTGGCCCCACTCAACCCATTCTCTAAGTTTTTAATATATTATATTATGCTACTTTTAT
125 CTTGAACCCGACCCCACTCAACCCATTCTCTAAGTTTGTAATATATTATATTATGCTACGTTTAT
44896161 ATA
190 ATA
44896164 TGTTATGTAA
Statistics
Matches: 160, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
196 7 0.04
197 49 0.31
198 104 0.65
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (197 bp):
CAAGTTCGAAAGCCCACCTGAAATTTAGGAAGATTTGAGCCAAAATATTAGACTAAAAAATAAGC
TTGGGCAAAAAAACAAAATGAGACTATTTAAACCTGGGCTTAAATTCAAACATTCAAGGCTTGAA
CCCGACCCCACTCAACCCATTCTCTAAGTTTGTAATATATTATATTATGCTACGTTTATATAGTA
TC
Found at i:44897937 original size:17 final size:17
Alignment explanation
Indices: 44897910--44897942 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44897900 TTTTCTAAAA
44897910 TTAGTGAATTTCTTTTTT
1 TTAGTGAATTT-TTTTTT
44897928 TTAGTG-ATTTTTTTT
1 TTAGTGAATTTTTTTT
44897943 AGATAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (17 bp):
TTAGTGAATTTTTTTTT
Found at i:44916324 original size:18 final size:18
Alignment explanation
Indices: 44916303--44916349 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
44916293 CCCATCAATT
*
44916303 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
44916321 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
44916339 TGAACATCATT
1 TGAACATCATT
44916350 CTCATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:44917955 original size:60 final size:59
Alignment explanation
Indices: 44917889--44918006 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 59
44917879 TTCTTTTTTT
*
44917889 AAAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAACAAACAAAAAAA-AAAACA
1 AAAACATAAAATTGAACTATTATTTAGAAAACATACAGCAAA-AAA-AAAAAAACAAAACA
* * *
44917949 AAAACATCAAATTGAACTATTATTTCGAAAACATGCAGCAAAAAAAAAAAAACAAAAC
1 AAAACATAAAATTGAACTATTATTTAGAAAACATACAGCAAAAAAAAAAAAACAAAAC
44918007 CATGGCCCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 7 0.13
59 8 0.15
60 38 0.72
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (59 bp):
AAAACATAAAATTGAACTATTATTTAGAAAACATACAGCAAAAAAAAAAAAACAAAACA
Found at i:44922457 original size:63 final size:63
Alignment explanation
Indices: 44922367--44922515 Score: 253
Period size: 63 Copynumber: 2.4 Consensus size: 63
44922357 ACAGTATGCA
* *
44922367 GGGCCGAATGGTGGTGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACTATT
1 GGGCCGAATGGTGGAGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
* * *
44922430 GGGTCGAATAGTGGAGGGCCCAGGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
1 GGGCCGAATGGTGGAGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
44922493 GGGCCGAATGGTGGAGGGCCCAA
1 GGGCCGAATGGTGGAGGGCCCAA
44922516 TGGTGATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 78 1.00
ACGTcount: A:0.28, C:0.20, G:0.34, T:0.18
Consensus pattern (63 bp):
GGGCCGAATGGTGGAGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
Found at i:44930474 original size:80 final size:81
Alignment explanation
Indices: 44930341--44930505 Score: 296
Period size: 80 Copynumber: 2.0 Consensus size: 81
44930331 ATTGTGGGCT
* *
44930341 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTT-AAAAAAAAAAGAAGATGATG
1 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
44930405 AAAGTGAAATTAAAAA
66 AAAGTGAAATTAAAAA
44930421 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
1 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
*
44930486 AAAGTGAAATTTAAAA
66 AAAGTGAAATTAAAAA
44930502 AAAT
1 AAAT
44930506 TCTAAGTGCT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 44 0.54
81 37 0.46
ACGTcount: A:0.58, C:0.02, G:0.18, T:0.22
Consensus pattern (81 bp):
AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
AAAGTGAAATTAAAAA
Found at i:44940593 original size:21 final size:20
Alignment explanation
Indices: 44940569--44940607 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44940559 TGTTTTTAAC
*
44940569 TAAAACAGAATTTATTTTTAT
1 TAAAACACAA-TTATTTTTAT
*
44940590 TAAAGCACAATTATTTTT
1 TAAAACACAATTATTTTT
