Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 97 of 129
Found at i:17382824 original size:288 final size:289
Alignment explanation
Indices: 17382146--17382848 Score: 927
Period size: 288 Copynumber: 2.4 Consensus size: 289
17382136 AGGAAGTATA
* * * *
17382146 AAATTATCAAATTACCCTTATAAGGGATATTTTTGTAAATTGACCTTTTTGAGCTAGGATTTTTA
1 AAATTACCAAAATACCCTTATAAGGGATATTTTTGTAAATTGACCTTTTTGAGCTCGGATTTTCA
* * ** *
17382211 TGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTCG
66 TGAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCACAACCA
* * * * *
17382276 TACCTCGAGAAGTGTAAAATTACCAAAATACCCCAATAGAGGTATTTTCGTAATTTGACTTTCTC
131 TACCCCGAAAAGTGTAAAATTACCAAAAAACCCCAATAGAGGCATTTTCATAATTTGACTTTCTC
* *** * *
17382341 GAGCTTGGATTTTCATGAAACTTTTTAGATATTAATTTCATAATATTTCATGATTTTTGGTGCAT
196 GAACTCAAAATTTCATGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGCAT
*
17382406 TTGAAATCAAAGCAGTATCCAAAAAATGT
261 TTGAAATCAAAGCAATATCCAAAAAATGT
** * *
17382435 ATAATTACCAAAATACCCAAATAAGGGATATTTTAGTAAATTGACCTTTTCGAGCTC--ATATTT
1 A-AATTACCAAAATACCCTTATAAGGGATATTTTTGTAAATTGACCTTTTTGAGCTCGGAT-TTT
* *
17382498 CATGAAACTTTTTAGATCTCAATTTCATAATA-TTCATGATTTTTGGTGCATTTGAAATTACAAC
64 CATGAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCACAAC
* ** *
17382562 CATACCCCGAAAAGTGTGAAATTACCAAAAAACCCTTATA-AGGGCATTTTTATAATTTGACTTT
129 CATACCCCGAAAAGTGTAAAATTACCAAAAAACCCCAATAGA-GGCATTTTCATAATTTGACTTT
*
17382626 TTCGAACTCAAAATTTCATGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTG
193 CTCGAACTCAAAATTTCATGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTG
*
17382691 CATTTGAAATCATAGCAATA-CCTAAAAATATG-
258 CATTTGAAATCAAAGCAATATCC-AAAAA-ATGT
* * **
17382723 AAATTACCAAAATACCCTTATAAGGG-TATTTTTTTAATTTGATATTTTTGAGCTCGGATTTTCA
1 AAATTACCAAAATACCCTTATAAGGGATATTTTTGTAAATTGACCTTTTTGAGCTCGGATTTTCA
* * * * *
17382787 TGAAACCTTTCATATCTCAATTTTATAATATTTCATGATTTTTTGTG-TTTTGAAATCACAAC
66 TGAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCACAAC
17382849 AATGAGCATG
Statistics
Matches: 358, Mismatches: 48, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
286 23 0.06
287 70 0.20
288 181 0.51
289 36 0.10
290 48 0.13
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (289 bp):
AAATTACCAAAATACCCTTATAAGGGATATTTTTGTAAATTGACCTTTTTGAGCTCGGATTTTCA
TGAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCACAACCA
TACCCCGAAAAGTGTAAAATTACCAAAAAACCCCAATAGAGGCATTTTCATAATTTGACTTTCTC
GAACTCAAAATTTCATGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGCAT
TTGAAATCAAAGCAATATCCAAAAAATGT
Found at i:17384657 original size:20 final size:20
Alignment explanation
Indices: 17384632--17384673 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
17384622 TTCGTTAAGA
17384632 ATTTTTAGGTTAGAAAATCT
1 ATTTTTAGGTTAGAAAATCT
17384652 ATTTTTAGGTTAGAAAATCT
1 ATTTTTAGGTTAGAAAATCT
17384672 AT
1 AT
17384674 CTAAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
ATTTTTAGGTTAGAAAATCT
Found at i:17392930 original size:86 final size:86
Alignment explanation
Indices: 17392706--17393075 Score: 318
Period size: 86 Copynumber: 4.3 Consensus size: 86
17392696 ATTTGGCATA
* * * ** * * *
17392706 AAAAAAAGACATTCATATTTGTATCACTCGTATTCATACTTGTATGTGCATCTTAAG-AAAGACA
1 AAAAAAAGACATTCACATTGGCATCACTCACATTCATACTTGCATGTACATCTTGAGCAAA-ACA
* *
17392770 TTTCCATTCACATTTGCATCAC
65 TTTGCATTCACATCTGCATCAC
* * * * ** * * *
17392792 -AGAAAGGATATTTACATTGGCATCACTCTTATTCATATTTACATGTGCATCTTGAGCAAAACAT
1 AAAAAAAGACATTCACATTGGCATCACTCACATTCATACTTGCATGTACATCTTGAGCAAAACAT
* * *
17392856 TTTCATTCACATCTGTATCAT
66 TTGCATTCACATCTGCATCAC
* * * *
17392877 AAAAAAAGACATTCATATTTGCATCAGTCACATTCATACTTGCACT-TATATCTTGAG-AAAGAC
1 AAAAAAAGACATTCACATTGGCATCACTCACATTCATACTTGCA-TGTACATCTTGAGCAAA-AC
*
17392940 ATTTGCATTCATATCTGCATCAC
64 ATTTGCATTCACATCTGCATCAC
* * * * * *
17392963 AGAAAAGGATATTCGCATTGGCATCACTCACATTTATACTTGCATGTGCATCTTGAGCAAAACAT
1 AAAAAAAGACATTCACATTGGCATCACTCACATTCATACTTGCATGTACATCTTGAGCAAAACAT
* *
17393028 TTGCATTCACATTTACATCA-
66 TTGCATTCACATCTGCATCAC
** * * *
17393048 TGAAAAAGATATTCGCATTTGCATCACT
1 AAAAAAAGACATTCACATTGGCATCACT
17393076 TGCATCTGCA
Statistics
Matches: 229, Mismatches: 49, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
85 94 0.41
86 131 0.57
87 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (86 bp):
AAAAAAAGACATTCACATTGGCATCACTCACATTCATACTTGCATGTACATCTTGAGCAAAACAT
TTGCATTCACATCTGCATCAC
Found at i:17393056 original size:171 final size:171
Alignment explanation
Indices: 17392706--17393075 Score: 474
Period size: 171 Copynumber: 2.2 Consensus size: 171
17392696 ATTTGGCATA
* ** * *
17392706 AAAAAAAGACATTCATATTTGTATCACTCGTATTCATACTTGTATGTGCATCTTAAGAAAGACAT
1 AAAAAAAGACATTCATATTTGCATCACTCACATTCATACTTGCATGTACATCTTAAGAAAGACAT
* * ** *
17392771 TTCCATTCACATTTGCATCACAGAAAGGATATTTACATTGGCATCACTCTTATTCATATTTACAT
66 TTCCATTCACATCTGCATCACAGAAAGGATATTCACATTGGCATCACTCACATTCATACTTACAT
* **
17392836 GTGCATCTTGAGCAAAACATTTTCATTCACATCTGTATCAT
131 GTGCATCTTGAGCAAAACATTTGCATTCACATCTACATCAT
* * *
17392877 AAAAAAAGACATTCATATTTGCATCAGTCACATTCATACTTGCACT-TATATCTTGAGAAAGACA
1 AAAAAAAGACATTCATATTTGCATCACTCACATTCATACTTGCA-TGTACATCTTAAGAAAGACA
* * * * *
17392941 TTTGCATTCATATCTGCATCACAGAAAAGGATATTCGCATTGGCATCACTCACATTTATACTTGC
65 TTTCCATTCACATCTGCATCACAG-AAAGGATATTCACATTGGCATCACTCACATTCATACTTAC
*
17393006 ATGTGCATCTTGAGCAAAACATTTGCATTCACATTTACATCAT
129 ATGTGCATCTTGAGCAAAACATTTGCATTCACATCTACATCAT
* * **
17393049 -GAAAAAGATATTCGCATTTGCATCACT
1 AAAAAAAGACATTCATATTTGCATCACT
17393076 TGCATCTGCA
Statistics
Matches: 170, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
171 97 0.57
172 73 0.43
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (171 bp):
AAAAAAAGACATTCATATTTGCATCACTCACATTCATACTTGCATGTACATCTTAAGAAAGACAT
TTCCATTCACATCTGCATCACAGAAAGGATATTCACATTGGCATCACTCACATTCATACTTACAT
GTGCATCTTGAGCAAAACATTTGCATTCACATCTACATCAT
Found at i:17393609 original size:12 final size:12
Alignment explanation
Indices: 17393582--17393628 Score: 59
Period size: 11 Copynumber: 4.3 Consensus size: 12
17393572 AAAATAAACT
17393582 AAAACAAACA-A
1 AAAACAAACATA
17393593 AAAACAAACATA
1 AAAACAAACATA
17393605 AAAAC-AA-AT-
1 AAAACAAACATA
17393614 AAAA-AAACATA
1 AAAACAAACATA
17393625 AAAA
1 AAAA
17393629 AAGAAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 6 0.19
10 4 0.12
11 16 0.50
12 6 0.19
ACGTcount: A:0.81, C:0.13, G:0.00, T:0.06
Consensus pattern (12 bp):
AAAACAAACATA
Found at i:17393623 original size:20 final size:19
Alignment explanation
Indices: 17393587--17393628 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
17393577 AAACTAAAAC
*
17393587 AAACAAAAAACAAACATAA
1 AAACAAAAAAAAAACATAA
17393606 AAACAAATAAAAAAACATAA
1 AAACAAA-AAAAAAACATAA
17393626 AAA
1 AAA
17393629 AAGAAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.81, C:0.12, G:0.00, T:0.07
Consensus pattern (19 bp):
AAACAAAAAAAAAACATAA
Found at i:17393630 original size:12 final size:12
Alignment explanation
Indices: 17393582--17393622 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
17393572 AAAATAAACT
17393582 AAAACAAAC-AA
1 AAAACAAACAAA
*
17393593 AAAACAAACATA
1 AAAACAAACAAA
*
17393605 AAAACAAATAAA
1 AAAACAAACAAA
17393617 AAAACA
1 AAAACA
17393623 TAAAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.80, C:0.15, G:0.00, T:0.05
Consensus pattern (12 bp):
AAAACAAACAAA
Found at i:17393636 original size:9 final size:10
Alignment explanation
Indices: 17393572--17393630 Score: 59
Period size: 10 Copynumber: 5.7 Consensus size: 10
17393562 AACAAAAGCG
17393572 AAAATAAAC-T
1 AAAA-AAACAT
*
17393582 AAAACAAACAA
1 AAAA-AAACAT
17393593 AAAACAAACAT
1 AAAA-AAACAT
17393604 AAAAACAA-AT
1 AAAAA-AACAT
17393614 AAAAAAACAT
1 AAAAAAACAT
17393624 AAAAAAA
1 AAAAAAA
17393631 GAAAAAGGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
9 2 0.05
10 25 0.58
11 16 0.37
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAACAT
Found at i:17394211 original size:96 final size:95
Alignment explanation
Indices: 17394067--17394322 Score: 298
Period size: 96 Copynumber: 2.7 Consensus size: 95
17394057 AATCTCTAGG
* * * *
17394067 ACCTCCAGGCAAAAAATTTTAAATTTTTAAAGTTTCAATGACTTTGATATGGGGAGCATTCCAAG
1 ACCT-CAGGCAAAAAATTTTAAATTTTTAAAGTTTCAACGACTCTGATACGGGGAGCATTCAAAG
*
17394132 ATTTTTAAGACTTCCAAGCATAATTTCCAAA
65 ATTTTTAAGACTACCAAGCATAATTTCCAAA
* * ** * *
17394163 ACCTCAGGACAAAAAATTTTAAATTTTTAAAGTTTCAGCGCCTCTGATACGTTGAGGATTTAAAG
1 ACCTCAGG-CAAAAAATTTTAAATTTTTAAAGTTTCAACGACTCTGATACGGGGAGCATTCAAAG
*
17394228 ATTTTTAAGACTACCATGCATAATTTCCAAA
65 ATTTTTAAGACTACCAAGCATAATTTCCAAA
** * * * **
17394259 ACCTTTGGGCAAAAAGTTTTAAAATTTTAAAGTTTCAA-TACCTCTGATACAAGGAGCATTCAAA
1 ACC-TCAGGCAAAAAATTTTAAATTTTTAAAGTTTCAACGA-CTCTGATACGGGGAGCATTCAAA
17394323 TATGTTGAGA
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
95 4 0.03
96 126 0.95
97 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (95 bp):
ACCTCAGGCAAAAAATTTTAAATTTTTAAAGTTTCAACGACTCTGATACGGGGAGCATTCAAAGA
TTTTTAAGACTACCAAGCATAATTTCCAAA
Found at i:17395309 original size:146 final size:145
Alignment explanation
Indices: 17394909--17395599 Score: 690
Period size: 146 Copynumber: 4.7 Consensus size: 145
17394899 GGAGAAGTAC
* * * * * *
17394909 AAAATTACTAAAATACCCCTACAAGGGATATTTTCGTAAATTGACCTTTTTGAGTTTTAATTTTT
1 AAAATTACCAAAATACCCCTATAAGGG-TATTTTCGTAAATTGACCTTTTCGAGCTTGAATTTTC
** * * *
17394974 ATGAAACTTTTTTGGATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCATAGT
65 ATGAAAC-TTTTCAGATCTTAATTTTATAATATTTCATAATTTTTGGTGCATTTGAAATCATAGC
* * *
17395039 TGTACCTCGAAAAGTAT
129 AGTACCCCGAAAAATAT
* * * * * * * * * *
17395056 GAAATTACTAAAATATCGCTATAAGGGTATTTTCATAATTTAACTTTTTCAAGC-TCAGATTTTC
1 AAAATTACCAAAATACCCCTATAAGGGTATTTTCGTAAATTGACCTTTTCGAGCTTGA-ATTTTC
* * * *
17395120 ATGAAACTTTTCAAATATTAATTTCATAATATTTCATTATTTTTGGTGCATTTGAAATCATAGCA
65 ATGAAACTTTTCAGATCTTAATTTTATAATATTTCATAATTTTTGGTGCATTTGAAATCATAGCA
*
17395185 GTGCCCCGAAAAATAT
130 GTACCCCGAAAAATAT
* * **
17395201 AAAATTACCAAAATACCCCTATAAGGGAGATTTTCGTAAATTGACATTCCCGAGCTTGAATTTTC
1 AAAATTACCAAAATACCCCTATAAGGG-TATTTTCGTAAATTGACCTTTTCGAGCTTGAATTTTC
* * * * *
17395266 ATGAAACTTTTCATATCTTAATTTCATAATATTTTATTATTTTTGGTGCATTTGAAATGATAGTC
65 ATGAAACTTTTCAGATCTTAATTTTATAATATTTCATAATTTTTGGTGCATTTGAAATCATAG-C
** * *
17395331 -GTACCTTGAAAAGTGT
129 AGTACCCCGAAAAATAT
* * * * *
17395347 GAAATTATCAAAATACCCCTATAAGGGTATTTTCGTAAA-TGACTTTTTTGAGCTTGGATTTTCA
1 AAAATTACCAAAATACCCCTATAAGGGTATTTTCGTAAATTGACCTTTTCGAGCTTGAATTTTCA
* * *
17395411 TGAAACTTTTCAGATATTAATTTTATAATATTTCATAATTTTTGGTGTATTTGAAATCATAGCAA
66 TGAAACTTTTCAGATCTTAATTTTATAATATTTCATAATTTTTGGTGCATTTGAAATCATAGCAG
*
17395476 TACCCCCAAAAA-ATT
131 TACCCCGAAAAATA-T
* * * * * *** * *
17395491 GAAAATGACCAAAATACCTCTTTAAGGGTATTTTCATAATTTGACCTTCAAGAGCTCGGATTTTC
1 -AAAATTACCAAAATACCCCTATAAGGGTATTTTCGTAAATTGACCTTTTCGAGCTTGAATTTTC
* * * *
17395556 ATGAAACTTCTT-AGATCTCAGTTTTATAGTATTTTATAATTTTT
65 ATGAAACTT-TTCAGATCTTAATTTTATAATATTTCATAATTTTT
17395600 TGTGTTTTAA
Statistics
Matches: 450, Mismatches: 85, Indels: 19
0.81 0.15 0.03
Matches are distributed among these distances:
143 1 0.00
144 84 0.19
145 130 0.29
146 207 0.46
147 28 0.06
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (145 bp):
AAAATTACCAAAATACCCCTATAAGGGTATTTTCGTAAATTGACCTTTTCGAGCTTGAATTTTCA
TGAAACTTTTCAGATCTTAATTTTATAATATTTCATAATTTTTGGTGCATTTGAAATCATAGCAG
TACCCCGAAAAATAT
Found at i:17395468 original size:290 final size:291
Alignment explanation
Indices: 17394909--17395599 Score: 852
Period size: 290 Copynumber: 2.4 Consensus size: 291
17394899 GGAGAAGTAC
* * *** * * *
17394909 AAAATTACTAAAATACCCCTACAAGGGATATTTTCGTAAATTGACCTTTTTGAGTTTTAATTTTT
1 AAAATTACCAAAATACCCCTATAAGGGATATTTTCGTAAATTGACCTTCAAGAGCTTGAATTTTC
* * *
17394974 ATGAAACTTTTTTGGATCTTAATTTTATAATATTTCATGATTTTTGATGCATTTGAAATCATAGT
66 ATGAAACTTTTAT--ATCTTAATTTTATAATATTTTATAATTTTTGATGCATTTGAAATCATAGT
* * * *
17395039 TGTACCTCGAAAAGTATGAAATTACTAAAATATCGCTATAAGGGTATTTTCATAATTTAACTTTT
129 CGTACCTCGAAAAGTATGAAATTACTAAAATACCCCTATAAGGGTATTTTCATAATATAACTTTT
*
17395104 TCAAGCTCAGATTTTCATGAAACTTTTCAAATATTAATTTCATAATATTTCATTATTTTTGGTGC
194 TCAAGCTCAGATTTTCATGAAACTTTTCAAATATTAATTTCATAATATTTCATAATTTTTGGTGC
* * *
17395169 ATTTGAAATCATAGCAGT-GCCCCGAAAAATAT-
259 ATTTGAAATCATAGCAATACCCCCAAAAAAT-TG
* * **
17395201 AAAATTACCAAAATACCCCTATAAGGGAGATTTTCGTAAATTGACATTCCCGAGCTTGAATTTTC
1 AAAATTACCAAAATACCCCTATAAGGGATATTTTCGTAAATTGACCTTCAAGAGCTTGAATTTTC
* * * *
17395266 ATGAAACTTTTCATATCTTAATTTCATAATATTTTATTATTTTTGGTGCATTTGAAATGATAGTC
66 ATGAAACTTTT-ATATCTTAATTTTATAATATTTTATAATTTTTGATGCATTTGAAATCATAGTC
* * * *
17395331 GTACCTTGAAAAGTGTGAAATTA-TCAAAATACCCCTATAAGGGTATTTTCGTAA-ATGACTTTT
130 GTACCTCGAAAAGTATGAAATTACT-AAAATACCCCTATAAGGGTATTTTCATAATATAACTTTT
** ** * * *
17395394 TTGAGCTTGGATTTTCATGAAACTTTTCAGATATTAATTTTATAATATTTCATAATTTTTGGTGT
194 TCAAGCTCAGATTTTCATGAAACTTTTCAAATATTAATTTCATAATATTTCATAATTTTTGGTGC
17395459 ATTTGAAATCATAGCAATACCCCCAAAAAATTG
259 ATTTGAAATCATAGCAATACCCCCAAAAAATTG
* * * * * * *
17395492 AAAATGACCAAAATACCTCTTTAAGGG-TATTTTCATAATTTGACCTTCAAGAGCTCGGATTTTC
1 AAAATTACCAAAATACCCCTATAAGGGATATTTTCGTAAATTGACCTTCAAGAGCTTGAATTTTC
* * * *
17395556 ATGAAACTTCTTAGATCTCAGTTTTATAGTATTTTATAATTTTT
66 ATGAAACTT-TTATATCTTAATTTTATAATATTTTATAATTTTT
17395600 TGTGTTTTAA
Statistics
Matches: 342, Mismatches: 52, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
290 147 0.43
291 128 0.37
292 66 0.19
293 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (291 bp):
AAAATTACCAAAATACCCCTATAAGGGATATTTTCGTAAATTGACCTTCAAGAGCTTGAATTTTC
ATGAAACTTTTATATCTTAATTTTATAATATTTTATAATTTTTGATGCATTTGAAATCATAGTCG
TACCTCGAAAAGTATGAAATTACTAAAATACCCCTATAAGGGTATTTTCATAATATAACTTTTTC
AAGCTCAGATTTTCATGAAACTTTTCAAATATTAATTTCATAATATTTCATAATTTTTGGTGCAT
TTGAAATCATAGCAATACCCCCAAAAAATTG
Found at i:17395642 original size:109 final size:108
Alignment explanation
Indices: 17395513--17395730 Score: 321
Period size: 109 Copynumber: 2.0 Consensus size: 108
17395503 AATACCTCTT
* * * *
17395513 TAAGGGTATTTTCATAATTTGACCTTCAAGAGCTCGGATTTTCATGAAACTTCTT-AGATCTCAG
1 TAAGGGTATTTTCATAATTTGACCTTCAAGAGCTCGAATTTTCATAAAACTT-TTCAAATCTCAA
* *
17395577 TTTTATAGTATTTTATAATTTTTTGTGTTTTAAAATCTCAAAAAA
65 TTTTAAAATATTTTATAATTTTTTGTGTTTTAAAATCT-AAAAAA
** *
17395622 TAAGGGTATTTTTGTAATTTGACCTTCACGAGCTCGAATTTTCATAAAACTTTTCAAATCTCAAT
1 TAAGGGTATTTTCATAATTTGACCTTCAAGAGCTCGAATTTTCATAAAACTTTTCAAATCTCAAT
*
17395687 TTTAAAATATTTTATGATTTTTTGTGTTTTAAAATCTAAAAAA
66 TTTAAAATATTTTATAATTTTTTGTGTTTTAAAATCTAAAAAA
17395730 T
1 T
17395731 GAGCATGAGA
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 9 0.09
109 89 0.91
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (108 bp):
TAAGGGTATTTTCATAATTTGACCTTCAAGAGCTCGAATTTTCATAAAACTTTTCAAATCTCAAT
TTTAAAATATTTTATAATTTTTTGTGTTTTAAAATCTAAAAAA
Found at i:17396288 original size:27 final size:28
Alignment explanation
Indices: 17396232--17396297 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
17396222 AGTTAAACAC
* *
17396232 AAAAAAGGGGAGGGAAAGAAATTGCAAA
1 AAAAAAGGGGAGAGAAAGAAACTGCAAA
* *
17396260 AAAAAAGGGGAGAGAAATAAGCTGCAAA
1 AAAAAAGGGGAGAGAAAGAAACTGCAAA
*
17396288 AAAAAGGGGG
1 AAAAAAGGGG
17396298 GAAAAGTCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.56, C:0.05, G:0.33, T:0.06
Consensus pattern (28 bp):
AAAAAAGGGGAGAGAAAGAAACTGCAAA
Found at i:17396447 original size:24 final size:24
Alignment explanation
Indices: 17396399--17396449 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
17396389 AAATAAGAAA
*
17396399 AAGTTGCCAAATGGAAGAAGAAGG
1 AAGTTGCCAAATAGAAGAAGAAGG
*
17396423 AAGTTGCCAAA-AGAGGAAGAGAGG
1 AAGTTGCCAAATAGAAGAAGA-AGG
17396447 AAG
1 AAG
17396450 CAAGCCCAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.47, C:0.08, G:0.35, T:0.10
Consensus pattern (24 bp):
AAGTTGCCAAATAGAAGAAGAAGG
Found at i:17399462 original size:122 final size:122
