Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 79 of 202
Found at i:23344727 original size:2 final size:2
Alignment explanation
Indices: 23344720--23344750 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23344710 AGTTGAAAAG
*
23344720 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23344751 GGGTGCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:23345616 original size:48 final size:48
Alignment explanation
Indices: 23345545--23345640 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
23345535 GGTTTAGATG
23345545 GATTGAAATTCTAAGTTTTGTTTTAAATGGTTTAAGTAAAATTTTTAA
1 GATTGAAATTCTAAGTTTTGTTTTAAATGGTTTAAGTAAAATTTTTAA
23345593 GATTGAAATTCTAAGTTTTGTTTTAAATGGTTTAAGTAAAATTTTTAA
1 GATTGAAATTCTAAGTTTTGTTTTAAATGGTTTAAGTAAAATTTTTAA
23345641 TTATGCTTAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (48 bp):
GATTGAAATTCTAAGTTTTGTTTTAAATGGTTTAAGTAAAATTTTTAA
Found at i:23347744 original size:41 final size:40
Alignment explanation
Indices: 23347677--23347756 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
23347667 AATACCGACC
* *
23347677 TTTTCATTGATATCTTCTTTGTATATCGTCCTTTTCAACA
1 TTTTCATTGATATCTTCTTTGGATATCATCCTTTTCAACA
23347717 TTTTCATTTGATATCCTT-TTTGGATATCATCCTTTTCAAC
1 TTTTCA-TTGATAT-CTTCTTTGGATATCATCCTTTTCAAC
23347757 CTATTATTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 6 0.17
41 27 0.75
42 3 0.08
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (40 bp):
TTTTCATTGATATCTTCTTTGGATATCATCCTTTTCAACA
Found at i:23350978 original size:37 final size:37
Alignment explanation
Indices: 23350928--23351010 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
23350918 CTTAGTGTCA
* *
23350928 TGGCGTGTTATCGATTAGATTAGCTTTTATGAGCGAT
1 TGGCGTGTTATCGAGTAGATTAGCTCTTATGAGCGAT
*
23350965 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCGAT
1 TGGCGTGTTATCGAGTAGATTAGCTCTTATGAGCGAT
23351002 TGGCGTGTT
1 TGGCGTGTT
23351011 TCAGTTGGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.39
Consensus pattern (37 bp):
TGGCGTGTTATCGAGTAGATTAGCTCTTATGAGCGAT
Found at i:23351322 original size:11 final size:12
Alignment explanation
Indices: 23351296--23351333 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
23351286 CAAAACAGGA
23351296 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23351308 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23351320 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23351332 TT
1 TT
23351334 AGACAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.45
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:23351428 original size:39 final size:39
Alignment explanation
Indices: 23351322--23351433 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 39
23351312 AGCGGCGTTT
* *
23351322 TTAGCGGCGTTTAGACAAAAAATGCCACTAAAAATCAAGCA
1 TTAGCGGCGTTT-TAC-AAAAATGCCGCTAAAAATCAAGCA
* * *
23351363 TTAGCGGTGCCTTTACAAAAACGCCGCTAAAAAT-AAGCA
1 TTAGCGGCG-TTTTACAAAAATGCCGCTAAAAATCAAGCA
*
23351402 TTAGCGGCGTTTTCCAAAAAGTGCCGC-AAAAA
1 TTAGCGGCGTTTTACAAAAA-TGCCGCTAAAAA
23351434 GCCTAAGCCC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
38 14 0.23
39 18 0.30
40 16 0.27
41 10 0.17
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (39 bp):
TTAGCGGCGTTTTACAAAAATGCCGCTAAAAATCAAGCA
Found at i:23351528 original size:41 final size:41
Alignment explanation
Indices: 23351483--23351724 Score: 421
Period size: 41 Copynumber: 5.9 Consensus size: 41
23351473 CTTTACCAGT
23351483 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
1 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
*
23351524 GTTTTTAAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
1 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
*
23351565 GTTTTTGAAGAAGCGCCGCTAATGCTCTAGCCTTTAGCGGC
1 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
* *
23351606 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCGTTAGCGGT
1 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
* *
23351647 GTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCGTTAGCGGC
1 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
*
23351688 GTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAG
1 GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAG
23351725 AATAAAATCT
Statistics
Matches: 190, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 190 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (41 bp):
GTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGC
Found at i:23353061 original size:15 final size:15
Alignment explanation
Indices: 23353041--23353069 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23353031 TTAAGATCAG
23353041 TTATGGATTTAGGGT
1 TTATGGATTTAGGGT
23353056 TTATGGATTTAGGG
1 TTATGGATTTAGGG
23353070 GTTAGAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
TTATGGATTTAGGGT
Found at i:23353176 original size:33 final size:33
Alignment explanation
Indices: 23353130--23353201 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
23353120 ATTAAATAAT
*
23353130 GTTTAGGGGTTAGGGATTCGAGG-TCAGGTTAGG
1 GTTTAGGGATTAGGGATTC-AGGATCAGGTTAGG
*
23353163 GTTTAGGGATTAGGGATTCAGGATCGGGTTAGG
1 GTTTAGGGATTAGGGATTCAGGATCAGGTTAGG
23353196 GTTTAG
1 GTTTAG
23353202 AATTTAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 3 0.08
33 33 0.92
ACGTcount: A:0.19, C:0.06, G:0.43, T:0.32
Consensus pattern (33 bp):
GTTTAGGGATTAGGGATTCAGGATCAGGTTAGG
Found at i:23353284 original size:21 final size:22
Alignment explanation
Indices: 23353244--23353295 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
23353234 TATTGAATAA
23353244 GGTTTAGGGGTTAATGGTTAGG
1 GGTTTAGGGGTTAATGGTTAGG
*
23353266 GGTTT-GGGGTTAA-GAGTTAGT
1 GGTTTAGGGGTTAATG-GTTAGG
*
23353287 GATTTAGGG
1 GGTTTAGGG
23353296 TTTAGAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 17 0.65
22 8 0.31
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (22 bp):
GGTTTAGGGGTTAATGGTTAGG
Found at i:23353296 original size:21 final size:21
Alignment explanation
Indices: 23353246--23353302 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
23353236 TTGAATAAGG
*
23353246 TTTAGGGGTTAATG-GTTAGGGG
1 TTTA-GGGTTAA-GAGTTAGGGA
* *
23353268 TTTGGGGTTAAGAGTTAGTGA
1 TTTAGGGTTAAGAGTTAGGGA
*
23353289 TTTAGGGTTTAGAG
1 TTTAGGGTTAAGAG
23353303 ATTCAAGGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 25 0.86
22 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (21 bp):
TTTAGGGTTAAGAGTTAGGGA
Found at i:23354318 original size:132 final size:130
Alignment explanation
Indices: 23354166--23354407 Score: 396
Period size: 130 Copynumber: 1.8 Consensus size: 130
23354156 TAATTTTTTG
*
23354166 AATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACGCCCTTT
1 AATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTA-TTTAAAAAAATAACGCCATTT
23354231 TAGCATAGCAAAACAGTGTCGTTTCATTCCAAATAAAATAATTTTTTTGCAGCCGAAAAAGTTAA
65 TA-CATAGCAAAACAGTGTCGTTTCATTCCAAATAAAATAATTTTTTTGCAGCCGAAAAAGTTAA
23354296 GC
129 GC
* *
23354298 AATAGCGGCGCTTTTT-TAAAAAACGCCACAAAAAATAATTTTATTTTAAAAAATAGCGCCATTT
1 AATAGCGGCG-TTTTTATAAAAAACGCCACAAAAAATAATTTTATTTAAAAAAATAACGCCATTT
* * *
23354362 TATATAGTAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTT
65 TACATAGCAAAACAGTGTCGTTTCATTCCAAATAAAATAATTTTTT
23354408 GTGACATTTT
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
130 41 0.40
131 20 0.19
132 37 0.36
133 5 0.05
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (130 bp):
AATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTATTTAAAAAAATAACGCCATTTT