44940608 TAAAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
TAAAACACAATTATTTTTAT
Found at i:44942368 original size:13 final size:13
Alignment explanation
Indices: 44942350--44942379 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44942340 AACTCCACCC
44942350 TTTCTCTCGCCCT
1 TTTCTCTCGCCCT
*
44942363 TTTCTCTCGTCCT
1 TTTCTCTCGCCCT
44942376 TTTC
1 TTTC
44942380 ATTTAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53
Consensus pattern (13 bp):
TTTCTCTCGCCCT
Found at i:44942690 original size:24 final size:24
Alignment explanation
Indices: 44942657--44942737 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
44942647 TCCTTTTCCA
* *
44942657 GCACCCGAGCCTTCCAGTCCCTTT
1 GCACCTGAGCCTTCCAGTCCATTT
** *
44942681 GCACCTGAGCCTGCTTCTGGTCCTTTT
1 GCACCTGAG-C--CTTCCAGTCCATTT
* *
44942708 GCACCAGAGCCTTCCAGTCCATCT
1 GCACCTGAGCCTTCCAGTCCATTT
44942732 GCACCT
1 GCACCT
44942738 CACCCCACTG
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 23 0.52
25 1 0.02
26 1 0.02
27 19 0.43
ACGTcount: A:0.14, C:0.41, G:0.19, T:0.27
Consensus pattern (24 bp):
GCACCTGAGCCTTCCAGTCCATTT
Found at i:44946934 original size:23 final size:23
Alignment explanation
Indices: 44946891--44946934 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44946881 TATATATATA
*
44946891 TATTTATAAATTTTAATAATTTT
1 TATTTATAAATTTTAAGAATTTT
* *
44946914 TATTTTTAAATTTTTAGAATT
1 TATTTATAAATTTTAAGAATT
44946935 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTATAAATTTTAAGAATTTT
Found at i:44950249 original size:13 final size:13
Alignment explanation
Indices: 44950231--44950260 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44950221 AACTCCACCC
44950231 TTTCTCTCGCCCT
1 TTTCTCTCGCCCT
*
44950244 TTTCTCTCGTCCT
1 TTTCTCTCGCCCT
44950257 TTTC
1 TTTC
44950261 ATTTAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53
Consensus pattern (13 bp):
TTTCTCTCGCCCT
Found at i:44950571 original size:24 final size:24
Alignment explanation
Indices: 44950538--44950618 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
44950528 TCCTTTTCCA
* *
44950538 GCACCCGAGCCTTCCAGTCCCTTT
1 GCACCTGAGCCTTCCAGTCCATTT
** *
44950562 GCACCTGAGCCTGCTTCTGGTCCTTTT
1 GCACCTGAG-C--CTTCCAGTCCATTT
* *
44950589 GCACCAGAGCCTTCCAGTCCATCT
1 GCACCTGAGCCTTCCAGTCCATTT
44950613 GCACCT
1 GCACCT
44950619 CACCCCACTG
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 23 0.52
25 1 0.02
26 1 0.02
27 19 0.43
ACGTcount: A:0.14, C:0.41, G:0.19, T:0.27
Consensus pattern (24 bp):
GCACCTGAGCCTTCCAGTCCATTT
Found at i:44954815 original size:23 final size:23
Alignment explanation
Indices: 44954772--44954815 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44954762 TATATATATA
*
44954772 TATTTATAAATTTTAATAATTTT
1 TATTTATAAATTTTAAGAATTTT
* *
44954795 TATTTTTAAATTTTTAGAATT
1 TATTTATAAATTTTAAGAATT
44954816 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTATAAATTTTAAGAATTTT
Found at i:44955810 original size:25 final size:26
Alignment explanation
Indices: 44955753--44955808 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
44955743 CTGCAAAATA
44955753 TCAAATGAACATCAACCTACAATTTT
1 TCAAATGAACATCAACCTACAATTTT
44955779 TCAAATGAACATCAACCTACAATTTT
1 TCAAATGAACATCAACCTACAATTTT
44955805 TCAA
1 TCAA
44955809 TGTACCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (26 bp):
TCAAATGAACATCAACCTACAATTTT
Found at i:44957043 original size:119 final size:120
Alignment explanation
Indices: 44956825--44957060 Score: 465
Period size: 119 Copynumber: 2.0 Consensus size: 120
44956815 CTACCACCCA
44956825 GGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAGCCCGAGTTGTTCGGCAACT
1 GGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAGCCCGAGTTGTTCGGCAACT
44956890 ATGACTCAATGTGTACAATCTACCACCCAGGGTTACTCGAAAACTGACTCAACCT
66 ATGACTCAATGTGTACAATCTACCACCCAGGGTTACTCGAAAACTGACTCAACCT
44956945 GGGTTG-CTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAGCCCGAGTTGTTCGGCAACT
1 GGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAGCCCGAGTTGTTCGGCAACT
44957009 ATGACTCAATGTGTACAATCTACCACCCAGGGTTACTCGAAAACTGACTCAA
66 ATGACTCAATGTGTACAATCTACCACCCAGGGTTACTCGAAAACTGACTCAA
44957061 AACGAGACAC
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 110 0.95
120 6 0.05
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (120 bp):
GGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAGCCCGAGTTGTTCGGCAACT
ATGACTCAATGTGTACAATCTACCACCCAGGGTTACTCGAAAACTGACTCAACCT
Found at i:44957828 original size:46 final size:47
Alignment explanation
Indices: 44957759--44957851 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 47
44957749 CAATTACAAT
44957759 ATCAAGCATATTTTACAATTTATTTAATTCAGTCCCTAATTTCAAGA
1 ATCAAGCATATTTTACAATTTATTTAATTCAGTCCCTAATTTCAAGA
44957806 ATCAAGCATA-TTTACAATTTATTTAATTCAGTCCCTAATTTCAAGA
1 ATCAAGCATATTTTACAATTTATTTAATTCAGTCCCTAATTTCAAGA
44957852 CAAACATAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 36 0.78
47 10 0.22
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (47 bp):
ATCAAGCATATTTTACAATTTATTTAATTCAGTCCCTAATTTCAAGA
Found at i:44969879 original size:25 final size:26
Alignment explanation
Indices: 44969822--44969877 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
44969812 CTGCAAAATA
44969822 TCAAATGAACATCAACCTACAATTTT
1 TCAAATGAACATCAACCTACAATTTT
44969848 TCAAATGAACATCAACCTACAATTTT
1 TCAAATGAACATCAACCTACAATTTT
44969874 TCAA
1 TCAA
44969878 TGTACCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (26 bp):
TCAAATGAACATCAACCTACAATTTT
Found at i:44971163 original size:206 final size:205
Alignment explanation
Indices: 44970810--44971209 Score: 712
Period size: 206 Copynumber: 1.9 Consensus size: 205
44970800 CCTATTAACT
* *
44970810 AGACACAGACTCAAAACGGATACGTGGATCCGCCACCCAGGTTTTCGGCAACGATGACGTTATAC
1 AGACACAGACTCAAAACGGATACATGGATCCGCCACCCAGGTTTTCAGCAACGATGACGTTATAC
*
44970875 AAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAG
66 AAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAG
* *
44970940 CCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACTCGAAAACTG
131 CCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAACTG
44971005 ACTCAAAACG
196 ACTCAAAACG
* *
44971015 AGACACATACTCAAAACGGATACATGGATCCGTCACCC-GGATTTTTCAGCAACGATGACGTTAT
1 AGACACAGACTCAAAACGGATACATGGATCCGCCACCCAGG--TTTTCAGCAACGATGACGTTAT
44971079 ACAAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTT
64 ACAAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTT
44971144 AGCCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAAC
129 AGCCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAAC
44971209 T
194 T
44971210 ATGGTTTTCA
Statistics
Matches: 186, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
204 2 0.01
205 35 0.19
206 149 0.80
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (205 bp):
AGACACAGACTCAAAACGGATACATGGATCCGCCACCCAGGTTTTCAGCAACGATGACGTTATAC
AAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAG
CCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAACTG
ACTCAAAACG
Found at i:44981043 original size:15 final size:15
Alignment explanation
Indices: 44981023--44981093 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 15
44981013 ATTCAATATT
44981023 AATATTTTAATAATA
1 AATATTTTAATAATA
*
44981038 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
44981057 AATATATTAATAATA
1 AATATTTTAATAATA
44981072 AATATTTT-ATAGTATA
1 AATATTTTAATA--ATA
44981088 AATATT
1 AATATT
44981094 AAAATATGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.07
15 18 0.39
16 10 0.22
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44981618 original size:26 final size:26
Alignment explanation
Indices: 44981583--44981645 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
44981573 GCTCCATTTG
*
44981583 ATTTTTGAAAGTAATTTCT-ATTTTC-
1 ATTTTTGAAAATAATTT-TAATTTTCT
44981608 ATTTTTAGAAAATAATTTTAATTTTCT
1 ATTTTT-GAAAATAATTTTAATTTTCT
*
44981635 ATTTTTTAAAA
1 ATTTTTGAAAA
44981646 ATTAAAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 7 0.21