Alignment explanation
Indices: 17399272--17399516 Score: 463
Period size: 122 Copynumber: 2.0 Consensus size: 122
17399262 TAATTTGTTT
* *
17399272 ATCCTTATGTGGACACCTATGGTTAAGGTTGGAGACTGAATTTTTCATGGAACACTAGTCTAAGG
1 ATCCTTATGTGGACACCTATGGTCAAGATTGGAGACTGAATTTTTCATGGAACACTAGTCTAAGG
*
17399337 CAGTATTCAAATGCAAGACTTATATGCCCACCTAGTTATCCTACTTAGCCTCCCATG
66 CAGTATTCAAATGCAAGACTTATATACCCACCTAGTTATCCTACTTAGCCTCCCATG
17399394 ATCCTTATGTGGACACCTATGGTCAAGATTGGAGACTGAATTTTTCATGGAACACTAGTCTAAGG
1 ATCCTTATGTGGACACCTATGGTCAAGATTGGAGACTGAATTTTTCATGGAACACTAGTCTAAGG
17399459 CAGTATTCAAATGCAAGACTTATATACCCACCTAGTTATCCTACTTAGCCTCCCATG
66 CAGTATTCAAATGCAAGACTTATATACCCACCTAGTTATCCTACTTAGCCTCCCATG
17399516 A
1 A
17399517 CATTATCCTA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (122 bp):
ATCCTTATGTGGACACCTATGGTCAAGATTGGAGACTGAATTTTTCATGGAACACTAGTCTAAGG
CAGTATTCAAATGCAAGACTTATATACCCACCTAGTTATCCTACTTAGCCTCCCATG
Found at i:17402783 original size:18 final size:18
Alignment explanation
Indices: 17402760--17402794 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17402750 TCTTTACAAG
17402760 ATACAATCCCTATCTTAT
1 ATACAATCCCTATCTTAT
*
17402778 ATACAATTCCTATCTTA
1 ATACAATCCCTATCTTA
17402795 GCAAGGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (18 bp):
ATACAATCCCTATCTTAT
Found at i:17410825 original size:25 final size:26
Alignment explanation
Indices: 17410762--17410825 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
17410752 TGCCTACAAT
*
17410762 ATAAAGACCATTTACATGAATAACAC
1 ATAAAGAACATTTACATGAATAACAC
17410788 ATAAAGAACATTTACATGAATAACAC
1 ATAAAGAACATTTACATGAATAACAC
17410814 AT-AAGAACATTT
1 ATAAAGAACATTT
17410826 CCATAGACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 10 0.27
26 27 0.73
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.25
Consensus pattern (26 bp):
ATAAAGAACATTTACATGAATAACAC
Found at i:17419319 original size:19 final size:19
Alignment explanation
Indices: 17419295--17419332 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17419285 AATAACATAT
17419295 TTCATTTAAG-ATCAAATTG
1 TTCA-TTAAGCATCAAATTG
*
17419314 TTCATTATGCATCAAATTG
1 TTCATTAAGCATCAAATTG
17419333 AAATCACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (19 bp):
TTCATTAAGCATCAAATTG
Found at i:17425099 original size:19 final size:19
Alignment explanation
Indices: 17425071--17425109 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17425061 TTTGAATTAG
*
17425071 AAAATAAAATTAATATATT
1 AAAATAAAATGAATATATT
* *
17425090 AAAATCAAATGATTATATT
1 AAAATAAAATGAATATATT
17425109 A
1 A
17425110 TATATAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAATAAAATGAATATATT
Found at i:17426171 original size:52 final size:52
Alignment explanation
Indices: 17426085--17426189 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
17426075 TGGAAAAGAA
* *
17426085 GACTTGTAAAAGAAGAATTTTAAGAGAAAGAAGATTATTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTATTAATAGGTAAGTTT
* *
17426137 GACTTGCAAGAGAAGAATTCTAAGAGGAAA-AAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAAGATTATTAATAGGTAAGTTT
17426189 G
1 G
17426190 TATAGTTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 44 0.92
53 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.29
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTATTAATAGGTAAGTTT
Found at i:17427071 original size:52 final size:52
Alignment explanation
Indices: 17426985--17427088 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
17426975 GGACAAGAAA
* * *
17426985 ACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATATGTAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAAAGAAAGAGGATTCTTAATAGGCAAGTTTG
** *
17427037 ACTTGCAGGAGAAGAATTCTAAAAGGAAA-TGGATTCTTAATAGGCAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAAA-GAAAGAGGATTCTTAATAGGCAAGTTTG
17427089 TATGGTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (52 bp):
ACTTGCAAAAGAAGAATTCTAAAAGAAAGAGGATTCTTAATAGGCAAGTTTG
Found at i:17427492 original size:12 final size:12
Alignment explanation
Indices: 17427475--17427504 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
17427465 TCTTGTGTGA
17427475 TTGATTGATCGT
1 TTGATTGATCGT
17427487 TTGATTGATCGT
1 TTGATTGATCGT
17427499 TTGATT
1 TTGATT
17427505 TTGCTTCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.23, T:0.53
Consensus pattern (12 bp):
TTGATTGATCGT
Found at i:17431638 original size:30 final size:30
Alignment explanation
Indices: 17431604--17431665 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
17431594 AGTGAAAAAG
17431604 TTTAACAATAAAAGATAACTTTGAATATTT
1 TTTAACAATAAAAGATAACTTTGAATATTT
17431634 TTTAACAATAAAAGATAACTTTGAATATTT
1 TTTAACAATAAAAGATAACTTTGAATATTT
17431664 TT
1 TT
17431666 CATACAAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (30 bp):
TTTAACAATAAAAGATAACTTTGAATATTT
Found at i:17432760 original size:7 final size:7
Alignment explanation
Indices: 17432750--17432774 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17432740 AAGGTTTCAT
17432750 GTTTGGG
1 GTTTGGG
17432757 GTTTGGG
1 GTTTGGG
17432764 GTTTGGG
1 GTTTGGG
17432771 GTTT
1 GTTT
17432775 CAAGATAGAA
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:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (7 bp):
GTTTGGG
Found at i:17445883 original size:22 final size:22
Alignment explanation
Indices: 17445841--17445882 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
17445831 TATACTAAGT
**
17445841 TTTTTCATTTTTTACCATTTTC
1 TTTTTCATTTTTTAAAATTTTC
17445863 TTTTTC-TTTTTTAAAATTTT
1 TTTTTCATTTTTTAAAATTTT
17445883 TAATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTCATTTTTTAAAATTTTC
Found at i:17446671 original size:44 final size:43
Alignment explanation
Indices: 17446615--17446700 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
17446605 TCAAAAAGAG
* *
17446615 AAAATAGTTTTTGTTGAAAAGATAACATTTCTAAGATAAAAAA
1 AAAATAGTTTTTGTTAAAAAGATAACATTTCTAAAATAAAAAA
* ** *
17446658 AAAATTGTCTTTTGTTAAAAAGATGGCATTTTTAAAATAAAAA
1 AAAATAGT-TTTTGTTAAAAAGATAACATTTCTAAAATAAAAA
17446701 CACAGTCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 7 0.19
44 29 0.81
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (43 bp):
AAAATAGTTTTTGTTAAAAAGATAACATTTCTAAAATAAAAAA
Found at i:17447334 original size:22 final size:20
Alignment explanation
Indices: 17447294--17447339 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
17447284 TTTCCTTTTT
17447294 TAATATTTAATAAATATTAC
1 TAATATTTAATAAATATTAC
*
17447314 TAATATTTGAATTTAATATTAC
1 TAATATTT-AA-TAAATATTAC
17447336 TAAT
1 TAAT
17447340 TTCAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 13 0.57
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATATTTAATAAATATTAC
Found at i:17447453 original size:28 final size:26
Alignment explanation
Indices: 17447421--17447480 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
17447411 CACATTTAGA
* * *
17447421 TTTAATATTTTTTTATCCTTTTTTGTTT
1 TTTAAAATTTTTTTA--CATTTTTATTT
17447449 TTTAAAATTTTTTTACATTTTTATTT
1 TTTAAAATTTTTTTACATTTTTATTT
17447475 TTTAAA
1 TTTAAA
17447481 TCTATATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.52
28 14 0.48
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTAAAATTTTTTTACATTTTTATTT
Found at i:17447800 original size:19 final size:18
Alignment explanation
Indices: 17447778--17447813 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
17447768 TTTTTCAATC
17447778 TTTTCTTTTTTAGTTTTTG
1 TTTTCTTTTTT-GTTTTTG
17447797 TTTTCTTTTTTGTTTTT
1 TTTTCTTTTTTGTTTTT
17447814 CTTACCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.03, C:0.06, G:0.08, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTTGTTTTTG
Found at i:17448704 original size:17 final size:17
Alignment explanation
Indices: 17448682--17448735 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
17448672 ACGTGGCACC
*
17448682 TTCATTTTAATTTTTTT
1 TTCATTTTTATTTTTTT
* *
17448699 TTCATTTTTCTTACTTTT
1 TTCATTTTTATT-TTTTT
*
17448717 TTCCTTTTTATTTTTTT
1 TTCATTTTTATTTTTTT
17448734 TT
1 TT
17448736 TAATTTCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCATTTTTATTTTTTT
Found at i:17448734 original size:18 final size:18
Alignment explanation
Indices: 17448682--17448741 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
17448672 ACGTGGCACC
*
17448682 TTCA-TTTTAATTTTTTT
1 TTCATTTTTATTTTTTTT
* **
17448699 TTCATTTTTCTTACTTTT
1 TTCATTTTTATTTTTTTT
*
17448717 TTCCTTTTTATTTTTTTT
1 TTCATTTTTATTTTTTTT
*
17448735 TTAATTT
1 TTCATTT
17448742 CATCTTTTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
17 4 0.12
18 28 0.88
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCATTTTTATTTTTTTT
Found at i:17448903 original size:16 final size:16
Alignment explanation
Indices: 17448852--17448906 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
17448842 TTTCATTTGG
17448852 TTTTTTTTTTTTG-CA
1 TTTTTTTTTTTTGTCA
*
17448867 CTTTTTTTTTTGTTTTC-
1 -TTTTTTTTTT-TTGTCA
*
17448884 TTTTTATTTTTTGTCA
1 TTTTTTTTTTTTGTCA
17448900 TTTTTTT
1 TTTTTTT
17448907 AATTAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 4 0.12
16 25 0.78
17 2 0.06
18 1 0.03
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTTTTTTTTTTGTCA
Found at i:17455187 original size:7 final size:7
Alignment explanation
Indices: 17455175--17455208 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
17455165 ATAGTTTATG
17455175 TAATAAC
1 TAATAAC
17455182 TAATAAC
1 TAATAAC
17455189 TAATAAC
1 TAATAAC
17455196 TAATAAC
1 TAATAAC
17455203 TAATAA
1 TAATAA
17455209 TTTATGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (7 bp):
TAATAAC
Found at i:17456264 original size:13 final size:12
Alignment explanation
Indices: 17456246--17456286 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
17456236 AGGGAAAAAG
17456246 AAGAAAATAACTA
1 AAGAAAA-AACTA
17456259 AAG--AAAACTA
1 AAGAAAAAACTA
*
17456269 AAAAAAAAACTA
1 AAGAAAAAACTA
17456281 AAGAAA
1 AAGAAA
17456287 GAAAAATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 12 0.50
13 3 0.12
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (12 bp):
AAGAAAAAACTA
Found at i:17456264 original size:22 final size:22
Alignment explanation
Indices: 17456239--17456286 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
17456229 AGTCGAAAGG
* *
17456239 GAAAAAGAAGAAAATAACTAAA
1 GAAAAAGAAAAAAAAAACTAAA
**
17456261 GAAAACTAAAAAAAAAACTAAA
1 GAAAAAGAAAAAAAAAACTAAA
17456283 GAAA
1 GAAA
17456287 GAAAAATGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.75, C:0.06, G:0.10, T:0.08
Consensus pattern (22 bp):
GAAAAAGAAAAAAAAAACTAAA
Found at i:17472145 original size:666 final size:666
Alignment explanation
Indices: 17470874--17472202 Score: 2622
Period size: 666 Copynumber: 2.0 Consensus size: 666
17470864 CAAACTAAGA
17470874 TACTATGTGATGAAAGGATATTAATTATATACAAAGACCATTCACGGATAGGTTATCAAGCCACA
1 TACTATGTGATGAAAGGATATTAATTATATACAAAGACCATTCACGGATAGGTTATCAAGCCACA
17470939 TTGACTTTTCTTTAGCAATTAGGGGTCATGGCAATGAAGCTAGCATTGATCATGATTTATAAACA
66 TTGACTTTTCTTTAGCAATTAGGGGTCATGGCAATGAAGCTAGCATTGATCATGATTTATAAACA
17471004 TAAGATTGGCTAATTGGAGAAATGGTGATGAAGACAAAATGTTTGTTTAACCCATAGTCGAATAC
131 TAAGATTGGCTAATTGGAGAAATGGTGATGAAGACAAAATGTTTGTTTAACCCATAGTCGAATAC
17471069 TAAGGCTTACAATGCTTGTGTTTATTGCCAACATGCTATAGAATCAAATGGGTCACACATAATAA
196 TAAGGCTTACAATGCTTGTGTTTATTGCCAACATGCTATAGAATCAAATGGGTCACACATAATAA
*
17471134 GACAATTATAAAGGATTAAAATTGGGTCAAATAAGTTAGATTTAATTTGATTTTGGAATGATCAA
261 GACAATTATAAAGGATTAAAATTGGGTCAAATAAGTTAGACTTAATTTGATTTTGGAATGATCAA
17471199 AAATTAGAGGAAATAAAAACAAGAAAAAGAGTTTCCTTTGTTTGGTACATTTAGCTAGCATAGAG
326 AAATTAGAGGAAATAAAAACAAGAAAAAGAGTTTCCTTTGTTTGGTACATTTAGCTAGCATAGAG
17471264 TTAATTATGAAAATTTGTATTTCAAGTATTAAACCTGATATGGCTGAATGCATCCATTATAAAAA
391 TTAATTATGAAAATTTGTATTTCAAGTATTAAACCTGATATGGCTGAATGCATCCATTATAAAAA
17471329 GAACATCAAGCCACCCCATTATGGATAGAGTAATAAAAATAAGAAAAGAAGTTTCACTCAAGAAA
456 GAACATCAAGCCACCCCATTATGGATAGAGTAATAAAAATAAGAAAAGAAGTTTCACTCAAGAAA
17471394 TACAAGAGGTCTTACAAGCACTTACTAGTTATAATTTGGCTTTGAGTTTACCAAACCTTAAAGAA
521 TACAAGAGGTCTTACAAGCACTTACTAGTTATAATTTGGCTTTGAGTTTACCAAACCTTAAAGAA
17471459 AGTTCTCTCACAAAAGTTTGTGTGGATCACCATTAGAGGCTAAACACTTAGGTAGCTTCTTGGCT
586 AGTTCTCTCACAAAAGTTTGTGTGGATCACCATTAGAGGCTAAACACTTAGGTAGCTTCTTGGCT
17471524 TGAGTCTACTTGAGTC
651 TGAGTCTACTTGAGTC
17471540 TACTATGTGATGAAAGGATATTAATTATATACAAAGACCATTCACGGATAGGTTATCAAGCCACA
1 TACTATGTGATGAAAGGATATTAATTATATACAAAGACCATTCACGGATAGGTTATCAAGCCACA
17471605 TTGACTTTTCTTTAGCAATTAGGGGTCATGGCAATGAAGCTAGCATTGATCATGATTTATAAACA
66 TTGACTTTTCTTTAGCAATTAGGGGTCATGGCAATGAAGCTAGCATTGATCATGATTTATAAACA
17471670 TAAGATTGGCTAATTGGAGAAATGGTGATGAAGACAAAATGTTTGTTTAACCCATAGTCGAATAC
131 TAAGATTGGCTAATTGGAGAAATGGTGATGAAGACAAAATGTTTGTTTAACCCATAGTCGAATAC
*
17471735 TAAGGCTTACAATGCTTGTGTTTATTGCCAACATGCTATAGAATTAAATGGGTCACACATAATAA
196 TAAGGCTTACAATGCTTGTGTTTATTGCCAACATGCTATAGAATCAAATGGGTCACACATAATAA
17471800 GACAATTATAAAGGATTAAAATTGGGTCAAATAAGTTAGACTTAATTTGATTTTGGAATGATCAA
261 GACAATTATAAAGGATTAAAATTGGGTCAAATAAGTTAGACTTAATTTGATTTTGGAATGATCAA
17471865 AAATTAGAGGAAATAAAAACAAGAAAAAGAGTTTCCTTTGTTTGGTACATTTAGCTAGCATAGAG
326 AAATTAGAGGAAATAAAAACAAGAAAAAGAGTTTCCTTTGTTTGGTACATTTAGCTAGCATAGAG
*
17471930 TTAATTATGAAAATTTGTATTTCAAGTATTAAACCTGATATGGCTGAATTCATCCATTATAAAAA
391 TTAATTATGAAAATTTGTATTTCAAGTATTAAACCTGATATGGCTGAATGCATCCATTATAAAAA
*
17471995 GAACATCAAGCCACCTCATTATGGATAGAGTAATAAAAATAAGAAAAGAAGTTTCACTCAAGAAA
456 GAACATCAAGCCACCCCATTATGGATAGAGTAATAAAAATAAGAAAAGAAGTTTCACTCAAGAAA
17472060 TACAAGAGGTCTTACAAGCACTTACTAGTTATAATTTGGCTTTGAGTTTACCAAACCTTAAAGAA
521 TACAAGAGGTCTTACAAGCACTTACTAGTTATAATTTGGCTTTGAGTTTACCAAACCTTAAAGAA
17472125 AGTTCTCTCACAAAAGTTTGTGTGGATCACCATTAGAGGCTAAACACTTAGGTAGCTTCTTGGCT
586 AGTTCTCTCACAAAAGTTTGTGTGGATCACCATTAGAGGCTAAACACTTAGGTAGCTTCTTGGCT
17472190 TGAGTCTACTTGA
651 TGAGTCTACTTGA
17472203 AAGATCACCA
Statistics
Matches: 659, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
666 659 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (666 bp):
TACTATGTGATGAAAGGATATTAATTATATACAAAGACCATTCACGGATAGGTTATCAAGCCACA
TTGACTTTTCTTTAGCAATTAGGGGTCATGGCAATGAAGCTAGCATTGATCATGATTTATAAACA
TAAGATTGGCTAATTGGAGAAATGGTGATGAAGACAAAATGTTTGTTTAACCCATAGTCGAATAC
TAAGGCTTACAATGCTTGTGTTTATTGCCAACATGCTATAGAATCAAATGGGTCACACATAATAA
GACAATTATAAAGGATTAAAATTGGGTCAAATAAGTTAGACTTAATTTGATTTTGGAATGATCAA
AAATTAGAGGAAATAAAAACAAGAAAAAGAGTTTCCTTTGTTTGGTACATTTAGCTAGCATAGAG
TTAATTATGAAAATTTGTATTTCAAGTATTAAACCTGATATGGCTGAATGCATCCATTATAAAAA
GAACATCAAGCCACCCCATTATGGATAGAGTAATAAAAATAAGAAAAGAAGTTTCACTCAAGAAA
TACAAGAGGTCTTACAAGCACTTACTAGTTATAATTTGGCTTTGAGTTTACCAAACCTTAAAGAA
AGTTCTCTCACAAAAGTTTGTGTGGATCACCATTAGAGGCTAAACACTTAGGTAGCTTCTTGGCT
TGAGTCTACTTGAGTC
Found at i:17473816 original size:5 final size:5
Alignment explanation
Indices: 17473806--17473837 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
17473796 CAAAAGCTTA
*
17473806 AAGAG AAGAG AAGAG AAGAG AAAAG AAGAG AA
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AA
17473838 AGAGTTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:17483578 original size:17 final size:17
Alignment explanation
Indices: 17483556--17483594 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
17483546 TAAGCTCATT
17483556 AAGCTTGTATACCTTCA
1 AAGCTTGTATACCTTCA
17483573 AAGCTTGTATACCTTCA
1 AAGCTTGTATACCTTCA
17483590 AAGCT
1 AAGCT
17483595 CTCTTAGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (17 bp):
AAGCTTGTATACCTTCA
Found at i:17489857 original size:477 final size:473
Alignment explanation
Indices: 17488859--17491001 Score: 1255
Period size: 477 Copynumber: 4.5 Consensus size: 473
17488849 AAATTCCTCC
* *** *
17488859 ATCATAAAAAT-TTATGTTCTTTTCATGAAA-AACCAACCAAAATAGGCAGTTCCCATTAGGATA
1 ATCATAAAAATCTT-TGTTCTTTTCAT-AAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATA
* **
17488922 CATGATATTGTT-ACCTCATTTA-CAAAAAAAGGCATTTCTCCATTTCATTTTATTTGGTTTCAA
