Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 166 of 208
Found at i:53557120 original size:25 final size:25
Alignment explanation
Indices: 53557091--53557168 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
53557081 ATTCGGCCTT
*
53557091 ATCACACATATACATGTTTACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
53557116 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
53557138 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
53557163 ATCACA
1 ATCACA
53557169 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 15 0.41
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:53557214 original size:25 final size:25
Alignment explanation
Indices: 53557185--53557262 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
53557175 ATTCGGTCTT
53557185 ATCACACATACACACGTTCACTTTC
1 ATCACACATACACACGTTCACTTTC
* * * *
53557210 ATCACA-TTGGC-CA--TTCGGCCTT-
1 ATCACACAT-ACACACGTTC-ACTTTC
53557232 ATCACACATACACACGTTCACTTTC
1 ATCACACATACACACGTTCACTTTC
53557257 ATCACA
1 ATCACA
53557263 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 10 0.26
23 6 0.16
24 6 0.16
25 16 0.42
ACGTcount: A:0.29, C:0.35, G:0.08, T:0.28
Consensus pattern (25 bp):
ATCACACATACACACGTTCACTTTC
Found at i:53562129 original size:7 final size:7
Alignment explanation
Indices: 53562125--53562182 Score: 71
Period size: 7 Copynumber: 7.9 Consensus size: 7
53562115 CCTTTTTTGT
53562125 TTTTTTC
1 TTTTTTC
*
53562132 TTTTGTC
1 TTTTTTC
53562139 TTTTTTC
1 TTTTTTC
53562146 TTTTTTC
1 TTTTTTC
53562153 TTTTTTCC
1 TTTTTT-C
53562161 TTTTCTTC
1 TTTT-TTC
*
53562169 CTTTTTC
1 TTTTTTC
53562176 TATTTTT
1 T-TTTTT
53562183 TCATGTAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
7 28 0.64
8 14 0.32
9 2 0.05
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:53562130 original size:8 final size:8
Alignment explanation
Indices: 53562117--53562184 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 8
53562107 AATTCGGGCC
*
53562117 TTTTTTGT
1 TTTTTTCT
53562125 TTTTTTC-
1 TTTTTTCT
*
53562132 TTTTGTC-
1 TTTTTTCT
53562139 TTTTTTC-
1 TTTTTTCT
53562146 TTTTTTCT
1 TTTTTTCT
*
53562154 TTTTTCCT
1 TTTTTTCT
*
53562162 TTTCTTC-
1 TTTTTTCT
*
53562169 CTTTTTCT
1 TTTTTTCT
53562177 ATTTTTTC
1 -TTTTTTC
53562185 ATGTAGTTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
7 24 0.50
8 18 0.38
9 6 0.12
ACGTcount: A:0.01, C:0.16, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:53562142 original size:14 final size:14
Alignment explanation
Indices: 53562119--53562164 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
53562109 TTCGGGCCTT
53562119 TTTTGT-TTTTTTC
1 TTTTGTCTTTTTTC
53562132 TTTTGTCTTTTTTC
1 TTTTGTCTTTTTTC
*
53562146 TTTTTTCTTTTTTCC
1 TTTTGTCTTTTTT-C
53562161 TTTT
1 TTTT
53562165 CTTCCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 6 0.20
14 19 0.63
15 5 0.17
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (14 bp):
TTTTGTCTTTTTTC
Found at i:53562158 original size:23 final size:22
Alignment explanation
Indices: 53562115--53562182 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
53562105 ACAATTCGGG
* *
53562115 CCTTTTTTGTTTTTTTCTTTTGT
1 CCTTTTTT-CTTTTTTCTTTTTT
53562138 -CTTTTTTCTTTTTTCTTTTTT
1 CCTTTTTTCTTTTTTCTTTTTT
*
53562159 CCTTTTCTTCCTTTTTCTATTTTT
1 CCTTTT-TTCTTTTTTCT-TTTTT
53562183 TCATGTAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.31
22 12 0.31
23 10 0.26
24 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (22 bp):
CCTTTTTTCTTTTTTCTTTTTT
Found at i:53562169 original size:9 final size:8
Alignment explanation
Indices: 53562115--53562174 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 8
53562105 ACAATTCGGG
53562115 CCTTTTTT
1 CCTTTTTT
*
53562123 -GTTTTTT
1 CCTTTTTT
* *
53562130 TCTTTTGT
1 CCTTTTTT
53562138 -CTTTTTT
1 CCTTTTTT
53562145 -CTTTTTT
1 CCTTTTTT
53562152 -CTTTTTT
1 CCTTTTTT
53562159 CCTTTTCTT
1 CCTTTT-TT
53562168 CCTTTTT
1 CCTTTTT
53562175 CTATTTTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
7 26 0.58
8 11 0.24
9 8 0.18
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.78
Consensus pattern (8 bp):
CCTTTTTT
Found at i:53562388 original size:12 final size:12
Alignment explanation
Indices: 53562373--53562411 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
53562363 TTGCTCTCTT
53562373 TTTTCTTTTCTC
1 TTTTCTTTTCTC
53562385 TTTTCTTTTCTC
1 TTTTCTTTTCTC
**
53562397 CCTTCTTTT-TC
1 TTTTCTTTTCTC
53562408 TTTT
1 TTTT
53562412 TGGTTGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTTTTCTC
Found at i:53562393 original size:19 final size:18
Alignment explanation
Indices: 53562369--53562412 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
53562359 CTCCTTGCTC
**
53562369 TCTTTTTTCTTTTCTCTTT
1 TCTTTTTTCCCTTCT-TTT
*
53562388 TCTTTTCTCCCTTCTTTT
1 TCTTTTTTCCCTTCTTTT
53562406 TCTTTTT
1 TCTTTTT
53562413 GGTTGCTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTTTTTTCCCTTCTTTT
Found at i:53566844 original size:39 final size:39
Alignment explanation
Indices: 53566790--53566868 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
53566780 ATAGTAAGTT
*
53566790 TCTTTTTATAAACTTAAAGACTTTTGAAGCTAACCTCAG
1 TCTTTTTATAAACTTAAAGACTCTTGAAGCTAACCTCAG
53566829 TCTTTTTATAAACTTAAAGACTCTTGAAGCTAACCTCAG
1 TCTTTTTATAAACTTAAAGACTCTTGAAGCTAACCTCAG
53566868 T
1 T
53566869 GCAATGGCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (39 bp):
TCTTTTTATAAACTTAAAGACTCTTGAAGCTAACCTCAG
Found at i:53568954 original size:29 final size:29
Alignment explanation
Indices: 53568918--53568978 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
53568908 TTGGGACAAC
53568918 CCACTAAGGGAG-AAAGATGCCCAAACCAT
1 CCACTAAGGGAGCAAAGA-GCCCAAACCAT
* *
53568947 CCACTAAGGGAGCAATGAGCCCAAGCCAT
1 CCACTAAGGGAGCAAAGAGCCCAAACCAT
53568976 CCA
1 CCA
53568979 TGTGACTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.38, C:0.31, G:0.21, T:0.10
Consensus pattern (29 bp):
CCACTAAGGGAGCAAAGAGCCCAAACCAT
Found at i:53570225 original size:71 final size:72
Alignment explanation
Indices: 53570140--53570279 Score: 174
Period size: 71 Copynumber: 1.9 Consensus size: 72
53570130 CACTGTGACA
* ** *
53570140 ATGGTCTATCGACTCTATGGAGCGACACTGTGACGGTGGTTATCAACTAG-CGCTAGAGTGACAC
1 ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGCCACTAGAGTGACAC
53570204 CGTGATG
66 CGTGATG
* * * * **
53570211 ATGGTCTATTGACTCTATCGAGTGACATTGTGATGGCAGTTATTGACTAGCTCACTAGAGTGACA
1 ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGC-CACTAGAGTGACA
53570276 CCGT
65 CCGT
53570280 CACAATGATC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 41 0.72
73 16 0.28
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (72 bp):
ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGCCACTAGAGTGACAC
CGTGATG
Found at i:53572289 original size:22 final size:22
Alignment explanation
Indices: 53572264--53572305 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
53572254 AATTAATCAC
53572264 TCACTCATCATT-CATTCTTCAT
1 TCACTCA-CATTCCATTCTTCAT
53572286 TCACTCACATTCCATTCTTC
1 TCACTCACATTCCATTCTTC
53572306 TCTTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (22 bp):
TCACTCACATTCCATTCTTCAT
Found at i:53582347 original size:42 final size:43
Alignment explanation
Indices: 53582287--53582369 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
53582277 AGCATTTACA
** * *
53582287 AAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAG
1 AAAATAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTAG
53582330 AAAA-AAACGCCGCTAAAGAACATGATCTTTAACGGCGCTT
1 AAAATAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTT
53582370 TCTTCACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (43 bp):
AAAATAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTAG
Found at i:53598712 original size:10 final size:10
Alignment explanation
Indices: 53598697--53598721 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53598687 TACTGTTTAG
53598697 ATTTTTTAAA
1 ATTTTTTAAA
53598707 ATTTTTTAAA
1 ATTTTTTAAA
53598717 ATTTT
1 ATTTT
53598722 AAATTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:53598779 original size:31 final size:30
Alignment explanation
Indices: 53598744--53598802 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
53598734 ATAAAATTGC
53598744 AATTTAACCCCCTCT-AAAATTATAAAAATTT
1 AATTTAA--CCCTCTAAAAATTATAAAAATTT
* *
53598775 AATTTAATCCTTTAAAAATTATAAAAAT
1 AATTTAACCCTCTAAAAATTATAAAAAT
53598803 ATAGACTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.16
30 14 0.56
31 7 0.28
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (30 bp):
AATTTAACCCTCTAAAAATTATAAAAATTT
Found at i:53602908 original size:18 final size:17
Alignment explanation
Indices: 53602864--53602908 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
53602854 ATTTCAAAAT
53602864 ATTATAAAAATATTAAA
1 ATTATAAAAATATTAAA
* *
53602881 ATTTTCAAAAATATTGATA
1 ATTAT-AAAAATATT-AAA
53602900 ATTATAAAA
1 ATTATAAAA
53602909 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTATAAAAATATTAAA
Found at i:53608306 original size:15 final size:16
Alignment explanation
Indices: 53608286--53608319 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
53608276 AGATTAAATT
53608286 AATTAG-CTAAATGCA
1 AATTAGCCTAAATGCA
53608301 AATTAGCCTAAATGCA
1 AATTAGCCTAAATGCA
53608317 AAT
1 AAT
53608320 GGGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (16 bp):
AATTAGCCTAAATGCA
Found at i:53608341 original size:75 final size:75
Alignment explanation
Indices: 53608252--53608405 Score: 281
Period size: 75 Copynumber: 2.1 Consensus size: 75
53608242 AAGAAAACAT
*
53608252 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAGCCTAAATGCA
1 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
53608317 AATGGGATGA
66 AATGGGATGA
**
53608327 AATAATTTGGGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
1 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
53608392 AATGGGATGA
66 AATGGGATGA
53608402 AATA
1 AATA
53608406 TGAAAGGTGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (75 bp):
AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATTAACCTAAATGCA
AATGGGATGA
Found at i:53612644 original size:147 final size:146
Alignment explanation