ACATAGCAAAACAGTGTCGTTTCATTCCAAATAAAATAATTTTTTTGCAGCCGAAAAAGTTAAGC
Found at i:23357956 original size:43 final size:43
Alignment explanation
Indices: 23357896--23357986 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
23357886 CTTTGAGTTC
* *
23357896 ATTA-CAAGATTTCCTTGATTAA-ATAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGA-AAATGCATTATATCTTTT
* *
23357938 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
23357981 ATTACC
1 ATTACC
23357987 TTGCATATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:23358339 original size:43 final size:42
Alignment explanation
Indices: 23358286--23358558 Score: 375
Period size: 43 Copynumber: 6.4 Consensus size: 42
23358276 AAGGTTATGC
* * *
23358286 CTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGTTATGGT
1 CTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGGT
*
23358329 CTTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGT
** *
23358372 CTTTAATGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGT
*
23358415 CTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGGT
*
23358458 CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGT
* ** *
23358500 TTTTAAAGGCGATTGTAGGAAAAGCGCCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGT
*
23358543 CTTTGGCGGCGTTTGT
1 CTTTAGCGGCGTTTGT
23358559 TTCTAAAAAC
Statistics
Matches: 205, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 36 0.18
43 168 0.82
44 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.29
Consensus pattern (42 bp):
CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGT
Found at i:23360160 original size:2 final size:2
Alignment explanation
Indices: 23360153--23360182 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23360143 GAGCACACTA
23360153 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23360183 CATGTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23362115 original size:36 final size:36
Alignment explanation
Indices: 23362075--23362143 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
23362065 ATGTCATTCA
*
23362075 ATGGTTTAGCATTTGTTGTGAATCATCAAATGTGTG
1 ATGGTTTAGCATTTGTTGCGAATCATCAAATGTGTG
23362111 ATGGTTTAGCATTTGTTGCGAATCATCAAATGT
1 ATGGTTTAGCATTTGTTGCGAATCATCAAATGT
23362144 ACACTCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (36 bp):
ATGGTTTAGCATTTGTTGCGAATCATCAAATGTGTG
Found at i:23364985 original size:22 final size:22
Alignment explanation
Indices: 23364959--23365003 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23364949 TAGAATAAGT
23364959 ATAAACCAAAACCAATGCCATA
1 ATAAACCAAAACCAATGCCATA
23364981 ATAAACCAAAACCAATGCCATA
1 ATAAACCAAAACCAATGCCATA
23365003 A
1 A
23365004 GCTTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.27, G:0.04, T:0.13
Consensus pattern (22 bp):
ATAAACCAAAACCAATGCCATA
Found at i:23368869 original size:19 final size:18
Alignment explanation
Indices: 23368845--23368885 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
23368835 TAGGATTCTG
23368845 TATATCTGT-TCTGCATATC
1 TATATCTGTATCTG--TATC
23368864 TATATCTGTATCTGTATC
1 TATATCTGTATCTGTATC
23368882 TATA
1 TATA
23368886 AAGGACTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (18 bp):
TATATCTGTATCTGTATC
Found at i:23371784 original size:26 final size:23
Alignment explanation
Indices: 23371730--23371784 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
23371720 TAGCATAAGT
*
23371730 TAAATTTCAAAATCTTTATTTAT
1 TAAATTTCAAAATCTTTATTTAA
* *
23371753 TGAATTTACTAAATACTATTATTTAA
1 TAAATTT-CAAAAT-CT-TTATTTAA
23371779 TAAATT
1 TAAATT
23371785 CGTTAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 6 0.24
24 5 0.20
25 2 0.08
26 12 0.48
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
TAAATTTCAAAATCTTTATTTAA
Found at i:23372890 original size:18 final size:18
Alignment explanation
Indices: 23372867--23372901 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23372857 GGCCTAGTAC
23372867 CCAAAC-TAAAGCCCAAAA
1 CCAAACTTAAA-CCCAAAA
23372885 CCAAACTTAAACCCAAA
1 CCAAACTTAAACCCAAA
23372902 CCTACCCCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.54, C:0.34, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAACTTAAACCCAAAA
Found at i:23373365 original size:100 final size:99
Alignment explanation
Indices: 23373188--23373483 Score: 389
Period size: 100 Copynumber: 3.0 Consensus size: 99
23373178 AAATAAAAGC
23373188 TACAGTGGATCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGATATTGCAATTTAAAAGAT
1 TACAGTGGATCAGATTAAAGCTACGACGG-AAATCTTGCTTCCCTGATATTGCAATTTAAAAGAT
* * *
23373253 TGAAGCCACAACGGCGAATCTCAGTTCCCTGGCA-A
65 TGAAGCCGCAACGGCGAATCTTACTTCCCTGG-AGA
* * *
23373288 TACAGTGGAGCATATTAAAGCTATGACGGTAAATCTTGCTTCCCTGATATTGCAATTTAAAAGAT
1 TACAGTGGATCAGATTAAAGCTACGACGG-AAATCTTGCTTCCCTGATATTGCAATTTAAAAGAT
* *
23373353 TGAAGCCGCAACGGTGAATCTTACTTTCCTGGAGA
65 TGAAGCCGCAACGGCGAATCTTACTTCCCTGGAGA
* * * * * ** * *
23373388 TGCAGTGGATCAGATTGAAGCTACAACGGAGAATCTTG-TTCCCCGACATTATAATTAAAAATAT
1 TACAGTGGATCAGATTAAAGCTACGACGGA-AATCTTGCTTCCCTGATATTGCAATTTAAAAGAT
23373452 TGAAGCCGCAACGGCGAATCTTACTTCCCTGG
65 TGAAGCCGCAACGGCGAATCTTACTTCCCTGG
23373484 TGGTGTAATG
Statistics
Matches: 171, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
99 52 0.30
100 119 0.70
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (99 bp):
TACAGTGGATCAGATTAAAGCTACGACGGAAATCTTGCTTCCCTGATATTGCAATTTAAAAGATT
GAAGCCGCAACGGCGAATCTTACTTCCCTGGAGA
Found at i:23373367 original size:50 final size:50
Alignment explanation
Indices: 23373199--23373482 Score: 144
Period size: 50 Copynumber: 5.7 Consensus size: 50
23373189 ACAGTGGATC
* * * * *
23373199 AGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGATATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCAAATCTTGCTTCCCTGACATTGCAATTGAAA
* * * * * * * **
23373249 AGATTGAAGCCACAACGGCGAATCTCAG-TTCCCTGGCAATACAGTGGAGC
1 AGATTGAAGCCACAACGGCAAATCT-TGCTTCCCTGACATTGCAATTGAAA
* * * ** * * *
23373299 ATATTAAAGCTATGACGGTAAATCTTGCTTCCCTGATATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCAAATCTTGCTTCCCTGACATTGCAATTGAAA
* ** * * * * * **
23373349 AGATTGAAGCCGCAACGGTGAATCTTACTTTCCTGGAGA-TGCAGTGGATC
1 AGATTGAAGCCACAACGGCAAATCTTGCTTCCCT-GACATTGCAATTGAAA
* * ** *
23373399 AGATTGAAGCTACAACGG-AGAATCTTG-TTCCCCGACATTATAATTAAAA
1 AGATTGAAGCCACAACGGCA-AATCTTGCTTCCCTGACATTGCAATTGAAA
* * * *
23373448 ATATTGAAGCCGCAACGGCGAATCTTACTTCCCTG
1 AGATTGAAGCCACAACGGCAAATCTTGCTTCCCTG
23373483 GTGGTGTAAT
Statistics
Matches: 161, Mismatches: 66, Indels: 14
0.67 0.27 0.06
Matches are distributed among these distances:
48 3 0.02
49 30 0.19
50 124 0.77
51 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCAAATCTTGCTTCCCTGACATTGCAATTGAAA
Found at i:23373473 original size:99 final size:100
Alignment explanation
Indices: 23373190--23373548 Score: 384
Period size: 100 Copynumber: 3.6 Consensus size: 100
23373180 ATAAAAGCTA
* * *
23373190 CAGTGGATCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTG
1 CAGTGGATCAGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTG
* * * *
23373255 AAGCCACAACGGCGAATCTCAGTTCCCTGGCA-ATA
66 AAGCCGCAACGGCGAATCTTACTTCCCTGG-AGATG
* * ** * * *
23373290 CAGTGGAGCATATTAAAGCTATGACGGTAAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTG
1 CAGTGGATCAGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTG
* *
23373355 AAGCCGCAACGGTGAATCTTACTTTCCTGGAGATG
66 AAGCCGCAACGGCGAATCTTACTTCCCTGGAGATG
* ** * *
23373390 CAGTGGATCAGATTGAAGCTACAACGG-AGAATCTTG-TTCCCCGACATTATAATTAAAAATATT
1 CAGTGGATCAGATTAAAGCTACAACGGCA-AATCTTGCTTCCCCGACATTGCAATTTAAAAGATT