64 CATGATATAGTTGATTTCATTTACCAAAAAAA-GCATTTCTCCATTTCATTTTATTTGGTTTCAA
* * * * * *
17488985 AGTTAGTCCT-TCCACT-TGGTCAAACTTCCTCCATCATAAAAATCTA-AGTTCTTTTAATG-AA
128 AGAT-GTCCTAT-AACTCT-ATAAAACTTCCTCCATTATAAAAATCTATA-TTCTTTTCATGAAA
* * * *
17489046 AAACCAACAAAAATAGATACTTACCATTTGGATACA-TATATTGTTGCATTTGTTTACCAAAAAA
189 AAACAAAC-AAAATAGAGAGTT-CCATTAGGATACACTATATTGTTGC-TTTGTTTA-CAAAAAA
* * ** * * *
17489110 TCATTTCTCCAATTTATTTTGTTATATTTCCAAGTTGGTCCTTCAACTTGGTTAAACTTTCTCTA
250 ACATTTCTCCAATTTATTTTGTTATATTTCAAAGTCAGTCCTTCAACTTGGTCAAACTTCCTCCA
* * * * *** ** *
17489175 TCATAAAAATCTATTTTCTTTTCTCAAAAAACCAAGCAAAATAAATGGTTTTTATTTTGATACAT
315 TCATAAAAAACTAGTTTCTTTTCACAAAAAACCAAGCAAAATAAATAGTTCCCATTAGGATACAC
* *
17489240 GATATTGTTGCTTTTGTTTACAAAAAAACCATTTTTCCTTTTCATTTTTTTTTTTGGTTTCAAGG
380 GATATTGTTGCTTTTGTTTACAAAAAAACCAGTTTTCCCTTTCATTTTTTTTTTTGGTTTCAAGG
* * *
17489305 TTGGCCCTTCCATTCAATCAAGCTTCATGC
445 TTGGCACTTCCATTCAAACAA-CTTCATGA
* * * *
17489335 ATCATAAAAATCATT-TTCTATTCATGAAGAACAAAGCAAAATAAATAGTTCCCATTGGGATACA
1 ATCATAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATACA
* *
17489399 TGATATAGTTGTTTTCATTTACCAAAAAAAGCATTTCTCCTTTTCATTTTATTTGGTTTCAAAGA
66 TGATATAGTTGATTTCATTTACCAAAAAAAGCATTTCTCCATTTCATTTTATTTGGTTTCAAAGA
* * *
17489464 TGGTTCTATAACTCTATAAAACTTCCTTCATTATAAAAATCTATATTTTTTTCATGAAAAAACAA
131 T-GTCCTATAACTCTATAAAACTTCCTCCATTATAAAAATCTATATTCTTTTCATGAAAAAACAA
* *
17489529 ACAAAATAG-GAAGTTCCTATTGGGATACACTATATTGTTGCTTTCATTTGACAAAAAAACATTT
195 ACAAAATAGAG-AGTTCC-ATTAGGATACACTATATTGTTGCTTT-GTTT-ACAAAAAAACATTT
* * * * **
17489593 TTCC-TTTTCATTTTGTTATGTTTGAAAGTCAGTTTTTCAACTTGGTCAAACTTCCTCCATTC-T
256 CTCCAATTT-ATTTTGTTATATTTCAAAGTCAGTCCTTCAACTTGGTCAAACTTCCTCCA-TCAT
** * * **
17489656 AAAAAACTAGGTTT-TTTTCACGTAGAACTAAGCAAAATCGATAGTTCCCATTAGGATACACGAT
319 AAAAAACTA-GTTTCTTTTCACAAAAAACCAAGCAAAATAAATAGTTCCCATTAGGATACACGAT
* * * * *
17489720 ATTGTTGCTTTCAT-TTTCCAAAAAAACTAGTTTTCCCTTTCATTTTTTTTTCTTTTGTTTTAAT
383 ATTGTTGCTTT--TGTTTACAAAAAAACCAGTTTTCCCTTTCA-TTTTTTTT-TTTGGTTTCAAG
* * *
17489784 TTTGGTATTTCCATTCAAAC-A-TT-ATGA
444 GTTGGCACTTCCATTCAAACAACTTCATGA
**
17489811 ATTGTAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATACA
1 ATCATAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATACA
** * * * * * *
17489876 CAATATTA-TTGCTTTCGTTTACCAAAAAAAGCATTTCTCCCTTTCTTTTTGTTTGGTTTGAAAG
66 TGATA-TAGTTGATTTCATTTACCAAAAAAAGCATTTCTCCATTTCATTTTATTTGGTTTCAAAG
* * * * * *
17489940 ATGTCCTACAACTCTATAAGACTTCCTCCGTTGTAAAAATCTATGTTCTTGTCA--AAAACAACC
130 ATGTCCTATAACTCTATAAAACTTCCTCCATTATAAAAATCTATATTCTTTTCATGAAAA-AA-C
* * * * *
17490003 AAGCAAAGTAGAGAGTTCCCATTAGGAAACACAATATTGTTGCTTTTGTTTAACAAAAAAAAGTA
193 AAACAAAATAGAGAGTT-CCATTAGGATACACTATATTGTTGC-TTTGTTT-AC-AAAAAAA-CA
* * * * * * * * *
17490068 TTTCTCC-CTTTCATTTTATT-TGGTTTCATAGT-TGATCCTTCCACTCGGTCAAACTACCTCTA
253 TTTCTCCAATTT-ATTTTGTTAT-ATTTCAAAGTCAG-TCCTTCAACTTGGTCAAACTTCCTCCA
* ** * ** * * *
17490130 TCGTAAAAATTTA-TGGTCTTTTCATGAAGAATCAAGCAAAATAAATAGTTCCCATTGGGATACA
315 TCATAAAAAACTAGT-TTCTTTTCACAAAAAACCAAGCAAAATAAATAGTTCCCATTAGGATACA
* * * ** ** *
17490194 CAATATTATTCCTTTCATTTACCAAAAAATGCA--TTT--C-TT-AGTTTTATTTTATTTGATTT
379 CGATATTGTTGCTTTTGTTTA-CAAAAAAACCAGTTTTCCCTTTCA-TTTT-TTTT-TTTGGTTT
** * ** * **
17490253 CAAAATTGATC-CTTCCATTCAGTCAAACTTCCTCC
440 CAAGGTTG-GCACTTCCATTCAAAC-AACTTCATGA
* * * * * *
17490288 ATCAGAAAAATCTATATTCTTTTCATAAAGAACCAAGAAAAATAGATAGTTCCCATTAGGATACA
1 ATCATAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATACA
* * * ** * * * * * *
17490353 AGTTATTGTTTTTTTCATTTACCCAAAAAAGTATTTTTCCATTTCAATTTGTTTGGTTTCAAAGT
66 TGATATAGTTGATTTCATTTACCAAAAAAAGCATTTCTCCATTTCATTTTATTTGGTTTCAAAGA
* * * * ** ** *
17490418 TGGT-CTTTCAACT-TGGTCAAA-TTCCACCATCGTAAAAATCTA-AGTTCTTTTCATGAAGTAC
131 T-GTCCTAT-AACTCT-ATAAAACTTCCTCCATTATAAAAATCTATA-TTCTTTTCATGAAAAAA
* * * * * * * **
17490479 CAAGCAAAATAGATAGTTCCTATTAGGATAAACGACATTGTTGCTTTCATTTTCCAAAAAGGCAT
192 CAAACAAAATAGAGAGTTCC-ATTAGGATACACTATATTGTTGCTTT--GTTTACAAAAAAACAT
* ** * ** * * *** *
17490544 TTCTCTC-TTTTATTTTGTT-GGTTTGAAAGTTGGTCATTCCACTCAATCAAACTTCTTCCATCA
254 TTCTC-CAATTTATTTTGTTATATTTCAAAGTCAGTCCTTCAACTTGGTCAAACTTCCTCCATCA
* * *** * * * * ** *
17490607 T-AAAAATTA-TGTTCCTTTCACATTGAACCAAGTAAAATATATAGTTCCTATTGGGATTGATGA
318 TAAAAAACTAGT-TTCTTTTCACAAAAAACCAAGCAAAATAAATAGTTCCCATTAGGATACACGA
* *** ** * *
17490670 TATTGTTGCATCCATTTACCAAAAAAAAAAAATGTTTTTCCCTTTCA--TTTTATTAT-GTTTCG
382 TATTGTTGCTTTTGTTTA-C--AAAAAAACCA-G-TTTTCCCTTTCATTTTTTTTTTTGGTTTC-
** * *
17490732 AA-GTTGTTACTTCAACTTGTTCAAACTACTTCCAT--
441 AAGGTTGGCACTTC--C--ATTCAAACAACTT-CATGA
* * * ** * *
17490767 -T-GTAAAAATCTTTGGTCTTTTCATAAACAACCAAGCAAAATGGATAGTTCCTATTAGGATACA
1 ATCATAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATACA
** * * ** * * *
17490830 CAATATTGTTGCTTTTGTTTAACAAAAAAA-CATTTAT-CACTTTCATTTTGTTTGGTTTCAAAG
66 TGATATAGTTGATTTCATTTACCAAAAAAAGCATTTCTCCA-TTTCATTTTATTTGGTTTCAAAG
* * * * * *
17490893 TTGT-CTAT--CTGCTTGGTCAAACTTCCTCCGTTGTAAAAATCTATGTT-TTGTTCATGAAAAA
130 ATGTCCTATAACT-C-T-ATAAAACTTCCTCCATTATAAAAATCTATATTCTT-TTCATGAAAAA
* * * * * *
17490954 CCAAGCAAAATAGATAGCTCCTACTATGATACA-TGATATTGTTGCTTT
191 ACAAACAAAATAGAGAGTTCC-ATTAGGATACACT-ATATTGTTGCTTT
17491002 CATTACTAAA
Statistics
Matches: 1315, Mismatches: 273, Indels: 158
0.75 0.16 0.09
Matches are distributed among these distances:
472 7 0.01
473 90 0.07
474 39 0.03
475 91 0.07
476 337 0.26
477 527 0.40
478 164 0.12
479 19 0.01
480 30 0.02
481 8 0.01
482 2 0.00
483 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (473 bp):
ATCATAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATACA
TGATATAGTTGATTTCATTTACCAAAAAAAGCATTTCTCCATTTCATTTTATTTGGTTTCAAAGA
TGTCCTATAACTCTATAAAACTTCCTCCATTATAAAAATCTATATTCTTTTCATGAAAAAACAAA
CAAAATAGAGAGTTCCATTAGGATACACTATATTGTTGCTTTGTTTACAAAAAAACATTTCTCCA
ATTTATTTTGTTATATTTCAAAGTCAGTCCTTCAACTTGGTCAAACTTCCTCCATCATAAAAAAC
TAGTTTCTTTTCACAAAAAACCAAGCAAAATAAATAGTTCCCATTAGGATACACGATATTGTTGC
TTTTGTTTACAAAAAAACCAGTTTTCCCTTTCATTTTTTTTTTTGGTTTCAAGGTTGGCACTTCC
ATTCAAACAACTTCATGA
Found at i:17490437 original size:159 final size:159
Alignment explanation
Indices: 17488539--17492066 Score: 2087
Period size: 158 Copynumber: 22.1 Consensus size: 159
17488529 GCTAGAGATT
* * * * * * * *
17488539 ATAAAAATCTAAGTT-ATTCCATGAAGTACCAAGCAAAATAGATAGTTCCTAAT-GAGATA-AGT
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAG-GATACA-A
** * * *
17488601 GATATTGTTGCTTTTGTTTACTCTAAAAGAGCATTTTTCCTTTTCATTTTGTTTGG-TTCTAAAG
64 GATATTGTTGCTTTCATTTAC-CAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTC-AAAG
* * * * * * * *
17488665 TTAGTCATTCCACATGATCAAACTTCATCTATT
127 TTGGTCCTTCAACTTGGTCAAACTTCCTCCATC
* * ** * * * ** * * * * *
17488698 GTAAAAATCAAAATTGTTTTCA-AGATATACCAATAAAAATTGATAGTTTCCATTGGGATGCATG
1 ATAAAAATCTATGTTCTTTTCATAAAGA-ACCAAGCAAAATAGATAGTTCCCATTAGGATACAAG
* * * *
17488762 ATATTGTTGCTTTCCTTTACAAAAAAAAAAAAGCATTTCTCCCATTTCATTTTGTTTGGTTTAAA
65 ATATTGTTGCTTTCATTTAC----CAAAAAAAGCATTT-TTCCATTTCATTTTGTTTGGTTTCAA
* * *
17488827 AGTTGGTCCTTC-ATTTCGATCAAAATTCCTCCATC
125 AGTTGGTCCTTCAACTT-GGTCAAACTTCCTCCATC
* * ** *
17488862 ATAAAAATTTATGTTCTTTTCATGAAA-AACCAACCAAAATAGGCAGTTCCCATTAGGATACATG
1 ATAAAAATCTATGTTCTTTTCAT-AAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAG
* * * *
17488926 ATATTGTTAC-CTCATTTA-CAAAAAAAGGCATTTCTCCATTTCATTTTATTTGGTTTCAAAGTT
65 ATATTGTTGCTTTCATTTACCAAAAAAA-GCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTT
* *
17488989 AGTCCTTCCACTTGGTCAAACTTCCTCCATC
129 GGTCCTTCAACTTGGTCAAACTTCCTCCATC
* * * * *
17489020 ATAAAAATCTAAGTTCTTTTAATGAAA-AACCAA-CAAAAATAGATACTTACCATTTGGATAC-A
1 ATAAAAATCTATGTTCTTTTCAT-AAAGAACCAAGC-AAAATAGATAGTTCCCATTAGGATACAA
* * * * * *
17489082 TATATTGTTGCATTT-GTTTACC-AAAAAATCATTTCTCCAATTT-ATTTTGTTAT-ATTTCCAA
64 GATATTGTTGC-TTTCATTTACCAAAAAAAGCATTTTTCC-ATTTCATTTTGTT-TGGTTTCAAA
* * *
17489143 GTTGGTCCTTCAACTTGGTTAAACTTTCTCTATC
126 GTTGGTCCTTCAACTTGGTCAAACTTCCTCCATC
* * * * *** ** *
17489177 ATAAAAATCTATTTTCTTTTC-TCAAAAAACCAAGCAAAATAAATGGTTTTTATTTTGATACATG
1 ATAAAAATCTATGTTCTTTTCAT-AAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAG
** * * * *
17489241 ATATTGTTGCTTTTGTTTA-CAAAAAAACCATTTTTCCTTTTCATTTTTTTTTTTGGTTTCAAGG
65 ATATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCATTTCA---TTTTGTTTGGTTTCAAAG
* * ** * * *
17489305 TTGGCCCTTCCA-TTCAATCAAGCTTCATGCATC
127 TTGGTCCTTCAACTT-GGTCAAACTTCCTCCATC
* * * * * * *
17489338 ATAAAAATC-ATTTTCTATTCATGAAGAACAAAGCAAAATAAATAGTTCCCATTGGGATACATGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
* * * * * *
17489402 TATAGTTGTTTTCATTTACCAAAAAAAGCATTTCTCCTTTTCATTTTATTTGGTTTCAAAGATGG
66 TATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTTGG
* * * * *
17489467 TTCTAT-AACTCT-ATAAAACTTCCTTCATT
131 TCCT-TCAACT-TGGTCAAACTTCCTCCATC
* * * * * * *
17489496 ATAAAAATCTATATTTTTTTCATGAAA-AAACAAACAAAATAGGA-AGTTCCTATTGGGATACAC
1 ATAAAAATCTATGTTCTTTTCAT-AAAGAACCAAGCAAAATA-GATAGTTCCCATTAGGATACAA
* * *
17489559 TATATTGTTGCTTTCATTTGA-CAAAAAAA-CATTTTTCCTTTTCATTTTGTTAT-GTTTGAAAG
64 GATATTGTTGCTTTCATTT-ACCAAAAAAAGCATTTTTCCATTTCATTTTGTT-TGGTTTCAAAG
** **
17489621 TCAGTTTTTCAACTTGGTCAAACTTCCTCCATTC
127 TTGGTCCTTCAACTTGGTCAAACTTCCTCCA-TC
* * * *** * * *
17489655 -TAAAAAACTAGGTTTTTTTCACGTAGAACTAAGCAAAATCGATAGTTCCCATTAGGATACACGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
* * * * * *
17489719 TATTGTTGCTTTCATTTTCCAAAAAAA-CTAGTTTTCCCTTTCATTTTTTTTTCTTTTGTTTTAA
66 TATTGTTGCTTTCATTTACCAAAAAAAGC-ATTTTTCCATTTCA-----TTTTGTTTGGTTTCAA
** ** * * ** *
17489783 TTTTGGTATTTC--CAT--TCAAACATT-ATGAATT
125 AGTTGGTCCTTCAACTTGGTCAAAC-TTCCTCCATC
* * * *
17489814 GTAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTGGGATACACA-
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACA-AG
* * * * * * *
17489878 ATATTATTGCTTTCGTTTACCAAAAAAAGCATTTCTCCCTTTCTTTTTGTTTGGTTTGAAAGAT-
65 ATATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTTG
* * * *
17489942 GTCCTACAACTCT-AT-AAGACTTCCTCCGTT
130 GTCCTTCAACT-TGGTCAA-ACTTCCTCCATC
* * * * * * *
17489972 GTAAAAATCTATGTTCTTGTCAAAAACAACCAAGCAAAGTAGAGAGTTCCCATTAGGAAACACA-
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACA-AG
** * * * * * *
17490036 ATATTGTTGCTTTTGTTTAACAAAAAAAAGTATTTCTCCCTTTCATTTTATTTGGTTTCATAGTT
65 ATATTGTTGCTTTCATTT-ACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTT
* * * * *
17490101 GATCCTTCCACTCGGTCAAACTACCTCTATC
129 GGTCCTTCAACTTGGTCAAACTTCCTCCATC
* * * * * * *
17490132 GTAAAAATTTATGGTCTTTTCATGAAGAATCAAGCAAAATAAATAGTTCCCATTGGGATACACA-
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACA-AG
* * * * * * *
17490196 ATATTATTCCTTTCATTTACCAAAAAATGCATTTCTT--AGTTTTATTTTATTTGATTTCAAAAT
65 ATATTGTTGCTTTCATTTACCAAAAAAAGCATTT-TTCCA-TTTCATTTTGTTTGGTTTCAAAGT
* * *
17490259 TGATCCTTCCA-TTCAGTCAAACTTCCTCCATC
128 TGGTCCTTCAACTT-GGTCAAACTTCCTCCATC
* * * *
17490291 AGAAAAATCTATATTCTTTTCATAAAGAACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGT
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
** * * *
17490356 TATTGTTTTTTTCATTTACCCAAAAAAGTATTTTTCCATTTCAATTTGTTTGGTTTCAAAGTTGG
66 TATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTTGG
* *
17490421 TCTTTCAACTTGGTCAAA-TTCCACCATC
131 TCCTTCAACTTGGTCAAACTTCCTCCATC
* * * * *
17490449 GTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCTATTAGGATA-AACG
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAA-G
* * * * * *
17490513 ACATTGTTGCTTTCATTTTCC-AAAAAGGCATTTCTCTC-TTTTATTTTG-TTGGTTTGAAAGTT
65 ATATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTC-CATTTCATTTTGTTTGGTTTCAAAGTT
* * *** *
17490575 GGTCATTCCACTCAATCAAACTTCTTCCATC
129 GGTCCTTCAACTTGGTCAAACTTCCTCCATC
* * ** * * * * ** *
17490606 ATAAAAAT-TATGTTCCTTTCACATTGAACCAAGTAAAATATATAGTTCCTATTGGGATTGATGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
* * ** * * *
17490670 TATTGTTGCATCCATTTACCAAAAAAAAAAAATGTTTTTCCCTTTCATTTTATTAT-GTTTCGAA
66 TATTGTTGCTTTCATTTACC--AAAAAAAGCA--TTTTTCCATTTCATTTTGTT-TGGTTTCAAA
* * * * * *
17490734 GTTGTTACTTCAACTTGTTCAAACTACTTCCATT
126 GTTGGTCCTTCAACTTGGTCAAACTTCCTCCATC
* * * * * *
17490768 GTAAAAATCTTTGGTCTTTTCATAAACAACCAAGCAAAATGGATAGTTCCTATTAGGATACACA-
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACA-AG
** * *
17490832 ATATTGTTGCTTTTGTTTAACAAAAAAA-CATTTAT-CACTTTCATTTTGTTTGGTTTCAAAGTT
65 ATATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCA-TTTCATTTTGTTTGGTTTCAAAGTT
** * *
17490895 -GT-CTATCTGCTTGGTCAAACTTCCTCCGTT
129 GGTCCT-TCAACTTGGTCAAACTTCCTCCATC
* * * * * *
17490925 GTAAAAATCTATGTT-TTGTTCATGAAA-AACCAAGCAAAATAGATAGCTCCTACTATGATACAT
1 ATAAAAATCTATGTTCTT-TTCAT-AAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAA
* ** * * * *
17490988 GATATTGTTGCTTTCA-TTACTAAAAGGACCATTATTCCTTTTCATTGTT-TTT-GTTTCAAGGT
64 GATATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCATTTCATT-TTGTTTGGTTTCAAAGT
* * * * *
17491050 TGGTCTTTCCA-TTCGGTTAAACTTCATGCATC
128 TGGTCCTTCAACTT-GGTCAAACTTCCTCCATC
* * * * * ** * * *
17491082 ATAAAAATCTTTGTTC-TTTCATGAACAACCAAGCTAATTAGATAGTTCCTTTTGGGAAACATGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
* * * *
17491146 TA-T-TTGCTTTCATTTACAAAAAAAAAGAAAAAAAGTATTTCAACCTTTCATTTTGTTTGGTTT
66 TATTGTTGCTTTCATTTAC-CAAAAAAAG-----CA-TTTTTC--CATTTCATTTTGTTTGGTTT
* * * * * ** *
17491209 CAAAGATGGTCCTACAA-TTATGTAAAATTTTAT-CTTAC
122 CAAAGTTGGTCCTTCAACTT-GGTCAAACTTCCTCCAT-C
* * * * * * ** * * *
17491247 ATAAAAATTTATGTTATTTTAATAAACAACCAAGCATAATAGAGAGTTCAAATTGGGGTACATGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
* * * * *
17491312 TATTGTTCCTTTCATTTAACAAAAAAAAAAAAGCATTTCTT-CATATAATTTTATTTGGTTTCAT
66 TATTGTTGCTTTCATTT-AC----CAAAAAAAGCATTT-TTCCATTTCATTTTGTTTGGTTTCA-
* * * * * *
17491376 AA-TTGGTCTTTCCACTAGATCAAACTACCTCCATT
124 AAGTTGGTCCTTCAACTTGGTCAAACTTCCTCCATC
* * * * * * * ** *
17491411 GTAAAAATATATGTTCTTATCTTAAAGAACCAAGCAAAATAGATTGTTACTATGGGGATACATGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
** ** * * * *
17491476 TATTGTTGCTTTTGGTTTAGAAAAAAAAACA-TTTTCCTTTTTATTTTGTTTGATTTCAAAGTTG
66 TATTGTTGC-TTTCATTTACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTTG
* * * * *
17491540 GTTCTTTTC-GCTTGGTTAAACTTTCAT-TATC
130 G-TC-CTTCAACTTGGTCAAAC-TTCCTCCATC
*
17491571 ATAAAAATCTATGTTCTTTTCATTAAA-AA-CAAGCAAAATTGATAGTTCCCATT-GTGATACAC
1 ATAAAAATCTATGTTCTTTTCA-TAAAGAACCAAGCAAAATAGATAGTTCCCATTAG-GATACA-
* * * * *
17491633 A-TTATTGTTGCTTTCATTTTCC-AAAAAAGCATATCTCCCTTTCATTTTGTTTGGTTTCAAAGT
63 AGATATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGT
* * * * * *
17491696 TAGTCCTACAGCTTGATAAAACTTTTTCTCTTCTATC
128 TGGTCCTTCAACTTGGTCAAAC---TTC-C-TCCATC
* * *
17491733 ATACAAATCTATGTTCTTTTCATAAAGAAGCAAGCAAAATAGATAGTTCCCATTAGGATATAAGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
* * * *
17491798 TATTGTTGCTTTCTTTTACCAAAAAACA-CTTTTCTTTC-TTTCATTTTGTTTGGTCTCAAAGTT
66 TATTGTTGCTTTCATTTACCAAAAAA-AGCATTT-TTCCATTTCATTTTGTTTGGTTTCAAAGTT
* * ** **
17491861 GGTCCTTTC-ACTCGATCAAACTTTTTTAATC
129 GGTCC-TTCAACTTGGTCAAACTTCCTCCATC
* * ** *
17491892 ATAAAAATCTATGTTCTTTTCATAAAGATCCAAGAAAAATAGATAGTTTTCATTAGAATACAAGA
1 ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
* * * * * * *
17491957 TATTATTACTTGT-ATTTGA-C-AAAAAAGCATTTCTCCCTTTCATTTTGATTGATTTTAAAGTT
66 TATTGTTGCTT-TCATTT-ACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTT
* *
17492019 GGTTCTTCCATTCTT--TCAAACTT-CTGCCATC
129 GGTCCTT-CA-ACTTGGTCAAACTTCCT-CCATC
17492050 ATAAAAATCTATGTTCT
1 ATAAAAATCTATGTTCT
17492067 ATACTCGAAT
Statistics
Matches: 2617, Mismatches: 593, Indels: 319
0.74 0.17 0.09
Matches are distributed among these distances:
154 13 0.00
155 21 0.01
156 159 0.06
157 315 0.12
158 610 0.23
159 454 0.17
160 341 0.13
161 110 0.04
162 73 0.03
163 125 0.05
164 266 0.10
165 60 0.02
166 43 0.02
167 4 0.00
168 11 0.00
169 2 0.00
172 10 0.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (159 bp):