Indices: 53612472--53612763 Score: 521
Period size: 147 Copynumber: 2.0 Consensus size: 146
53612462 TTTTTTCCAC
53612472 AAAAATAATTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATG
1 AAAAATAATTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATG
* * *
53612537 ATTCATACCATATATCAAAGTATTTCGAAATAAATACTTTCGCTTTTTATTTTTAATAGTTGGAG
66 ATTCATAACATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTATTTTTAATAGTTGGAG
53612602 TTGATACGTTAGATAA
131 TTGATACGTTAGATAA
53612618 AAAAATAATTTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAAT
1 AAAAATAA-TTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAAT
* * *
53612683 GATTCATAACATATTTCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTCTTTTTAATATTTGGA
65 GATTCATAACATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTATTTTTAATAGTTGGA
53612748 GTTGATACGTTAGATA
130 GTTGATACGTTAGATA
53612764 CAGATAGATC
Statistics
Matches: 139, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
146 8 0.06
147 131 0.94
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (146 bp):
AAAAATAATTTTTTATGTGTATGTAAATATAAAACCGCTCAACTTAATTTAGTAACAAAATAATG
ATTCATAACATATATCAAAGTATTTCAAAATAAAGACTTTCGCTTTTTATTTTTAATAGTTGGAG
TTGATACGTTAGATAA
Found at i:53613952 original size:14 final size:14
Alignment explanation
Indices: 53613935--53613961 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53613925 ATGAGGAGAA
53613935 ATAATTTTTCTTGG
1 ATAATTTTTCTTGG
53613949 ATAATTTTTCTTG
1 ATAATTTTTCTTG
53613962 CAAACTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
ATAATTTTTCTTGG
Found at i:53617724 original size:14 final size:14
Alignment explanation
Indices: 53617693--53617787 Score: 50
Period size: 14 Copynumber: 6.8 Consensus size: 14
53617683 ATTTAAATTT
*
53617693 TAAATCCTAAAC-C
1 TAAATTCTAAACAC
53617706 ATAAATTCTAAACAC
1 -TAAATTCTAAACAC
* * ***
53617721 TAAATTTTATATTT
1 TAAATTCTAAACAC
* * *
53617735 TGAACTCTAAACCC
1 TAAATTCTAAACAC
* *
53617749 TATATTC-AAATCAT
1 TAAATTCTAAA-CAC
53617763 TAAATTCTAAACAC
1 TAAATTCTAAACAC
*
53617777 TAAATTTTAAA
1 TAAATTCTAAA
53617788 TCTCAAACTC
Statistics
Matches: 57, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
13 3 0.05
14 50 0.88
15 4 0.07
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (14 bp):
TAAATTCTAAACAC
Found at i:53617771 original size:28 final size:28
Alignment explanation
Indices: 53617737--53617821 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
53617727 TTATATTTTG
*
53617737 AACTCTAAACCCTATATTCAAATCATTA
1 AACTCTAAACCCTATATTTAAATCATTA
* * * *
53617765 AATTCTAAACACTAAATTTTAAATC-TCA
1 AACTCTAAACCCTATA-TTTAAATCATTA
*
53617793 AACTCAAAACCCTATATTTAAATCATTA
1 AACTCTAAACCCTATATTTAAATCATTA
53617821 A
1 A
53617822 GTGCATCATA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 8 0.18
28 30 0.67
29 7 0.16
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (28 bp):
AACTCTAAACCCTATATTTAAATCATTA
Found at i:53617774 original size:56 final size:56
Alignment explanation
Indices: 53617707--53617821 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 56
53617697 TCCTAAACCA
* * ** *
53617707 TAAATTCTAAACACTAAATTTTATATTTTGAACTCTAAACCCTATATTCAAATCAT
1 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
*
53617763 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTTAAATCAT
1 TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
53617819 TAA
1 TAA
53617822 GTGCATCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (56 bp):
TAAATTCTAAACACTAAATTTTAAATCTCAAACTCAAAACCCTATATTCAAATCAT
Found at i:53617871 original size:20 final size:19
Alignment explanation
Indices: 53617835--53617874 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
53617825 CATCATACTC
* *
53617835 ATAAAAACAAAATATAGAA
1 ATAAAAAAAAAACATAGAA
53617854 ATAAAAAAATAAACATAGAA
1 ATAAAAAAA-AAACATAGAA
53617874 A
1 A
53617875 ATATAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
ATAAAAAAAAAACATAGAA
Found at i:53618536 original size:24 final size:24
Alignment explanation
Indices: 53618491--53618536 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
53618481 TAACTAAAAT
** *
53618491 AAATAATATATAACCTATATAATA
1 AAATAATATATAAAATAAATAATA
*
53618515 AAATAATATTTAAAATAAATAA
1 AAATAATATATAAAATAAATAA
53618537 CATTCTATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAATATATAAAATAAATAATA
Found at i:53618775 original size:3 final size:3
Alignment explanation
Indices: 53618767--53618823 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
53618757 ACAACTTCAT
53618767 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
53618815 TAA TAA TAA
1 TAA TAA TAA
53618824 CAGGGTAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:53619973 original size:76 final size:76
Alignment explanation
Indices: 53619882--53620208 Score: 349
Period size: 76 Copynumber: 4.3 Consensus size: 76
53619872 TGGTAATTCC
* * *
53619882 GAGGCTCAACTCATTTCTTGAAAACATAATCAATTTTTGATAAAATGATAATTGAAAGGACCTCA
1 GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
*
53619947 ACAACAATCCT
66 ACGACAATCCT
* * ** * * * *
53619958 GACGCTCAACCCATTTCTTGAAAACAGAATCGCTTTTTGATAAAATGATAGCTGAAAGAACCTAA
1 GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
*
53620023 ATGACAATCCT
66 ACGACAATCCT
* * * *
53620034 GAGGCTCGACCCATTTCTTGAAAACA-AATTCAATTTTTGATAAAATGACAACTAAAAAGACATC
1 GAGGCTCAACCCATTTCTTGAAAACATAA-TCAATTTTTGATAAAATGACAACTGAAAGGACCTC
*
53620098 AACGTCAAT-CT
65 AACGACAATCCT
* * * *
53620109 CGAGGCTCGATCCATTTCTTGAAAACAT-ATCCAATTTTTCATCAAATGACAACTGAAAGGACCT
1 -GAGGCTCAACCCATTTCTTGAAAACATAAT-CAATTTTTGATAAAATGACAACTGAAAGGACCT
** *
53620173 TGACGATAAT-CT
64 CAACGACAATCCT
*
53620185 CAAGGCTCAACCCATTTCTT-AAAA
1 -GAGGCTCAACCCATTTCTTGAAAA
53620209 TGAATTCGAT
Statistics
Matches: 210, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
75 9 0.04
76 201 0.96
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.28
Consensus pattern (76 bp):
GAGGCTCAACCCATTTCTTGAAAACATAATCAATTTTTGATAAAATGACAACTGAAAGGACCTCA
ACGACAATCCT
Found at i:53621151 original size:182 final size:182
Alignment explanation
Indices: 53620844--53621189 Score: 692
Period size: 182 Copynumber: 1.9 Consensus size: 182
53620834 GAAGAACGAA
53620844 GTATCTTCTAAAGATTTCATTTAATATCTAGGATCACATATCTCCAATGATCACCTTTTATATTT
1 GTATCTTCTAAAGATTTCATTTAATATCTAGGATCACATATCTCCAATGATCACCTTTTATATTT
53620909 GCCAAGCATATATTTAGAAGATCACTTTTCTTATTTGACAAGCTCCGGAGATGGACTTTTAATTC
66 GCCAAGCATATATTTAGAAGATCACTTTTCTTATTTGACAAGCTCCGGAGATGGACTTTTAATTC
53620974 TTCCAGGCAATGGACCAATCCAGTTGGGCCAAATCTCTAAGATTACATAATC
131 TTCCAGGCAATGGACCAATCCAGTTGGGCCAAATCTCTAAGATTACATAATC
53621026 GTATCTTCTAAAGATTTCATTTAATATCTAGGATCACATATCTCCAATGATCACCTTTTATATTT
1 GTATCTTCTAAAGATTTCATTTAATATCTAGGATCACATATCTCCAATGATCACCTTTTATATTT
53621091 GCCAAGCATATATTTAGAAGATCACTTTTCTTATTTGACAAGCTCCGGAGATGGACTTTTAATTC
66 GCCAAGCATATATTTAGAAGATCACTTTTCTTATTTGACAAGCTCCGGAGATGGACTTTTAATTC
53621156 TTCCAGGCAATGGACCAATCCAGTTGGGCCAAAT
131 TTCCAGGCAATGGACCAATCCAGTTGGGCCAAAT
53621190 GACCTCCCTT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 164 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (182 bp):
GTATCTTCTAAAGATTTCATTTAATATCTAGGATCACATATCTCCAATGATCACCTTTTATATTT
GCCAAGCATATATTTAGAAGATCACTTTTCTTATTTGACAAGCTCCGGAGATGGACTTTTAATTC
TTCCAGGCAATGGACCAATCCAGTTGGGCCAAATCTCTAAGATTACATAATC
Found at i:53623861 original size:24 final size:24
Alignment explanation
Indices: 53623816--53623861 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
53623806 TAACTAAAAT
** *
53623816 AAATAATATATAACCTATATAATA
1 AAATAATATATAAAATAAATAATA
*
53623840 AAATAATATTTAAAATAAATAA
1 AAATAATATATAAAATAAATAA
53623862 CATTCTATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAATATATAAAATAAATAATA
Found at i:53624106 original size:3 final size:3
Alignment explanation
Indices: 53624098--53624139 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
53624088 ACAACTTCAT
*
53624098 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
53624140 CAGGGTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:53625162 original size:76 final size:75
Alignment explanation
Indices: 53625046--53625208 Score: 173
Period size: 76 Copynumber: 2.2 Consensus size: 75
53625036 TAATTTTAAA
* * * **
53625046 TTTTGATAAAAAGATAATTGAAAGGACCACAACAACAATCTCAAGACACGACGCATTTTTTGAAA
1 TTTTGATAAAAAGATAACTAAAAGGACCACAACAACAATCTCAAGACACGAC-AATTTTTCAAAA
*
53625111 ATGGATGTGAT
65 ATGGATGTGAC
* * * * * * * **
53625122 TTTTGATAAAATGATAACTAAAAGGACCTCGACGATAATCTCGAGGCTTGACAATTTTTCAAAAA
1 TTTTGATAAAAAGATAACTAAAAGGACCACAACAACAATCTCAAGACACGACAATTTTTCAAAAA
*
53625187 TGGATTTGAC
66 TGGATGTGAC
53625197 TTTTGATAAAAA
1 TTTTGATAAAAA
53625209 ACAAAGAAAA
Statistics
Matches: 70, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
75 29 0.41
76 41 0.59
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (75 bp):
TTTTGATAAAAAGATAACTAAAAGGACCACAACAACAATCTCAAGACACGACAATTTTTCAAAAA
TGGATGTGAC
Found at i:53625473 original size:76 final size:76
Alignment explanation
Indices: 53625249--53625592 Score: 299
Period size: 76 Copynumber: 4.6 Consensus size: 76
53625239 GGTAATTCCG
* * * * *
53625249 AGGCTCAACTCATTTCTTGAAAACATAA-TCAATTTTTGATAAAATGATAATTGAAAGGACCTCA
1 AGGCTCAACCCATTTCTTGAAAACA-AATTCGATTTTTGATAAAATGACAACTGAAAAGACCTCA
* *
53625313 ACAACAATCCTGA
65 ACGACAAT-CTCA
* * * *
53625326 CA--CTCAACCCATTTCTTGAAAATAGAA-TCGCTTTTTGATAAAATGATAGCTG-AAAGAACCT
1 -AGGCTCAACCCATTTCTTGAAAACA-AATTCGATTTTTGATAAAATGACAACTGAAAAG-ACCT
* *
53625387 AAATGACAATC-CTA
63 CAACGACAATCTC-A
* * * *
53625401 AGGCTCGACCCATTTCTTGAAAACAAATTTGATTTTTGATAAAATGACAACTAAAAAGACATCAA
1 AGGCTCAACCCATTTCTTGAAAACAAATTCGATTTTTGATAAAATGACAACTGAAAAGACCTCAA
* *
53625466 CGTCAATCTCG
66 CGACAATCTCA
* * * * * * * **
53625477 AGGCTCAATCCATTTCTTGAAAACATATCCAATTTTTCATCAAATGACAACTGAAAGGACCTTGA
1 AGGCTCAACCCATTTCTTGAAAACAAATTCGATTTTTGATAAAATGACAACTGAAAAGACCTCAA
*
53625542 CGATAATCTCA
66 CGACAATCTCA
**
53625553 AGGCTCAACCCATTTCTT-AAAATGAATTCGATTTTT-ATAA
1 AGGCTCAACCCATTTCTTGAAAACAAATTCGATTTTTGATAA
53625593 TGTTGGGAAT
Statistics
Matches: 212, Mismatches: 47, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
74 4 0.02
75 20 0.09
76 182 0.86