* *
23373453 GAAGCCGCAACGGCGAATCTTACTTCCCTGGTGGTG
65 GAAGCCGCAACGGCGAATCTTACTTCCCTGGAGATG
* * * * ** * *
23373489 TAATGGGA-CAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATCGCAGTTTAAAA
1 CAGT-GGATCAGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAATTTAAAA
23373549 ATTTTGAAGC
Statistics
Matches: 220, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
99 82 0.37
100 138 0.63
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (100 bp):
CAGTGGATCAGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTG
AAGCCGCAACGGCGAATCTTACTTCCCTGGAGATG
Found at i:23373971 original size:18 final size:18
Alignment explanation
Indices: 23373948--23373982 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23373938 GGCCTAGTAC
23373948 CCAAAC-TAAAGCCCAAAA
1 CCAAACTTAAA-CCCAAAA
23373966 CCAAACTTAAACCCAAA
1 CCAAACTTAAACCCAAA
23373983 CCTACCCCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.54, C:0.34, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAACTTAAACCCAAAA
Found at i:23382757 original size:20 final size:20
Alignment explanation
Indices: 23382732--23382773 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
23382722 TTTATGTTAG
23382732 TATATATTTATAATTGAAAA
1 TATATATTTATAATTGAAAA
*
23382752 TATATATTTATAGTTGAAAA
1 TATATATTTATAATTGAAAA
23382772 TA
1 TA
23382774 AGTTATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TATATATTTATAATTGAAAA
Found at i:23382808 original size:3 final size:3
Alignment explanation
Indices: 23382800--23382851 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
23382790 TGTTGCTAAA
* * *
23382800 TAT TAT TAT GAT TAT TAT TAT CAT TAT TAT TAC TACT T-T TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
23382846 TAT TAT
1 TAT TAT
23382852 GGTAATTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.85
4 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:23384255 original size:26 final size:26
Alignment explanation
Indices: 23384226--23384277 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23384216 TAACAAACAT
23384226 GGATTTATTTCAATACAAAAATTTAC
1 GGATTTATTTCAATACAAAAATTTAC
23384252 GGATTTATTTCAATACAAAAATTTAC
1 GGATTTATTTCAATACAAAAATTTAC
23384278 TTTTAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (26 bp):
GGATTTATTTCAATACAAAAATTTAC
Found at i:23384288 original size:24 final size:25
Alignment explanation
Indices: 23384235--23384289 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
23384225 TGGATTTATT
**
23384235 TCAATACAAAAATTTACGGATTTATT
1 TCAATACAAAAATTTAC-GATTTAAA
*
23384261 TCAATACAAAAATTTAC-TTTTAAA
1 TCAATACAAAAATTTACGATTTAAA
23384285 TCAAT
1 TCAAT
23384290 CGTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 9 0.35
26 17 0.65
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (25 bp):
TCAATACAAAAATTTACGATTTAAA
Found at i:23388560 original size:20 final size:20
Alignment explanation
Indices: 23388535--23388573 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
23388525 AATGCTAACA
23388535 GAGGCACCGAAGTGCAAACG
1 GAGGCACCGAAGTGCAAACG
23388555 GAGGCACCGAAGTGCAAAC
1 GAGGCACCGAAGTGCAAAC
23388574 AAAGGTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.33, T:0.05
Consensus pattern (20 bp):
GAGGCACCGAAGTGCAAACG
Found at i:23388792 original size:2 final size:2
Alignment explanation
Indices: 23388785--23388827 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
23388775 ACATATAAAT
23388785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23388827 T
1 T
23388828 TCCTCATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23389487 original size:17 final size:16
Alignment explanation
Indices: 23389460--23389491 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
23389450 TATTTTCACT
23389460 TATTAATTTAACTTAA
1 TATTAATTTAACTTAA
23389476 TATTATATTTAACTTA
1 TATTA-ATTTAACTTA
23389492 TGTTCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAATTTAACTTAA
Found at i:23395507 original size:9 final size:9
Alignment explanation
Indices: 23395475--23395508 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
23395465 GGCTTGGTTT
23395475 TTATTTGAGA
1 TTATTTGA-A
23395485 TTATTTGTAA
1 TTATTTG-AA
23395495 TTATTTGAA
1 TTATTTGAA
23395504 TTATT
1 TTATT
23395509 GTATATCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 15 0.65
11 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (9 bp):
TTATTTGAA
Found at i:23399533 original size:56 final size:56
Alignment explanation
Indices: 23399473--23399630 Score: 307
Period size: 56 Copynumber: 2.8 Consensus size: 56
23399463 ACATTATATA
23399473 AAACTATGTAAAATTATTAAGCCCAAAAACTTTTGTTAATGGTTAGTAAAATTATC
1 AAACTATGTAAAATTATTAAGCCCAAAAACTTTTGTTAATGGTTAGTAAAATTATC
23399529 AAACTATGTAAAATTATTAAGCCCAAAAACTTTTGTTAATGGTTAGTAAAATTATC
1 AAACTATGTAAAATTATTAAGCCCAAAAACTTTTGTTAATGGTTAGTAAAATTATC
*
23399585 GAACTATGTAAAATTATTAAGCCCAAAAACTTTTGTTAATGGTTAG
1 AAACTATGTAAAATTATTAAGCCCAAAAACTTTTGTTAATGGTTAG
23399631 GGTTTTTAAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (56 bp):
AAACTATGTAAAATTATTAAGCCCAAAAACTTTTGTTAATGGTTAGTAAAATTATC
Found at i:23399661 original size:30 final size:28
Alignment explanation
Indices: 23399625--23399846 Score: 303
Period size: 26 Copynumber: 7.9 Consensus size: 28
23399615 TTTTGTTAAT
*
23399625 GGTTAGGGTTTTTAATTAAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTAGGTTA
*
23399653 GGGTTTAGGGTTTTTAATTAAATTAAGTT-
1 -GG-TTAGGGTTTTTAATTAAATTAGGTTA
23399682 -GTTAGGGTTTTTAATTAAATTAGGTT-
1 GGTTAGGGTTTTTAATTAAATTAGGTTA
23399708 -GTTAGGGTTTTTAATTAAATTAGGTT-
1 GGTTAGGGTTTTTAATTAAATTAGGTTA
*
23399734 -GTTAGGGTTTTTAATTAAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTAGGTTA
*
23399761 GGGTTTATGGTTTTTAATTAAATTAGGTTA
1 -GG-TTAGGGTTTTTAATTAAATTAGGTTA
23399791 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GGTTAGGGTTTTTAATTAAATTAGGTTA
23399820 GTGTTTAGGGTTTTTAATTAAATTAGG
1 G-G-TTAGGGTTTTTAATTAAATTAGG
23399847 ATTTTTATTA
Statistics
Matches: 181, Mismatches: 5, Indels: 13
0.91 0.03 0.07
Matches are distributed among these distances:
26 75 0.41
27 1 0.01
28 1 0.01
29 29 0.16
30 75 0.41
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.48
Consensus pattern (28 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:23399686 original size:26 final size:26
Alignment explanation
Indices: 23399626--23399846 Score: 271
Period size: 30 Copynumber: 7.9 Consensus size: 26
23399616 TTTGTTAATG
*
23399626 GTTAGGGTTTTTAATTAAATTAAGTT
1 GTTAGGGTTTTTAATTAAATTAGGTT
*
23399652 AGGGTTTAGGGTTTTTAATTAAATTAAGTT
1 ---G-TTAGGGTTTTTAATTAAATTAGGTT
23399682 GTTAGGGTTTTTAATTAAATTAGGTT
1 GTTAGGGTTTTTAATTAAATTAGGTT
23399708 GTTAGGGTTTTTAATTAAATTAGGTT
1 GTTAGGGTTTTTAATTAAATTAGGTT
*
23399734 GTTAGGGTTTTTAATTAAATTAAGTT
1 GTTAGGGTTTTTAATTAAATTAGGTT
*
23399760 AGGGTTTATGGTTTTTAATTAAATTAGGTT
1 ---G-TTAGGGTTTTTAATTAAATTAGGTT
23399790 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGT
1 ---GTTAGGGTTTTTAATTAAATTAGG-T--T
23399822 GTTTAGGGTTTTTAATTAAATTAGG
1 G-TTAGGGTTTTTAATTAAATTAGG
23399847 ATTTTTATTA
Statistics
Matches: 178, Mismatches: 5, Indels: 17
0.89 0.03 0.09
Matches are distributed among these distances:
26 75 0.42
27 1 0.01
29 25 0.14
30 76 0.43
32 1 0.01
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (26 bp):
GTTAGGGTTTTTAATTAAATTAGGTT
Found at i:23399780 original size:108 final size:112
Alignment explanation
Indices: 23399626--23399846 Score: 369
Period size: 108 Copynumber: 2.0 Consensus size: 112
23399616 TTTGTTAATG
23399626 GTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTT-GTTAGGGT