ATAAAAATCTATGTTCTTTTCATAAAGAACCAAGCAAAATAGATAGTTCCCATTAGGATACAAGA
TATTGTTGCTTTCATTTACCAAAAAAAGCATTTTTCCATTTCATTTTGTTTGGTTTCAAAGTTGG
TCCTTCAACTTGGTCAAACTTCCTCCATC
Found at i:17490915 original size:319 final size:317
Alignment explanation
Indices: 17488726--17491960 Score: 1381
Period size: 318 Copynumber: 10.1 Consensus size: 317
17488716 TTCAAGATAT
* * * * * * * *
17488726 ACCAATAAAAATTGATAGTTTCCATTGGGATGCATGATATTGTTGCTTTCCTTTACAAAAAAAAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTTAC-CAAAAAAA
* * * * * * * * *
17488791 AAAGCATTTCTCCCATTTCATTTTGTTTGGTTTAAAAGTTGGTCCTTC-ATTTCGATCAAAATTC
65 AAAGTATTTTTCCC-TTTCATTTTATTTGGTTT-CAAGTTGAT-CTTCAACTT-GGTCAAACTAC
* * * ***
17488855 CTCCATCATAAAAAT-TTATGTTCTTTTCATGAAA-AACCAACCAAAATAGGCAGTTCCCATTAG
126 CTCCATCGTAAAAATCTT-TGGTCTTTTCAT-AAAGAACCAAGCAAAATAAATAGTTCCCATTAG
** * * * *
17488918 GATACATGATATTGTTAC-CTCATTTA-CAAAAAAAGGCATTTCTC-CATTTCATTTTATTTGGT
189 GATACACAATATTATTGCTTTCATTTACCAAAAAAA--CATTTCTCAC-TTTCATTTTGTTTGGT
** * *
17488980 TTCAAAGTTAGTCCT-TCCACTTGGTCAAACTTCCTCCATCATAAAAATCTAAGTT-CTTTTAAT
251 TTCAAAGTT-GTCCTAT-CACTTAATCAAACTTCCTCCATCATAAAAATCTATGTTCCTTTCAA-
17489043 GAAA-A
313 -AAAGA
* * * * * *
17489048 ACCAACAAAAATAGATACTTACCATTTGGATAC-ATATATTGTTGCATTT-GTTTACC----AAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGC-TTTCATTTACCAAAAAAA
* * * * * * *
17489107 AAA-TCATTTCTCCAATTT-ATTTTGTTAT-ATTTCCAAGTTGGTCCTTCAACTTGGTTAAACTT
65 AAAGT-ATTTTTCC-CTTTCATTTTATT-TGGTTT-CAAGTTGAT-CTTCAACTTGGTCAAACTA
* * * * * * *** *
17489169 TCTCTATCATAAAAATCTATT-TTCTTTTC-TCAAAAAACCAAGCAAAATAAATGGTTTTTATTT
125 CCTCCATCGTAAAAATCT-TTGGTCTTTTCAT-AAAGAACCAAGCAAAATAAATAGTTCCCATTA
* ** * ** * *
17489232 TGATACATGATATTGTTGCTTTTGTTTA-CAAAAAAACCATTTTTC-CTTTTCATTTTTTTTTTT
188 GGATACACAATATTATTGCTTTCATTTACCAAAAAAA-CATTTCTCAC-TTTCA---TTTTGTTT
* * * * * *
17489295 GGTTTCAAGGTTGGCCCT-TC-CATTCAATCAAGCTTCATGCATCATAAAAATC-AT-TTTCTAT
248 GGTTTCAAAGTT-GTCCTATCAC-TT-AATCAAACTTCCTCCATCATAAAAATCTATGTTCCT-T
**
17489356 TCATGAAGA
309 TCAAAAAGA
* * * * * * *
17489365 ACAAAGCAAAATAAATAGTTCCCATTGGGATACATGATATAGTTGTTTTCATTTACC---AAAAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAA
* * * * * * * *
17489427 AAGCATTTCTCCTTTTCATTTTATTTGGTTTCAAAGATGGTTCTAT-AACTCT-ATAAAACTTCC
66 AAGTATTTTTCCCTTTCATTTTATTTGGTTTC-AAG-TTGATCT-TCAACT-TGGTCAAACTACC
* ** * ** * * * * * *
17489490 TTCATTATAAAAATCTATATTTTTTTCATGAAA-AAACAAACAAAATAGGA-AGTTCCTATTGGG
127 TCCATCGTAAAAATCTTTGGTCTTTTCAT-AAAGAACCAAGCAAAATA-AATAGTTCCCATTAGG
* * *
17489553 ATACACTATATTGTTGCTTTCATTTGA-CAAAAAAACATTTTTC-CTTTTCATTTTGTTAT-GTT
190 ATACACAATATTATTGCTTTCATTT-ACCAAAAAAACATTTCTCAC-TTTCATTTTGTT-TGGTT
* * * * ** * * ** **
17489615 TGAAAGTCAGT-TTTTCAACTTGGTCAAACTTCCTCCATTC-TAAAAAACTAGGTTTTTTTCACG
252 TCAAAGT-TGTCCTATC-ACTTAATCAAACTTCCTCCA-TCATAAAAATCTATGTTCCTTTCAAA
*
17489678 TAGA
314 AAGA
* * * * *
17489682 ACTAAGCAAAATCGATAGTTCCCATTAGGATACACGATATTGTTGCTTTCATTTTCC---AAAAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAA
* * * * * * *
17489744 AACTAGTTTTCCCTTTCATTTTTTTTTCTTTTGTTTTAATTTTGGTAT-TTC--CAT--TCAAAC
66 AAGTATTTTTCCCTTTCA-----TTTTATTTGGTTTCAA-GTT-G-ATCTTCAACTTGGTCAAAC
** * *
17489804 ATTA--TGAATTGTAAAAATCTTTGTTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCAT
123 --TACCTCCATCGTAAAAATCTTTGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCAT
* * * *
17489867 TGGGATACACAATATTATTGCTTTCGTTTACCAAAAAAAGCATTTCTCCCTTTCTTTTTGTTTGG
186 TAGGATACACAATATTATTGCTTTCATTTACCAAAAAAA-CATTTCTCACTTTCATTTTGTTTGG
* * * **
17489932 TTTGAAAGATGTCCTA-CAACTCT-AT-AAGACTTCCTCCGTTGTAAAAATCTATGTT-CTTGTC
250 TTTCAAAGTTGTCCTATC-ACT-TAATCAA-ACTTCCTCCATCATAAAAATCTATGTTCCTT-TC
*
17489993 AAAAACA
311 AAAAAGA
* * * * ** *
17490000 ACCAAGCAAAGTAGAGAGTTCCCATTAGGAAACACA-ATATTGTTGCTTTTGTTTA--ACAAAAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACA-AGATATTGTTGCTTTCATTTACCAAAAAAA
* * *
17490062 AAAGTATTTCTCCCTTTCATTTTATTTGGTTTCATAGTTGATCCTTCCACTCGGTCAAACTACCT
65 AAAGTATTTTTCCCTTTCATTTTATTTGGTTTCA-AGTTGAT-CTTCAACTTGGTCAAACTACCT
* * * *
17490127 CTATCGTAAAAAT-TTATGGTCTTTTCATGAAGAATCAAGCAAAATAAATAGTTCCCATTGGGAT
128 CCATCGTAAAAATCTT-TGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTAGGAT
* * * * * * *
17490191 ACACAATATTATTCCTTTCATTTACCAAAAAATGCATTTCTTAGTTTTATTTTATTTGATTTCAA
192 ACACAATATTATTGCTTTCATTTACCAAAAAA-ACATTTCTCACTTTCATTTTGTTTGGTTTCAA
* * * * * *
17490256 AATTGATCCT-TC-CATTCAGTCAAACTTCCTCCATCAGAAAAATCTATATTCTTTTCATAAAGA
256 AGTTG-TCCTATCAC-TT-AATCAAACTTCCTCCATCATAAAAATCTATGTTCCTTTCAAAAAGA
* ** *
17490319 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGTTATTGTTTTTTTCATTTACC---CAAAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAA
* * * * * *
17490381 AAGTATTTTTCCATTTCAATTTGTTTGGTTTCAAAGTTGGTCTTTCAACTTGGTCAAA-TTCCAC
66 AAGTATTTTTCCCTTTCATTTTATTTGGTTTC-AAGTTGATC-TTCAACTTGGTCAAACTACCTC
** * * * * * *
17490445 CATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCTATTAGGATAA
129 CATCGTAAAAATCTTTGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTAGGATAC
* * * * ** * * *
17490510 ACGACATTGTTGCTTTCATTTTCCAAAAAGGCATTTCTCTCTTTTATTTTG-TTGGTTTGAAAGT
194 ACAATATTATTGCTTTCATTTACCAAAAAAACATTTCTCACTTTCATTTTGTTTGGTTTCAAAGT
* * * * **
17490574 TGGTCAT-TCCACTCAATCAAACTTCTTCCATCATAAAAAT-TATGTTCCTTTCACATTGA
259 T-GTCCTAT-CACTTAATCAAACTTCCTCCATCATAAAAATCTATGTTCCTTTCAAAAAGA
* * * * ** * * *
17490633 ACCAAGTAAAATATATAGTTCCTATTGGGATTGATGATATTGTTGCATCCATTTACCAAAAAAAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTTACC-AAAAAAA
* * * * *
17490698 AAAATGTTTTTCCCTTTCATTTTATTAT-GTTTCGAAGTTGTTACTTCAACTTGTTCAAACTACT
65 AAAGTATTTTTCCCTTTCATTTTATT-TGGTTTC-AAGTTGAT-CTTCAACTTGGTCAAACTACC
* * ** *
17490762 TCCATTGTAAAAATCTTTGGTCTTTTCATAAACAACCAAGCAAAATGGATAGTTCCTATTAGGAT
127 TCCATCGTAAAAATCTTTGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTAGGAT
* ** * *
17490827 ACACAATATTGTTGCTTTTGTTTAACAAAAAAACATTTATCACTTTCATTTTGTTTGGTTTCAAA
192 ACACAATATTATTGCTTTCATTTACCAAAAAAACATTTCTCACTTTCATTTTGTTTGGTTTCAAA
* ** * ** * *
17490892 GTTGT-CTATCTGCTTGGTCAAACTTCCTCCGTTGTAAAAATCTATGTT-TTGTTCATGAAA-A
257 GTTGTCCTATC-ACTTAATCAAACTTCCTCCATCATAAAAATCTATGTTCCT-TTCA-AAAAGA
* * * * * * * *
17490953 ACCAAGCAAAATAGATAGCTCCTACTATGATACATGATATTGTTGCTTTCA-TTA-C--TAAAAG
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAA
* ** * * * * * * *
17491014 GACCATTATTCCTTTTCATTGTT-TTT-GTTTCAAGGTTGGTCTTTCCA-TTCGGTTAAACTTCA
66 AAGTATTTTTCCCTTTCATT-TTATTTGGTTTCAA-GTTGATC-TTCAACTT-GGTCAAACTACC
* * * * * * * * ** * *
17491076 TGCATCATAAAAATCTTTGTTC-TTTCATGAACAACCAAGCTAATTAGATAGTTCCTTTTGGGAA
127 TCCATCGTAAAAATCTTTGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTAGGAT
** * *
17491140 ACATGATA-T-TTGCTTTCATTTACAAAAAAAAAGAAAAAAAGTATT-TCAACCTTTCATTTTGT
192 ACACAATATTATTGCTTTCATTTAC------CAA-AAAAACA-T-TTCTC-A-CTTTCATTTTGT
* * * * * ** * * *
17491202 TTGGTTTCAAAGATGGTCCTA-CAATTATGTAAAATTTTAT-CTTACATAAAAATTTATGTT-AT
246 TTGGTTTCAAAG-TTGTCCTATCACTTA-ATCAAACTTCCTCCAT-CATAAAAATCTATGTTCCT
* *
17491264 TTTAATAAACA
308 TTCAA-AAAGA
* * * ** * * * * *
17491275 ACCAAGCATAATAGAGAGTTCAAATTGGGGTACATGATATTGTTCCTTTCATTTAACAAAAAAAA
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTT-AC-CAAAAAA
* * * * * * * * *
17491340 AAAAGCATTTCTT-CATATAATTTTATTTGGTTTCATAATTGGTCTTTCCACTAGATCAAACTAC
64 AAAAGTATTT-TTCCCTTTCATTTTATTTGGTTTCA-AGTTGATC-TTCAACTTGGTCAAACTAC
* * * * * * * * * * **
17491404 CTCCATTGTAAAAATATATGTTCTTATCTTAAAGAACCAAGCAAAATAGATTGTTACTATGGGGA
126 CTCCATCGTAAAAATCTTTGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTAGGA
** * ** ** * *
17491469 TACATGATATTGTTGCTTTTGGTTTAGAAAAAAAAACATTT-TC-CTTTTTATTTTGTTTGATTT
191 TACACAATATTATTGC-TTTCATTTA-CCAAAAAAACATTTCTCAC-TTTCATTTTGTTTGGTTT
* * * ** * * * * *
17491532 CAAAGTTGGTTCTTTTCGCTTGGTTAAACTTTCAT-TATCATAAAAATCTATGTTCTTTTCATTA
253 CAAAGTT-G-TCCTATCACTTAATCAAAC-TTCCTCCATCATAAAAATCTATGTTCCTTTCA-AA
17491596 AA-A
314 AAGA
* * * *
17491599 A-CAAGCAAAATTGATAGTTCCCATT-GTGATACACA-TTATTGTTGCTTTCATTTTCC----AA
1 ACCAAGAAAAATAGATAGTTCCCATTAG-GATACA-AGATATTGTTGCTTTCATTTACCAAAAAA
* * * * * * * *
17491657 AAAAGCATATCTCCCTTTCATTTTGTTTGGTTTCAAAGTT-AGTCCTACAGCTTGATAAAACTTT
64 AAAAGTATTTTTCCCTTTCATTTTATTTGGTTTC-AAGTTGA-T-CTTCAACTTGGTCAAAC---
* * * * * * * *
17491721 TTCTCTTCTATCATACAAATCTATGTTCTTTTCATAAAGAAGCAAGCAAAATAGATAGTTCCCAT
123 TAC-C-TCCATCGTAAAAATCTTTGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCAT
* * * * **
17491786 TAGGATATA-AGATATTGTTGCTTTCTTTTACCAAAAAACACTTTTCTTTCTTTCATTTTGTTTG
186 TAGGATACACA-ATATTATTGCTTTCATTTACCAAAAAA-ACATTTCTCACTTTCATTTTGTTTG
* * ** ** ** * *
17491850 GTCTCAAAGTTGGTCCTTTCACTCGATCAAACTTTTTTAATCATAAAAATCTATGTTCTTTTCAT
249 GTTTCAAAGTT-GTCCTATCACTTAATCAAACTTCCTCCATCATAAAAATCTATGTTCCTTTCAA
17491915 AAAGA
313 AAAGA
* ** *
17491920 TCCAAGAAAAATAGATAGTTTTCATTAGAATACAAGATATT
1 ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATT
17491961 ATTACTTGTA
Statistics
Matches: 2247, Mismatches: 497, Indels: 338
0.73 0.16 0.11
Matches are distributed among these distances:
311 11 0.00
312 3 0.00
313 47 0.02
314 121 0.05
315 162 0.07
316 102 0.05
317 260 0.12
318 468 0.21
319 380 0.17
320 109 0.05
321 108 0.05
322 233 0.10
323 70 0.03
324 26 0.01
325 19 0.01
326 1 0.00
327 8 0.00
328 21 0.01
329 45 0.02
330 41 0.02
331 1 0.00
332 4 0.00
333 7 0.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (317 bp):
ACCAAGAAAAATAGATAGTTCCCATTAGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAA
AAGTATTTTTCCCTTTCATTTTATTTGGTTTCAAGTTGATCTTCAACTTGGTCAAACTACCTCCA
TCGTAAAAATCTTTGGTCTTTTCATAAAGAACCAAGCAAAATAAATAGTTCCCATTAGGATACAC
AATATTATTGCTTTCATTTACCAAAAAAACATTTCTCACTTTCATTTTGTTTGGTTTCAAAGTTG
TCCTATCACTTAATCAAACTTCCTCCATCATAAAAATCTATGTTCCTTTCAAAAAGA
Found at i:17497165 original size:23 final size:24
Alignment explanation
Indices: 17497134--17497181 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
17497124 TCTTCATTTC
*
17497134 TCTTCTTTCTTTTAGTTC-TTAGT
1 TCTTATTTCTTTTAGTTCATTAGT
17497157 TCTTATTTCTTTTAGTTCATTAGT
1 TCTTATTTCTTTTAGTTCATTAGT
17497181 T
1 T
17497182 GAGTTATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.12, C:0.15, G:0.08, T:0.65
Consensus pattern (24 bp):
TCTTATTTCTTTTAGTTCATTAGT
Found at i:17509614 original size:23 final size:23
Alignment explanation
Indices: 17509588--17509665 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
17509578 ACACGATATT
*
17509588 ATTGCTCATCTTCCAGAAAAACC
1 ATTGCTCATCTTCCAAAAAAACC
*
17509611 ATTGCTCATCTTCTAAAAAAACC
1 ATTGCTCATCTTCCAAAAAAACC
*
17509634 ATTGCTTATCTTCCAAAAAAACC
1 ATTGCTCATCTTCCAAAAAAACC
*
17509657 ATTTCTCAT
1 ATTGCTCAT
17509666 TCTCATTCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (23 bp):
ATTGCTCATCTTCCAAAAAAACC
Found at i:17509970 original size:158 final size:159
Alignment explanation
Indices: 17509708--17511816 Score: 904
Period size: 157 Copynumber: 13.4 Consensus size: 159
17509698 TCATTCAGTT
* * * * * * *
17509708 AAACTTCCACCATCATAAAAATCTAATTTCTTTTCATGAAATACCAAGCAAAAAAGATAGTTCCT
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCC
* * * *
17509773 A-TTGGTATTCACAATATTGTTGCATTTCT-TTTACCAAAAAAGGCATTTCACCCTTTCATTTTC
66 ATTTGG-ATACACAATATTGTTGC-TTT-TGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTG
* *
17509836 TAT-GTTTCAAAGTTGGTCCTTCAACTCGATC
128 TTTGGTTTTAAAGTTGGTCCTTCAACTCGATC
*
17509867 AAA-TTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAG-TAAATAGATAGTTCCC
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCC
* * * * * *
17509930 ATTTGGATAAACGATATTGTTGCTTTTGTTTACCAAAAAAAAAAAGAAAATT-TCCTTTTTATTT
66 ATTTGGATACACAATATTGTTGCTTTTGTTTACC----AAAAAAAG-CATTTCTCCCTTTCATTT
* * * *
17509994 TGTTTGGTTTTAAAGTTAGTCTTTCCATTCGATC
126 TGTTTGGTTTTAAAGTTGGTCCTTCAACTCGATC
* * * * * *
17510028 AAACTTCATCCATTGTAAAAATCTAAATTCTTTTCACGATA-TACCAAGCAAAATAGATAGTTTC
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGA-AGTACCAAGCAAAATAGATAGTTCC
* * * ** * *
17510092 GA-TTGAGATGCACAATATTG-TGGTTTCATTTACTATAAAAAGCATTTCTCCCATTTCATTTTG
65 CATTTG-GATACACAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCC-TTTCATTTTG
**
17510155 TTTGGTTTTATAA-TTGGTCCTTCTTCTC-AGTC
128 TTTGGTTTTA-AAGTTGGTCCTTCAACTCGA-TC
* * * * * * * *
17510187 AAAATTTCT-TCATCATAAAAATATATA-TT-TTTTCATGAAGAACCAAGCAAACTAAATAGTTT
1 AAACTTCCTCT-ATCGTAAAAATCTA-AGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTC
* * * * * * ** *
17510249 CTATTAT-GATACACGATATTATTG-TTTTTTTTACCAAAAAAA-AAATTCTCTTTTTTATTTTG
64 CCATT-TGGATACACAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTG
* ** * * *
17510311 TTTGGTTTCAAAGTTTATCTTTCCATTCGATC
128 TTTGGTTTTAAAGTTGGTCCTTCAACTCGATC
** * * * * * *
17510343 AAACTTCCTCTATTATAAAAATC--CGTTCTTTTAATGAA-TAACCAAGAAAAATATATACTTAC
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGT-ACCAAGCAAAATAGATAGTTCC
* * *
17510405 CATTTGGATACATC-ATATTGTTGCATTTGTTTACC-AAAAAAGCATTTCTCCCTTTCATCTTAT
65 CATTTGGATACA-CAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTGT
* ** * **
17510468 TAT-ATTTTAGTGTTGGTCCTTCAACTTGGCC
129 T-TGGTTTTAAAGTTGGTCCTTCAACTCGATC
* * * * * * *
17510499 AAAGTTTCT-TCATCGT-AAAGTCTATGTTCTTTTTATGAAGAACCAAGTAAAATAGATAGTT--
1 AAACTTCCTCT-ATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCC
* ** * *
17510560 -ATTGTTGAGATATA-AGATATTGTTGCTTTCATTTA-CAAAAAAACCATTT-T--TTTTCATTT
65 CA-T-TTG-GATACACA-ATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTT
* *
17510619 T-TTTGGTCTTAAAGTTGG-CCTTCCCACTCGATC
126 TGTTTGGTTTTAAAGTTGGTCCTT-CAACTCGATC
* * * * *** * * * **
17510652 AAACTTCATGC-ATCAT-AAATTTTTTTTTCTATTGATGAAGAATGAAGCAAAATAGATAGTTCC
1 AAACTTCCT-CTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCC
* * ** * * * * *
17510715 CACTAGGATACATGATATTATTGTTTTTGTTTTCCCAAAAAAAAAGCATTTATCCATTTCATTTT
65 CATTTGGATACACAATATTGTTGCTTTTG-TTTACC--AAAAAAAGCATTTCTCCCTTTCATTTT
* * *
17510780 GTTTGGTTTCAAAGTTGGT-ATTACAACTTC-ATA
127 GTTTGGTTTTAAAGTTGGTCCTT-CAAC-TCGATC
* * ** * * *
17510813 AAACTTCCTTTTTTATAAAAAT-T-TGTTCATTTCATGAAGAACCAAGCAAAATAGATAGTTCTC
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTC-C
* * * ** * * * *
17510876 GA-TAGGATAAATGATATTATTGCTTTTGGTCACCAAAAAAACCATTT-TCCCTTTCA-TTT-TT
65 CATTTGGATACACAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTGTT
* ** * * *
17510937 TGGTTTTAATA-TTGTTATTTCCATTTGATC
130 TGGTTTTAA-AGTTGGTCCTTCAACTCGATC
* *** * ** * * * * **
17510967 AAAGTTTAAGCT-TCATAAAAATCTTTGCTCATTTCAT-AAGAACCAAGCAAAACAGATAGTTTG
1 AAA-CTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCC
* * ** * * * *
17511030 CATTGGGATACACAATATTATTGCTTTCATTTACC-AAAAAAGTATTTCTTCTTTTCA----CTT
65 CATTTGGATACACAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTGTT
* ** * * *
17511090 TGGTTTGAAAAATGGTCCTACAACTCTATA
130 TGGTTTTAAAGTTGGTCCTTCAACTCGATC
* * * * * ** ** * * *
17511120 AAATTTCCTCTATTGTAAAAATTTATGTACTTTTCAAAAACAACTAAGCAAAATAGAGATTTCCC
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCC
** * * ** * * * * * * *
17511185 ATTAAGATACACGATATTATTAATTTTGATTAACAAAAAAATGTAGTTATTCCTTTCATTTTATT
66 ATTTGGATACACAATATTGTTGCTTTTGTTTACCAAAAAAA-GCATTTCTCCCTTTCATTTTGTT
* * * * *
17511250 TGGTTTGATAGTTGGTCGTTCTACTCGATT
130 TGGTTTTAAAGTTGGTCCTTCAACTCGATC
* * * * * * * * **
17511280 AAACTACCTCCAACATAAAAATCTATGTTCTTTTCATGAAGAACCAATCTAAATAGATAGTTTTC
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCC
* * ** * * *** *
17511345 ATTAGGATACATAATATTGTTGCTTTCATTTACCACAAAAAGAATTTCTTAATTTCATTTTATTT
66 ATTTGGATACACAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTGTTT
* * * * *
17511410 GGTTTCACAGTTGGTCCTTCCACTTGGTC
131 GGTTTTAAAGTTGGTCCTTCAACTCGATC
** * * * * * ** *
17511439 AAACTTCCT-TCATAATAGAAA-CTTATGTTCTTTTCATGAAGAACTAAGAAAAATATTTTGTTC
1 AAACTTCCTCT-ATCGTAAAAATC-TAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTC
* * * * * *
17511502 CCA-TTGG-GACACAAGTAATTGTT-TTTTTCATTTACCTAAAAAAGTATTTCCCCCTTTCATTT
64 CCATTTGGATACACAA-T-ATTGTTGCTTTT-GTTTACCAAAAAAAGCATTTCTCCCTTTCATTT