77 5 0.02
78 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (76 bp):
AGGCTCAACCCATTTCTTGAAAACAAATTCGATTTTTGATAAAATGACAACTGAAAAGACCTCAA
CGACAATCTCA
Found at i:53625531 original size:152 final size:152
Alignment explanation
Indices: 53625249--53625592 Score: 351
Period size: 152 Copynumber: 2.3 Consensus size: 152
53625239 GGTAATTCCG
* * * * * * *
53625249 AGGCTCAACTCATTTCTTGAAAACATAA-TCAATTTTTGATAAAATGATAATTGAAAGGACCTCA
1 AGGCTCAACCCATTTCTTGAAAACA-AATTCGATTTTTGATAAAATGACAACTAAAAAGACATCA
* * * *
53625313 ACAACAATCCTGACACTCAACCCATTTCTTGAAAATAGAATCGCTTTTTGATAAAATGATAGCTG
65 ACAACAATCCTGACACTCAACCCATTTCTTGAAAACAGAATCGCTTTTTCATAAAATGACAACTG
*
53625378 AAAGAACCTAAATGACAATC-CTA
130 AAAGAACCTAAACGACAATCTC-A
* *
53625401 AGGCTCGACCCATTTCTTGAAAACAAATTTGATTTTTGATAAAATGACAACTAAAAAGACATCAA
1 AGGCTCAACCCATTTCTTGAAAACAAATTCGATTTTTGATAAAATGACAACTAAAAAGACATCAA
** ** * * *
53625466 CGTCAAT-CTCGAGGCTCAATCCATTTCTTGAAAACA-TATC-CAATTTTTCATCAAATGACAAC
66 CAACAATCCT-GACACTCAACCCATTTCTTGAAAACAGAATCGC--TTTTTCATAAAATGACAAC
* ** *
53625528 TGAAAGGACCTTGACGATAATCTCA
128 TGAAAGAACCTAAACGACAATCTCA
**
53625553 AGGCTCAACCCATTTCTT-AAAATGAATTCGATTTTT-ATAA
1 AGGCTCAACCCATTTCTTGAAAACAAATTCGATTTTTGATAA
53625593 TGTTGGGAAT
Statistics
Matches: 158, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
150 5 0.03
151 22 0.14
152 130 0.82
153 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (152 bp):
AGGCTCAACCCATTTCTTGAAAACAAATTCGATTTTTGATAAAATGACAACTAAAAAGACATCAA
CAACAATCCTGACACTCAACCCATTTCTTGAAAACAGAATCGCTTTTTCATAAAATGACAACTGA
AAGAACCTAAACGACAATCTCA
Found at i:53646821 original size:19 final size:21
Alignment explanation
Indices: 53646789--53646831 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
53646779 CTTAACTTTC
53646789 TTTATATATATTTT-TAGATTT
1 TTTATATATATTTTATA-ATTT
53646810 TTTATA-AT-TTTTATAATTT
1 TTTATATATATTTTATAATTT
53646829 TTT
1 TTT
53646832 TAAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTATATATATTTTATAATTT
Found at i:53646873 original size:19 final size:20
Alignment explanation
Indices: 53646849--53646914 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
53646839 ATAAATATTG
53646849 GAATTTTTATAAA-TATTTT
1 GAATTTTTATAAATTATTTT
*
53646868 GAA-TTTTA-AAAGTTATCTT
1 GAATTTTTATAAA-TTATTTT
53646887 GAATTTTT-TAAAATTATTTT
1 GAATTTTTAT-AAATTATTTT
53646907 GAATTTTT
1 GAATTTTT
53646915 TTATAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.08
18 5 0.12
19 11 0.28
20 18 0.45
21 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
GAATTTTTATAAATTATTTT
Found at i:53647356 original size:17 final size:18
Alignment explanation
Indices: 53647334--53647374 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
53647324 TAACATATTT
53647334 AATAAAGTAATA-TTTA-A
1 AATAAA-TAATATTTTATA
53647351 AATAAATAATATTTTATA
1 AATAAATAATATTTTATA
53647369 AATAAA
1 AATAAA
53647375 AATTGAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATAAATAATATTTTATA
Found at i:53648614 original size:20 final size:21
Alignment explanation
Indices: 53648570--53648623 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
53648560 AACTTTTTTC
*
53648570 CTTTTA-TTTCCCCCCTAAAA
1 CTTTTACTTTCCCCCCGAAAA
*
53648590 CTTTTACTTTCCCCTCGAAAA
1 CTTTTACTTTCCCCCCGAAAA
53648611 -TTTTACTTCTCCC
1 CTTTTACTT-TCCC
53648624 AAACCTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.20, C:0.35, G:0.02, T:0.43
Consensus pattern (21 bp):
CTTTTACTTTCCCCCCGAAAA
Found at i:53660672 original size:43 final size:43
Alignment explanation
Indices: 53660623--53660734 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
53660613 TGTTATCGTG
* *
53660623 TAAGACCACGTCTGGGACGTTGGCATCGACT-TGTGTTTACGTA
1 TAAGACCACGTCTGGGACGTTGGCATCGA-TATGTGATTACATA
* *
53660666 TAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTGCATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACATA
53660709 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
53660735 TGTACGAGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
42 3 0.05
43 55 0.92
44 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATA
Found at i:53670520 original size:21 final size:21
Alignment explanation
Indices: 53670494--53670534 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53670484 ATCTAATTAC
* *
53670494 AAATATTTAGTTTTTATATTT
1 AAATATATAGTTTATATATTT
53670515 AAATATATAGTTTATATATT
1 AAATATATAGTTTATATATT
53670535 CTAATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
AAATATATAGTTTATATATTT
Found at i:53670830 original size:13 final size:13
Alignment explanation
Indices: 53670814--53670838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53670804 TTGCATAACA
53670814 CTTTTCAAAAGCG
1 CTTTTCAAAAGCG
53670827 CTTTTCAAAAGC
1 CTTTTCAAAAGC
53670839 AATGAAAAAC
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:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (13 bp):
CTTTTCAAAAGCG
Found at i:53675900 original size:18 final size:18
Alignment explanation
Indices: 53675865--53675900 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53675855 TGTTTGTGGT
**
53675865 TGTATTGAATATTTTATG
1 TGTATTGAATATACTATG
53675883 TGTATTGAATATACTATG
1 TGTATTGAATATACTATG
53675901 AATTGTGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (18 bp):
TGTATTGAATATACTATG
Found at i:53676692 original size:23 final size:23
Alignment explanation
Indices: 53676662--53676711 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
53676652 ACATAGTGTT
*
53676662 TACTGTTAAAGCACTTCGGTGCC
1 TACTGTTAAAGCACTTCGATGCC
*
53676685 TACTGTTAAATCACTTCGATGCC
1 TACTGTTAAAGCACTTCGATGCC
53676708 TACT
1 TACT
53676712 ACTGTGGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (23 bp):
TACTGTTAAAGCACTTCGATGCC
Found at i:53681212 original size:23 final size:23
Alignment explanation
Indices: 53681186--53681237 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
53681176 AGATTATTAC
53681186 TATAATTTCAATGAATATATCAT
1 TATAATTTCAATGAATATATCAT
*
53681209 TATAATTTCAATGTATATATCAT
1 TATAATTTCAATGAATATATCAT
53681232 TATAAT
1 TATAAT
53681238 ATTTTGACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (23 bp):
TATAATTTCAATGAATATATCAT
Found at i:53685732 original size:18 final size:18
Alignment explanation
Indices: 53685688--53685732 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
53685678 CATTCGTTTC
*
53685688 CAAAACATTATTCATTTA
1 CAAAACGTTATTCATTTA
*
53685706 CAAATCGTTATTCAATTT-
1 CAAAACGTTATTC-ATTTA
53685724 CAAAACGTT
1 CAAAACGTT
53685733 TTCTTATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCATTTA
Found at i:53689919 original size:36 final size:34
Alignment explanation
Indices: 53689879--53689972 Score: 134
Period size: 34 Copynumber: 2.7 Consensus size: 34
53689869 ACTTATACAA
*
53689879 ATATTAGATCAGAATGTTATATTACCAAAAAAACAT
1 ATATTAGATCAGAATGTCATATTACC--AAAAACAT
*
53689915 ATATTGGATCAGAATGTCATATTACCAAAAACAT
1 ATATTAGATCAGAATGTCATATTACCAAAAACAT
* *
53689949 ATATGAGATCAGAATGTCCTATTA
1 ATATTAGATCAGAATGTCATATTA
53689973 AATCAGAGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
34 29 0.55
36 24 0.45
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (34 bp):
ATATTAGATCAGAATGTCATATTACCAAAAACAT
Found at i:53698994 original size:29 final size:29
Alignment explanation
Indices: 53698952--53699035 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
53698942 ACCGAAAAAG
* * *
53698952 GAGCCTTTATGGCTGATTCTGTTATATGA
1 GAGCCTTTGTGGCTGATTATGTTATATAA
*
53698981 GAGCCTTTGTGGCTAATTATGTTATATAA
1 GAGCCTTTGTGGCTGATTATGTTATATAA
*
53699010 GAGCCTTTGTGGCTGATTTTGTTATA
1 GAGCCTTTGTGGCTGATTATGTTATA
53699036 CGTAAGTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (29 bp):
GAGCCTTTGTGGCTGATTATGTTATATAA
Found at i:53699180 original size:28 final size:28
Alignment explanation
Indices: 53699145--53699281 Score: 112
Period size: 28 Copynumber: 4.9 Consensus size: 28
53699135 ATCTATAAAT
*
53699145 GACGCCTTTGTGGCTATTTTTGTCTAAG
1 GACGCCTTTGTGGCTATCTTTGTCTAAG
* *
53699173 GCCGCCTTTGTGGCTATCTTTGTCTGAG
1 GACGCCTTTGTGGCTATCTTTGTCTAAG
* * * *
53699201 GATGCCTTTGTGACTATCTTTATTTAAG
1 GACGCCTTTGTGGCTATCTTTGTCTAAG
* * * * * *
53699229 GACACATTTATGTCTATCTATTATTTAAG
1 GACGCCTTTGTGGCTATCT-TTGTCTAAG
* * * *
53699258 GATGCATCTGTGGCTATCTATGTC
1 GACGCCTTTGTGGCTATCTTTGTC
53699282 AAAAGGGAAG
Statistics
Matches: 86, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 63 0.73
29 23 0.27
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (28 bp):
GACGCCTTTGTGGCTATCTTTGTCTAAG
Found at i:53702664 original size:16 final size:15
Alignment explanation
Indices: 53702625--53702672 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 15
53702615 GCATATGGAT
53702625 ATAAAAATAATAA-A
1 ATAAAAATAATAATA
*
53702639 ATGAAAATAATAATA
1 ATAAAAATAATAATA
53702654 ATAATAAATAATAATA
1 ATAA-AAATAATAATA
53702670 ATA
1 ATA
53702673 CAATGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 12 0.40
15 4 0.13
16 14 0.47
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
ATAAAAATAATAATA
Found at i:53702665 original size:13 final size:13
Alignment explanation
Indices: 53702647--53702672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53702637 AAATGAAAAT
53702647 AATAATAATAATA
1 AATAATAATAATA
53702660 AATAATAATAATA
1 AATAATAATAATA
53702673 CAATGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:53702687 original size:3 final size:3
Alignment explanation
Indices: 53702625--53702672 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
53702615 GCATATGGAT
*
53702625 ATA AAA ATA ATA A-A ATGA A-A ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA
53702670 ATA
1 ATA
53702673 CAATGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:53706225 original size:18 final size:19
Alignment explanation
Indices: 53706182--53706225 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
53706172 CCTACATATC
53706182 TAATTTATTAATTTTAAAAT
1 TAATTTATT-ATTTTAAAAT
**
53706202 CGATTTATT-TTTTAAAAT
1 TAATTTATTATTTTAAAAT
53706220 TAATTT
1 TAATTT
53706226 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 13 0.65
20 7 0.35
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATTTATTATTTTAAAAT
Found at i:53710295 original size:95 final size:96