1 GTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTGGTTAGGGT
23399690 TTTTAATTAAATTAGG-T-TG-TTAGGGTTTTTAATTAAATTAGGTT
66 TTTTAATTAAATTAGGTTATGTTTAGGGTTTTTAATTAAATTAGGTT
* *
23399734 GTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTATGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTT--GGTTAGG
23399799 GTTTTTAATTAAATTAGGTTAGTGTTTAGGGTTTTTAATTAAATTAGG
64 GTTTTTAATTAAATTAGGTTA-TGTTTAGGGTTTTTAATTAAATTAGG
23399847 ATTTTTATTA
Statistics
Matches: 104, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
108 54 0.52
111 24 0.23
112 1 0.01
114 2 0.02
115 23 0.22
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (112 bp):
GTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTGGTTAGGGT
TTTTAATTAAATTAGGTTATGTTTAGGGTTTTTAATTAAATTAGGTT
Found at i:23401063 original size:7 final size:7
Alignment explanation
Indices: 23401053--23401077 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23401043 TTATATACAT
23401053 AATACTA
1 AATACTA
23401060 AATACTA
1 AATACTA
23401067 AATACTA
1 AATACTA
23401074 AATA
1 AATA
23401078 TCAATCCACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:23402062 original size:25 final size:25
Alignment explanation
Indices: 23402012--23402067 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
23402002 CTTTTATAAC
*
23402012 AAATAATAAATTAATAATTATCTAA
1 AAATAATAAATTAATAAATATCTAA
*
23402037 AAATACATAAA-TAA-AAATATCT-T
1 AAATA-ATAAATTAATAAATATCTAA
23402060 AAATAATA
1 AAATAATA
23402068 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 7 0.25
25 8 0.29
26 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAATTAATAAATATCTAA
Found at i:23402199 original size:29 final size:29
Alignment explanation
Indices: 23402158--23402220 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
23402148 GCCATTGATG
*
23402158 AAAATATAAAAAAAATTAAAATTATTTTA
1 AAAATATAAAAAAAATTAAAATTATTTAA
* *
23402187 AAAATATAAAAAAATTTAAATTTATTTAA
1 AAAATATAAAAAAAATTAAAATTATTTAA
23402216 AAAAT
1 AAAAT
23402221 GAAATTGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAAAAAAATTAAAATTATTTAA
Found at i:23402279 original size:22 final size:21
Alignment explanation
Indices: 23402254--23402304 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 21
23402244 TAATATGGAT
23402254 TTGAGAGATTTTTGGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
23402276 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
23402298 TTGAGAG
1 TTGAGAG
23402305 TTTGAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 25 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:23402311 original size:30 final size:30
Alignment explanation
Indices: 23402276--23402333 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
23402266 TGGAAGGAAA
* *
23402276 TTGAGAGGATTTTGGAAGGAAATTGAGAGT
1 TTGAGAGAATTTTAGAAGGAAATTGAGAGT
23402306 TTGAGAGAATTTTAGAAGGAAATTGAGA
1 TTGAGAGAATTTTAGAAGGAAATTGAGA
23402334 AGATTTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.29
Consensus pattern (30 bp):
TTGAGAGAATTTTAGAAGGAAATTGAGAGT
Found at i:23402313 original size:52 final size:52
Alignment explanation
Indices: 23402253--23402355 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
23402243 TTAATATGGA
* * *
23402253 TTTGAGAGATTTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAG
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGAG
23402305 TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGA
23402356 TAGGATTTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
TTTGAGAGAATTTTAGAAGGAAATTGAGAAGATTTTGGAAGGAAATTGAGAG
Found at i:23402339 original size:22 final size:23
Alignment explanation
Indices: 23402306--23402355 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
23402296 AATTGAGAGT
23402306 TTGAG-AGAATTTTAGAAGGAAA
1 TTGAGAAGAATTTTAGAAGGAAA
*
23402328 TTGAGAAG-ATTTTGGAAGGAAA
1 TTGAGAAGAATTTTAGAAGGAAA
23402350 TTGAGA
1 TTGAGA
23402356 TAGGATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (23 bp):
TTGAGAAGAATTTTAGAAGGAAA
Found at i:23402799 original size:19 final size:19
Alignment explanation
Indices: 23402773--23402811 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
23402763 AAATATAGAG
*
23402773 AAATTTGAGAG-AAATAAT
1 AAATTTGAAAGAAAATAAT
23402791 AAATATTGAAAGAAAATAAT
1 AAAT-TTGAAAGAAAATAAT
23402811 A
1 A
23402812 GGGGGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (19 bp):
AAATTTGAAAGAAAATAAT
Found at i:23407241 original size:45 final size:45
Alignment explanation
Indices: 23407177--23407351 Score: 235
Period size: 45 Copynumber: 3.9 Consensus size: 45
23407167 CTTTCCTTTC
** * * *
23407177 TGGCTGTGCAGCCTTTTTGGAATGACTCTCATCAGGAACAGTCTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
* ** * *
23407222 TGGCTGTGCTGCCTTTTTGGATTGACTCTCATCAGGTATACTTTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
23407267 TGGCTGTGCAGCCTTTTCAG-ATCGACTCTCATCAGGTATACTCTT
1 TGGCTGTGCAGCCTTTTCAGAAT-GACTCTCATCAGGTATACTCTT
*
23407312 TGGCTGAGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
23407352 GACCCACTTG
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.01
45 113 0.97
46 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (45 bp):
TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
Found at i:23408133 original size:47 final size:48
Alignment explanation
Indices: 23408079--23408174 Score: 151
Period size: 47 Copynumber: 2.0 Consensus size: 48
23408069 ATGAAGGAGA
23408079 ATAAATCAGTTATAACTTCAATGAAG-A-CATAACAGATTTTATTAAGC
1 ATAAATCAGTTATAACTTCAATGAAGAAGCATAACAGATTTTA-TAAGC
*
23408126 ATAAATCAGTTGTAACTTCAATGAAGAAGGCATAACAGATTTTATAAGC
1 ATAAATCAGTTATAACTTCAATGAAGAA-GCATAACAGATTTTATAAGC
23408175 CAACAACACA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 25 0.56
48 1 0.02
49 5 0.11
50 14 0.31
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (48 bp):
ATAAATCAGTTATAACTTCAATGAAGAAGCATAACAGATTTTATAAGC
Found at i:23410204 original size:94 final size:94
Alignment explanation
Indices: 23410043--23410235 Score: 377
Period size: 94 Copynumber: 2.1 Consensus size: 94
23410033 AAAAAGCATC
*
23410043 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGTACCTAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
23410108 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
23410137 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
23410202 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
23410231 CACTA
1 CACTA
23410236 GTCACGAAAC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 98 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (94 bp):
CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCTAAAATAT
TAAGACAATCAGTCAGTTGTAGCATGATT
Found at i:23412010 original size:12 final size:12
Alignment explanation
Indices: 23411993--23412026 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23411983 GAGTGAGTTT
*
23411993 CTTTTTTTTTCC
1 CTTTTTTTTTCA
23412005 CTTTTTTTTTCA
1 CTTTTTTTTTCA
*
23412017 ATTTTTTTTT
1 CTTTTTTTTT
23412027 GAAATACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTTTTTTTCA
Found at i:23413771 original size:2 final size:2
Alignment explanation
Indices: 23413759--23413794 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
23413749 AGGTGCAATC
*
23413759 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23413795 AGTGTGATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:23415085 original size:2 final size:2
Alignment explanation
Indices: 23415080--23415120 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
23415070 TATATATATA
*