* * * * *
17511564 TGTATGGTTTCAAAGTTGGTCTTTCAACTTGGTC
126 TGTTTGGTTTTAAAGTTGGTCCTTCAACTCGATC
** * * * * ** * ** * * * *
17511598 AAA-TTCAACCATCATAACAATTTATTTTTTTTTCACAAAGTACCAAGAAAAATAGATACTTTCT
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCC
* * ** * * *** * *
17511662 A-TAGGATAAATGATATTGTTGCTTTCGTTTACTAAAAGGGGCATTTCTTCATTTCATTTTGTTT
66 ATTTGGATACACAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTGTTT
* * * * *
17511726 AGTTTGAAAGTTGGTCCTTCTAGTCAAT-
131 GGTTTTAAAGTTGGTCCTTCAACTCGATC
* * * * * *
17511754 TAACTTCCTCCATAGTAAAAATCTATGTTCTTTTCATGAAG-AGCCAAGTAAAGTAGATAGTTC
1 AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTA-CCAAGCAAAATAGATAGTTC
17511817 TTAAGGATTC
Statistics
Matches: 1455, Mismatches: 402, Indels: 188
0.71 0.20 0.09
Matches are distributed among these distances:
152 11 0.01
153 119 0.08
154 103 0.07
155 130 0.09
156 147 0.10
157 228 0.16
158 165 0.11
159 216 0.15
160 189 0.13
161 65 0.04
162 56 0.04
163 26 0.02
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (159 bp):
AAACTTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGCAAAATAGATAGTTCCC
ATTTGGATACACAATATTGTTGCTTTTGTTTACCAAAAAAAGCATTTCTCCCTTTCATTTTGTTT
GGTTTTAAAGTTGGTCCTTCAACTCGATC
Found at i:17510284 original size:320 final size:315
Alignment explanation
Indices: 17509676--17510493 Score: 761
Period size: 320 Copynumber: 2.6 Consensus size: 315
17509666 TCTCATTCTA
* * * * *
17509676 TTTGGTTTCAAAGTTGT-TTTTTTCATTC-AGTTAAACTTCCA-CCATCATAAAAATCTAATTTC
1 TTTGGTTTCAAAGTT-TATCTTTCCATTCGA-TCAAACTT-CATCCATTATAAAAATCTAAATTC
* * * *
17509738 TTTTCATGAAATACCAAGCAAAAAAGATAGTTCCTATTGGTATTCACAATATTGTTGCATTTCTT
63 TTTTCACGAAATACCAAGCAAAAAAGATAGTTCCGATTGGTATGCACAATATTGTTGCATTTCAT
17509803 TTACCAAAAAAGGCATTTCACCCTTTCATTTTCTATGTTTCAAAGTTGGTCCTTCAACTCGATCA
128 TTACCAAAAAAGGCATTTCACCCTTTCATTTTCTATGTTTCAAAGTTGGTCCTTCAACTCGATCA
* * * * *
17509868 AATTCCTCTATCGTAAAAATCTAAGTTCTTTTCATGAAGTACCAAGTAAATAGATAGTTCCCATT
193 AATTCCTCTATCATAAAAATATAAGTTCTTTTCATGAAGAACCAAGCAAATAAATAGTTCCCATT
*
17509933 TGGATAAACGATATTGTTGCTTTTGTTTACCAAAAAAAAAAAGAAAATT-TCCTTTTTATTTTG
258 TGGATAAACGATATTATTGCTTTTGTTTACC-----AAAAAA-AAAATTCTCCTTTTTATTTTG
* *
17509996 TTTGGTTTTAAAG-TTAGTCTTTCCATTCGATCAAACTTCATCCATTGTAAAAATCTAAATTCTT
1 TTTGGTTTCAAAGTTTA-TCTTTCCATTCGATCAAACTTCATCCATTATAAAAATCTAAATTCTT
* * * *
17510060 TTCACGATATACCAAGCAAAATAGATAGTTTCGATTGAG-ATGCACAATATTG-TG-GTTTCATT
65 TTCACGAAATACCAAGCAAAAAAGATAGTTCCGATTG-GTATGCACAATATTGTTGCATTTCATT
* * * * * **
17510122 TACTATAAAAA-GCATTTCTCCCATTTCATTTTGTTTGGTTTTATAA-TTGGTCCTTCTTCTC-A
129 TACCA-AAAAAGGCATTTCACCC-TTTCATTTTCTAT-GTTTCA-AAGTTGGTCCTTCAACTCGA
*
17510184 GTCAAAATTTCT-TCATCATAAAAATATATA-TT-TTTTCATGAAGAACCAAGCAAACTAAATAG
190 -TC-AAATTCCTCT-ATCATAAAAATATA-AGTTCTTTTCATGAAGAACCAAGCAAA-TAAATAG
* * * * *
17510246 TTTCTATTAT-GATACACGATATTATTG-TTTTTTTTACCAAAAAAAAAATTCTCTTTTTTATTT
250 TTCCCATT-TGGATAAACGATATTATTGCTTTTGTTTACCAAAAAAAAAATTCTCCTTTTTATTT
17510309 TG
314 TG
* * **
17510311 TTTGGTTTCAAAGTTTATCTTTCCATTCGATCAAACTTCCTCTATTATAAAAATC--CGTTCTTT
1 TTTGGTTTCAAAGTTTATCTTTCCATTCGATCAAACTTCATCCATTATAAAAATCTAAATTCTTT
* * * * *
17510374 TAATG-AATAACCAAG-AAAAATATATACTTACC-ATTTGG-ATACATC-ATATTGTTGCATTT-
66 TCACGAAAT-ACCAAGCAAAAA-AGATAGTT-CCGA-TTGGTATGCA-CAATATTGTTGCATTTC
* * * * **
17510433 GTTTACCAAAAAA-GCATTTCTCCCTTTCATCTTAT-TATATTTTAGTGTTGGTCCTTCAACT
126 ATTTACCAAAAAAGGCATTTCACCCTTTCAT-TT-TCTATGTTTCAAAGTTGGTCCTTCAACT
17510494 TGGCCAAAGT
Statistics
Matches: 414, Mismatches: 57, Indels: 62
0.78 0.11 0.12
Matches are distributed among these distances:
312 29 0.07
313 53 0.13
314 20 0.05
315 69 0.17
316 3 0.01
318 21 0.05
319 22 0.05
320 143 0.35
321 52 0.13
322 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (315 bp):
TTTGGTTTCAAAGTTTATCTTTCCATTCGATCAAACTTCATCCATTATAAAAATCTAAATTCTTT
TCACGAAATACCAAGCAAAAAAGATAGTTCCGATTGGTATGCACAATATTGTTGCATTTCATTTA
CCAAAAAAGGCATTTCACCCTTTCATTTTCTATGTTTCAAAGTTGGTCCTTCAACTCGATCAAAT
TCCTCTATCATAAAAATATAAGTTCTTTTCATGAAGAACCAAGCAAATAAATAGTTCCCATTTGG
ATAAACGATATTATTGCTTTTGTTTACCAAAAAAAAAATTCTCCTTTTTATTTTG
Found at i:17512939 original size:146 final size:145
Alignment explanation
Indices: 17512667--17513186 Score: 588
Period size: 146 Copynumber: 3.6 Consensus size: 145
17512657 ATAAAAAGGC
* *
17512667 ATTTTTGTAATTTGACCTTTCTGAGCTTAAATTTTTGTGAAAC-TTTCTAGATCTTAATTTTATA
1 ATTTTGGTAATTTGACCTTTCTGAGCTTAAATTTTTGTGAAACTTTTC-AGATCTCAATTTTATA
* ** * *
17512731 ACATTTTCATGATTTTTGGTGCTTTTGAAATCACAGCAGTCCCTTGGGAAGTGTGAAATTACCAA
65 ACA-TTTCATGATTTTTGGTGCTTTTGAAATCACAACAGTCCCTTGAAAAGTATGAACTTACCAA
*
17512796 AATACTCATATATGGGT
129 AATACCCATATATGGGT
* *
17512813 ATTTTTGTAATTTGACCTTTCTGAGCTCAAATTTTTGTGAAAC-TTTCTAGATCTCAATTTTATA
1 ATTTTGGTAATTTGACCTTTCTGAGCTTAAATTTTTGTGAAACTTTTC-AGATCTCAATTTTATA
17512877 ACATTTTCATGATTTTTGGTGCTTTTGAAATCACAACAGTCCCTTGAAAAGTATGAACTTACCAA
65 ACA-TTTCATGATTTTTGGTGCTTTTGAAATCACAACAGTCCCTTGAAAAGTATGAACTTACCAA
17512942 AATACCCATATATGGGT
129 AATACCCATATATGGGT
* * * *
17512959 ATTTTGGTAATTTGGCC-TTCTTGAGC-TGAATTTTTGTGAAACTTTTCAGATCTTAATTTAATA
1 ATTTTGGTAATTTGACCTTTC-TGAGCTTAAATTTTTGTGAAACTTTTCAGATCTCAATTTTATA
* * * * * * * ** *
17513022 ATATTTCATAATTTTTAGTACATTTGAAATCA-TAGAGTATCTCT-AAAATATATGAAAC-TACC
65 ACATTTCATGATTTTTGGTGCTTTTGAAATCACAACAGTCCCT-TGAAAA-GTATG-AACTTACC
* *
17513084 AAAATACCCTTATAAGGGT
127 AAAATACCCATATATGGGT
* * ** ** * *
17513103 ATTTTGGTAA-TTCAACTTTCCCAAGCTTAAATTTTCATGAAACTTTTCATATCTCAATTCTATA
1 ATTTTGGTAATTTGACCTTT-CTGAGCTTAAATTTTTGTGAAACTTTTCAGATCTCAATTTTATA
*
17513167 ATATTTCATGATTTTTGGTG
65 ACATTTCATGATTTTTGGTG
17513187 GCTTAAATCC
Statistics
Matches: 325, Mismatches: 41, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
143 13 0.04
144 66 0.20
145 84 0.26
146 162 0.50
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (145 bp):
ATTTTGGTAATTTGACCTTTCTGAGCTTAAATTTTTGTGAAACTTTTCAGATCTCAATTTTATAA
CATTTCATGATTTTTGGTGCTTTTGAAATCACAACAGTCCCTTGAAAAGTATGAACTTACCAAAA
TACCCATATATGGGT
Found at i:17517980 original size:158 final size:156
Alignment explanation
Indices: 17517618--17518125 Score: 425
Period size: 159 Copynumber: 3.2 Consensus size: 156
17517608 ATACCAACAC
* * * * * *
17517618 TTTTCATAAAAAACCAAGCAAAATAGATAGTTTTTATTAGGATACAT-ATTATTGTTGCTTTTAT
1 TTTTCATAAAGAACCAAGCAAAATAGATAG-TCTGACTAGAATACATGA-TATTATTGC-TTTAT
***** * * * * *
17517682 TTACCAAAAGATTTTTTTTTCACTTTCATTTTGTTTGGTTTCAAAGTTGTCC-ATCTACTCATTC
63 TTACCAAAA-AACCAATTCTCCCTTTTATTTTGTTTGGTTTCAAAGTTGGCCTATCTACTCAATC
* * * * *
17517746 AAAC-TCTTTTCATCACAAAAAACCTATGTTT
127 AAACTTC-ATCCATCA-TAAAAATCTATGTTA
* * *
17517777 TTTTCATAAAGAACCAAGCAAAATAGATAGCTCTGATTAGGATACATGATATTATTTCTTT-TGG
1 TTTTCATAAAGAACCAAGCAAAATAGATAG-TCTGACTAGAATACATGATATTATTGCTTTAT--
* * * *
17517841 TTACATAAAAAAGC-ATTCTCCCTTTTATTTTGTATGGTTTCAAAGTTGGCCTATCTTCTCAATC
63 TTAC-CAAAAAACCAATTCTCCCTTTTATTTTGTTTGGTTTCAAAGTTGGCCTATCTACTCAATC
* *
17517905 AAACTTCCTCCATCATAAAAATCTATGATA
127 AAACTTCATCCATCATAAAAATCTATGTTA
* *
17517935 TTTTCATAAAGAACGAAGCAAAATAGATAGT-TGCCACTAGAATACATGATATTGTTGCTTTATT
1 TTTTCATAAAGAACCAAGCAAAATAGATAGTCTG--ACTAGAATACATGATATTATTGCTTTATT
* * * * * * * *
17517999 TACCAAAAAACCAATTTTTCCTTTAATATTTTTTTTTGTTTCAAAGCTGGTCTTTCCACTCAATC
64 TACCAAAAAACCAATTCTCCCTTT--TATTTTGTTTGGTTTCAAAGTTGGCCTATCTACTCAATC
* * * *
17518064 AAACTTCATGCATCGTAAAAATCTTTGTTC
127 AAACTTCATCCATCATAAAAATCTATGTTA
* * *
17518094 TTTTAATGAACAACCAAGCAAAATAGATAGTC
1 TTTTCATAAAGAACCAAGCAAAATAGATAGTC
17518126 CCCATTGGAA
Statistics
Matches: 285, Mismatches: 51, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
156 9 0.03
157 15 0.05
158 96 0.34
159 158 0.55
160 7 0.02
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.39
Consensus pattern (156 bp):
TTTTCATAAAGAACCAAGCAAAATAGATAGTCTGACTAGAATACATGATATTATTGCTTTATTTA
CCAAAAAACCAATTCTCCCTTTTATTTTGTTTGGTTTCAAAGTTGGCCTATCTACTCAATCAAAC
TTCATCCATCATAAAAATCTATGTTA
Found at i:17518189 original size:159 final size:157
Alignment explanation
Indices: 17517763--17518305 Score: 443
Period size: 159 Copynumber: 3.4 Consensus size: 157
17517753 TTTCATCACA
* * * * **
17517763 AAAAACCTATGTTTTTTTCATAAAGAACCAAGCAAAATAGATAG-CTCTGATTAGGATACATGAT
1 AAAAATCTATGTTATTTTCATGAACAACCAAGCAAAATAGATAGTC-CCCATT-GGATACATGAT
* * * * * * * * *
17517827 ATTATTTCTTTTGGTTA-CATAAAAAAGCATTCTCCCTTTTATTTTGTATGGTTTCAAAGTTGGC
64 ATTGTTACTTTTGTTTACCAAAAAAAAACATT-TCCCTTTTATTTTGTTTAGTTTCAAAGATGGT
* ** * *
17517891 CTATCTTCTCAATCAAACTTCCTCCATCAT
128 CTTTCAACTCAATCAAACTTCATCCATCGT
* * * * ** * *
17517921 AAAAATCTATGATATTTTCATAAAGAACGAAGCAAAATAGATAGTTGCCACTAGAATACATGATA
1 AAAAATCTATGTTATTTTCATGAACAACCAAGCAAAATAGATAGTCCCCA-TTGGATACATGATA
* * * * * * * *
17517986 TTGTTGC-TTTATTTACCAAAAAACCAA-TTTTTCCTTTAATATTTTTTTTTGTTTCAAAGCTGG
65 TTGTTACTTTTGTTTACCAAAAAA-AAACATTTCCCTTT--TATTTTGTTTAGTTTCAAAGATGG
* *
17518049 TCTTTCCACTCAATCAAACTTCATGCATCGT
127 TCTTTCAACTCAATCAAACTTCATCCATCGT
* * *
17518080 AAAAATCTTTGTTCTTTTAATGAACAACCAAGCAAAATAGATAGTCCCCATTGGA-ACATGATAT
1 AAAAATCTATGTTATTTTCATGAACAACCAAGCAAAATAGATAGTCCCCATTGGATACATGATAT
* *
17518144 TGTTACTTTTGTTTACCAAAAAAAAAACATTTCAACCTTTCATTTTGTTTAGTTTTAAAGATGGT
66 TGTTACTTTTGTTTACC-AAAAAAAAACATTTC--CCTTTTATTTTGTTTAGTTTCAAAGATGGT
* *** * *
17518209 CTTACAACTTTGT-ACAACTTCGTCCATCGA
128 CTTTCAACTCAATCA-AACTTCATCCATCGT
* * * *
17518239 AAAAATCTATGTTATTTTCATGAACAACCAAG-AATGATAAAGAGTTCCCATTGAGATACATGAT
1 AAAAATCTATGTTATTTTCATGAACAACCAAGCAA-AATAGATAGTCCCCATTG-GATACATGAT
17518303 ATT
64 ATT
17518306 ATAGCTTTCA
Statistics
Matches: 304, Mismatches: 66, Indels: 27
0.77 0.17 0.07
Matches are distributed among these distances:
157 26 0.09
158 82 0.27
159 179 0.59
160 2 0.01
161 15 0.05
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (157 bp):
AAAAATCTATGTTATTTTCATGAACAACCAAGCAAAATAGATAGTCCCCATTGGATACATGATAT
TGTTACTTTTGTTTACCAAAAAAAAACATTTCCCTTTTATTTTGTTTAGTTTCAAAGATGGTCTT
TCAACTCAATCAAACTTCATCCATCGT
Found at i:17518424 original size:43 final size:43
Alignment explanation
Indices: 17518363--17518448 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
17518353 GTTTCATAGT
**
17518363 CGAATATTCCACTTGATCAAACTACATCCATCGTAAAAATCTA
1 CGAATATTCCACTTGATCAAACTACATCCATCACAAAAATCTA
17518406 CGAATATTCCACTTGATCAAACTACATCCATCACAAAAATCTA
1 CGAATATTCCACTTGATCAAACTACATCCATCACAAAAATCTA
17518449 TGTTCTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.27
Consensus pattern (43 bp):
CGAATATTCCACTTGATCAAACTACATCCATCACAAAAATCTA
Found at i:17519960 original size:16 final size:17
Alignment explanation
Indices: 17519939--17519976 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17519929 TTGAGTACTT
*
17519939 TTAGAAATTTAT-TTAG
1 TTAGAAATTGATGTTAG
*
17519955 TTAGAAGTTGATGTTAG
1 TTAGAAATTGATGTTAG
17519972 TTAGA
1 TTAGA
17519977 CTTAGTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
TTAGAAATTGATGTTAG
Found at i:17526636 original size:17 final size:16
Alignment explanation
Indices: 17526606--17526649 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
17526596 ACTCAATTTC
17526606 ATAA-CTCAAGGTCAT
1 ATAATCTCAAGGTCAT
*
17526621 ATCAATCTCAATGTCAT
1 AT-AATCTCAAGGTCAT
17526638 ATAATCATCAAG
1 ATAATC-TCAAG
17526650 CAATATACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 6 0.25
17 16 0.67
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (16 bp):
ATAATCTCAAGGTCAT
Found at i:17552469 original size:18 final size:19
Alignment explanation
Indices: 17552437--17552472 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17552427 AGCCAAATTA
*
17552437 TAAAAAGAACTAAAGAAAC
1 TAAAAAGAACGAAAGAAAC
17552456 TAAAAAGAA-GAAAGAAA
1 TAAAAAGAACGAAAGAAA
17552473 GAATAGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.72, C:0.06, G:0.14, T:0.08
Consensus pattern (19 bp):
TAAAAAGAACGAAAGAAAC
Found at i:17556376 original size:63 final size:64
Alignment explanation
Indices: 17556300--17556658 Score: 342
Period size: 63 Copynumber: 5.7 Consensus size: 64
17556290 ATTTTGGAAG
*
17556300 GGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTC-CAAAATTTTTTGTAT
1 GGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTCGCAAAATTTTTTGTAT
*
17556363 GG-TATATTGAAGGCATTTTTAGCCAAAAATGCCTTCAATAATCCCTTC-CAAAATTTTTTGTAT
1 GGAT-TATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTCGCAAAATTTTTTGTAT
* * * * * * * *
17556426 AGATTATTGAAGG-AGTTTTTGGACAAGAATGCCTTCAATAATCCCCTCGTAAAA--ATTTGGAG
1 GGATTATTGAAGGCA-TTTTTGGCCAAAAATGCCTTCAATAATCCCTTCGCAAAATTTTTTGTAT
* * *
17556488 GAGATTATTGAAGGCATTTTTGGTCAAAAATGCATTCAATAATCCC-TCTCAAAATTTTTTGTAT
1 G-GATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTCGCAAAATTTTTTGTAT
*** * * * * ** *
17556552 GGATTATTGAAGATGTTTTTAGACC-AAAATGACTTCAATAATCCATACAAAAAATTTATTG-AG
1 GGATTATTGAAGGCATTTTT-GGCCAAAAATGCCTTCAATAATCCCTTCGCAAAATTTTTTGTA-
*
17556615 A
64 T
* **
17556616 GGATTAGTGAAGGTGTTTTTTGGACC-AAAATGCCTTCAATAAT
1 GGATTATTGAAGG-CATTTTTGG-CCAAAAATGCCTTCAATAAT
17556659 TTCCTCGTAA
Statistics
Matches: 244, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
62 13 0.05
63 171 0.70
64 37 0.15
65 23 0.09
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (64 bp):
GGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTCGCAAAATTTTTTGTAT
Found at i:17556684 original size:64 final size:60
Alignment explanation
Indices: 17556286--17556690 Score: 251
Period size: 63 Copynumber: 6.4 Consensus size: 60
17556276 CAATATTACA
** * *
17556286 AAAAATTTTGGAAGGGATTATTGAAGGCATTTTTGG-CCAAAAACGCCTTCAATAATCCCTTCC
1 AAAAA-TTTGG-AGGGATTATTGAAGGTGTTTTTGGACC-AAAATGCCTTCAATAATCCC-TCT
* * * ** * *
17556349 AAAATTTTTTGTATGG-TATATTGAAGGCATTTTTAG-CCAAAAATGCCTTCAATAATCCCTTCC
1 AAAA--ATTTGGAGGGAT-TATTGAAGGTGTTTTTGGACC-AAAATGCCTTCAATAATCCC-TCT
* * ** *
17556412 AAAATTTTTTGTATAGATTATTGAAGGAGTTTTTGGA-CAAGAATGCCTTCAATAATCCCCTCGT
1 AAAA--ATTTGGAGGGATTATTGAAGGTGTTTTTGGACCAA-AATGCCTTCAATAAT-CCCTC-T
** * * *
17556476 AAAAATTTGGAGGAGATTATTGAAGGCATTTTTGGTCAAAAATGCATTCAATAATCCCTCT
1 AAAAATTTGGAGG-GATTATTGAAGGTGTTTTTGGACCAAAATGCCTTCAATAATCCCTCT
* * * * * * * *
17556537 CAAAATTTTTTGTATGGATTATTGAAGATGTTTTTAGACCAAAATGACTTCAATAATCCATACA
1 -AAAA--ATTTGGAGGGATTATTGAAGGTGTTTTTGGACCAAAATGCCTTCAATAATCCCT-CT
* * *
17556601 AAAAATTTATTGAGAGGATTAGTGAAGGTGTTTTTTGGACCAAAATGCCTTCAATAATTTCCTCG
1 AAAAA-TT-TGGAG-GGATTATTGAAGGTG-TTTTTGGACCAAAATGCCTTCAATAA-TCCCTC-
17556666 T
60 T
*
17556667 AAAAATTTGAAAGGGATTATTGAA
1 AAAAATTTG-GAGGGATTATTGAA
17556691 AGCATTTTTG
Statistics
Matches: 275, Mismatches: 46, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
61 1 0.00
62 19 0.07
63 173 0.63
64 45 0.16
65 29 0.11
66 8 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (60 bp):
AAAAATTTGGAGGGATTATTGAAGGTGTTTTTGGACCAAAATGCCTTCAATAATCCCTCT
Found at i:17562910 original size:123 final size:123
Alignment explanation
Indices: 17562691--17562936 Score: 429
Period size: 123 Copynumber: 2.0 Consensus size: 123
17562681 GGTTTTCATG
* * * *
17562691 TCCTATATGCATTCAACTTAAATATCAAGAAATCACACATTCAATGCACCAAATTCAAGCAAATT
1 TCCTATATGCATTCAACCTAAAGATCAAGAAATCACACATTAAACGCACCAAATTCAAGCAAATT
*
17562756 TTTAAAAATTTCAAACTAAATGGACTTGTAAAACACTATAAATTTTACTATTATCACA
66 TTTAAAAATCTCAAACTAAATGGACTTGTAAAACACTATAAATTTTACTATTATCACA
*
17562814 TCCTATATGCATTCAACCTAAAGATCGAGAAATCACACATTAAACGCACCAAATTCAAGCAAATT
1 TCCTATATGCATTCAACCTAAAGATCAAGAAATCACACATTAAACGCACCAAATTCAAGCAAATT
*
17562879 TTTAAAAATCTCAAACTAAATGGACTTGTAAAACATTATAAATTTTACTATTATCACA
66 TTTAAAAATCTCAAACTAAATGGACTTGTAAAACACTATAAATTTTACTATTATCACA
17562937 AGTACAATTA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 116 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (123 bp):
TCCTATATGCATTCAACCTAAAGATCAAGAAATCACACATTAAACGCACCAAATTCAAGCAAATT
TTTAAAAATCTCAAACTAAATGGACTTGTAAAACACTATAAATTTTACTATTATCACA
Found at i:17569026 original size:16 final size:16
Alignment explanation