Alignment explanation
Indices: 53710173--53710402 Score: 295
Period size: 95 Copynumber: 2.4 Consensus size: 96
53710163 TCGTGTTTAT
*
53710173 TTTTTAAGAAAAAAT-AAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATT
1 TTTTTAAGAAAAAATCAAA-TAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATT-AAAAAATT
*
53710237 TTA-AAAATTAGATTAGGGTTTAGAGTTAAGGG
64 TTATAAAACTAGATTAGGGTTTAGAGTTAAGGG
* * * * **
53710269 TTTTTAAG-GAAAATCAAATAAATTAGGGTTCAGCGTTACTTGAGTAAATTAATTATAATTTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
* *
53710333 ATAAAACTAGATTAGGGTTTAGGGTTTAGGG
66 ATAAAACTAGATTAGGGTTTAGAGTTAAGGG
* * *
53710364 TTTTTAAGTAAAAATTCAAATAAATTTGGGTTTGGGGTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTT
53710403 GAGGGTTACT
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
94 8 0.07
95 72 0.63
96 11 0.10
97 23 0.20
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
ATAAAACTAGATTAGGGTTTAGAGTTAAGGG
Found at i:53710950 original size:126 final size:126
Alignment explanation
Indices: 53710435--53710974 Score: 753
Period size: 125 Copynumber: 4.3 Consensus size: 126
53710425 TTGTTAATTT
* *
53710435 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * ** * *
53710500 GTTTTTGAGCAAATAGTGTC-AAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTA
66 GTTTCTAAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* ** ** *
53710560 AAAAAAGCTCCCACGTGGACATGCTTTTGCTATTGTAGCTCCT-AAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
53710624 GTTTCTAAGCAAATAGAATAAAAAACGCTTTAAGCAGGATGTTTTGTCAGCAGAAGTACTG
66 GTTTCTAAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
53710685 AAAGAAGCTCCCACGTAGACGCGTTTTTGCTACAGTAGCTCCTG-AAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
53710749 GTTTCTAAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGTTTTGTCAGCAGAAGTACTG
66 GTTTCTAAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * * *
53710810 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAACTAATTTCGATTAAAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
** ** * * **
53710875 GTTTCCGAGCAAATAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGTAGAAGTTTTG
66 GTTTCTAAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
53710936 AAAGAACCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
53710975 GCATGTTTGG
Statistics
Matches: 369, Mismatches: 43, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
124 35 0.09
125 230 0.62
126 104 0.28
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTAAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:53719231 original size:126 final size:126
Alignment explanation
Indices: 53719006--53719673 Score: 967
Period size: 126 Copynumber: 5.3 Consensus size: 126
53718996 CAAACATGCA
* * ** * * *
53719006 CTACTGTGGCAAAAGTGTGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCAG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
* * * *
53719071 CTTAAAACATTTTTGACACTATTTACTCGGAAATGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* * *
53719132 CTACTGTAGCAAAAACGCATCTACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
*
53719197 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* * * *
53719258 CTACTATAGCAAAAGCACATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTAACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
* * * *
53719323 CTTAAAGCATTTTTGACACTATTTTCTCAAAAACGTCTACTCGAAATTATTTTTTCTGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
** * *
53719384 CTACTGTAGCAAAAGCGTGTCCATGTGGGAGCTTCTTTTAGTACTTCTACAGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
*
53719449 CTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* * * *
53719510 CTACTGTAGCAAAGGCGCGTCCACGTGGGAGCTTCTTTTAGTGCTTCTCCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
* * * * * *
53719575 CTTAAAGCGTTTTTGACACTATTTGCTTAGAAACATCTAGTCGAAATTAATTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* **
53719636 CTACTGTAGCAAAAGTGCATCCTTGTGGGAGCTTCTTT
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTT
53719674 AAATTAACAA
Statistics
Matches: 490, Mismatches: 52, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 490 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCTG
CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
Found at i:53721142 original size:52 final size:52
Alignment explanation
Indices: 53721004--53721143 Score: 127
Period size: 59 Copynumber: 2.5 Consensus size: 52
53720994 TAATAAAAAC
* * * * *
53721004 AAAAAAAATTTTGGTGTTGGCTTGTCAATGGCCAGCACTAGGCACCAGTAGACGA
1 AAAAAAAATTTTGG-G-T-GCTGGTCAATGGACAGCACCAAGCACCAGTAAACGA
*
53721059 AAAAATAATTTTTTTGGGTGCTAGCCTGTCAATGGACAGCACCAAGCACCAGTAAACGA
1 AAAAA-AA--ATTTTGGGTGCT-G---GTCAATGGACAGCACCAAGCACCAGTAAACGA
*
53721118 AAAAAAAATTTTAGGTGCTGGTCAAT
1 AAAAAAAATTTTGGGTGCTGGTCAAT
53721144 CAATGGCCGG
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
52 6 0.09
55 9 0.13
56 13 0.19
57 1 0.01
58 8 0.11
59 33 0.47
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (52 bp):
AAAAAAAATTTTGGGTGCTGGTCAATGGACAGCACCAAGCACCAGTAAACGA
Found at i:53721193 original size:46 final size:48
Alignment explanation
Indices: 53721119--53721718 Score: 208
Period size: 46 Copynumber: 12.4 Consensus size: 48
53721109 AGTAAACGAA
* * ** *
53721119 AAAAAAATTTTAGGTGCTGGTCAATCAATGGCCGGCACCAGTA-TTCG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
** ** *
53721166 AAAAAAA-TTTGGGTGCTGGCCTGTCAATCACCGCCACCACCAGTACG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* *
53721213 AAAAAAATTTTGGGTGTTGGCCAATCAATGGTCGGCACCACCAGTTA--
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAG-TACG
* * * *
53721260 AAAAAAA--TT--GTGCTGG-CATGTTAATGGTCGGCACCACTAGTACG
1 AAAAAAATTTTGGGTGCTGGCCA-ATCAATGGCCGGCACCACCAGTACG
*** * * * *
53721304 AAAATTTTTTTCTTGGATGTTGGCCAATTAATGGCCGATC-CCACCAGTACG
1 AAAA--AAATT-TTGGGTGCTGGCCAATCAATGGCCG-GCACCACCAGTACG
* * * *
53721355 AAAAAAAAAATTTTGGGAGCTTGCCAGTCAATGGCCAGCACCACCAGTACG
1 ---AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* * ** * * ** * *
53721406 AAAAAAAAAATTTAGGTGCTGGCTTATCTATTGTTGGCACCACC-GAAACAAAA
1 --AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAG-TAC---G
* * * * * **
53721459 AAAAATAATTTTTTTTGCGTGCAGACCAGTTAATGGCCGGCACCAGTA-TACG
1 AAAAA-AA----TTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* * * *
53721511 AAAAAAGTTTTAGGTGCTTGCCTATCAATGGCCGGCACCACCAGTACG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* * * ** * * *
53721559 AAAATAAATTTTAGGTTCTAGCCTTTTAATGGCTGGCACGACCAGTAC-
1 AAAA-AAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* ** *** * ** *
53721607 -AAAAATTTTTTTGTGCTGGCTTGTCAATGGCCGACACCAAAAATACG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* ** * * * **
53721654 AAAAAAAAATTT-GGTGCTGGCCTGTTAATGACTGGCACCAGTA-TACG
1 -AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
*
53721701 AAAAAAA-TTTAGGTGCTG
1 AAAAAAATTTTGGGTGCTG
53721719 CCCTTCTGAT
Statistics
Matches: 404, Mismatches: 114, Indels: 71
0.69 0.19 0.12
Matches are distributed among these distances:
42 4 0.01
43 24 0.06
44 4 0.01
45 5 0.01
46 69 0.17
47 57 0.14
48 60 0.15
49 49 0.12
50 35 0.09
51 59 0.15
52 12 0.03
54 4 0.01
55 2 0.00
56 20 0.05
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (48 bp):
AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
Found at i:53721591 original size:49 final size:49
Alignment explanation
Indices: 53721488--53721612 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 49
53721478 TGCAGACCAG
** * *
53721488 TTAATGGCCGGCACCAGTA-TACGAAAA-AAGTTTTAGGTGCTTGCCTA
1 TTAATGGCCGGCACCACCAGTACGAAAATAAATTTTAGGTGCTAGCCTA
* * *
53721535 TCAATGGCCGGCACCACCAGTACGAAAATAAATTTTAGGTTCTAGCCTT
1 TTAATGGCCGGCACCACCAGTACGAAAATAAATTTTAGGTGCTAGCCTA
* * *
53721584 TTAATGGCTGGCACGACCAGTACAAAAAT
1 TTAATGGCCGGCACCACCAGTACGAAAAT
53721613 TTTTTTGTGC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 16 0.25
48 8 0.12
49 41 0.63
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (49 bp):
TTAATGGCCGGCACCACCAGTACGAAAATAAATTTTAGGTGCTAGCCTA
Found at i:53721706 original size:95 final size:96
Alignment explanation
Indices: 53721487--53721718 Score: 238
Period size: 95 Copynumber: 2.4 Consensus size: 96
53721477 GTGCAGACCA
* * * *
53721487 GTTAATGGCCGGCACCAGTATACGAAAAAAGTTTTAGGTGCTTGCCTATCAATGGCCGGCACCAC
1 GTTAATGGCTGGCACCAGTATACGAAAAAAGTTTTAGGTGCTGGCCTATCAATGGCCGACACCAA
* * * * *
53721552 CAGTACGAAAATAAATTTTAGGTTCTAGCCT
66 AAATACGAAAAAAAAATTTAGGTGCTAGCCT
* * ** * ** * *
53721583 TTTAATGGCTGGCACGACCAGTAC--AAAAATTTTTTTGTGCTGGCTTGTCAATGGCCGACACCA
1 GTTAATGGCTGGCACCAGTA-TACGAAAAAAGTTTTAGGTGCTGGCCTATCAATGGCCGACACCA
*
53721646 AAAATACGAAAAAAAAATTT-GGTGCTGGCCT
65 AAAATACGAAAAAAAAATTTAGGTGCTAGCCT
* *
53721677 GTTAATGACTGGCACCAGTATACGAAAAAA-ATTTAGGTGCTG
1 GTTAATGGCTGGCACCAGTATACGAAAAAAGTTTTAGGTGCTG
53721719 CCCTTCTGAT
Statistics
Matches: 106, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
93 3 0.03
94 33 0.31
95 52 0.49
96 15 0.14
97 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (96 bp):
GTTAATGGCTGGCACCAGTATACGAAAAAAGTTTTAGGTGCTGGCCTATCAATGGCCGACACCAA
AAATACGAAAAAAAAATTTAGGTGCTAGCCT
Found at i:53724861 original size:13 final size:14
Alignment explanation
Indices: 53724836--53724871 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
53724826 AATTTCATTT
53724836 TTTTCATTT-AATA
1 TTTTCATTTAAATA
53724849 TTTT-ATTTAAATA
1 TTTTCATTTAAATA
53724862 TTTTCATTTA
1 TTTTCATTTA
53724872 TTTATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 12 0.57
14 5 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCATTTAAATA
Found at i:53724877 original size:14 final size:14
Alignment explanation
Indices: 53724836--53724877 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
53724826 AATTTCATTT
53724836 TTTTCATTTA-ATA
1 TTTTCATTTATATA
*
53724849 TTTT-ATTTAAATA
1 TTTTCATTTATATA
*
53724862 TTTTCATTTATTTA
1 TTTTCATTTATATA
53724876 TT
1 TT
53724878 ATTTTTGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.20
13 11 0.44
14 9 0.36
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTCATTTATATA
Found at i:53727817 original size:7 final size:7
Alignment explanation