23415080 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23415121 ATCTATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:23415513 original size:24 final size:23
Alignment explanation
Indices: 23415469--23415530 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
23415459 ACATTAAATT
*
23415469 ATAAATTTATTTATTAAATTATAAA
1 ATAAATTT-TATATTAAATTAT-AA
*
23415494 ATAAATTTTATATTACATTATAA
1 ATAAATTTTATATTAAATTATAA
*
23415517 ATAAAATTTCATAT
1 AT-AAATTTTATAT
23415531 AATTATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 21 0.64
25 8 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAAATTTTATATTAAATTATAA
Found at i:23416203 original size:13 final size:12
Alignment explanation
Indices: 23416167--23416208 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
23416157 ATCATATTTG
*
23416167 ATTTTTATATCA
1 ATTTTTATATAA
23416179 ATTTTT-TATAA
1 ATTTTTATATAA
23416190 ATTTATTATATAAA
1 ATTT-TTATAT-AA
23416204 ATTTT
1 ATTTT
23416209 CATCCATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.31
12 8 0.31
13 4 0.15
14 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTTATATAA
Found at i:23416387 original size:14 final size:14
Alignment explanation
Indices: 23416351--23416389 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23416341 TTATTTCATT
*
23416351 AAAAATGACTTCCG
1 AAAAATGATTTCCG
* *
23416365 GAAAATGATTTCTG
1 AAAAATGATTTCCG
23416379 AAAAATGATTT
1 AAAAATGATTT
23416390 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (14 bp):
AAAAATGATTTCCG
Found at i:23416887 original size:19 final size:19
Alignment explanation
Indices: 23416849--23416887 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23416839 TTATACTACA
**
23416849 AAATATTTATAATTGTAAT
1 AAATATTTATAATTAAAAT
*
23416868 AAATATTTATTATTAAAAT
1 AAATATTTATAATTAAAAT
23416887 A
1 A
23416888 TTAATGTTGA
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:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATATTTATAATTAAAAT
Found at i:23416953 original size:16 final size:16
Alignment explanation
Indices: 23416922--23416958 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
23416912 ATGTGAATAG
23416922 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
23416938 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
23416954 TATTA
1 TATTA
23416959 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:23416982 original size:18 final size:18
Alignment explanation
Indices: 23416944--23416979 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23416934 TTATTATTTT
*
23416944 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
23416962 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
23416980 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:23416990 original size:19 final size:20
Alignment explanation
Indices: 23416968--23417025 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 20
23416958 AAAATAAAAT
*
23416968 TTAAATATTAAATA-ATTTA
1 TTAAATAATAAATATATTTA
23416987 TTAAAATAATAAATTATATTTA
1 TT-AAATAATAAA-TATATTTA
23417009 TTATAATAATAAATATA
1 TTA-AATAATAAATATA
23417026 AATAATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 7 0.21
22 16 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAATAATAAATATATTTA
Found at i:23419457 original size:2 final size:2
Alignment explanation
Indices: 23419452--23419494 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
23419442 CAATAAATAA
23419452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23419494 A
1 A
23419495 GTGAGATTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23435079 original size:106 final size:106
Alignment explanation
Indices: 23434923--23435117 Score: 275
Period size: 106 Copynumber: 1.8 Consensus size: 106
23434913 ATCCAAGGAA
*
23434923 ACAAAGAGAGTTAACACGAGCATAACAACAATAATTCCACTACAATGTAATCGAACCAAATATCA
1 ACAAAGAGAGTTAACACGAGCATAACAACAATAATACCACTACAATGTAATCGAACCAAATATCA
*
23434988 TAAAACTTGTACTCTGATTGGTTGATCTGATATCGGAGAAC
66 TAAAACTTGTACTCTGATCGGTTGATCTGATATCGGAGAAC
** ** * * * *
23435029 ACAAAGAGAGTTAACACGAGCATGTCAACGGTGAA-ACCACTGCAATGTAATTGAGCCAAATTTC
1 ACAAAGAGAGTTAACACGAGCATAACAACAAT-AATACCACTACAATGTAATCGAACCAAATATC
*
23435093 ATAAAATTTGTACTCTGATCGGTTG
65 ATAAAACTTGTACTCTGATCGGTTG
23435118 TTGCGACAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 75 0.97
107 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (106 bp):
ACAAAGAGAGTTAACACGAGCATAACAACAATAATACCACTACAATGTAATCGAACCAAATATCA
TAAAACTTGTACTCTGATCGGTTGATCTGATATCGGAGAAC
Found at i:23436440 original size:114 final size:114
Alignment explanation
Indices: 23436235--23436875 Score: 755
Period size: 112 Copynumber: 5.6 Consensus size: 114
23436225 GCGCTTTAAA
* *
23436235 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTTAGTAAAGCGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
*
23436300 TAATGCTGAGGGCTTTAGCGGC-TTTTTTGATCAAGCGCCGCAAAAAAAC
66 TAATGCT-AGGGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
* * *
23436349 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTTTTCAATAACGCGCTGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
* * *
23436414 TAATGCTAGGGATTTAGCGGCG-TTTTTGGTCAAGCGCCGC-AAAAAAC
66 TAATGCTAGGGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
* ** * * * *
23436461 TAAGCCCAACGACGCCGTTTTCTGAGCTTCCGGTAGGTGTAGCAGTGTTTTCAATAATGCGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
*
23436526 TAATGCTAGGGCTTTAGCGGCGTTTTTATGA-AAACGCCGCAACGCAAAAAAAAT
66 TAATGCTAGGGCTTTAGCGGCGTTTTT-TGATAAA-G-CGC--CGC-AAAAAAAC
* * * * * * * *
23436580 TAAACCCAATGACACCGTTTTCTTAGCTTTC--GGGGTTTGGCGGCGTTTTTAGTAAAGCGTCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
* * *
23436643 TAATGCT-GTGGTTTTAGCGGCG-TTTTGGATAAAGCGTCGCAAAAAAA-
66 TAATGCTAG-GGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
* * * * *
23436690 TAAGCCCAACGACGTCGTTTTTTGAGCTTTCGGGGGGTTTAGTGGCGTTTTCAATAATGTGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
* *
23436755 TAATGCTAGGGCTTTAGCGGCG-CTTTT-ATGAAAGCGCCGCAAATAAAAT
66 TAATGCTAGGGCTTTAGCGGCGTTTTTTGAT-AAAGCGCCGCAAA-AAAAC
* * * * *
23436804 TAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGC
1 TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
23436869 TAATGCT
66 TAATGCT
23436876 CAAGGATTTA
Statistics
Matches: 446, Mismatches: 64, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
110 25 0.06
111 9 0.02
112 147 0.33
113 41 0.09
114 134 0.30
115 6 0.01
116 8 0.02
117 44 0.10
119 32 0.07
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (114 bp):
TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGC
TAATGCTAGGGCTTTAGCGGCGTTTTTTGATAAAGCGCCGCAAAAAAAC
Found at i:23436696 original size:229 final size:225
Alignment explanation
Indices: 23436232--23436885 Score: 854
Period size: 229 Copynumber: 2.9 Consensus size: 225
23436222 GCGGCGCTTT
* * *
23436232 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTTAGTAAAGCGC
1 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
* * *
23436297 CGCTAATGCTGAGGGCTTTAGCGGC-TTTTT-TGATCAAGCGCCGC-AAAAAAACTAAGCCCAAC
66 CGCTAATGCT-AGGGCTTTAGCGGCGTTTTTATGA-AAAGCGCCGCAAAAAAAATTAAACCCAAC
* * * * *
23436359 GACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTTTTCAATAACGCGCTGCTAATGCTAGG
129 GACACCGTTTTCTTAGCTTTC-GGGGGTTTAGCGGCGTTTTTAATAAAGCGC-GCTAATGCTAGG
*
23436424 GATTTAGCGGCGTTTTTGGTCAAGCGCCGCAAAA
192 GATTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAA
* * ** * * *
23436458 AACTAAGCCCAACGACGCCGTTTTCTGAGCTTCCGGTAGGTGTAGCAGTGTTTTCAATAATGCGC
1 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