Indices: 17569005--17569037 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17568995 TTAAGTGTTC
17569005 TTTGTTCTTTAAATTT
1 TTTGTTCTTTAAATTT
*
17569021 TTTGTTCTTTCAATTT
1 TTTGTTCTTTAAATTT
17569037 T
1 T
17569038 AGTTTAAGTA
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:0.15, C:0.09, G:0.06, T:0.70
Consensus pattern (16 bp):
TTTGTTCTTTAAATTT
Found at i:17575362 original size:15 final size:15
Alignment explanation
Indices: 17575342--17575373 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17575332 TTAAGCTTTC
17575342 TTTGTTCTTTCAATT
1 TTTGTTCTTTCAATT
17575357 TTTGTTCTTTCAATT
1 TTTGTTCTTTCAATT
17575372 TT
1 TT
17575374 AGTTTAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTGTTCTTTCAATT
Found at i:17585560 original size:13 final size:13
Alignment explanation
Indices: 17585542--17585573 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17585532 ACAAATTCAT
17585542 AATAATCAAATAC
1 AATAATCAAATAC
17585555 AATAATCAAATAC
1 AATAATCAAATAC
17585568 AA-AATC
1 AATAATC
17585574 TATTATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAATCAAATAC
Found at i:17587866 original size:97 final size:97
Alignment explanation
Indices: 17587700--17587895 Score: 356
Period size: 97 Copynumber: 2.0 Consensus size: 97
17587690 TATACAAAAA
17587700 TTATCATTATGAACTATTTTTGATTCATGCCAATGTGGCCCAACCGTACATTCTCATTCCATGAG
1 TTATCATTATGAACTATTTTTGATTCATGCCAATGTGGCCCAACCGTACATTCTCATTCCATGAG
* *
17587765 GGATCCAGTGGAGGTAGTTGATATTCATCGGG
66 GGATCCACTGGAGGTAGTTGATATTCATCAGG
* *
17587797 TTATCATTATGAATTATTTTTGATTCATGCCAATGTGGCCCAATCGTACATTCTCATTCCATGAG
1 TTATCATTATGAACTATTTTTGATTCATGCCAATGTGGCCCAACCGTACATTCTCATTCCATGAG
17587862 GGATCCACTGGAGGTAGTTGATATTCATCAGG
66 GGATCCACTGGAGGTAGTTGATATTCATCAGG
17587894 TT
1 TT
17587896 TCAATGCTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (97 bp):
TTATCATTATGAACTATTTTTGATTCATGCCAATGTGGCCCAACCGTACATTCTCATTCCATGAG
GGATCCACTGGAGGTAGTTGATATTCATCAGG
Found at i:17590834 original size:60 final size:60
Alignment explanation
Indices: 17590732--17590858 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
17590722 CCAGCTCTAG
** * *
17590732 GGTCCTAGTAATATGCCACCAAGGATGGTAGGGTATCGTTGGAG-AGAGACAGGATGTTAT
1 GGTCCTAGTAATATGCCACCAAGGATAATAGGGTAACATTGGAGTAGAGA-AGGATGTTAT
* *
17590792 GGTCTTAGTAATATGCCACCAAGGATAAT-GGGTCAACATTGGAGTGGAGAAGGATGTTAT
1 GGTCCTAGTAATATGCCACCAAGGATAATAGGGT-AACATTGGAGTAGAGAAGGATGTTAT
17590852 GGTCCTA
1 GGTCCTA
17590859 AAAATGAGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 4 0.07
60 50 0.86
61 4 0.07
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.26
Consensus pattern (60 bp):
GGTCCTAGTAATATGCCACCAAGGATAATAGGGTAACATTGGAGTAGAGAAGGATGTTAT
Found at i:17603479 original size:16 final size:16
Alignment explanation
Indices: 17603458--17603497 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
17603448 TGTAACTCTA
17603458 TGTTTATACTTAGCTT
1 TGTTTATACTTAGCTT
17603474 TGTTTATACTTAGCTT
1 TGTTTATACTTAGCTT
17603490 TGTATTAT
1 TGT-TTAT
17603498 GCAATAGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (16 bp):
TGTTTATACTTAGCTT
Found at i:17605370 original size:13 final size:13
Alignment explanation
Indices: 17605354--17605378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17605344 GGGGGTTCTA
17605354 ATTTAGGGTTTCG
1 ATTTAGGGTTTCG
17605367 ATTTAGGGTTTC
1 ATTTAGGGTTTC
17605379 AACCTTTGGA
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:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (13 bp):
ATTTAGGGTTTCG
Found at i:17605580 original size:12 final size:13
Alignment explanation
Indices: 17605535--17605584 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
17605525 TTGGGTTTTA
17605535 ACTTTAGGGTTTC
1 ACTTTAGGGTTTC
* * *
17605548 ACTGTAAGGTTTT
1 ACTTTAGGGTTTC
*
17605561 AGTTTAGGGTTTC
1 ACTTTAGGGTTTC
17605574 A-TTTAGGGTTT
1 ACTTTAGGGTTT
17605585 AGATTTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.18, C:0.08, G:0.26, T:0.48
Consensus pattern (13 bp):
ACTTTAGGGTTTC
Found at i:17607007 original size:13 final size:13
Alignment explanation
Indices: 17606989--17607023 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
17606979 ACTTTATTCC
17606989 TTTTTCTTTTTCT-
1 TTTTTCTTTTT-TA
17607002 TTTTTCTTTTTTA
1 TTTTTCTTTTTTA
17607015 TTTTTCTTT
1 TTTTTCTTT
17607024 CAATGCTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTTA
Found at i:17607301 original size:16 final size:15
Alignment explanation
Indices: 17607265--17607304 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17607255 TTTTACTACT
*
17607265 ATTTTTTTTAATCCA
1 ATTTTCTTTAATCCA
*
17607280 ATTTTCTTTAATCTCC
1 ATTTTCTTTAATC-CA
17607296 ATTTTCTTT
1 ATTTTCTTT
17607305 TGTACATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTCTTTAATCCA
Found at i:17607995 original size:14 final size:14
Alignment explanation
Indices: 17607978--17608085 Score: 56
Period size: 14 Copynumber: 7.4 Consensus size: 14
17607968 TTTAAAACCC
17607978 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
17607992 TTTTTGTT-TTATTTT
1 TTTTT-TTCTT-TTTT
** **
17608007 GCTTTGGCTTTTTT
1 TTTTTTTCTTTTTT
**
17608021 TTGTTTTGGTTTTTT
1 TT-TTTTTCTTTTTT
* * *
17608036 TGTTTTTGTTTTTA
1 TTTTTTTCTTTTTT
**
17608050 TTTTTTGGTTTTTGT
1 TTTTTTTCTTTTT-T
17608065 TTTTTTCTCTGTTTTT
1 TTTTTT-TCT-TTTTT
17608081 TTTTT
1 TTTTT
17608086 GGATAACACC
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 32 0.45
15 28 0.39
16 7 0.10
17 4 0.06
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTTTTTT
Found at i:17608006 original size:15 final size:14
Alignment explanation
Indices: 17607986--17608070 Score: 84
Period size: 15 Copynumber: 5.8 Consensus size: 14
17607976 CCTTTTTTTC
17607986 TTTTTTTTTTT-GT
1 TTTTTTTTTTTGGT
*
17607999 TTTATTTTGCTTTGGCT
1 TTT-TTTT-TTTTGG-T
17608016 TTTTTTTGTTTTGGT
1 TTTTTTT-TTTTGGT
17608031 TTTTTTGTTTTT-GT
1 TTTTTT-TTTTTGGT
*
17608045 TTTTATTTTTTGGT
1 TTTTTTTTTTTGGT
17608059 TTTTGTTTTTTT
1 TTTT-TTTTTTT
17608071 CTCTGTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
13 8 0.13
14 17 0.28
15 20 0.33
16 12 0.20
17 4 0.07
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.81
Consensus pattern (14 bp):
TTTTTTTTTTTGGT
Found at i:17608022 original size:16 final size:15
Alignment explanation
Indices: 17607986--17608062 Score: 58
Period size: 14 Copynumber: 5.3 Consensus size: 15
17607976 CCTTTTTTTC
17607986 TTTTTTTT--TTT-G
1 TTTTTTTTGCTTTGG
17607998 TTTTATTTTGCTTTGG
1 TTTT-TTTTGCTTTGG
*
17608014 CTTTTTTTTGTTTTGG
1 -TTTTTTTTGCTTTGG
* *
17608030 -TTTTTTTGTTTTTG
1 TTTTTTTTGCTTTGG
17608044 TTTTTATTT--TTTGG
1 TTTTT-TTTGCTTTGG
17608058 TTTTT
1 TTTTT
17608063 GTTTTTTTCT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
12 4 0.07
13 4 0.07
14 22 0.40
15 7 0.13
16 14 0.25
17 4 0.07
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.81
Consensus pattern (15 bp):
TTTTTTTTGCTTTGG
Found at i:17608079 original size:26 final size:26
Alignment explanation
Indices: 17608032--17608081 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17608022 TGTTTTGGTT
*
17608032 TTTTTGTTTTTGTTTTTATTTTTTGG
1 TTTTTGTTTTTGTTTCTATTTTTTGG
*
17608058 TTTTTGTTTTT-TTCTCTGTTTTTT
1 TTTTTGTTTTTGTT-TCTATTTTTT
17608082 TTTTGGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (26 bp):
TTTTTGTTTTTGTTTCTATTTTTTGG
Found at i:17608174 original size:36 final size:36
Alignment explanation
Indices: 17608133--17608262 Score: 136
Period size: 36 Copynumber: 3.6 Consensus size: 36
17608123 GACATATCAC
* *
17608133 AAGTCAAAAAATAAAGAACGACCAAGACAACACTGT
1 AAGTCAAAAAATAAAGAACGACTAGGACAACACTGT
* * * *
17608169 AAGTC-AGAAATAAAGAACGACTGGGACAATACCGT
1 AAGTCAAAAAATAAAGAACGACTAGGACAACACTGT
** * *
17608204 AAGTCAAAAAATAAAGAATAACTAGGACTACACTAT
1 AAGTCAAAAAATAAAGAACGACTAGGACAACACTGT
* * *
17608240 ATGTCAAAAAATAGAGAATGACT
1 AAGTCAAAAAATAAAGAACGACT
17608263 GAGATGAAAT
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
35 29 0.38
36 47 0.62
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.16
Consensus pattern (36 bp):
AAGTCAAAAAATAAAGAACGACTAGGACAACACTGT
Found at i:17608181 original size:35 final size:36
Alignment explanation
Indices: 17608133--17608221 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 36
17608123 GACATATCAC
*
17608133 AAGTCAAAAAATAAAGAACGACCAAGACAACACTGT
1 AAGTCAAAAAATAAAGAACGACCAAGACAACACCGT
* *** *
17608169 AAGTC-AGAAATAAAGAACGACTGGGACAATACCGT
1 AAGTCAAAAAATAAAGAACGACCAAGACAACACCGT
17608204 AAGTCAAAAAATAAAGAA
1 AAGTCAAAAAATAAAGAA
17608222 TAACTAGGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 29 0.64
36 16 0.36
ACGTcount: A:0.55, C:0.16, G:0.17, T:0.12
Consensus pattern (36 bp):
AAGTCAAAAAATAAAGAACGACCAAGACAACACCGT
Found at i:17608429 original size:33 final size:33
Alignment explanation
Indices: 17608296--17608470 Score: 137
Period size: 34 Copynumber: 5.4 Consensus size: 33
17608286 ACTTAGACTA
* *
17608296 GGCTTAAATTTTCCTT-AGTGTTAGCT-AATTG
1 GGCTTAAATTTTCATTGAGTGCTAGCTAAATTG
* * * * * *
17608327 GGCTTAAATTCTTCATTAAATGCCATCTAAACTA
1 GGCTTAAATT-TTCATTGAGTGCTAGCTAAATTG
* * * *
17608361 AGC-TAAATCTTCATTG-GGGCTAGGT-AATATG
1 GGCTTAAATTTTCATTGAGTGCTAGCTAAAT-TG
*
17608392 GGCTTAAATTTTCATTGAGTGCTAGCTAAATTT
1 GGCTTAAATTTTCATTGAGTGCTAGCTAAATTG
* *
17608425 GGCTTAAATATTCCATTG-GATGCTAACTAAATTG
1 GGCTTAAAT-TTTCATTGAG-TGCTAGCTAAATTG
17608459 GGCTTAAATTTT
1 GGCTTAAATTTT
17608471 TGTTGGTGCT
Statistics
Matches: 109, Mismatches: 26, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
30 2 0.02
31 17 0.16
32 23 0.21
33 31 0.28
34 36 0.33
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (33 bp):
GGCTTAAATTTTCATTGAGTGCTAGCTAAATTG
Found at i:17608562 original size:45 final size:45
Alignment explanation
Indices: 17608498--17608590 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
17608488 ATAGGCTTAA
* **
17608498 AACCTGGGTGCCAACTAAATTTGGCTTAAATCATTTCATGATGCC
1 AACCTAGGTGCCAACTAAATTAAGCTTAAATCATTTCATGATGCC
*
17608543 AACCTAGGTGCCAACTAAATTAAGCTTAAATTATTTCATGATGCC
1 AACCTAGGTGCCAACTAAATTAAGCTTAAATCATTTCATGATGCC
17608588 AAC
1 AAC
17608591 TAAACTGGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (45 bp):
AACCTAGGTGCCAACTAAATTAAGCTTAAATCATTTCATGATGCC
Found at i:17608669 original size:140 final size:140
Alignment explanation
Indices: 17608417--17608680 Score: 336
Period size: 140 Copynumber: 1.9 Consensus size: 140
17608407 TGAGTGCTAG
** * * * *** *
17608417 CTAAATTTGGCTTAAATATTCCATTGGATGCTAACTAAATTGGGCTTAAATTTTTGTTGGTGCTA
1 CTAAATTAAGCTTAAATATTCCATTGGATGCCAACTAAACTGGGCTTAAACTTCAATTGGTGCCA
* * * *
17608482 ATTAATATAGGCTTAAAACCTGGGTGCCAACTAAATTTGGCTTAAATCATTTCA-TGATGCCAAC
66 ATTAATATAGGCTTAAAACCTAGGTGACAACTAAACTAGGCTTAAATC-TTTCATTGATGCCAAC
17608546 CTAGGTGCCAA
130 CTAGGTGCCAA
*
17608557 CTAAATTAAGCTTAAATTATTTCA-T-GATGCCAACTAAACTGGGCTTAAACTTCAATTGGTGCC
1 CTAAATTAAGCTTAAA-TATTCCATTGGATGCCAACTAAACTGGGCTTAAACTTCAATTGGTGCC
* *
17608620 AATTAATACTAGGCTTAAAACCTAGGTGACAGCTATACTAGGCTTAAATCTTTCATTGATG
65 AATTAATA-TAGGCTTAAAACCTAGGTGACAACTAAACTAGGCTTAAATCTTTCATTGATG
17608681 TCAGTCAAAC
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
139 44 0.42
140 55 0.52
141 6 0.06
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (140 bp):
CTAAATTAAGCTTAAATATTCCATTGGATGCCAACTAAACTGGGCTTAAACTTCAATTGGTGCCA
ATTAATATAGGCTTAAAACCTAGGTGACAACTAAACTAGGCTTAAATCTTTCATTGATGCCAACC
TAGGTGCCAA
Found at i:17608700 original size:33 final size:33
Alignment explanation
Indices: 17608656--17608738 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
17608646 TGACAGCTAT
* *
17608656 ACTAGGCTTAAATCTTTCATTGATGTCAGTCAA
1 ACTAGGCTTAAATCTTTCATTAATGTCAATCAA
*
17608689 ACTAGGTTTAAATAC-TTCATTAATGTCAATCAA
1 ACTAGGCTTAAAT-CTTTCATTAATGTCAATCAA
17608722 ACTAGGCTTAAATCTTT
1 ACTAGGCTTAAATCTTT
17608739 TCATGAGGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 42 0.95
34 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (33 bp):
ACTAGGCTTAAATCTTTCATTAATGTCAATCAA
Found at i:17608890 original size:35 final size:35
Alignment explanation
Indices: 17608807--17608931 Score: 127
Period size: 35 Copynumber: 3.7 Consensus size: 35
17608797 TTAAAACGTG
* *
17608807 GGTGTCAGCTAAACTAGACTTAAATCTTTTCATGA
1 GGTGTCAACTAAACTAGGCTTAAATCTTTTCATGA
* *
17608842 TGTGTCAACTAAACTGGGCTTAAATCTTTTCATGA
1 GGTGTCAACTAAACTAGGCTTAAATCTTTTCATGA
*
17608877 GGTG-CTAGA-TAAACTAGGCTT-AA--TTTTCAT-T
1 GGTGTC-A-ACTAAACTAGGCTTAAATCTTTTCATGA
* *
17608908 GGTGACAGCTAAACTAGGCTTAAA
1 GGTGTCAACTAAACTAGGCTTAAA
17608932 ACTTAGCTGC
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
31 17 0.22
32 10 0.13
34 3 0.04
35 46 0.60
36 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (35 bp):
GGTGTCAACTAAACTAGGCTTAAATCTTTTCATGA
Found at i:17609121 original size:35 final size:34
Alignment explanation
Indices: 17609018--17609225 Score: 121
Period size: 32 Copynumber: 6.3 Consensus size: 34
17609008 TCAACTAAGT
* *
17609018 TGGGCTTAAATCTTTTCATGAGTGCTAGCTAAAC
1 TGGGCTTAAATCTTTTCATAAATGCTAGCTAAAC
* * * *
17609052 TGGACTTAAAAC-TTT-A-AAAGTGCCAGCTAGAC
1 TGGGCTTAAATCTTTTCATAAA-TGCTAGCTAAAC
*
17609084 TGGGGTTAAATCTTTTCATAATATGCTAGCTAAAC
1 TGGGCTTAAATCTTTTCATAA-ATGCTAGCTAAAC
* ** * *
17609119 TGGGTTTAAATC-TTTCATTGATGCCAGCTAGA-
1 TGGGCTTAAATCTTTTCATAAATGCTAGCTAAAC
** * * *
17609151 TTAGCTTAAATTTTTTCATAAGA-GCCGAG-TAAAT
1 TGGGCTTAAATCTTTTCATAA-ATG-CTAGCTAAAC
* ***
17609185 TAGGCTT-AA--TTTTCATTGGTGCTAGCTAAAC
1 TGGGCTTAAATCTTTTCATAAATGCTAGCTAAAC
17609216 TGGGCTTAAA
1 TGGGCTTAAA
17609226 ACTTGGGTGC
Statistics
Matches: 130, Mismatches: 32, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
30 3 0.02
31 19 0.15
32 30 0.23
33 28 0.22
34 26 0.20
35 23 0.18
36 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (34 bp):
TGGGCTTAAATCTTTTCATAAATGCTAGCTAAAC
Found at i:17609160 original size:67 final size:67
Alignment explanation
Indices: 17608953--17609171 Score: 187
Period size: 67 Copynumber: 3.3 Consensus size: 67
17608943 AGCACATCTA
* ** * * * *
17608953 GGCTTAAATGTTTTCATGGGATGCTAGCTAAATTAGGTTTAAAT-TTTC-TTGAGTGTCAACTA-
1 GGCTTAAATCTTTTCAT-AAATGCTAGCTAAACTGGGTTTAAATCTTTCATTGA-TGCCAGCTAG
*
17609015 AGTT
64 ACTT
* * ** * * **
17609019 GGGCTTAAATCTTTTCATGAGTGCTAGCTAAACTGGACTTAAAACTTTAAAAG-TGCCAGCTAGA
1 -GGCTTAAATCTTTTCATAAATGCTAGCTAAACTGGGTTTAAATCTTTCATTGATGCCAGCTAGA
*
17609083 CTG
65 CTT
*
17609086 GGGTTAAATCTTTTCATAATATGCTAGCTAAACTGGGTTTAAATCTTTCATTGATGCCAGCTAGA
1 GGCTTAAATCTTTTCATAA-ATGCTAGCTAAACTGGGTTTAAATCTTTCATTGATGCCAGCTAGA
17609151 -TT
65 CTT
* *
17609153 AGCTTAAATTTTTTCATAA
1 GGCTTAAATCTTTTCATAA
17609172 GAGCCGAGTA
Statistics
Matches: 119, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
66 43 0.36
67 64 0.54
68 12 0.10
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (67 bp):
GGCTTAAATCTTTTCATAAATGCTAGCTAAACTGGGTTTAAATCTTTCATTGATGCCAGCTAGAC
TT
Found at i:17609191 original size:294 final size:293
Alignment explanation
Indices: 17608886--17609457 Score: 783
Period size: 294 Copynumber: 1.9 Consensus size: 293
17608876 AGGTGCTAGA
*
17608886 TAAACTAGGCTTAATTTTCATTGGTGAC-AGCTAAACTAGGCTTAAAACTTAGCTGCCAGC-ACA
1 TAAACTAGGCTTAATTTTCATTGGTG-CTAGCTAAACTAGGCTTAAAACTTAGCTGCCAACTA-A
** * * *
17608949 TCTAGGCTTAAATGTTTTCATGGGATGCTAGCTAAATTAGGTTTAAATTTTCTTGAGTG-TCAAC
64 TCTAGGCTTAAATCATATCATAGGATGCTAGCTAAATTAGGTTTAAATTCT-TTGAGTGCT-AAC
* * * * *
17609013 TAAGTTGGGCTTAAATCTTTTCATGAGTGCTAGCTAAACTGGACTTAAAACTTTAAAAGTGCCAG
127 TAAGTTGGGCGTAAATCTATTCATGAGTGCCAACTAAACTGGACTT-AAACTTCAAAAGTGCCAG
* * ** * *
17609078 CTAGACTGGGGTTAAATCTTTTCATAATATGCTAGCTAAACTGGGTTTAAATCTTTCATTGATGC
191 CTAGACTGGGCTTAAATCTTTTCATAATATGCCAGCTAAACTAAGCTTAAATCTTTCATTAATGC
*
17609143 CAGCTAGATTAG-CTTAAATTTTTTCATAAGAGCCGAG
256 CAACTAGATTAGACTTAAATTTTTTCATAAGAGCCGAG
* * * * *
17609180 TAAATTAGGCTTAATTTTCATTGGTGCTAGCTAAACTGGGCTTAAAACTTGGGTGCCAACTAATT
1 TAAACTAGGCTTAATTTTCATTGGTGCTAGCTAAACTAGGCTTAAAACTTAGCTGCCAACTAATC
* * **
17609245 TGGGCTTAAATCATATCATAGGATGCTAGCTAAATTAGGTTTAAATTCTTTGGGTGCTAGTTAAG