Indices: 53727805--53727835 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
53727795 ATGATAGGTT
53727805 TTTAGGG
1 TTTAGGG
53727812 TTTAGGG
1 TTTAGGG
53727819 TTTAGGG
1 TTTAGGG
*
53727826 TTTAGCG
1 TTTAGGG
53727833 TTT
1 TTT
53727836 TGGATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.03, G:0.35, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:53728122 original size:126 final size:125
Alignment explanation
Indices: 53727862--53728270 Score: 608
Period size: 126 Copynumber: 3.3 Consensus size: 125
53727852 AACAAATAAG
* *
53727862 TCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTTGAGTTGACGTT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
*
53727926 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTG-GTAAGAATTTGTAAAA
66 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAG-AAGAATTTGTGAAA
* *
53727986 TCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACATT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
* * **
53728051 TCTGAGCGAATAGTATGAAAAACGCTTAGAGCAGGATGCT-TTATGAGAAGAATTTGTGAAA
66 TCTGAGCAAATAGTAT-AAAATCGCTTCTAGCAGGATGCTATT-TGAGAAGAATTTGTGAAA
* *
53728112 TCGCGACCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTGGAAGAAATAATTTTGAGTTGACGTT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
* * * *
53728177 TCTAAGCAAATAGTATAAAATCACTTCTAGTAGGATGCTATTTGATAAGAATTTGTGAAA
66 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
* * *
53728237 TCGTGCCCTCGTGGACGCGATTTTGTTACAGTAG
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
53728271 CATGTCTGGG
Statistics
Matches: 255, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
124 40 0.16
125 102 0.40
126 112 0.44
127 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (125 bp):
TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
Found at i:53731624 original size:43 final size:43
Alignment explanation
Indices: 53731398--53732049 Score: 736
Period size: 43 Copynumber: 15.3 Consensus size: 43
53731388 TATCAAATTA
* *
53731398 TTTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* * *
53731441 TTTTTAAGTTAAGTGTTTATGGTTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
*
53731485 TTTTTAAGTTAAGGGTTTATGG-TTTTAAGTTAAGGG-TTAGGG
1 TTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGG
* *
53731527 TTTTTAAGTTAAGGGTTAGTGTTTTTAA-TTAAGGG-TTAGGA
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* *
53731568 TTTTAAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
*
53731611 TTTTTAAGTTAAGGGTTAGGGTTTCTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* * *
53731654 TTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAAGG-TTA-GG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
*
53731695 TTTTTAAGTTAA-GGTTAGGGTTTTTAAGTT-AGGTTTTAGTTAAGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG----GG
* *
53731740 TGGTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAGGG-TTA-GG
1 T--TTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* *
53731783 -TTTTAAGTTAAGGTTTA-GGTTTTTAAGTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
*
53731824 TTTTTAAGTTAAGGGTAAGGG-TTTT-A---AA---TTTAAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTT-AGGG
* * *
53731860 TTTTTAAGTTAAGGGTTAGGATTTTTAATTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* *
53731903 TTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* * *
53731946 -TTTTAAGTTAAGAGTTTAGGATTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
*
53731989 TTTTTAAGTTAAGGTTTAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTT-A-----AGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
53732038 TTTGTTAA-TTAA
1 TTT-TTAAGTTAA
53732050 ATTATGCATT
Statistics
Matches: 527, Mismatches: 45, Indels: 74
0.82 0.07 0.11
Matches are distributed among these distances:
35 3 0.01
36 22 0.04
37 4 0.01
38 3 0.01
39 17 0.03
40 38 0.07
41 60 0.11
42 67 0.13
43 177 0.34
44 59 0.11
45 4 0.01
47 11 0.02
48 20 0.04
49 36 0.07
50 6 0.01
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.45
Consensus pattern (43 bp):
TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
Found at i:53731746 original size:15 final size:16
Alignment explanation
Indices: 53731726--53731815 Score: 56
Period size: 20 Copynumber: 4.9 Consensus size: 16
53731716 TTTTAAGTTA
53731726 GGTTTT-AGTTAAGGT
1 GGTTTTAAGTTAAGGT
53731741 GGTTTTAAGTTAAGGGTT
1 GGTTTTAAGTTAA-GG-T
*
53731759 AGGGTTTTAAATTTAAGGGTT
1 --GGTTTT-AAGTTAA-GG-T
53731780 AGGTTTTAAGTTAAGGTTT
1 -GGTTTTAAGTTAAGG--T
53731799 AGGTTTTTAAGTTAAGG
1 -GG-TTTTAAGTTAAGG
53731816 GTTTATGGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.09
16 6 0.09
17 2 0.03
18 3 0.05
19 11 0.17
20 25 0.39
21 11 0.17
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (16 bp):
GGTTTTAAGTTAAGGT
Found at i:53731748 original size:27 final size:32
Alignment explanation
Indices: 53731689--53731834 Score: 84
Period size: 40 Copynumber: 4.1 Consensus size: 32
53731679 AAATTTAAAG
53731689 GTTAGGTTTTTAAGTTAAGGTTAGGGTTTTTAA
1 GTTAGGTTTTTAAGTTAAGGTTA-GGTTTTTAA
53731722 GTTAGG-TTTT-AGTTAAGG-T-GGTTTTAAGTTAA
1 GTTAGGTTTTTAAGTTAAGGTTAGG-TTT---TTAA
* *
53731754 GGGTTAGGGTTTTAAATTTAAGGGTTAGGTTTTAAGTTAA
1 --GTTA-GGTTTTTAAGTTAA-GGTTAGG-TTT---TTAA
53731794 GGTTTAGGTTTTTAAGTTAAGGGTTTATGGTTTTTAA
1 -G-TTAGGTTTTTAAGTTAA-GG-TTA-GGTTTTTAA
53731831 GTTA
1 GTTA
53731835 AGGGTAAGGG
Statistics
Matches: 94, Mismatches: 4, Indels: 28
0.75 0.03 0.22
Matches are distributed among these distances:
28 2 0.02
29 3 0.03
30 1 0.01
31 8 0.09
32 8 0.09
33 6 0.06
34 4 0.04
35 5 0.05
36 4 0.04
37 9 0.10
38 2 0.02
39 18 0.19
40 22 0.23
41 2 0.02
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (32 bp):
GTTAGGTTTTTAAGTTAAGGTTAGGTTTTTAA
Found at i:53731866 original size:16 final size:15
Alignment explanation
Indices: 53731839--53731876 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
53731829 AAGTTAAGGG
* *
53731839 TAAGGGTTTTAAATT
1 TAAGGGTTTTTAAGT
53731854 TAAGGGTTTTTAAGT
1 TAAGGGTTTTTAAGT
53731869 TAAGGGTT
1 TAAGGGTT
53731877 AGGATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
TAAGGGTTTTTAAGT
Found at i:53731978 original size:27 final size:24
Alignment explanation
Indices: 53731946--53732028 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 24
53731936 GGGTTTAGGG
53731946 TTTTAAGTTAAG--A-GTTTAGGAT
1 TTTTAAGTTAAGTTAGGTTTAGG-T
53731968 TTTTAAGTTAAG---GGTTTAAGGT
1 TTTTAAGTTAAGTTAGGTTT-AGGT
*
53731990 TTTTAAGTTAAGGTTTAGGGTTAGGGT
1 TTTTAAGTTAA-G-TTAGGTTTA-GGT
53732017 TTTTAAGTTAAG
1 TTTTAAGTTAAG
53732029 GGTTTAAGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
22 28 0.54
23 4 0.08
26 2 0.04
27 18 0.35
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.46
Consensus pattern (24 bp):
TTTTAAGTTAAGTTAGGTTTAGGT
Found at i:53732002 original size:14 final size:14
Alignment explanation
Indices: 53731983--53732029 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
53731973 AGTTAAGGGT
53731983 TTAAGGTTTTTAAG
1 TTAAGGTTTTTAAG
*
53731997 TTAAGG--TTTAGGG
1 TTAAGGTTTTTA-AG
*
53732010 TTAGGGTTTTTAAG
1 TTAAGGTTTTTAAG
53732024 TTAAGG
1 TTAAGG
53732030 GTTTAAGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 12 0.46
15 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.45
Consensus pattern (14 bp):
TTAAGGTTTTTAAG
Found at i:53732029 original size:27 final size:27
Alignment explanation
Indices: 53731970--53732039 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
53731960 TTTAGGATTT
*
53731970 TTAA-GTTAAGGGTTTAAGGTTTTTAAG
1 TTAAGGTTTAGGG-TTAAGGTTTTTAAG
*
53731997 TTAAGGTTTAGGGTTAGGGTTTTTAAG
1 TTAAGGTTTAGGGTTAAGGTTTTTAAG
*
53732024 TTAAGGGTTTAAGGTT
1 TTAA-GGTTTAGGGTT
53732040 TGTTAATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (27 bp):
TTAAGGTTTAGGGTTAAGGTTTTTAAG
Found at i:53732032 original size:21 final size:21
Alignment explanation
Indices: 53731398--53732011 Score: 682
Period size: 21 Copynumber: 29.1 Consensus size: 21
53731388 TATCAAATTA
*
53731398 TTTTAAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
53731419 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGG-TTAGGG
* *
53731441 TTTTTAAGTTAAGTGTTTATGG
1 TTTTTAAGTTAAG-GGTTAGGG
*
53731463 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
53731485 TTTTTAAGTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGG-TTAGGG
53731507 -TTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
53731527 TTTTTAAGTTAAGGGTTAGTG
1 TTTTTAAGTTAAGGGTTAGGG
*
53731548 TTTTTAA-TTAAGGGTTAGGA
1 TTTTTAAGTTAAGGGTTAGGG
* *
53731568 TTTTAAATTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
53731589 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
53731611 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
53731632 TTTCTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
53731654 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
* * *
53731675 TTTTAAATTTAAAGGTTA-GG
1 TTTTTAAGTTAAGGGTTAGGG
53731695 TTTTTAAGTTAA-GGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
53731715 TTTTTAAGTT-AGGTTTTAGTTAAGGTG
1 TTTTTAAGTTAAGG-----GTT-AGG-G
*
53731742 GTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
* *
53731763 TTTTAAATTTAAGGGTTA-GG
1 TTTTTAAGTTAAGGGTTAGGG
*
53731783 -TTTTAAGTTAAGGTTTA-GG
1 TTTTTAAGTTAAGGGTTAGGG
*
53731802 TTTTTAAGTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
53731824 TTTTTAAGTTAAGGGTAAGGG
1 TTTTTAAGTTAAGGGTTAGGG
* *
53731845 -TTTTAAATT-----TAAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
53731860 TTTTTAAGTTAAGGGTTAGGA
1 TTTTTAAGTTAAGGGTTAGGG
* *
53731881 TTTTTAATTTAAGGGTTTATGG
1 TTTTTAAGTTAAGGG-TTAGGG
53731903 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
* *
53731924 TTTTAAATTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
* *
53731946 -TTTTAAGTTAAGAGTTTAGGA
1 TTTTTAAGTTAAG-GGTTAGGG
*
53731967 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
53731989 TTTTTAAGTTAAGGTTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
53732010 TT
1 TT
53732012 AGGGTTTTTA
Statistics
Matches: 510, Mismatches: 52, Indels: 62
0.82 0.08 0.10
Matches are distributed among these distances:
15 6 0.01
16 8 0.02
19 22 0.04
20 70 0.14
21 203 0.40
22 178 0.35