26 20 0.61
27 6 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
ATTTTTGAAAATAATTTTAATTTTCT
Found at i:44983121 original size:14 final size:14
Alignment explanation
Indices: 44983097--44983138 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
44983087 TGTCTCCTTC
44983097 TTTTC-TTCTTTCT
1 TTTTCTTTCTTTCT
44983110 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
44983124 TTCTT-TTTCTTTCT
1 TT-TTCTTTCTTTCT
44983138 T
1 T
44983139 ATCTTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.19
14 20 0.74
15 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:44983136 original size:18 final size:18
Alignment explanation
Indices: 44983098--44983143 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
44983088 GTCTCCTTCT
44983098 TTTC-TTCTTTCTTTTTC
1 TTTCTTTCTTTCTTTTTC
44983115 TTTCTTTCTTTCTTTTTC
1 TTTCTTTCTTTCTTTTTC
44983133 TTTCTTATCTT
1 TTTCTT-TCTT
44983144 AGATTGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTCTTTTTC
Found at i:44984140 original size:20 final size:20
Alignment explanation
Indices: 44984115--44984153 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44984105 TATAACATTA
*
44984115 TATATTTAAATTAAAATAAT
1 TATATTTAAATAAAAATAAT
*
44984135 TATATTTTAATAAAAATAA
1 TATATTTAAATAAAAATAA
44984154 ACATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATTTAAATAAAAATAAT
Found at i:44986788 original size:17 final size:17
Alignment explanation
Indices: 44986754--44986793 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
44986744 GTGTTTTTTT
* *
44986754 TTAAAATTTTAAATATA
1 TTAAAATATTAAACATA
*
44986771 TTAAAATATTGAACATA
1 TTAAAATATTAAACATA
44986788 TTAAAA
1 TTAAAA
44986794 GAAATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
TTAAAATATTAAACATA
Found at i:44986872 original size:17 final size:17
Alignment explanation
Indices: 44986850--44987117 Score: 482
Period size: 17 Copynumber: 15.7 Consensus size: 17
44986840 TTAAAATTTC
* * *
44986850 TTTTAATATGTTCAATA
1 TTTTAATATATTTAAAA
44986867 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44986884 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44986901 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44986918 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44986935 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44986952 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44986969 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44986986 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44987003 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44987020 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44987037 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44987054 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44987071 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
44987088 TTTTAATATATTTAAATA
1 TTTTAATATATTTAAA-A
* *
44987106 TATTAAAATATT
1 TTTTAATATATT
44987118 GAACATATTA
Statistics
Matches: 245, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
17 234 0.96
18 11 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAATATATTTAAAA
Found at i:44991605 original size:15 final size:15
Alignment explanation
Indices: 44991585--44991628 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
44991575 ACTAAAGTTC
44991585 AACTTTAGATTTATA
1 AACTTTAGATTTATA
44991600 AACTTTAGATTTATA
1 AACTTTAGATTTATA
* *
44991615 AAATTTAAATTTAT
1 AACTTTAGATTTAT
44991629 CAAGTGCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (15 bp):
AACTTTAGATTTATA
Found at i:44994128 original size:13 final size:13
Alignment explanation
Indices: 44994105--44994157 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
44994095 AGTTCTTTAT
44994105 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
44994118 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
*
44994131 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
44994144 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