66 TAGGCTTAAATCATATCATAGGATGCTAGCTAAATTAGGTTTAAATTCTTTGAGTGCTAACTAAG
* *
17609310 TTGGGCGTAAATCTATTCATGAGTGCCAACTAAACTGGGCTTAAACTTCAAAAGTGCTAGCTAGA
131 TTGGGCGTAAATCTATTCATGAGTGCCAACTAAACTGGACTTAAACTTCAAAAGTGCCAGCTAGA
* *
17609375 TTGGGCTTAAATCTTTTCATAATGTGCCAGCTAAACTAAGCTTAAATCTTTCATTAATGCCAACT
196 CTGGGCTTAAATCTTTTCATAATATGCCAGCTAAACTAAGCTTAAATCTTTCATTAATGCCAACT
*
17609440 AGATTCGACTTAAATTTT
261 AGATTAGACTTAAATTTT
17609458 CCTGAATGTC
Statistics
Matches: 242, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
292 83 0.34
293 59 0.24
294 99 0.41
295 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (293 bp):
TAAACTAGGCTTAATTTTCATTGGTGCTAGCTAAACTAGGCTTAAAACTTAGCTGCCAACTAATC
TAGGCTTAAATCATATCATAGGATGCTAGCTAAATTAGGTTTAAATTCTTTGAGTGCTAACTAAG
TTGGGCGTAAATCTATTCATGAGTGCCAACTAAACTGGACTTAAACTTCAAAAGTGCCAGCTAGA
CTGGGCTTAAATCTTTTCATAATATGCCAGCTAAACTAAGCTTAAATCTTTCATTAATGCCAACT
AGATTAGACTTAAATTTTTTCATAAGAGCCGAG
Found at i:17610389 original size:21 final size:21
Alignment explanation
Indices: 17610365--17610424 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
17610355 ATCTCATTTA
* * *
17610365 TTTATTTTTTTTTCTTTTTTT
1 TTTATTCTTCTTTCTTTCTTT
17610386 TTTATTCTTCTTTCTTTCTTT
1 TTTATTCTTCTTTCTTTCTTT
17610407 TCTT-TTCCTT-TTTCTTTC
1 T-TTATT-CTTCTTTCTTTC
17610425 ACTTCTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTATTCTTCTTTCTTTCTTT
Found at i:17610421 original size:25 final size:25
Alignment explanation
Indices: 17610375--17610424 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17610365 TTTATTTTTT
* *
17610375 TTTCTTTTTTTTTTATTCTTCTTTC
1 TTTCTTTTCTTTTCATTCTTCTTTC
* *
17610400 TTTCTTTTCTTTTCCTTTTTCTTTC
1 TTTCTTTTCTTTTCATTCTTCTTTC
17610425 ACTTCTTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTCTTTTCTTTTCATTCTTCTTTC
Found at i:17613574 original size:23 final size:24
Alignment explanation
Indices: 17613530--17613574 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
17613520 ATCTAAGTTC
*
17613530 AAAAGACAACATTATACTAACATA
1 AAAAGACAACATTATACAAACATA
* *
17613554 AAAAGA-AACATTTTTCAAACA
1 AAAAGACAACATTATACAAACA
17613575 GAATAAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.58, C:0.16, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAGACAACATTATACAAACATA
Found at i:17616637 original size:8 final size:8
Alignment explanation
Indices: 17616615--17616656 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
17616605 TTAAAATGCC
17616615 ATTTTATA
1 ATTTTATA
17616623 ATTTTTTATA
1 A--TTTTATA
17616633 ATTTTATA
1 ATTTTATA
17616641 ATTTTATA
1 ATTTTATA
17616649 ATTGTTAT
1 ATT-TTAT
17616657 TTTGAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 19 0.61
9 4 0.13
10 8 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
ATTTTATA
Found at i:17617013 original size:27 final size:25
Alignment explanation
Indices: 17616983--17617052 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
17616973 TTCAAATTGG
* *
17616983 GGTTTCATTTTGGGGTTTTAATTTTAA
1 GGTTTCATTTTAGGGTTTT-AGTTT-A
* *
17617010 GGTTTTACTTTAGGGTTTTAGTTTA
1 GGTTTCATTTTAGGGTTTTAGTTTA
17617035 GAGTTTCA-TTTAGGGTTT
1 G-GTTTCATTTTAGGGTTT
17617053 AGATTTTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.32
26 9 0.24
27 16 0.43
ACGTcount: A:0.17, C:0.04, G:0.24, T:0.54
Consensus pattern (25 bp):
GGTTTCATTTTAGGGTTTTAGTTTA
Found at i:17617026 original size:13 final size:12
Alignment explanation
Indices: 17616995--17617052 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
17616985 TTTCATTTTG
17616995 GGGTTTTAATTTTA
1 GGGTTTT-A-TTTA
*
17617009 AGGTTTTACTTTA
1 GGGTTTTA-TTTA
17617022 GGGTTTTAGTTTA
1 GGGTTTTA-TTTA
* *
17617035 GAGTTTCATTTA
1 GGGTTTTATTTA
17617047 GGGTTT
1 GGGTTT
17617053 AGATTTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
12 9 0.24
13 22 0.59
14 6 0.16
ACGTcount: A:0.19, C:0.03, G:0.24, T:0.53
Consensus pattern (12 bp):
GGGTTTTATTTA
Found at i:17619133 original size:9 final size:9
Alignment explanation
Indices: 17619121--17619170 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
17619111 TTTAATGATA
17619121 TATATATTT
1 TATATATTT
17619130 TATATA--T
1 TATATATTT
17619137 TATATA-TT
1 TATATATTT
*
17619145 T-TATATTC
1 TATATATTT
17619153 TATATATTT
1 TATATATTT
*
17619162 TATTTATTT
1 TATATATTT
17619171 GGATTTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 11 0.31
8 4 0.11
9 20 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TATATATTT
Found at i:17619140 original size:16 final size:16
Alignment explanation
Indices: 17619121--17619169 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
17619111 TTTAATGATA
17619121 TATATATTTTATATAT
1 TATATATTTTATATAT
17619137 TATATATTTTATAT-T
1 TATATATTTTATATAT
*
17619152 CTATATATTTTATTTAT
1 -TATATATTTTATATAT
17619169 T
1 T
17619170 TGGATTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATATTTTATATAT
Found at i:17624111 original size:16 final size:16
Alignment explanation
Indices: 17624090--17624125 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
17624080 CTCTAATAAA
17624090 AATTTTCAAAAACTAT
1 AATTTTCAAAAACTAT
17624106 AATTTTCAAAAACTAT
1 AATTTTCAAAAACTAT
17624122 AATT
1 AATT
17624126 ATTAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTTCAAAAACTAT
Found at i:17624383 original size:28 final size:28
Alignment explanation
Indices: 17624350--17624407 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
17624340 ATATATAATC
17624350 TACATAGTAGTATTTATATTCATATAAA
1 TACATAGTAGTATTTATATTCATATAAA
17624378 TACATAGTAGTATTTATATTCATATAAA
1 TACATAGTAGTATTTATATTCATATAAA
17624406 TA
1 TA
17624408 TTTTTCGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (28 bp):
TACATAGTAGTATTTATATTCATATAAA
Found at i:17625098 original size:63 final size:62
Alignment explanation
Indices: 17624923--17625109 Score: 152
Period size: 63 Copynumber: 3.0 Consensus size: 62
17624913 GGCATTTCTA
* * * *
17624923 GCTAAAAACACCATTAATAAT-CTACTCATAAAAATTTAAGGGGATTATTCAAG-GTGTTTTA
1 GCTAAAAACACCTTTAATAATCCT-CTCATAAAAATTGAAGGGGATTATTCAAGTGTTTTTTG
* * * * ** **
17624984 GCCAGAAACGCCTTCAATAA-CC-C-CATTCAATATTTTGTAA-CAGATTATTCAAGATGTTTTT
1 GCTAAAAACACCTTTAATAATCCTCTCA-T-AA-AAATTG-AAGGGGATTATTCAAG-TGTTTTT
17625045 TG
61 TG
*
17625047 GCTAAAAACACCTTTAATAATCCTCTCATAAAAATTGAAGGGGATTATTCAAGGTATTTTTTG
1 GCTAAAAACACCTTTAATAATCCTCTCATAAAAATTGAAGGGGATTATTCAA-GTGTTTTTTG
17625110 TCATAATCGC
Statistics
Matches: 93, Mismatches: 21, Indels: 22
0.68 0.15 0.16
Matches are distributed among these distances:
58 2 0.02
59 2 0.02
60 2 0.02
61 30 0.32
62 4 0.04
63 44 0.47
64 5 0.05
65 2 0.02
66 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (62 bp):
GCTAAAAACACCTTTAATAATCCTCTCATAAAAATTGAAGGGGATTATTCAAGTGTTTTTTG
Found at i:17625178 original size:124 final size:124
Alignment explanation
Indices: 17624924--17625180 Score: 306
Period size: 124 Copynumber: 2.1 Consensus size: 124
17624914 GCATTTCTAG
*
17624924 CTAAAAACACCATTAATAATCTACTCATAAAAATTTAAGGGGATTATTCAAGGTGTTTTAGCCAG
1 CTAAAAACACCATTAATAATCTACTCATAAAAATTGAAGGGGATTATTCAAGGTGTTTTAGCCAG
* * * * **
17624989 AAACGCCTTCAATAACCCCATTCAATATTTTGTAACAGATTATTCAAGATGTTTTTTGG
66 AAACGCCTTCAATAACCCAATTCAATATTTTCTAACAGATTATTCAAGATATTTTCTCA
* * * *
17625048 CTAAAAACACCTTTAATAATCCT-CTCATAAAAATTGAAGGGGATTATTCAAGGTATTTTTTGTC
1 CTAAAAACACCATTAATAAT-CTACTCATAAAAATTGAAGGGGATTATTCAAGGT-GTTTTAGCC
* * * * *
17625112 ATAATCGCCTT-AACTAACCCAATTCAATTTTTTCTAA-GGACTTATTCAAGGTATTTTCTCA
64 AGAAACGCCTTCAA-TAACCCAATTCAATATTTTCTAACAGA-TTATTCAAGATATTTTCTCA
17625173 C-AAAAACA
1 CTAAAAACA
17625181 TGGGTTTATT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
124 60 0.53
125 53 0.47
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (124 bp):
CTAAAAACACCATTAATAATCTACTCATAAAAATTGAAGGGGATTATTCAAGGTGTTTTAGCCAG
AAACGCCTTCAATAACCCAATTCAATATTTTCTAACAGATTATTCAAGATATTTTCTCA
Found at i:17629278 original size:63 final size:62
Alignment explanation
Indices: 17629161--17629282 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 62
17629151 TAATCTCCTC
* * *
17629161 TAAAAAATTAAAGAGGATTATTCAAGGCATTTTTGGCCCAAACTGCCTTGAATAATCCACTTA
1 TAAAAAATTAAAGAGGATTATTCAAGGCATTTTTGGCCAAAACTACCTTCAATAA-CCACTTA
* **
17629224 TAAAAAATATAAAG-GGATTATTTAAGGTGTTTTTGGCCAAAAGC-ACCTTCAATAACCAC
1 TAAAAAAT-TAAAGAGGATTATTCAAGGCATTTTTGGCCAAAA-CTACCTTCAATAACCAC
17629283 ATTCAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
62 4 0.08
63 41 0.80
64 6 0.12
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (62 bp):
TAAAAAATTAAAGAGGATTATTCAAGGCATTTTTGGCCAAAACTACCTTCAATAACCACTTA
Found at i:17637729 original size:159 final size:156
Alignment explanation
Indices: 17637563--17637908 Score: 370
Period size: 159 Copynumber: 2.2 Consensus size: 156
17637553 AAATATAATA
* * ** *
17637563 AAAAAAATTAAAACATATAAGTCTATACTAACAATCTCTAACCATCGGTATAGGTAAGAAAATTA
1 AAAAAAATTAAAACATATAAGTCTATACTAACAAGCGCTAACCATCACTAGAGGTAAGAAAATTA
* * ** * *
17637628 AAAAATACAAGTCTATATTGACAGATGC-TAAGTGTTGGTATAGGTAAAAAAATTATAAGTCTAT
66 AAAAATACAAATCTATACTGACAG--GCTTAAGCATTAGTATAGG-AAAAAAATTACAAGTCTAT
* * ** *
17637692 ACTGATAGGTGTTAACCATCGGTAAAGGTC
128 ACTGACAAGCATTAACCATCAGTAAAGG-C
* * * * ** *
17637722 AAAAAAATTAAAACATATAAGTTTATACTGACGAGCGCTAGCTGTCACTAGAGGTGAGAAAATTA
1 AAAAAAATTAAAACATATAAGTCTATACTAACAAGCGCTAACCATCACTAGAGGTAAGAAAATTA
* *
17637787 AAACATACAAATCTATACTGATAGGCTTTAAGCATTAGTATAGGAAAAAAATTACAAGTCTATAC
66 AAAAATACAAATCTATACTGACAGGC-TTAAGCATTAGTATAGGAAAAAAATTACAAGTCTATAC
* * *
17637852 TTACAAGCATTAACCATTAGTATAGGC
130 TGACAAGCATTAACCATCAGTAAAGGC
*
17637879 AAGAAAAATTAAAACATACAAGTCTATACT
1 AA-AAAAATTAAAACATATAAGTCTATACT
17637909 GACTGGTGTT
Statistics
Matches: 154, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
157 5 0.03
158 63 0.41
159 86 0.56
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (156 bp):
AAAAAAATTAAAACATATAAGTCTATACTAACAAGCGCTAACCATCACTAGAGGTAAGAAAATTA
AAAAATACAAATCTATACTGACAGGCTTAAGCATTAGTATAGGAAAAAAATTACAAGTCTATACT
GACAAGCATTAACCATCAGTAAAGGC
Found at i:17637852 original size:47 final size:49
Alignment explanation
Indices: 17637792--17637889 Score: 128
Period size: 47 Copynumber: 2.0 Consensus size: 49
17637782 AATTAAAACA
* * * *
17637792 TACAAATCTATACTGATAGGCTTTAAGCATTAGTATAGG-AA-AAAAAT
1 TACAAATCTATACTGACAAGCATTAACCATTAGTATAGGCAAGAAAAAT
* *
17637839 TACAAGTCTATACTTACAAGCATTAACCATTAGTATAGGCAAGAAAAAT
1 TACAAATCTATACTGACAAGCATTAACCATTAGTATAGGCAAGAAAAAT
17637888 TA
1 TA
17637890 AAACATACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 33 0.77
48 2 0.05
49 8 0.19
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (49 bp):
TACAAATCTATACTGACAAGCATTAACCATTAGTATAGGCAAGAAAAAT
Found at i:17646044 original size:35 final size:35
Alignment explanation
Indices: 17645938--17646044 Score: 169
Period size: 35 Copynumber: 3.1 Consensus size: 35
17645928 TCATTATATT
*
17645938 AGTGGCATTTGTATTAGAAAAATGCTGCTCAATAG
1 AGTGGCATTTGTATCAGAAAAATGCTGCTCAATAG
*
17645973 AATGGCATTTGTATCAGAAAAATGCTGCTCAATAG
1 AGTGGCATTTGTATCAGAAAAATGCTGCTCAATAG
* * *
17646008 AGTGGCATTTGTATCAGGAAAATGCTACTTAATAG
1 AGTGGCATTTGTATCAGAAAAATGCTGCTCAATAG
17646043 AG
1 AG
17646045 CGGCGTTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (35 bp):
AGTGGCATTTGTATCAGAAAAATGCTGCTCAATAG
Found at i:17646214 original size:12 final size:12
Alignment explanation
Indices: 17646199--17646224 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17646189 TTTAATTTCT
17646199 TTTTTAAATTTA
1 TTTTTAAATTTA
17646211 TTTTTAAATTTA
1 TTTTTAAATTTA
17646223 TT
1 TT
17646225 ATTATCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTAAATTTA
Found at i:17647650 original size:163 final size:160
Alignment explanation
Indices: 17647460--17647771 Score: 351
Period size: 162 Copynumber: 1.9 Consensus size: 160
17647450 TTTGGACAAG
* * ** ****
17647460 TTTAATATCATGTATTGAAATTATCCAAACTGTTAAAACATGGTGAATAACA-ATAGCTTTGTAT
1 TTTAATAGCATGTATTGAAACTATCCAAACTACTAAAACA-AAACAATAACACAT-G-TTTGTAT
* * *
17647524 TTTTGCCTTTTAACG-GCAAAAAAGGTCCTAAACAGAGGTAATCAACAACT-TTGCCACATATGT
63 TTTTGCCTTTTAACGACCAAAAAA--TCCTAAACAGAGGTAAACAACAACTCTT-CCACATATAT
* *
17647587 TAATTGTGAAAACCAAATTCAATTAATCAAAAAATT
125 CAACTGTGAAAACCAAATTCAATTAATCAAAAAATT
* *
17647623 TTTAATAGCATGTATTGAAGCTATCCAAATTACTAAAACAAAACAATAACAGCATGTTTGTATTT
1 TTTAATAGCATGTATTGAAACTATCCAAACTACTAAAACAAAACAATAACA-CATGTTTGTATTT
* * * *
17647688 TTGCCTTTTAATGACCCGAAAAATCCTAAATAGAGGTAAACAACAACTCTTTCACATATATCAAC
65 TTGCCTTTTAACGA-CCAAAAAATCCTAAACAGAGGTAAACAACAACTCTTCCACATATATCAAC
*
17647753 TGTGAAAACCAAGTTCAAT
129 TGTGAAAACCAAATTCAAT
17647772 CATTTGAAAA
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
162 79 0.64
163 37 0.30
164 8 0.06
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (160 bp):
TTTAATAGCATGTATTGAAACTATCCAAACTACTAAAACAAAACAATAACACATGTTTGTATTTT
TGCCTTTTAACGACCAAAAAATCCTAAACAGAGGTAAACAACAACTCTTCCACATATATCAACTG
TGAAAACCAAATTCAATTAATCAAAAAATT
Found at i:17647912 original size:161 final size:160
Alignment explanation
Indices: 17647431--17648186 Score: 525
Period size: 161 Copynumber: 4.7 Consensus size: 160
17647421 ATATCATTCA
* * *** *
17647431 TGGAAACCAAATTCAATCATTTGGACAAGTTTAATATCATGTATTGAAATTATCCAAACTGTTAA
1 TGGAAACCAAGTTCAATCATTTGGATAAGTTTAATATCATGTA-TGAAGCCATCCAAACTATTAA
* *** * ** * * * * *
17647496 AACATGGTGAATAACAA-TAGCTTTGTATTTTTGCCTTTTAACGGCAAAAAAGGTCCTAAACAGA
65 AATA-GAACAATAACAACAAAATTTGTATTATTACCTATTAACGGCAAAAAA-ATCCTAAATAGA
* * * ** * * * *
17647560 GGTAATCAACAACTTTGCCACATATGTTAATTG
128 CGTAAACAATAACTTTTTCACACATATCAACTG
* * * * *** * * * * * *
17647593 TGAAAACCAAATTCAATTAATCAAAAAATTTTTAATAGCATGTATTGAAGCTATCCAAATTACTA
1 TGGAAACCAAGTTCAATCATTTGGATAA-GTTTAATATCATGTA-TGAAGCCATCCAAACTATTA
* * * ** * * * * * **
17647658 AAACAAAACAATAACAGC-ATGTTTGTATTTTTGCCTTTTAATGACCCGAAAAATCCTAAATAGA
64 AAATAGAACAATAACAACAAAATTTGTATTATTACCTATTAACG-GCAAAAAAATCCTAAATAGA
* * * *
17647722 GGTAAACAACAACTCTTTCACATATATCAACTG
128 CGTAAACAATAACTTTTTCACACATATCAACTG
* * * * * * *
17647755 TGAAAACCAAGTTCAATCATTTGAAAAAGTTTATTGTCATGTACTGAAGCCATCCAAATTGTTAA
1 TGGAAACCAAGTTCAATCATTTGGATAAGTTTAATATCATGTA-TGAAGCCATCCAAACTATTAA
* * * * *** *
17647820 AATAGAATAATAATAGC-AATTTTGTAATT-TTGTGTTTTAACGGCAAAAATAATCCTAAATAGA
65 AATAGAACAATAACAACAAAATTTGT-ATTATTACCTATTAACGGCAAAAA-AATCCTAAATAGA
** *
17647883 CGTAAATGATAACTTTTTTACACATATCAACTG
128 CGTAAACAATAACTTTTTCACACATATCAACTG
* * * *
17647916 TGGAAACCAAGTTCATTCATTCGGATAAGTTTAATATCATGTATTAGAGCTATCCAAACTATTAA
1 TGGAAACCAAGTTCAATCATTTGGATAAGTTTAATATCATGTATGA-AGCCATCCAAACTATTAA
* *
17647981 AATAGAACAATAACAACAAAATTTGTATTATTACCTATTAACGGCACAAAAGTCCTAAATAGACG
65 AATAGAACAATAACAACAAAATTTGTATTATTACCTATTAACGGCAAAAAAATCCTAAATAGACG
*
17648046 TAAACAATAACTTTTTCATACATATCAA-TCG
130 TAAACAATAACTTTTTCACACATATCAACT-G
* * * * *
17648077 TGGAAACTAAGTTCAATAATTTGGATAAGTTTAATATCATGTATTGAAACTATCAAAACTATTAA
1 TGGAAACCAAGTTCAATCATTTGGATAAGTTTAATATCATGTA-TGAAGCCATCCAAACTATTAA
* *** * * *
17648142 AATAAAACAATAAC-TGTAAATTTGTATTTTTAACTTTTAACGGCA
65 AATAGAACAATAACAACAAAATTTGTATTATTACCTATTAACGGCA
17648187 CTAAAAAAAT
Statistics
Matches: 479, Mismatches: 105, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
160 32 0.07
161 272 0.57
162 136 0.28
163 39 0.08
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (160 bp):
TGGAAACCAAGTTCAATCATTTGGATAAGTTTAATATCATGTATGAAGCCATCCAAACTATTAAA
ATAGAACAATAACAACAAAATTTGTATTATTACCTATTAACGGCAAAAAAATCCTAAATAGACGT
AAACAATAACTTTTTCACACATATCAACTG
Found at i:17649400 original size:13 final size:13
Alignment explanation
Indices: 17649358--17649400 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
17649348 ATAAAAGCGA
*
17649358 ATATATTAAAAAC
1 ATATATAAAAAAC
* *
17649371 ATATGTAAAGAAC
1 ATATATAAAAAAC
*
17649384 ATATATAAAAAAG
1 ATATATAAAAAAC
17649397 ATAT
1 ATAT
17649401 TGAAAAGTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (13 bp):
ATATATAAAAAAC
Found at i:17654265 original size:124 final size:124