23 4 0.01
25 3 0.01
26 3 0.01
27 10 0.02
28 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.45
Consensus pattern (21 bp):
TTTTTAAGTTAAGGGTTAGGG
Found at i:53732049 original size:27 final size:27
Alignment explanation
Indices: 53731970--53732049 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
53731960 TTTAGGATTT
53731970 TTAAGTTAAGGGTTTAAGGTTT-TTAA
1 TTAAGTTAAGGGTTTAAGGTTTGTTAA
* *
53731996 GTTAAGGTTTAGGG-TT-AGG---GTT-T
1 -TTAA-GTTAAGGGTTTAAGGTTTGTTAA
53732019 TTAAGTTAAGGGTTTAAGGTTTGTTAA
1 TTAAGTTAAGGGTTTAAGGTTTGTTAA
53732046 TTAA
1 TTAA
53732050 ATTATGCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
21 7 0.17
22 6 0.15
23 3 0.07
24 2 0.05
26 6 0.15
27 10 0.24
28 7 0.17
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (27 bp):
TTAAGTTAAGGGTTTAAGGTTTGTTAA
Found at i:53732083 original size:8 final size:8
Alignment explanation
Indices: 53732063--53732091 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
53732053 ATGCATTTAA
53732063 TTATAAA-
1 TTATAAAT
53732070 TTATAAAT
1 TTATAAAT
53732078 TTATAAAT
1 TTATAAAT
53732086 TTATAA
1 TTATAA
53732092 TAAATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATAAAT
Found at i:53733278 original size:7 final size:7
Alignment explanation
Indices: 53733268--53733293 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
53733258 TTATATACAT
53733268 AATACTA
1 AATACTA
53733275 AATACTA
1 AATACTA
53733282 AATACTA
1 AATACTA
53733289 AATAC
1 AATAC
53733294 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:53733500 original size:20 final size:20
Alignment explanation
Indices: 53733463--53733500 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53733453 TTATTTTTTA
*
53733463 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
53733483 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
53733501 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:53733811 original size:31 final size:31
Alignment explanation
Indices: 53733769--53733835 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
53733759 TAACCTCCAA
* *
53733769 TTAACTGAAGAATGTATGCTCAACTTGTCAG
1 TTAACTAAAGAATGTATGCCCAACTTGTCAG
*
53733800 TTAACTAAAGAATGTATGCCCGACTTGTCAG
1 TTAACTAAAGAATGTATGCCCAACTTGTCAG
*
53733831 ATAAC
1 TTAAC
53733836 CTCCATAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
TTAACTAAAGAATGTATGCCCAACTTGTCAG
Found at i:53734389 original size:7 final size:7
Alignment explanation
Indices: 53734377--53734416 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
53734367 TAGTCGATTG
53734377 GTATTTA
1 GTATTTA
53734384 GTATTTA
1 GTATTTA
53734391 GTATTTA
1 GTATTTA
53734398 GTATTTA
1 GTATTTA
53734405 GTATTTA
1 GTATTTA
53734412 GTATT
1 GTATT
53734417 ATGTATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:53735383 original size:21 final size:21
Alignment explanation
Indices: 53735359--53735407 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
53735349 ATATACCCTA
53735359 CCGGAAGAACAAGAATCC-CCG
1 CCGGAAGAACAAGAA-CCGCCG
* * *
53735380 CCGGAGGAACCATAACCGCCG
1 CCGGAAGAACAAGAACCGCCG
53735401 CCGGAAG
1 CCGGAAG
53735408 CTGGACGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.35, G:0.29, T:0.04
Consensus pattern (21 bp):
CCGGAAGAACAAGAACCGCCG
Found at i:53735623 original size:7 final size:8
Alignment explanation
Indices: 53735594--53735622 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
53735584 AACTAATTTA
53735594 TTATAAAT
1 TTATAAAT
53735602 TTATAAAT
1 TTATAAAT
53735610 TTAT-AAT
1 TTATAAAT
53735617 TTATAA
1 TTATAA
53735623 TACATGACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTATAAAT
Found at i:53741215 original size:3 final size:3
Alignment explanation
Indices: 53741191--53741231 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
53741181 GAAATGAGTA
* *
53741191 AAT AAT AAC AAT AAA AATT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT A
53741232 GTATTAGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:53742814 original size:61 final size:61
Alignment explanation
Indices: 53742742--53742866 Score: 250
Period size: 61 Copynumber: 2.0 Consensus size: 61
53742732 AAATTTTCTC
53742742 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
1 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
53742803 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
1 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
53742864 TGT
1 TGT
53742867 AACAAGTTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (61 bp):
TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
Found at i:53743501 original size:52 final size:52
Alignment explanation
Indices: 53743383--53743507 Score: 119
Period size: 52 Copynumber: 2.4 Consensus size: 52
53743373 GGAATTTTTG
* * * * * *
53743383 TTTTGAAAACGCGAGAATTTTGAAACACAATAATTTTTTGAGAACACGGAAA
1 TTTTAAAAACACGAGAATTTTGAAACACAATAAATTTCTGAAAACACGAAAA
** * *
53743435 TTTTCGAAATACGAGAATTTTAGAAACATAA-AAATTTCT-AAAACACGAAAA
1 TTTTAAAAACACGAGAATTTT-GAAACACAATAAATTTCTGAAAACACGAAAA
*
53743486 TTTTTAAAAACACGAGATTTTT
1 -TTTTAAAAACACGAGAATTTT
53743508 TTTGAAACAC
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
51 10 0.17
52 40 0.69
53 8 0.14
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (52 bp):
TTTTAAAAACACGAGAATTTTGAAACACAATAAATTTCTGAAAACACGAAAA
Found at i:53743515 original size:19 final size:18
Alignment explanation
Indices: 53743475--53743556 Score: 85
Period size: 19 Copynumber: 4.5 Consensus size: 18
53743465 AAAATTTCTA
* **
53743475 AAACACGAAAATTTTTAA
1 AAACACGGAAATTTTTTG
**
53743493 AAACACGAGATTTTTTTTG
1 AAACACG-GAAATTTTTTG
53743512 AAACACGGAAATTTTTTG
1 AAACACGGAAATTTTTTG
*
53743530 AAAACATGGAAA-TTTTTG
1 -AAACACGGAAATTTTTTG
53743548 AAACACGGA
1 AAACACGGA
53743557 GTTTTTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
17 8 0.15
18 22 0.42
19 23 0.43
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (18 bp):
AAACACGGAAATTTTTTG
Found at i:53743526 original size:17 final size:17
Alignment explanation
Indices: 53743383--53743556 Score: 95
Period size: 17 Copynumber: 9.8 Consensus size: 17
53743373 GGAATTTTTG
53743383 TTTTGAAA-ACGCGAGAA-
1 TTTTGAAACACG-GA-AAT
*
53743400 TTTTGAAACAC-AATAATT
1 TTTTGAAACACGGA-AA-T
53743418 TTTTGAGAACACGGAAAT
1 TTTTGA-AACACGGAAAT
* *
53743436 TTTCGAAATAC-GAGAAT
1 TTTTGAAACACGGA-AAT
* ***
53743453 TTTAGAAACATAAAAAT
1 TTTTGAAACACGGAAAT
* * *
53743470 TTCTAAAACACGAAAAT
1 TTTTGAAACACGGAAAT
* **
53743487 TTTTAAAAACACGAGATTTT
1 TTTT-GAAACACG-GA-AAT
53743507 TTTTGAAACACGGAAATT
1 TTTTGAAACACGGAAA-T
*
53743525 TTTTGAAAACATGGAAAT
1 TTTTG-AAACACGGAAAT
53743543 TTTTGAAACACGGA
1 TTTTGAAACACGGA
53743557 GTTTTTTTAA
Statistics
Matches: 122, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
16 5 0.04
17 49 0.40
18 37 0.30
19 25 0.20
20 6 0.05
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
TTTTGAAACACGGAAAT
Found at i:53743564 original size:18 final size:17
Alignment explanation
Indices: 53743400--53743563 Score: 78
Period size: 18 Copynumber: 9.2 Consensus size: 17
53743390 AACGCGAGAA
**
53743400 TTTTGAAACACAATAATT
1 TTTTGAAACAC-GGAATT
*
53743418 TTTTGAGAACACGGAAAT
1 TTTTGA-AACACGGAATT
* *
53743436 TTTCGAAATACGAGAA-T
1 TTTTGAAACACG-GAATT
* *** *
53743453 TTTAGAAACATAAAAAT
1 TTTTGAAACACGGAATT
* * *
53743470 TTCTAAAACACGAAAATT
1 TTTTGAAACACG-GAATT
** *
53743488 TTTAAAAACACGAGATTTT
1 TTTTGAAACACG-GA-ATT
53743507 TTTTGAAACACGGAAATT
1 TTTTGAAACACGG-AATT
* *
53743525 TTTTGAAAACATGGAAAT
1 TTTTG-AAACACGGAATT
*
53743543 TTTTGAAACACGGAGTT
1 TTTTGAAACACGGAATT
53743560 TTTT
1 TTTT
53743564 TAAAAAAACA
Statistics
Matches: 111, Mismatches: 28, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
16 2 0.02
17 35 0.32
18 49 0.44
19 25 0.23
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (17 bp):
TTTTGAAACACGGAATT
Found at i:53744120 original size:5 final size:5
Alignment explanation
Indices: 53744110--53744173 Score: 64
Period size: 5 Copynumber: 13.4 Consensus size: 5
53744100 TAATTCGGGC
* *
53744110 CTTTT CTTTT CTTTT C-TTT -TTTT CTTTT -TTTGT TTTTT CTTTT CTTCT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTT-T CTTTT CTTTT CTTTT
*
53744158 -TTTT CTCTT CTTTT CT
1 CTTTT CTTTT CTTTT CT
53744174 GCAGATTGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
4 12 0.24
5 34 0.69
6 3 0.06
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:53744134 original size:8 final size:8
Alignment explanation
Indices: 53744111--53744173 Score: 65
Period size: 8 Copynumber: 7.8 Consensus size: 8
53744101 AATTCGGGCC
53744111 TTTTCTTTT
1 TTTTC-TTT
53744120 CTTTTCTTT
1 -TTTTCTTT
53744129 TTTTCTTT
1 TTTTCTTT
*
53744137 TTTT-GTT
1 TTTTCTTT
53744144 TTTTCTTT
1 TTTTCTTT
*
53744152 TCTTCTTT
1 TTTTCTTT
* *
53744160 TTCTCTTC
1 TTTTCTTT
53744168 TTTTCT
1 TTTTCT
53744174 GCAGATTGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
7 6 0.13
8 31 0.69
9 3 0.07
10 5 0.11
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTCTTT
Found at i:53744168 original size:14 final size:13
Alignment explanation
Indices: 53744116--53744171 Score: 67
Period size: 14 Copynumber: 4.1 Consensus size: 13
53744106 GGGCCTTTTC
53744116 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
*
53744129 TTTTCTTTTTTTGTT
1 TTTTC-TTTTCT-TT
53744144 TTTTCTTTTCTTCT
1 TTTTCTTTTCTT-T
*
53744158 TTTTCTCTTCTTT
1 TTTTCTTTTCTTT
53744171 T
1 T
53744172 CTGCAGATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 8 0.22
14 22 0.59
15 7 0.19
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:53744487 original size:7 final size:7
Alignment explanation
Indices: 53744477--53744549 Score: 76
Period size: 7 Copynumber: 10.3 Consensus size: 7
53744467 ATTTTTAATT
53744477 TTTTTTC
1 TTTTTTC
53744484 TTTTTTTC
1 -TTTTTTC
53744492 TTTTTTC
1 TTTTTTC
*
53744499 TTTTCTC
1 TTTTTTC
* *
53744506 TTTTCTA
1 TTTTTTC
53744513 TTTTTTC
1 TTTTTTC
*
53744520 TTTGTTC
1 TTTTTTC
*
53744527 TTTCTAT-
1 TTT-TTTC
53744534 TTTTTTC
1 TTTTTTC
53744541 TTTTTTC
1 TTTTTTC
53744548 TT
1 TT
53744550 CTTCTTCCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
6 2 0.04
7 45 0.82
8 8 0.15
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:53744509 original size:21 final size:21