23436523 CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAACGCCGCAACGCAAAAAAAATTAAACCCA
66 CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAA-G-CGC--CGCAAAAAAAATTAAACCCA
* * *
23436588 ATGACACCGTTTTCTTAGCTTTC-GGGGTTTGGCGGCGTTTTTAGTAAAGCGTCGCTAATGCT-G
127 ACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAGCG-CGCTAATGCTAG
* *
23436651 TGGTTTTAGCGGCG-TTTTGGATAAAGCGTCGCAAAA
191 -GGATTTAGCGGCGTTTTTGG-TAAAGCGCCGCAAAA
* * * *
23436687 AAATAAGCCCAACGACGTCGTTTTTTGAGCTTTCGGGGGGTTTAGTGGCGTTTTCAATAATGTGC
1 AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
* *
23436752 CGCTAATGCTAGGGCTTTAGCGGCGCTTTTATG-AAAGCGCCGCAAATAAAATTAAACCCAACGA
66 CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAAGCGCCGCAAAAAAAATTAAACCCAACGA
*
23436816 CACCGTTTTCTTAGCTTTCAGGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAAGG
131 CACCGTTTTCTTAGCTTTC-GGGGGTTTAGCGGCGTTTTTAATAAAGCG-CGCTAATGCT-AGGG
23436881 ATTTA
193 ATTTA
23436886 AATTTATTTA
Statistics
Matches: 371, Mismatches: 43, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
224 41 0.11
225 14 0.04
226 111 0.30
227 11 0.03
228 13 0.04
229 143 0.39
230 4 0.01
231 34 0.09
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (225 bp):
AAATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAATAATGCGC
CGCTAATGCTAGGGCTTTAGCGGCGTTTTTATGAAAAGCGCCGCAAAAAAAATTAAACCCAACGA
CACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAGCGCGCTAATGCTAGGGATT
TAGCGGCGTTTTTGGTAAAGCGCCGCAAAA
Found at i:23437137 original size:31 final size:32
Alignment explanation
Indices: 23437102--23437161 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
23437092 GGTTTAAGGG
*
23437102 TTAGGTGTTATGATTT-AGGGGTTAGGGGGAT
1 TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
*
23437133 TTAGGGGTTATGCTTTAAGGGGTTAGGGG
1 TTAGGGGTTATGATTTAAGGGGTTAGGGG
23437162 TGTAACAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.18, C:0.02, G:0.43, T:0.37
Consensus pattern (32 bp):
TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
Found at i:23438706 original size:103 final size:104
Alignment explanation
Indices: 23438366--23438736 Score: 604
Period size: 105 Copynumber: 3.6 Consensus size: 104
23438356 TGTATATAAA
** * *
23438366 AGGGGTTGCTGTGTGCTGATTCCCCGATTTA-TGCGTGGTGCTATGTGCG-TGATCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTG-GTGGTGCTAAGTGCGAT-ATCCACCATATC
**
23438429 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
23438470 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
23438535 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
23438575 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
23438640 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
23438678 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
23438737 ATAACGGCTA
Statistics
Matches: 253, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
103 87 0.34
104 69 0.27
105 94 0.37
106 3 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:23443497 original size:103 final size:104
Alignment explanation
Indices: 23443157--23443527 Score: 611
Period size: 105 Copynumber: 3.6 Consensus size: 104
23443147 TGTATATAAA
** * * *
23443157 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
**
23443221 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
23443261 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
23443326 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
23443366 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
23443431 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
23443469 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
23443528 ATAACGGCCA
Statistics
Matches: 253, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
103 87 0.34
104 69 0.27
105 96 0.38
106 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:23445918 original size:35 final size:35
Alignment explanation
Indices: 23445879--23445961 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
23445869 GGTTTTTGCA
* ***
23445879 GTTTAGGGTTTAAGGGTTATGTTTTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
* *
23445914 GTTTAAGATTTAAGAGTTACAATTTAAGGTTTATG
1 GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
*
23445949 GATTATGGGTTTA
1 GTTTA-GGGTTTA
23445962 TTATTATGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.46
Consensus pattern (35 bp):
GTTTAGGGTTTAAGAGTTACAATTTAAGGTTTATG
Found at i:23445925 original size:14 final size:14
Alignment explanation
Indices: 23445879--23445925 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
23445869 GGTTTTTGCA
*
23445879 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAG
* *
23445893 GGTTATGTTTTAAG
1 GTTTATGGTTTAAG
23445907 GTTTATGGTTTAAG
1 GTTTATGGTTTAAG
*
23445921 ATTTA
1 GTTTA
23445926 AGAGTTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
GTTTATGGTTTAAG
Found at i:23447700 original size:16 final size:16
Alignment explanation
Indices: 23447663--23447694 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23447653 GTAATGCAGT
*
23447663 AGTTTTCACATATTTC
1 AGTTTTCACATAATTC
23447679 AGTTTTCACATAATTC
1 AGTTTTCACATAATTC
23447695 TTTTTTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (16 bp):
AGTTTTCACATAATTC
Found at i:23447903 original size:52 final size:52
Alignment explanation
Indices: 23447822--23447920 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
23447812 TGAAATAAGA
* *
23447822 AAATTTAAATTAGGGTTAAGAAAGCAAGAACATTTTTAGGTATTAATACGGT
1 AAATTCAAATTAGGGTTAAGAAAGCAAGAACATTTTTAGGTAATAATACGGT
*
23447874 AAATTCAAATTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAAT
1 AAATTCAAATTAGGGTTAAGAAAGCAAGAACATTTTTAGGTAATAAT
23447921 TTACATAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.32
Consensus pattern (52 bp):
AAATTCAAATTAGGGTTAAGAAAGCAAGAACATTTTTAGGTAATAATACGGT
Found at i:23447912 original size:26 final size:26
Alignment explanation
Indices: 23447831--23447913 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
23447821 AAAATTTAAA
*
23447831 TTAGGGTTAAGAAAGCAAGAACATTT
1 TTAGGGTTAAGAAAGTAAGAACATTT
* * ** * **
23447857 TTAGGTATTAATACGGTAA-ATTCA-AA
1 TTAGG-GTTAAGAAAGTAAGA-ACATTT
23447883 TTAGGGTTAAGAAAGTAAGAACATTT
1 TTAGGGTTAAGAAAGTAAGAACATTT
23447909 TTAGG
1 TTAGG
23447914 TAATAATTTA
Statistics
Matches: 38, Mismatches: 15, Indels: 8
0.62 0.25 0.13
Matches are distributed among these distances:
25 11 0.29
26 17 0.45
27 10 0.26
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (26 bp):
TTAGGGTTAAGAAAGTAAGAACATTT
Found at i:23448245 original size:36 final size:36
Alignment explanation
Indices: 23448193--23448268 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
23448183 ACTGTTCAAA
*
23448193 ATTTGTAAGTTCAAATTACATTCTGAGGAAAGTAAT
1 ATTTGTAAGTTCAAATTACATTCTGAGCAAAGTAAT
*
23448229 ATTTGTAAGTTTAAATTACATTCTGAGCAAAGTAAT
1 ATTTGTAAGTTCAAATTACATTCTGAGCAAAGTAAT
23448265 ATTT
1 ATTT
23448269 TTGGTATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (36 bp):
ATTTGTAAGTTCAAATTACATTCTGAGCAAAGTAAT
Found at i:23449273 original size:52 final size:52
Alignment explanation
Indices: 23449188--23449441 Score: 205
Period size: 52 Copynumber: 5.0 Consensus size: 52
23449178 GTATATAACT
* *
23449188 TAATACATAATAACACAATACATAA-TTGGTATATAAGCTTGCATAACTTACA
1 TAATACATAATAACATAATACATAACTT-ATATATAAGCTTGCATAACTTACA
* *
23449240 TAATACATAATAACATAATATATAACTTATATATAAGCTTG--T-A-TAAC-
1 TAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACA
* * *
23449287 T--TACATAATAAC-T--TCCATAACTTATATATAATCTGAT-AAT-ACATTACA