Alignment explanation
Indices: 17654040--17654298 Score: 301
Period size: 123 Copynumber: 2.1 Consensus size: 124
17654030 AACATTTAAC
* * * **
17654040 ATTATTAAAGGCATTTTTTGCTAAAAACGCCTTTAATAATCCCCTTCAATTTTTTAAACGGGATT
1 ATTATTAAAGGCATGTTTTGCTAAAAACACCTTCAATAATCAACTTCAATTTTTTAAACGGGATT
* * *
17654105 ATTGAAGGCATGTTTAGTCAAATACACCTTCAATAAT-CCCTTAAAAATTTTAAAAGAA
66 ATTAAAGGCATGTTTAGTCAAATACACCTTCAATAATCCCCTGAAAAAATTTAAAAGAA
* * *
17654163 ATTATTGAAGGCATGTTTTGC-AGAAAACACCTTCAATAATCAAC-TCTAATTTTTTACCAGGGG
1 ATTATTAAAGGCATGTTTTGCTA-AAAACACCTTCAATAATCAACTTC-AATTTTTTA-AACGGG
** * * * *
17654226 ATTATTAAAGGTGTTTTTAGTCACAA-ACGCGTTCAATAATCCCCTGAAAAAATTTAAAGGAA
63 ATTATTAAAGGCATGTTTAGTCA-AATACACCTTCAATAATCCCCTGAAAAAATTTAAAAGAA
17654288 ATTATTAAAGG
1 ATTATTAAAGG
17654299 TATTTTTTTA
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
122 3 0.03
123 45 0.40
124 35 0.31
125 30 0.27
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (124 bp):
ATTATTAAAGGCATGTTTTGCTAAAAACACCTTCAATAATCAACTTCAATTTTTTAAACGGGATT
ATTAAAGGCATGTTTAGTCAAATACACCTTCAATAATCCCCTGAAAAAATTTAAAAGAA
Found at i:17654380 original size:64 final size:64
Alignment explanation
Indices: 17654257--17654381 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 64
17654247 CACAAACGCG
* * *
17654257 TTCAATAATCCCCTGAAAAAATTTAAAGGAAATTATTAAAGGTATTTTTTTACAAAAAAATAAA
1 TTCAATAATCCCATGAAAAAATTTAAAGAAAATTATTAAAGGTATTTTCTTACAAAAAAATAAA
* * *
17654321 TTCAATAATCCCAT-AAAAATTTTTAAAGAAAATTATTGAAGGTATTTTCTTGCATAAAAAA
1 TTCAATAATCCCATGAAAAA-ATTTAAAGAAAATTATTAAAGGTATTTTCTTACA-AAAAAA
17654382 GCTTTAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 5 0.09
64 42 0.79
65 6 0.11
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (64 bp):
TTCAATAATCCCATGAAAAAATTTAAAGAAAATTATTAAAGGTATTTTCTTACAAAAAAATAAA
Found at i:17654464 original size:126 final size:124
Alignment explanation
Indices: 17654321--17654623 Score: 360
Period size: 126 Copynumber: 2.4 Consensus size: 124
17654311 AAAAAATAAA
*
17654321 TTCAATAATCCCATAAAAATTTTTAAAGAAAATTATTGAAGGTATTTTCTTGCATAAAAAAG-CT
1 TTCAATAATCCC-TAAAAATTTTTAAAG-AAATTATTGAAGGTATTTT-TTAC-TAAAAAAGCCT
* * * * *
17654385 TTAATAATCTCATCCAATTTTTTATC-AGCGCATTATTGAAGGCATTTTTAAT-CATAAACGCC
62 TCAATAATCCCATCCAATTTTTTATCAAG-GCATTATTGAAGGCATTTTTAATAAAAAAACACC
* * * *
17654447 TTCAATAATCTCCTAAAAATTTTTGAAAGAATTTATTGAAGGTAGTTTTTACTGAAAACGCCTTC
1 TTCAATAATC-CCTAAAAATTTTT-AAAGAAATTATTGAAGGTATTTTTTACTAAAAAAGCCTTC
* * * *
17654512 AATAATCCCTTCTAATTTTTTATCAAGGGATTATTGAAGGCATTTTTAGTAAAAAAACACC
64 AATAATCCCATCCAATTTTTTATCAAGGCATTATTGAAGGCATTTTTAATAAAAAAACACC
* *
17654573 TTCAATAATCCTCTAAAATTTTTTAAAGGAAATTATTGAAGGCATTTTTTA
1 TTCAATAATCC-CTAAAAATTTTTAAA-GAAATTATTGAAGGTATTTTTTA
17654624 TTTTTGCAAA
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
124 6 0.04
125 52 0.34
126 88 0.58
127 6 0.04
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (124 bp):
TTCAATAATCCCTAAAAATTTTTAAAGAAATTATTGAAGGTATTTTTTACTAAAAAAGCCTTCAA
TAATCCCATCCAATTTTTTATCAAGGCATTATTGAAGGCATTTTTAATAAAAAAACACC
Found at i:17654558 original size:62 final size:60
Alignment explanation
Indices: 17654040--17654716 Score: 306
Period size: 62 Copynumber: 10.7 Consensus size: 60
17654030 AACATTTAAC
* * * *
17654040 ATTATTAAAGGCATTTTTTGCTAAAAACGCCTTTAATAATCCCCTTC-AATTTTTTAAACGGG
1 ATTATTGAAGGCA-TTTTTACTAAAAACGCCTTCAATAAT-CCCTTCAAATTTTTTAAA-GGA
* * * * * * * *
17654102 ATTATTGAAGGCATGTTTAGTCAAATACACCTTCAATAATCCCTTAAAAATTTTAAAAGAA
1 ATTATTGAAGGCATTTTTACT-AAAAACGCCTTCAATAATCCCTTCAAATTTTTTAAAGGA
* * * * * *
17654163 ATTATTGAAGGCATGTTTTGC-AGAAAACACCTTCAATAATCAAC-TCTAATTTTTTACCAGGGG
1 ATTATTGAAGGCAT-TTTTACTA-AAAACGCCTTCAATAATC-CCTTCAAATTTTTTA--AAGGA
* ** * * * * * ***
17654226 ATTATTAAAGGTGTTTTTAGTCACAAACGCGTTCAATAATCCCCTGAAAAAATTTAAAGGAA
1 ATTATTGAAGGCATTTTTACT-AAAAACGCCTTCAATAATCCCTTCAAATTTTTTAAAGG-A
* * * **** * * * *
17654288 ATTATTAAAGGTATTTTTTTACAAAAAAATAAATTCAATAATCCCATAAAAATTTTTAAAGAAA
1 ATTATTGAAGGCA--TTTTTAC-TAAAAACGCCTTCAATAATCCCTTCAAATTTTTTAAAG-GA
* * * * * * * * *
17654352 ATTATTGAAGGTATTTTCTTGCATAAAAAAG-CTTTAATAATCTCATCCAATTTTTTATCAGCGC
1 ATTATTGAAGGCA-TTT-TTAC-TAAAAACGCCTTCAATAATCCCTTCAAATTTTTTA-AAG-GA
* * ** *
17654416 ATTATTGAAGGCATTTTTAATCATAAACGCCTTCAATAATCTCCTAAAAATTTTTGAAA-GA
1 ATTATTGAAGGCATTTTTACT-AAAAACGCCTTCAATAATC-CCTTCAAATTTTTTAAAGGA
* * * *
17654477 ATTTATTGAAGGTAGTTTTTACTGAAAACGCCTTCAATAATCCCTTCTAATTTTTTATCAAGGG
1 A-TTATTGAAGGCA-TTTTTACTAAAAACGCCTTCAATAATCCCTTCAAATTTTTTA--AAGGA
* * *
17654541 ATTATTGAAGGCATTTTTAGTAAAAAAACACCTTCAATAAT-CCTCTAAAATTTTTTAAAGGAA
1 ATTATTGAAGGCATTTTTACT--AAAAACGCCTTCAATAATCCCT-TCAAATTTTTTAAAGG-A
* * * * ** *
17654604 ATTATTGAAGGCATTTTTTATTTTTGCAAAAAATGCCTTCAATAATCTCCTTTAAAAATTCATAG
1 ATTATTGAAGGCA-TTTTTA------CTAAAAACGCCTTCAATAATC-CC-TTCAAATTTTTTAA
17654669 AGG-
57 AGGA
* * *
17654672 ATTATTGAAGGCATTTTTAGTGAAAAATGCCTTTAATAATCCCTT
1 ATTATTGAAGGCATTTTTACT-AAAAACGCCTTCAATAATCCCTT
17654717 AATAACAAAT
Statistics
Matches: 466, Mismatches: 109, Indels: 82
0.71 0.17 0.12
Matches are distributed among these distances:
60 3 0.01
61 69 0.15
62 121 0.26
63 109 0.23
64 114 0.24
67 6 0.01
68 29 0.06
70 14 0.03
71 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (60 bp):
ATTATTGAAGGCATTTTTACTAAAAACGCCTTCAATAATCCCTTCAAATTTTTTAAAGGA
Found at i:17654609 original size:63 final size:62
Alignment explanation
Indices: 17654040--17654621 Score: 309
Period size: 63 Copynumber: 9.3 Consensus size: 62
17654030 AACATTTAAC
* * * * * ** *
17654040 ATTATTAAAGGCATTTTTTGCT-AAAAACGCCTTTAATAATCCCCTTCAATTTTTTAAACGG-G
1 ATTATTGAAGGCATTTTTAG-TAAAAAACACCTTCAATAATCCTCTAAAATTTTTTAAA-GGAA
* * * * *
17654102 ATTATTGAAGGCATGTTTAGTCAAATACACCTTCAATAATCC-CTTAAAA-ATTTTAAAAGAA
1 ATTATTGAAGGCATTTTTAGTAAAAAACACCTTCAATAATCCTC-TAAAATTTTTTAAAGGAA
* * * *
17654163 ATTATTGAAGGCATGTTTT-GCAGAAAACACCTTCAATAATCAACTCT--AATTTTTTACCAGGG
1 ATTATTGAAGGCAT-TTTTAGTAAAAAACACCTTCAATAATC--CTCTAAAATTTTTTA-AAGGA
*
17654225 G
62 A
* ** * * * * * **
17654226 ATTATTAAAGGTGTTTTTAGTCACAAACGCGTTCAATAATCCCCTGAAAA-AATTTAAAGGAA
1 ATTATTGAAGGCATTTTTAGTAAAAAACACCTTCAATAATCCTCT-AAAATTTTTTAAAGGAA
* * ** * ** * *
17654288 ATTATTAAAGGTATTTTTTTACAAAAAAATAAATTCAATAATCC-CATAAAAATTTTTAAAGAAA
1 ATTATTGAAGGCA--TTTTTAGTAAAAAACACCTTCAATAATCCTC-TAAAATTTTTTAAAGGAA
* * * * * ** *
17654352 ATTATTGAAGGTATTTTCTTGCATAAAAA-AGCTTTAATAAT-CTCATCCAATTTTTTATCAGCG
1 ATTATTGAAGGCATTTT-TAGTA-AAAAACACCTTCAATAATCCTC-TAAAATTTTTTA-AAG-G
*
17654415 -C
61 AA
* * * * *
17654416 ATTATTGAAGGCATTTTTAATCATAAACGCCTTCAATAAT-CTCCTAAAAATTTTTGAAA-GAA
1 ATTATTGAAGGCATTTTTAGTAAAAAACACCTTCAATAATCCT-CT-AAAATTTTTTAAAGGAA
* * * * *
17654478 TTTATTGAAGGTAGTTTTTACT-GAAAACGCCTTCAATAATCCCTTCT--AATTTTTTATCAAGG
1 ATTATTGAAGGCA-TTTTTAGTAAAAAACACCTTCAATAAT-CC-TCTAAAATTTTTTA--AAGG
*
17654540 -G
61 AA
17654541 ATTATTGAAGGCATTTTTAGTAAAAAAACACCTTCAATAATCCTCTAAAATTTTTTAAAGGAA
1 ATTATTGAAGGCATTTTTAGT-AAAAAACACCTTCAATAATCCTCTAAAATTTTTTAAAGGAA
17654604 ATTATTGAAGGCATTTTT
1 ATTATTGAAGGCATTTTT
17654622 TATTTTTGCA
Statistics
Matches: 394, Mismatches: 88, Indels: 75
0.71 0.16 0.13
Matches are distributed among these distances:
60 1 0.00
61 55 0.14
62 114 0.29
63 116 0.29
64 107 0.27
65 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (62 bp):
ATTATTGAAGGCATTTTTAGTAAAAAACACCTTCAATAATCCTCTAAAATTTTTTAAAGGAA
Found at i:17654745 original size:63 final size:62
Alignment explanation
Indices: 17654632--17654751 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 62
17654622 TATTTTTGCA
*
17654632 AAAAATGCCTTCAATAATCTCCTTTAAAAATTCATAGAGGATTATTGAAGGCATTTTTAGTG
1 AAAAATGCCTTCAATAATCTCCTTTAAAAATTCACAGAGGATTATTGAAGGCATTTTTAGTG
* * *
17654694 AAAAATGCCTTTAATAATC-CCTTAATAACAAATT-ACAGGGGATTATTGAAGGTATTTT
1 AAAAATGCCTTCAATAATCTCCTT--TAA-AAATTCACAGAGGATTATTGAAGGCATTTT
17654752 GTTTTTCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
61 4 0.08
62 18 0.35
63 24 0.47
64 5 0.10
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (62 bp):
AAAAATGCCTTCAATAATCTCCTTTAAAAATTCACAGAGGATTATTGAAGGCATTTTTAGTG
Found at i:17658480 original size:35 final size:35
Alignment explanation
Indices: 17658428--17658498 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
17658418 TATACAAAAA
17658428 AAATGTTTTCTAAGCATAAACCTACAACTAACTTC
1 AAATGTTTTCTAAGCATAAACCTACAACTAACTTC
**
17658463 AAATGTTTTCTGGGCATAAACCTACAACTAACTTC
1 AAATGTTTTCTAAGCATAAACCTACAACTAACTTC
17658498 A
1 A
17658499 GATATATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (35 bp):
AAATGTTTTCTAAGCATAAACCTACAACTAACTTC
Found at i:17659255 original size:63 final size:60
Alignment explanation
Indices: 17659129--17659308 Score: 150
Period size: 63 Copynumber: 2.9 Consensus size: 60
17659119 TTTCTGACAG
* * **
17659129 AAAACACTTTCAATAATTGC-CTCCATTTTTTATAAGG-GAATTATTCAAGGCGTTGCCTACCA
1 AAAACACCTTCAATAA-T-CACTCCA-TTTTTATGAGGAG-ATTATTCAAGGCGTTTTCTACCA
** * * *
17659191 AAAATGCCTTCAATAATCCCTTATCCATTTTTATGAGGAGATTATTCAAGGCGTTTTTTGCCA
1 AAAACACCTTCAATAATCAC---TCCATTTTTATGAGGAGATTATTCAAGGCGTTTTCTACCA
* * *
17659254 AAAACACCTTCTATAATCACTCCAAATTTTTA-GAGAAGATTATTCAAGGCATTTT
1 AAAACACCTTCAATAATCACTCC--ATTTTTATGAGGAGATTATTCAAGGCGTTTT
17659309 AGTTGATAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
60 4 0.04
61 23 0.24
62 20 0.21
63 45 0.46
64 5 0.05
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (60 bp):
AAAACACCTTCAATAATCACTCCATTTTTATGAGGAGATTATTCAAGGCGTTTTCTACCA
Found at i:17666076 original size:118 final size:118
Alignment explanation
Indices: 17665868--17666102 Score: 461
Period size: 118 Copynumber: 2.0 Consensus size: 118
17665858 TGTTAATGTG
*
17665868 TAATTTCTTGAACACCTTTAAAAATTTAAAGAACTACTTCTCCTTTCCTACTTCTAAAATTTTTG
1 TAATTTCTTGAACACCTTTAAAAACTTAAAGAACTACTTCTCCTTTCCTACTTCTAAAATTTTTG
17665933 AGAAAAAGGAATGCAAGGCCTAGATGGCTCAACTCTATGAAGAACAAGCCTAC
66 AGAAAAAGGAATGCAAGGCCTAGATGGCTCAACTCTATGAAGAACAAGCCTAC
17665986 TAATTTCTTGAACACCTTTAAAAACTTAAAGAACTACTTCTCCTTTCCTACTTCTAAAATTTTTG
1 TAATTTCTTGAACACCTTTAAAAACTTAAAGAACTACTTCTCCTTTCCTACTTCTAAAATTTTTG
17666051 AGAAAAAGGAATGCAAGGCCTAGATGGCTCAACTCTATGAAGAACAAGCCTA
66 AGAAAAAGGAATGCAAGGCCTAGATGGCTCAACTCTATGAAGAACAAGCCTA
17666103 TAAGAACTAG
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (118 bp):
TAATTTCTTGAACACCTTTAAAAACTTAAAGAACTACTTCTCCTTTCCTACTTCTAAAATTTTTG
AGAAAAAGGAATGCAAGGCCTAGATGGCTCAACTCTATGAAGAACAAGCCTAC
Found at i:17668709 original size:20 final size:21
Alignment explanation
Indices: 17668684--17668734 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
17668674 TTAGCTTGAG
*
17668684 CAATAG-CTCCAATGTTGTCA
1 CAATAGACTACAATGTTGTCA
*
17668704 CAATAGACTATAATGTTGTCA
1 CAATAGACTACAATGTTGTCA
17668725 CAATAGACTA
1 CAATAGACTA
17668735 TTATTGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (21 bp):
CAATAGACTACAATGTTGTCA
Found at i:17668720 original size:21 final size:21
Alignment explanation
Indices: 17668694--17668735 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17668684 CAATAGCTCC
17668694 AATGTTGTCACAATAGACTAT
1 AATGTTGTCACAATAGACTAT
17668715 AATGTTGTCACAATAGACTAT
1 AATGTTGTCACAATAGACTAT
17668736 TATTGGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
AATGTTGTCACAATAGACTAT
Found at i:17679593 original size:7 final size:6
Alignment explanation
Indices: 17679571--17679609 Score: 51
Period size: 7 Copynumber: 6.0 Consensus size: 6
17679561 TATTCTTTGA
17679571 ATCAAT ATCAAT ATCATAT ATCAATT ATCAATT ATCAAT
1 ATCAAT ATCAAT ATCA-AT ATCAA-T ATCAA-T ATCAAT
17679610 CCAACTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (6 bp):
ATCAAT
Found at i:17688820 original size:9 final size:8
Alignment explanation
Indices: 17688808--17688842 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
17688798 AAAAAAAATC
17688808 AAGGAAAGA
1 AAGGAAA-A
17688817 AAGGAAAA
1 AAGGAAAA
*
17688825 AAAGAAAA
1 AAGGAAAA
17688833 AAGGAAAA
1 AAGGAAAA
17688841 AA
1 AA
17688843 TGAATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (8 bp):
AAGGAAAA
Found at i:17688837 original size:16 final size:17
Alignment explanation
Indices: 17688787--17688842 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 17
17688777 TGGAACTTAG
17688787 AAAAAAGAAAGAAA--A
1 AAAAAAGAAAGAAAGGA
17688802 AAAATCAAGGAAAGAAAGGA
1 AAAA--AA-GAAAGAAAGGA
17688822 AAAAAAGAAA-AAAGGA
1 AAAAAAGAAAGAAAGGA
17688838 AAAAA
1 AAAAA
17688843 TGAATAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.11
16 11 0.31
17 6 0.17
18 10 0.28
20 5 0.14
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAGAAAGGA
Found at i:17693092 original size:19 final size:19
Alignment explanation
Indices: 17693070--17693135 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
17693060 TAGGTTTTTA
*
17693070 TTTAGGGTTTCACCTAGTG
1 TTTAGGGTTTCACCTAGGG
*
17693089 TTTAGGGTTTTACCTAGGG
1 TTTAGGGTTTCACCTAGGG
* * *
17693108 TTTTGGGCTT-ACCTAAGG
1 TTTAGGGTTTCACCTAGGG
*
17693126 TTTAAGGTTT
1 TTTAGGGTTT
17693136 TGGGTTTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 14 0.36
19 25 0.64
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.44
Consensus pattern (19 bp):
TTTAGGGTTTCACCTAGGG
Found at i:17693373 original size:17 final size:16
Alignment explanation
Indices: 17693339--17693389 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
17693329 TAAACTTTTA
17693339 TTATTATTTATTAATT
1 TTATTATTTATTAATT
* *
17693355 TTTTTATTATATTATTT
1 TTATTATT-TATTAATT
*
17693372 TTATTATTTAATAATT
1 TTATTATTTATTAATT
17693388 TT
1 TT
17693390 CCTATATCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTTATTAATT
Found at i:17693374 original size:14 final size:14
Alignment explanation
Indices: 17693337--17693378 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
17693327 TTTAAACTTT
17693337 TATTATTATTTATTA
1 TATTATT-TTTATTA
17693352 -ATT-TTTTTATTA
1 TATTATTTTTATTA
17693364 TATTATTTTTATTA
1 TATTATTTTTATTA
17693378 T
1 T
17693379 TTAATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.28
13 5 0.20
14 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATTTTTATTA
Found at i:17694792 original size:24 final size:23
Alignment explanation
Indices: 17694746--17694828 Score: 67
Period size: 23 Copynumber: 3.4 Consensus size: 23
17694736 TGCTCCTGTT
* *
17694746 TCTTTTTTTTTCTTCCTCGTTTTC
1 TCTTTTTTTTTCTACCT-TTTTTC
*
17694770 TCTTTTTTCTTTCTCCCTTTTTTTTC
1 TCTTTTTT-TTTCTACC--TTTTTTC
* * *
17694796 TCATTTTTTTGCTATCTTTTTTC
1 TCTTTTTTTTTCTACCTTTTTTC
*
17694819 TCATTTTTTT
1 TCTTTTTTTT
17694829 GTTGCCACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 17 0.34
24 8 0.16
25 12 0.24
26 12 0.24
27 1 0.02
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (23 bp):
TCTTTTTTTTTCTACCTTTTTTC
Found at i:17694804 original size:11 final size:11
Alignment explanation
Indices: 17694788--17694828 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
17694778 CTTTCTCCCT
17694788 TTTTTTTCTCA
1 TTTTTTTCTCA
17694799 TTTTTTTGCT-A
1 TTTTTTT-CTCA
17694810 TCTTTTTTCTCA
1 T-TTTTTTCTCA
17694822 TTTTTTT
1 TTTTTTT
17694829 GTTGCCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTTTTCTCA
Found at i:17694840 original size:23 final size:23
Alignment explanation
Indices: 17694791--17694840 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
17694781 TCTCCCTTTT
* **
17694791 TTTTCTCATTTTTTTGCTATCTT
1 TTTTCTCATTTTTTTGCTACCAC
* *
17694814 TTTTCTCATTTTTTTGTTGCCAC
1 TTTTCTCATTTTTTTGCTACCAC
17694837 TTTT
1 TTTT
17694841 AGTCTCTAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.08, C:0.18, G:0.06, T:0.68
Consensus pattern (23 bp):
TTTTCTCATTTTTTTGCTACCAC
Found at i:17699099 original size:12 final size:12
Alignment explanation
Indices: 17699082--17699106 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17699072 GCATCATTCA
17699082 ATCTCCTAAACC
1 ATCTCCTAAACC
17699094 ATCTCCTAAACC
1 ATCTCCTAAACC
17699106 A
1 A
17699107 ATCTTTACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (12 bp):
ATCTCCTAAACC
Done.