Alignment explanation
Indices: 53744477--53744554 Score: 86
Period size: 21 Copynumber: 3.6 Consensus size: 21
53744467 ATTTTTAATT
* *
53744477 TTTTTTCTTTTTTTCTTTTTTC
1 TTTTTTC-TTTTCTATTTTTTC
*
53744499 TTTTCTCTTTTCTATTTTTTC
1 TTTTTTCTTTTCTATTTTTTC
*
53744520 TTTGTTC-TTTCTATTTTTTTC
1 TTTTTTCTTTTCTA-TTTTTTC
53744541 TTTTTTCTTCTTCT
1 TTTTTTCTT-TTCT
53744555 TCCTCCTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
20 6 0.13
21 30 0.64
22 7 0.15
23 4 0.09
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTTCTATTTTTTC
Found at i:53744547 original size:28 final size:28
Alignment explanation
Indices: 53744475--53744549 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
53744465 TTATTTTTAA
*
53744475 TTTTTTTTCTTTTTTTCTTTTTTCTTTTC
1 TTTTTTTTC-TTTTTTCTTTGTTCTTTTC
* * *
53744504 TCTTTTCTATTTTTTCTTTGTTC-TTTC
1 TTTTTTTTCTTTTTTCTTTGTTCTTTTC
53744531 TATTTTTTTCTTTTTTCTT
1 T-TTTTTTTCTTTTTTCTT
53744550 CTTCTTCCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.13
28 27 0.71
29 6 0.16
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (28 bp):
TTTTTTTTCTTTTTTCTTTGTTCTTTTC
Found at i:53744657 original size:7 final size:7
Alignment explanation
Indices: 53744647--53744699 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
53744637 CTCTTCTCTC
53744647 CTCTTTT
1 CTCTTTT
53744654 CTCTTTT
1 CTCTTTT
53744661 C-CTTTT
1 CTCTTTT
*
53744667 -TCTTCT
1 CTCTTTT
*
53744673 CTTTTTT
1 CTCTTTT
53744680 CTCTTTT
1 CTCTTTT
*
53744687 -TCTTCT
1 CTCTTTT
53744693 CTCTTTT
1 CTCTTTT
53744700 TTTTCTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 14 0.38
7 23 0.62
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
CTCTTTT
Found at i:53744674 original size:24 final size:23
Alignment explanation
Indices: 53744647--53744719 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 23
53744637 CTCTTCTCTC
53744647 CTCTTTTCTCTTTTC-CTTTTTCTT
1 CTCTTTT-T-TTTTCTCTTTTTCTT
53744671 CTC---TTTTTTCTCTTTTTCTT
1 CTCTTTTTTTTTCTCTTTTTCTT
*
53744691 CTCTCTTTTTTTTCTTTTTTTCTT
1 CTCT-TTTTTTTTCTCTTTTTCTT
53744715 -TCTTT
1 CTCTTT
53744720 CCTCTCTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
19 5 0.12
20 13 0.30
21 1 0.02
22 2 0.05
23 3 0.07
24 19 0.44
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (23 bp):
CTCTTTTTTTTTCTCTTTTTCTT
Found at i:53744683 original size:9 final size:9
Alignment explanation
Indices: 53744650--53744735 Score: 54
Period size: 9 Copynumber: 9.2 Consensus size: 9
53744640 TTCTCTCCTC
53744650 TTTTCTC-T
1 TTTTCTCTT
*
53744658 TTTCCT-TT
1 TTTTCTCTT
53744666 TTCTTCTCTT
1 TT-TTCTCTT
53744676 TTTTCTCTTTT
1 TTTTCTC--TT
53744687 TCTTCTCTCTT
1 T-TT-TCTCTT
*
53744698 TTTTTTCTT
1 TTTTCTCTT
53744707 TTTT-TCTT
1 TTTTCTCTT
53744715 TCTTTC-CTCT
1 T-TTTCTCT-T
*
53744725 CTTTCTCTT
1 TTTTCTCTT
53744734 TT
1 TT
53744736 ATTTCGACGA
Statistics
Matches: 62, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
8 13 0.21
9 28 0.45
10 9 0.15
11 6 0.10
12 2 0.03
13 4 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:53744687 original size:20 final size:20
Alignment explanation
Indices: 53744657--53744713 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 20
53744647 CTCTTTTCTC
53744657 TTTTC-CTTTTTCTTCTCTT
1 TTTTCTCTTTTTCTTCTCTT
53744676 TTTTCTCTTTTTCTTCTCTCTT
1 TTTTCTCTTTTTC-T-TCTCTT
*
53744698 TTTTTTCTTTTT-TTCT
1 TTTTCTCTTTTTCTTCT
53744714 TTCTTTCCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 8 0.24
20 8 0.24
21 1 0.03
22 17 0.50
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTCTTTTTCTTCTCTT
Found at i:53744703 original size:26 final size:26
Alignment explanation
Indices: 53744636--53744735 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 26
53744626 CGATGGTCAG
53744636 TCTCTTCTCTCCTCTTTTCTCTTTTCCTT
1 TCTCTTCTCT--T-TTTTCTCTTTTCCTT
* *
53744665 TTTCTTCTCTTTTTTCTCTTTTTC-T
1 TCTCTTCTCTTTTTTCTCTTTTCCTT
* * *
53744690 TCTC-TCTTTTTTTTCTTTTTTTCTT
1 TCTCTTCTCTTTTTTCTCTTTTCCTT
*
53744715 TCT-TTC-CTCTCTTTCTCTTTT
1 TCTCTTCTCT-TTTTTCTCTTTT
53744736 ATTTCGACGA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
24 18 0.30
25 20 0.33
26 12 0.20
27 1 0.02
29 9 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (26 bp):
TCTCTTCTCTTTTTTCTCTTTTCCTT
Found at i:53744726 original size:32 final size:33
Alignment explanation
Indices: 53744662--53744726 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
53744652 TTCTCTTTTC
*
53744662 CTTTTTCTTCTCTTTTTTCTCTTTTTCTTCTCT
1 CTTTTTCTTCTCTTTTTTCTCTTTTTCCTCTCT
*
53744695 CTTTTTTTTCT-TTTTTTCT-TTCTTTCCTCTCT
1 CTTTTTCTTCTCTTTTTTCTCTT-TTTCCTCTCT
53744727 TTCTCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 17 0.59
33 10 0.34
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (33 bp):
CTTTTTCTTCTCTTTTTTCTCTTTTTCCTCTCT
Found at i:53745331 original size:30 final size:31
Alignment explanation
Indices: 53745269--53745336 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
53745259 TTTAGGGCCC
* * *
53745269 AAATGTAATTTTACAAAAATGTTAGGGGTCA
1 AAATGTAACTTTACAAAAATGTTAAGGATCA
* *
53745300 AAATTTAACTTTAGAAAAA-GTTAAGGATCA
1 AAATGTAACTTTACAAAAATGTTAAGGATCA
53745330 AAATGTA
1 AAATGTA
53745337 TTTTTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (31 bp):
AAATGTAACTTTACAAAAATGTTAAGGATCA
Found at i:53745809 original size:78 final size:77
Alignment explanation
Indices: 53745720--53746179 Score: 540
Period size: 78 Copynumber: 6.0 Consensus size: 77
53745710 GAGTCGATTG
* * ** *
53745720 AAAATGAAAATTGAAAAATACCTTAGTTTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
53745785 TTGATTTTTTTGA
66 TTGA-TTTTTTGA
* * **
53745798 AAAATAAAAATTGAAAAATACCTCAGTATGCGACCCGAGGCTCAACTCACCTCT--CACCATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
53745861 TCGA----TTG-
66 TTGATTTTTTGA
** * *
53745868 AAAACGAAAATTGAAAAATACCACAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
53745933 TTAATTTTTTTGA
66 TTGA-TTTTTTGA
* * * *
53745946 AAAATAAAAATTGAAAAATACCTCGGTATGTGACTCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
53746011 TTGATTTCTTGA
66 TTGATTTTTTGA
** * *
53746023 AAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAATAAAAA-TT-GAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
53746088 GAGTTGA-TTTTTGA
63 GAGTTGATTTTTTGA
* * *
53746102 AAAGTAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAATAAAAA-TT-GAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
53746167 GAGCTGATTTTTT
63 GAGTTGATTTTTT
53746180 TTTGAAAAAA
Statistics
Matches: 333, Mismatches: 37, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
70 48 0.14
71 3 0.01
72 9 0.03
76 10 0.03
77 18 0.05
78 111 0.33
79 78 0.23
80 56 0.17
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (77 bp):
AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGA
Found at i:53745816 original size:148 final size:148
Alignment explanation
Indices: 53745678--53746159 Score: 486
Period size: 148 Copynumber: 3.2 Consensus size: 148
53745668 TAACTTGACG
* * * *
53745678 CGCGACCCGAAACTCAATTCACCTCTCGCCATGAGTCGATTGAAAATGAAAATTGAAAAATACCT
1 CGCGACCCGAAACTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAAAATTGAAAAATACCA
* ** * *
53745743 TAGTTTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAAAA
66 CAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAATAAAAA
53745808 TTGAAAAAT-ACCTCAGTA
131 TTGAAAAATAACCTCAG-A
* **
53745826 TGCGACCCGAGGCTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAAAATTGAAAAATACCA
1 CGCGACCCGAAACTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAAAATTGAAAAATACCA
53745891 CAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAATAAAAA
66 CAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAATAAAAA
*
53745956 TTGAAAAAT-ACCTCGGTA
131 TTGAAAAATAACCTCAG-A
* * * ** ** * * *
53745974 TGTGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTCTTGAAAAGCAAAAATTTAAA
1 CGCGACCCGAAACTCAACTCACCTC-T-CACCATGAGTCGA----TTGAAAA-CGAAAA-TT-GA
* * * *
53746039 AGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
57 A-AAATACCACAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGA
* * * *
53746102 AAAGTAAAAATTTAAAAGAAATACCTCGGCA
121 AAAATAAAAATTGAAAA-ATA-ACCTCAG-A
* * **
53746133 TGTGACCCGAGGCTCAACTCACCTCTC
1 CGCGACCCGAAACTCAACTCACCTCTC
53746160 GCAATATGAG
Statistics
Matches: 292, Mismatches: 29, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
148 158 0.54
149 1 0.00
150 10 0.03
154 7 0.02
155 5 0.02
156 24 0.08
157 4 0.01
158 51 0.17
159 32 0.11
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (148 bp):
CGCGACCCGAAACTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAAAATTGAAAAATACCA
CAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAATAAAAA
TTGAAAAATAACCTCAGA
Found at i:53747093 original size:27 final size:26
Alignment explanation
Indices: 53747063--53747128 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
53747053 TTTTTCATTC
53747063 ATTTTTTTGTTTTTTTCTGCTATTATT
1 ATTTTTTTGTTTTTTTCTGCTATT-TT
* *
53747090 ATTTTTTTGTTTTTTTTTGCTGTTTT
1 ATTTTTTTGTTTTTTTCTGCTATTTT
*
53747116 -TGTTTTTGTTTTT
1 ATTTTTTTGTTTTT
53747129 GTTTTTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 12 0.33
26 2 0.06
27 22 0.61
ACGTcount: A:0.06, C:0.05, G:0.11, T:0.79
Consensus pattern (26 bp):
ATTTTTTTGTTTTTTTCTGCTATTTT
Found at i:53747102 original size:6 final size:6
Alignment explanation
Indices: 53747093--53747134 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
53747083 TATTATTATT
53747093 TTTTTG TTTTT- TTTTGCTG TTTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTT--TG TTTTTG TTTTTG TTTTTG TTTTT
53747135 TTAGGCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.12
6 24 0.73
7 1 0.03
8 4 0.12
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:53758138 original size:51 final size:51
Alignment explanation
Indices: 53758037--53758160 Score: 144
Period size: 52 Copynumber: 2.4 Consensus size: 51
53758027 GGAATTTTTG
* * * *
53758037 TTTTGAAAACACGAGAATTTTGAAACACAATAATTTTTGAGAGCACGAAAAT
1 TTTTG-AAACACGAGAATTTTGAAACACAATAATTTCTGAAAACAAGAAAAT
*
53758089 TTTTGAAATACGAGAATTTTAGAAACACGAA-AATTTCT-AAAACAAGAAAAT
1 TTTTGAAACACGAGAATTTT-GAAACAC-AATAATTTCTGAAAACAAGAAAAT
*
53758140 TTTTGAAAACACGAGATTTTT