44994157 T
1 T
44994158 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:45001922 original size:15 final size:16
Alignment explanation
Indices: 45001899--45001954 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
45001889 TTTTTATGTT
45001899 TTATATATATTATTTTA
1 TTATATATA-TATTTTA
*
45001916 TTATATAATATATTGTA
1 TTATAT-ATATATTTTA
* * *
45001933 TTGTAT-TGTATTATA
1 TTATATATATATTTTA
45001948 TTATATA
1 TTATATA
45001955 AATTAAATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 12 0.38
17 17 0.53
18 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TTATATATATATTTTA
Found at i:45001934 original size:22 final size:22
Alignment explanation
Indices: 45001901--45001953 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
45001891 TTTATGTTTT
*
45001901 ATATATATTATTTTATTATATA
1 ATATATATTATTGTATTATATA
* *
45001923 ATATAT-TGTATTGTATTGTATT
1 ATATATAT-TATTGTATTATATA
45001945 ATATTATAT
1 ATA-TATAT
45001954 AAATTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 3 0.12
24 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
ATATATATTATTGTATTATATA
Found at i:45003272 original size:22 final size:23
Alignment explanation
Indices: 45003244--45003304 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
45003234 TATGTACTAT
45003244 TAAATAGAGAGCACTAAA-GTGC
1 TAAATAGAGAGCACTAAATGTGC
* *
45003266 TATATAGAGAGCGC-AAATGTGC
1 TAAATAGAGAGCACTAAATGTGC
**
45003288 TAAACGGAGAGCACTAA
1 TAAATAGAGAGCACTAA
45003305 CATGCTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 3 0.10
22 26 0.84
23 2 0.06
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (23 bp):
TAAATAGAGAGCACTAAATGTGC
Found at i:45007439 original size:22 final size:24
Alignment explanation
Indices: 45007413--45007456 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
45007403 GAAAAATATT
45007413 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
45007435 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
45007457 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:45007596 original size:16 final size:16
Alignment explanation
Indices: 45007575--45007607 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45007565 ATTAATAATT
45007575 TAACAATTAATTTTAA
1 TAACAATTAATTTTAA
*
45007591 TAACAATTAGTTTTAA
1 TAACAATTAATTTTAA
45007607 T
1 T
45007608 TTTATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
TAACAATTAATTTTAA
Found at i:45007609 original size:22 final size:23
Alignment explanation
Indices: 45007581--45007642 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
45007571 AATTTAACAA
* * *
45007581 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
45007603 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
45007626 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
45007643 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:45014390 original size:2 final size:2
Alignment explanation
Indices: 45014383--45014433 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
45014373 TAGTTTTGCT
45014383 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
45014425 TC TC TC TC T
1 TC TC TC TC T
45014434 TCAGATCTGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:45021133 original size:3 final size:3
Alignment explanation
Indices: 45021127--45021190 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
45021117 TTTCCTTTTC
45021127 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45021175 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
45021191 CTACTATATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45030777 original size:28 final size:29
Alignment explanation
Indices: 45030746--45030800 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
45030736 CTTTTTATTT
* *
45030746 TTCCCTCAAAATTTTTACTCCT-TCCCAC
1 TTCCCCCAAAACTTTTACTCCTCTCCCAC
45030774 TTCCCCCAAAACTTTTACTCCTCTCCC
1 TTCCCCCAAAACTTTTACTCCTCTCCC
45030801 CTCCCAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (29 bp):
TTCCCCCAAAACTTTTACTCCTCTCCCAC
Done.