1 TAATACATAATAACATAATACATAACTTATATATAAGCT--TGCATAAC-TTACA
*
23449335 TAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACA
1 TAATACATAATAACATAATACATAACTTATA-TATAAGCTTGCATAACTTACA
* * * ** * *
23449388 TAATAACTTCCATAACTTAATACACCACTTA-AAATAA-CTTACATAACTTACA
1 TAAT-ACAT-AATAACATAATACATAACTTATATATAAGCTTGCATAACTTACA
23449440 TA
1 TA
23449442 GCTTACATAA
Statistics
Matches: 167, Mismatches: 17, Indels: 36
0.76 0.08 0.16
Matches are distributed among these distances:
42 18 0.11
44 2 0.01
45 13 0.08
47 4 0.02
48 4 0.02
49 1 0.01
50 12 0.07
51 1 0.01
52 52 0.31
53 29 0.17
54 14 0.08
55 17 0.10
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.34
Consensus pattern (52 bp):
TAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACA
Found at i:23449284 original size:21 final size:20
Alignment explanation
Indices: 23449260--23449317 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
23449250 TAACATAATA
*
23449260 TATAACTTATATATAAGCTTG
1 TATAACTTATATATAA-CTTC
*
23449281 TATAACTTACATAATAACTTC
1 TATAACTTATAT-ATAACTTC
*
23449302 CATAACTTATATATAA
1 TATAACTTATATATAA
23449318 TCTGATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (20 bp):
TATAACTTATATATAACTTC
Found at i:23449339 original size:12 final size:14
Alignment explanation
Indices: 23449322--23449358 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
23449312 ATATAATCTG
23449322 ATAATACAT-T-AC
1 ATAATACATATAAC
23449334 ATAATACATAATAAC
1 ATAATACAT-ATAAC
23449349 ATAATACATA
1 ATAATACATA
23449359 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:23449352 original size:8 final size:7
Alignment explanation
Indices: 23449322--23449359 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
23449312 ATATAATCTG
23449322 ATAATAC
1 ATAATAC
23449329 AT--TAC
1 ATAATAC
23449334 ATAATAC
1 ATAATAC
23449341 ATAATAAC
1 ATAAT-AC
23449349 ATAATAC
1 ATAATAC
23449356 ATAA
1 ATAA
23449360 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:23449371 original size:27 final size:27
Alignment explanation
Indices: 23449302--23449372 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
23449292 TAATAACTTC
***
23449302 CATAACTTATA-TATAATCTGATAATA
1 CATAACTTATATTATAATAACATAATA
* * *
23449328 CATTACATA-ATACATAATAACATAATA
1 CATAACTTATAT-TATAATAACATAATA
23449355 CATAACTTATATTATAAT
1 CATAACTTATATTATAAT
23449373 CTTGCATAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTATATTATAATAACATAATA
Found at i:23449380 original size:22 final size:21
Alignment explanation
Indices: 23449355--23449406 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
23449345 TAACATAATA
* * *
23449355 CATAACTTATATTATAATCTTG
1 CATAACTTACATAATAA-CTTC
23449377 CATAACTTACATAATAACTTC
1 CATAACTTACATAATAACTTC
23449398 CATAACTTA
1 CATAACTTA
23449407 ATACACCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (21 bp):
CATAACTTACATAATAACTTC
Found at i:23449430 original size:96 final size:95
Alignment explanation
Indices: 23449230--23449433 Score: 297
Period size: 96 Copynumber: 2.1 Consensus size: 95
23449220 ATAAGCTTGC
* *
23449230 ATAACTTACATAATACATAATAACATAATATATAACTTATATATAAGCTTGTATAACTTACATAA
1 ATAACTTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAA
* *
23449295 TAACTTCCATAACTTATATATAATCTGATA
66 TAACTTCCATAACTTATATACAATCTGAAA
*
23449325 AT-ACATTACATAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACAT
1 ATAAC-TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGCATAACTTACAT
*
23449389 AATAACTTCCATAACTTA-ATACACCA-CTTAAA
64 AATAACTTCCATAACTTATATACA--ATCTGAAA
23449421 ATAACTTACATAA
1 ATAACTTACATAA
23449434 CTTACATAGC
Statistics
Matches: 98, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
94 2 0.02
95 41 0.42
96 52 0.53
97 3 0.03
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (95 bp):
ATAACTTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAA
TAACTTCCATAACTTATATACAATCTGAAA
Found at i:23449435 original size:9 final size:9
Alignment explanation
Indices: 23449421--23450465 Score: 694
Period size: 9 Copynumber: 118.4 Consensus size: 9
23449411 ACCACTTAAA
23449421 ATAACTTAC
1 ATAACTTAC
23449430 ATAACTTAC
1 ATAACTTAC
*
23449439 ATAGCTTAC
1 ATAACTTAC
*
23449448 ATAACTCGT-T
1 ATAACT--TAC
23449458 ATAA---AC
1 ATAACTTAC
*
23449464 ATAACTTGC
1 ATAACTTAC
23449473 ATAACTTAC
1 ATAACTTAC
*
23449482 ATAA-TAAC
1 ATAACTTAC
23449490 AT-A---AC
1 ATAACTTAC
23449495 ATAACTTAC
1 ATAACTTAC
23449504 ATAA--TAC
1 ATAACTTAC
*
23449511 AAAAAACTTAC
1 --ATAACTTAC
*
23449522 ATAACTTAA
1 ATAACTTAC
* *
23449531 ATATCTGAC
1 ATAACTTAC
*
23449540 ACAACTTAC
1 ATAACTTAC
23449549 ATAA--TAC
1 ATAACTTAC
*
23449556 ACAACTTAC
1 ATAACTTAC
*
23449565 ATAGCTTAC
1 ATAACTTAC
*
23449574 TTAA--TAC
1 ATAACTTAC
23449581 ATAACTTAC
1 ATAACTTAC
23449590 ATAACTT--
1 ATAACTTAC
*
23449597 ATACACGTAC
1 ATA-ACTTAC
23449607 ATAACTTAC
1 ATAACTTAC
*
23449616 ATAA--TAT
1 ATAACTTAC
*
23449623 ATAAACATATAT
1 AT-AAC-T-TAC
* *
23449635 AGAAACTCAC
1 A-TAACTTAC
* *
23449645 ATAAATTAA
1 ATAACTTAC
23449654 ATAACTTAC
1 ATAACTTAC
23449663 ATAACTTAC
1 ATAACTTAC
*
23449672 ATAAACTTGC
1 AT-AACTTAC
*
23449682 ATAAATTA-
1 ATAACTTAC
23449690 ATTAACTTAC
1 A-TAACTTAC
23449700 ATAACTTAC
1 ATAACTTAC
23449709 ATAA-TCTAC
1 ATAACT-TAC
*
23449718 ATAACTTAT
1 ATAACTTAC
23449727 AT-A--TA-
1 ATAACTTAC
*
23449732 ATAAC-AAC
1 ATAACTTAC
*
23449740 ATAAATTAC
1 ATAACTTAC
*
23449749 ATAATACTTTATGTT
1 AT-A-AC-TTA---C
23449764 ATAA--TAC
1 ATAACTTAC
*
23449771 ATAACTTGTAT
1 ATAAC-T-TAC
*
23449782 ATAAACTTGC
1 AT-AACTTAC
23449792 ATAACTTAC
1 ATAACTTAC
* *
23449801 ATAAATTAA
1 ATAACTTAC
23449810 ATAACTTAC
1 ATAACTTAC
23449819 ATAACTTAC
1 ATAACTTAC
23449828 AT-A--TA-
1 ATAACTTAC
*
23449833 ATAACATA-
1 ATAACTTAC
*
23449841 ATAAATTAC
1 ATAACTTAC
23449850 ATAA--TAC
1 ATAACTTAC
* *
23449857 TTTA-TATA-
1 ATAACT-TAC
*
23449865 ATAACATA-
1 ATAACTTAC
*
23449873 ATAACTTAA
1 ATAACTTAC
23449882 ATAACTTATAC
1 ATAAC-T-TAC
*
23449893 AATAACATA-
1 -ATAACTTAC
*
23449902 ATAACATA-
1 ATAACTTAC
23449910 ATAACTTAC
1 ATAACTTAC
*
23449919 ATAAATTA-
1 ATAACTTAC
23449927 AGTAACTTAC
1 A-TAACTTAC
*
23449937 ATAACCTAC
1 ATAACTTAC
* *
23449946 ATAAATTAA
1 ATAACTTAC
23449955 ATAACTTAC
1 ATAACTTAC
23449964 ATAACTTAC
1 ATAACTTAC
* *
23449973 ATAAATTAA
1 ATAACTTAC
23449982 ATAACTTAC
1 ATAACTTAC
23449991 ATAACTTAC
1 ATAACTTAC
*
23450000 ATAAATTA-
1 ATAACTTAC
23450008 AGTAACTTAC
1 A-TAACTTAC
23450018 ATAACTTAC
1 ATAACTTAC
23450027 ATAAACTTGA-
1 AT-AACTT-AC
* * *
23450037 GTAAATTAA
1 ATAACTTAC
23450046 ATAACTTAC
1 ATAACTTAC
23450055 ATAACTTAC
1 ATAACTTAC
*
23450064 ATAAATTA-
1 ATAACTTAC
23450072 AGTAACTTAC
1 A-TAACTTAC
*
23450082 ATAACCTAC
1 ATAACTTAC
* *
23450091 ATAAATTAA
1 ATAACTTAC
23450100 ATAACTTAC
1 ATAACTTAC
23450109 ATAACTTAC
1 ATAACTTAC
* *
23450118 ATAAATTAA
1 ATAACTTAC
23450127 ATAACTTAC
1 ATAACTTAC
23450136 AT-A---A-
1 ATAACTTAC
23450140 ATAACTTAC
1 ATAACTTAC
*
23450149 ATAAATTA-
1 ATAACTTAC
23450157 AGTAACTTAC
1 A-TAACTTAC
23450167 ATAACTTAC
1 ATAACTTAC
*
23450176 ATAAACTTGC
1 AT-AACTTAC
* *
23450186 ATAAATTAA
1 ATAACTTAC
23450195 ATAACTTAC
1 ATAACTTAC
23450204 ATAACTTAC
1 ATAACTTAC
*
23450213 ATAAATTA-
1 ATAACTTAC
23450221 AGTAACTTAC
1 A-TAACTTAC
*
23450231 ATAACCTAC
1 ATAACTTAC
* *
23450240 ATAAATTAA
1 ATAACTTAC
23450249 ATAACTTAC
1 ATAACTTAC
23450258 ATAACTTAC
1 ATAACTTAC
*
23450267 ATAAATTA-
1 ATAACTTAC
23450275 AGTAACTTAC
1 A-TAACTTAC
*
23450285 ATAACCTAC
1 ATAACTTAC
* *
23450294 ATAAATTAA
1 ATAACTTAC
23450303 ATAACTTAC
1 ATAACTTAC