1 TTTTG-AAACACGAGAATTTT
53758161 TTTCGAAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
51 29 0.47
52 31 0.50
53 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (51 bp):
TTTTGAAACACGAGAATTTTGAAACACAATAATTTCTGAAAACAAGAAAAT
Found at i:53758204 original size:17 final size:17
Alignment explanation
Indices: 53758037--53758214 Score: 139
Period size: 17 Copynumber: 10.2 Consensus size: 17
53758027 GGAATTTTTG
*
53758037 TTTTGAAAACACGAGAA-
1 TTTTG-AAACACGAAAAT
53758054 TTTTGAAACAC-AATAAT
1 TTTTGAAACACGAA-AAT
*
53758071 TTTTGAGAGCACGAAAAT
1 TTTTGA-AACACGAAAAT
* *
53758089 TTTTGAAATACGAGAAT
1 TTTTGAAACACGAAAAT
*
53758106 TTTAGAAACACGAAAAT
1 TTTTGAAACACGAAAAT
* * *
53758123 TTCTAAAACAAGAAAAT
1 TTTTGAAACACGAAAAT
**
53758140 TTTTGAAAACACGAGATTTT
1 TTTTG-AAACACGA-A-AAT
* *
53758160 TTTTCGAAACACGGAATT
1 TTTT-GAAACACGAAAAT
53758178 TTTTGAAAACACGAAAAT
1 TTTTG-AAACACGAAAAT
*
53758196 TTTTTAAACAC--AAAT
1 TTTTGAAACACGAAAAT
53758211 TTTT
1 TTTT
53758215 TTTAAAACAC
Statistics
Matches: 130, Mismatches: 22, Indels: 20
0.76 0.13 0.12
Matches are distributed among these distances:
15 9 0.07
16 8 0.06
17 56 0.43
18 40 0.31
19 4 0.03
20 12 0.09
21 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:53758215 original size:17 final size:18
Alignment explanation
Indices: 53758146--53758227 Score: 78
Period size: 17 Copynumber: 4.5 Consensus size: 18
53758136 AAATTTTTGA
*
53758146 AAACACGAGATTTTTTTT
1 AAACACGAAATTTTTTTT
* **
53758164 CGAAACACGGAATTTTTTGA
1 --AAACACGAAATTTTTTTT
*
53758184 AAACACGAAA-ATTTTTT
1 AAACACGAAATTTTTTTT
53758201 AAACAC-AAATTTTTTTT
1 AAACACGAAATTTTTTTT
53758218 AAAACACGAA
1 -AAACACGAA
53758228 TATAAAACAC
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
16 3 0.06
17 16 0.32
18 15 0.30
19 2 0.04
20 14 0.28
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (18 bp):
AAACACGAAATTTTTTTT
Found at i:53758215 original size:35 final size:34
Alignment explanation
Indices: 53758037--53758227 Score: 152
Period size: 35 Copynumber: 5.4 Consensus size: 34
53758027 GGAATTTTTG
*
53758037 TTTTGAAAACACGAGAA-TTTTGAAACACAATAAT
1 TTTTGAAAACACGAAAATTTTTGAAACACAA-AAT
* * * *
53758071 TTTTGAGAGCACGAAAATTTTTGAAATACGAGAAT
1 TTTTGAAAACACGAAAATTTTTGAAACAC-AAAAT
* * * *
53758106 TTTAG-AAACACGAAAATTTCTAAAACAAGAAAAT
1 TTTTGAAAACACGAAAATTTTTGAAAC-ACAAAAT
** * *
53758140 TTTTGAAAACACGAGATTTTTTTTCGAAACACGGAATT
1 TTTTGAAAACACGA-A-AATTTTT-GAAACAC-AAAAT
* *
53758178 TTTTGAAAACACGAAAATTTTTTAAACACAAATTT
1 TTTTGAAAACACGAAAATTTTTGAAACACAAA-AT
*
53758213 TTTTTAAAACACGAA
1 TTTTGAAAACACGAA
53758228 TATAAAACAC
Statistics
Matches: 122, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
34 40 0.33
35 48 0.39
36 7 0.06
37 6 0.05
38 21 0.17
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTGAAACACAAAAT
Found at i:53758280 original size:17 final size:19
Alignment explanation
Indices: 53758257--53758302 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
53758247 TATTATTATT
53758257 TTTTTGAAACACGAGAA-A
1 TTTTTGAAACACGAGAACA
*
53758275 -TTTTGAAA-ACGTGAACA
1 TTTTTGAAACACGAGAACA
53758292 TTTTTGAAACA
1 TTTTTGAAACA
53758303 TGGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 8 0.33
19 1 0.04
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (19 bp):
TTTTTGAAACACGAGAACA
Found at i:53758797 original size:20 final size:22
Alignment explanation
Indices: 53758768--53758826 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
53758758 TTCGGACCTA
*
53758768 TTTTTGTTTTTTTCTT-C-TCT
1 TTTTTCTTTTTTTCTTCCTTCT
*
53758788 TTTTTCTTTTTTCCTTTCCTTCT
1 TTTTTCTTTTTTTC-TTCCTTCT
53758811 TTTTCTCTTTTTTTCT
1 TTTT-TCTTTTTTTCT
53758827 GCAGATTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 12 0.38
21 2 0.06
22 1 0.03
23 8 0.25
24 9 0.28
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTCTTTTTTTCTTCCTTCT
Found at i:53758826 original size:16 final size:16
Alignment explanation
Indices: 53758776--53758826 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
53758766 TATTTTTGTT
53758776 TTTTTCTTCTCTTTTTTC
1 TTTTTC-TCT-TTTTTTC
**
53758794 TTTTT-TCCTTTCCTTC
1 TTTTTCT-CTTTTTTTC
53758810 TTTTTCTCTTTTTTTC
1 TTTTTCTCTTTTTTTC
53758826 T
1 T
53758827 GCAGATTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTCTTTTTTTC
Found at i:53759158 original size:8 final size:8
Alignment explanation
Indices: 53759147--53759212 Score: 57
Period size: 8 Copynumber: 8.2 Consensus size: 8
53759137 TATTTTTAAA
53759147 TTTTTTC-
1 TTTTTTCT
53759154 TTTTTTCT
1 TTTTTTCT
*
53759162 CTTTTTT-A
1 -TTTTTTCT
*
53759170 TTTTCTCT
1 TTTTTTCT
53759178 TTTTTTCT
1 TTTTTTCT
53759186 TTGTTCTT-T
1 TT-TT-TTCT
*
53759195 TTATTTCT
1 TTTTTTCT
53759203 TTTTTTCT
1 TTTTTTCT
53759211 TT
1 TT
53759213 CTTCTTCTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
7 14 0.30
8 20 0.43
9 11 0.23
10 2 0.04
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTTCT
Found at i:53759166 original size:14 final size:14
Alignment explanation
Indices: 53759156--53759182 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53759146 ATTTTTTCTT
53759156 TTTTCTCTTTTTTA
1 TTTTCTCTTTTTTA
53759170 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
53759183 TCTTTGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTCTTTTTTA
Found at i:53759166 original size:15 final size:15
Alignment explanation
Indices: 53759148--53759218 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
53759138 ATTTTTAAAT
53759148 TTTTTCTTTTTTCTC
1 TTTTTCTTTTTTCTC
*
53759163 TTTTT-TATTTTCTCTT
1 TTTTTCT-TTTT-TCTC
* *
53759179 TTTTTCTTTGTTCTTT
1 TTTTTCTTTTTTC-TC
53759195 TTATTTCTTTTTT-TC
1 TT-TTTCTTTTTTCTC
53759210 TTTCTTCTT
1 TTT-TTCTT
53759219 CTTCTTCTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.04
15 19 0.41
16 15 0.33
17 10 0.22
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTTTCTC
Found at i:53759195 original size:13 final size:13
Alignment explanation
Indices: 53759175--53759230 Score: 64
Period size: 12 Copynumber: 4.5 Consensus size: 13
53759165 TTTTATTTTC
53759175 TCTT-TTTTTCTT
1 TCTTCTTTTTCTT
* *
53759187 TGTTCTTTTTATT
1 TCTTCTTTTTCTT
53759200 TCTT-TTTTTCTT
1 TCTTCTTTTTCTT
*
53759212 TCTTCTTCTTC-T
1 TCTTCTTTTTCTT
53759224 TCTTCTT
1 TCTTCTT
53759231 CCTCTTTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 22 0.59
13 15 0.41
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (13 bp):
TCTTCTTTTTCTT
Found at i:53759203 original size:25 final size:23
Alignment explanation
Indices: 53759147--53759227 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 23
53759137 TATTTTTAAA
*
53759147 TTTTTTCTTTTTTCTCTTTTT-TA
1 TTTTTTCTTTTTT-TCTTTTTCTT
*
53759170 TTTTCTCTTTTTTTCTTTGTTCTT
1 TTTTTTCTTTTTTTCTTT-TTCTT
53759194 TTTATTTCTTTTTTTCTTTCTTCTT
1 TTT-TTTCTTTTTTTCTTT-TTCTT
* *
53759219 CTTCTTCTT
1 TTTTTTCTT
53759228 CTTCCTCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 5 0.10
23 14 0.29
24 9 0.18
25 21 0.43
ACGTcount: A:0.02, C:0.17, G:0.01, T:0.79
Consensus pattern (23 bp):
TTTTTTCTTTTTTTCTTTTTCTT
Found at i:53759387 original size:24 final size:23
Alignment explanation
Indices: 53759309--53759388 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 23
53759299 GGTTGGTCTC
* * *
53759309 TCCTCTCCTATTTTCTCTCTTCCT
1 TCCTCTCCT-TTTTTTTTCTTTCT
53759333 TCCTCTTCTCTTTTTTCTTT-TTTCT
1 TCCTC-TC-CTTTTTT-TTTCTTTCT
*
53759358 TTCTCTCCTTTTTTTTTCTTTCT
1 TCCTCTCCTTTTTTTTTCTTTCT
53759381 TACCTCTC
1 T-CCTCTC
53759389 TTTCTCTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
22 3 0.07
23 13 0.28
24 12 0.26
25 14 0.30
26 4 0.09
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.64
Consensus pattern (23 bp):
TCCTCTCCTTTTTTTTTCTTTCT
Found at i:53759388 original size:26 final size:25
Alignment explanation
Indices: 53759311--53759389 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 25
53759301 TTGGTCTCTC
* * *
53759311 CTCTCCTATTTTCTCTCTTCCTTCCT
1 CTCTCCT-TTTTTTTTCTTTCTTCCT
53759337 CT-TCTCTTTTTTCTTT-TTTCTT--T
1 CTCTC-CTTTTTT-TTTCTTTCTTCCT
53759360 CTCTCCTTTTTTTTTCTTTCTTACCT
1 CTCTCCTTTTTTTTTCTTTCTT-CCT
53759386 CTCT
1 CTCT
53759390 TTCTCTTCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
22 3 0.07
23 16 0.37
24 2 0.05
25 11 0.26
26 11 0.26
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.65
Consensus pattern (25 bp):
CTCTCCTTTTTTTTTCTTTCTTCCT
Found at i:53760015 original size:30 final size:29
Alignment explanation
Indices: 53759981--53760074 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
53759971 GCTCGAATAT
*
53759981 AATTTACAAAATGTTAGGGGTCAAAATGTA
1 AATTTA-AAAATGTTAAGGGTCAAAATGTA
*
53760011 AATTTAGAAATGTTAAGGGTCAAAATGTA
1 AATTTAAAAATGTTAAGGGTCAAAATGTA
*
53760040 ATTTTTAAAAA-GTTTAAGGG-CTAAAATGT-
1 A-ATTTAAAAATG-TTAAGGGTC-AAAATGTA
53760069 AATTTA
1 AATTTA
53760075 TATTTTTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.07
29 25 0.45
30 27 0.48
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (29 bp):
AATTTAAAAATGTTAAGGGTCAAAATGTA
Found at i:53760107 original size:18 final size:16
Alignment explanation
Indices: 53760066--53760098 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
53760056 AGGGCTAAAA
53760066 TGTAATTTATATTTTT
1 TGTAATTTATATTTTT
53760082 TGTAATTTATATTTTT
1 TGTAATTTATATTTTT
53760098 T
1 T
53760099 TCAGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (16 bp):
TGTAATTTATATTTTT
Found at i:53762331 original size:3 final size:3
Alignment explanation
Indices: 53762323--53762353 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
53762313 TTTAAAAATT
53762323 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53762354 AGAGAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:53769867 original size:25 final size:24
Alignment explanation
Indices: 53769818--53769874 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
53769808 TGTAAACTAT
* **
53769818 ATTTTTTTTCATAATGATATTTAA
1 ATTTTTTATCATAATGATACCTAA
53769842 ATTTTTTATCATTAATGATACCTAA
1 ATTTTTTATCA-TAATGATACCTAA
53769867 ATTATTTT
1 ATT-TTTT
53769875 TTTCTCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.36
25 14 0.50
26 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTTTTATCATAATGATACCTAA
Done.