23450312 ATAACTTAC
1 ATAACTTAC
* *
23450321 ATAAATTAA
1 ATAACTTAC
23450330 ATAACTTAC
1 ATAACTTAC
23450339 ATAACTTAC
1 ATAACTTAC
*
23450348 ATAAATTA-
1 ATAACTTAC
23450356 AGTAACTTAC
1 A-TAACTTAC
23450366 ATAACTTAC
1 ATAACTTAC
* *
23450375 ATAAATTTGC
1 AT-AACTTAC
* *
23450385 ATAAATTAA
1 ATAACTTAC
23450394 ATAACTTAC
1 ATAACTTAC
23450403 ATAACTTAC
1 ATAACTTAC
*
23450412 ATTACTTAC
1 ATAACTTAC
23450421 AGT-ACTTAC
1 A-TAACTTAC
23450430 ATAA--TAC
1 ATAACTTAC
23450437 ATAA--TAC
1 ATAACTTAC
23450444 ATAACTTAC
1 ATAACTTAC
23450453 ATAACTTAC
1 ATAACTTAC
23450462 ATAA
1 ATAA
23450466 TACATAAAAA
Statistics
Matches: 815, Mismatches: 134, Indels: 174
0.73 0.12 0.15
Matches are distributed among these distances:
4 2 0.00
5 10 0.01
6 11 0.01
7 47 0.06
8 63 0.08
9 589 0.72
10 57 0.07
11 14 0.02
12 18 0.02
13 1 0.00
14 1 0.00
15 2 0.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:23449520 original size:18 final size:22
Alignment explanation
Indices: 23449472--23449525 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
23449462 ACATAACTTG
23449472 CATAACTTACATAATAACATAA
1 CATAACTTACATAATAACATAA
23449494 CATAACTTACATAAT-ACA-AA
1 CATAACTTACATAATAACATAA
23449514 -A-AACTTACATAA
1 CATAACTTACATAA
23449526 CTTAAATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.34
19 1 0.03
20 2 0.06
21 3 0.09
22 15 0.47
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
CATAACTTACATAATAACATAA
Found at i:23449573 original size:92 final size:91
Alignment explanation
Indices: 23449418--23449585 Score: 205
Period size: 92 Copynumber: 1.8 Consensus size: 91
23449408 TACACCACTT
* * * * * *
23449418 AAAATAACTTACATAACTTACATAGCTTACATAACTCGTTATAAACATAACTTGCATAACTTACA
1 AAAATAACTTACATAACTTAAATAGCTGACACAACTC-TCATAAACACAACTTACATAACTTACA
23449483 TAATAACATAACATAACTTACATAATAC
65 TAAT-ACATAACATAACTTACATAATAC
* *
23449511 AAAA-AACTTACATAACTTAAATATCTGACACAACT-TACATAATACACAACTTACATAGCTTAC
1 AAAATAACTTACATAACTTAAATAGCTGACACAACTCT-CATAA-ACACAACTTACATAACTTAC
*
23449574 TTAATACATAAC
64 ATAATACATAAC
23449586 TTACATAACT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
90 1 0.02
91 11 0.17
92 48 0.75
93 4 0.06
ACGTcount: A:0.48, C:0.20, G:0.03, T:0.29
Consensus pattern (91 bp):
AAAATAACTTACATAACTTAAATAGCTGACACAACTCTCATAAACACAACTTACATAACTTACAT
AATACATAACATAACTTACATAATAC
Found at i:23449578 original size:25 final size:25
Alignment explanation
Indices: 23449542--23449713 Score: 87
Period size: 25 Copynumber: 6.5 Consensus size: 25
23449532 TATCTGACAC
23449542 AACTTACATAATACACAACTTACAT
1 AACTTACATAATACACAACTTACAT
* * *
23449567 AGCTTACTTAATACATAACTTACAT
1 AACTTACATAATACACAACTTACAT
* * * *
23449592 AACTTATACACGTACATAACTTACAT
1 AACTTACATA-ATACACAACTTACAT
* * *
23449618 AATATATAAACATATATAGA-AACTCACAT
1 AA-CT-T--ACATA-ATACACAACTTACAT
* * *
23449647 AAATTAAATAACTTACATAACTTACAT
1 AACTTACATAA--TACACAACTTACAT
* *
23449674 AAACTTGCATAAATTA-ATTAACTTACAT
1 -AACTTACAT-AA-TACA-CAACTTACAT
23449702 AACTTACATAAT
1 AACTTACATAAT
23449714 CTACATAACT
Statistics
Matches: 114, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
24 1 0.01
25 33 0.29
26 21 0.18
27 19 0.17
28 22 0.19
29 12 0.11
30 6 0.05
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACACAACTTACAT
Found at i:23449613 original size:67 final size:66
Alignment explanation
Indices: 23449472--23449621 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 66
23449462 ACATAACTTG
*
23449472 CATAACTTACATAATAACATAACATAACTTACATAATACAAAAAACTTACATAACTTAAATATCT
1 CATAACTTACATAATAACATAACATAACTTACATAATAC-AAAAACTTACATAACTTAAACATCT
23449537 GA
65 GA
* * * * * *
23449539 CACAACTTACATAATACACAACTTACATAGCTTACTTAATAC-ATAACTTACATAACTTATACA-
1 CATAACTTACATAATA-AC-A-TAACATAACTTACATAATACAAAAACTTACATAACTTAAACAT
23449602 C-GTA
63 CTG-A
23449606 CATAACTTACATAATA
1 CATAACTTACATAATA
23449622 TATAAACATA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
66 1 0.01
67 32 0.45
68 20 0.28
69 1 0.01
70 17 0.24
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (66 bp):
CATAACTTACATAATAACATAACATAACTTACATAATACAAAAACTTACATAACTTAAACATCTG
A
Found at i:23449849 original size:22 final size:23
Alignment explanation
Indices: 23449809--23449852 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
23449799 ACATAAATTA
* *
23449809 AATAACTTACATAACTTACATAT
1 AATAACATACATAAATTACATAT
23449832 AATAACATA-ATAAATTACATA
1 AATAACATACATAAATTACATA
23449853 ATACTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAACATACATAAATTACATAT
Found at i:23449875 original size:8 final size:8
Alignment explanation
Indices: 23449862--23449914 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
23449852 AATACTTTAT
23449862 ATAATAAC
1 ATAATAAC
23449870 ATAATAAC
1 ATAATAAC
*
23449878 TTAAATAAC
1 AT-AATAAC
23449887 TTATACAATAAC
1 --AT--AATAAC
23449899 ATAATAAC
1 ATAATAAC
23449907 ATAATAAC
1 ATAATAAC
23449915 TTACATAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 23 0.61
9 6 0.16
10 2 0.05
11 1 0.03
12 6 0.16
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (8 bp):
ATAATAAC
Found at i:23449884 original size:29 final size:30
Alignment explanation
Indices: 23449809--23449916 Score: 121
Period size: 32 Copynumber: 3.6 Consensus size: 30
23449799 ACATAAATTA
* *
23449809 AATAACTTACATAACTTACATATAATAACAT
1 AATAACTTAAATAACTT-TATATAATAACAT
* *
23449840 AATAAATTACATAATACTTTATATAATAACAT
1 AATAACTTAAAT-A-ACTTTATATAATAACAT
*
23449872 AATAACTTAAATAAC-TTATACAATAACAT
1 AATAACTTAAATAACTTTATATAATAACAT
*
23449901 AATAACAT-AATAACTT
1 AATAACTTAAATAACTT
23449917 ACATAAATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.09
29 21 0.31
30 2 0.03
31 12 0.18
32 23 0.34
33 4 0.06
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (30 bp):
AATAACTTAAATAACTTTATATAATAACAT
Found at i:23450439 original size:7 final size:7
Alignment explanation
Indices: 23450427--23450472 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
23450417 TTACAGTACT
23450427 TACATAA
1 TACATAA
23450434 TACATAA
1 TACATAA
23450441 TACATAA
1 TACATAA
23450448 CTTACATAA
1 --TACATAA
23450457 CTTACATAA
1 --TACATAA
23450466 TACATAA
1 TACATAA
23450473 AAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.57
9 16 0.43
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:23453964 original size:21 final size:21
Alignment explanation
Indices: 23453938--23454006 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
23453928 CAACAACTTA
23453938 AAGCAGAGGCGACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
*
23453959 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
23453980 AAGCAGAGGCCG-CAGCGAGAG
1 AAGCAGAGG-CGACAGCGAGAG
23454001 AAGCAG
1 AAGCAG
23454007 CGAGAGAAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.41, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:23454008 original size:12 final size:12
Alignment explanation
Indices: 23453971--23454019 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
23453961 GCAGAGGCTA
23453971 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
23453983 CA--GAG-GCCG
1 CAGCGAGAGAAG
23453992 CAGCGAGAGAAG
1 CAGCGAGAGAAG
23454004 CAGCGAGAGAAG
1 CAGCGAGAGAAG
23454016 CAGC
1 CAGC
23454020 AATAGAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 3 0.10
12 20 0.67
ACGTcount: A:0.37, C:0.22, G:0.41, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:23454558 original size:85 final size:84
Alignment explanation
Indices: 23454465--23454717 Score: 329
Period size: 85 Copynumber: 3.0 Consensus size: 84
23454455 CGTTTGTGAA
* *
23454465 ATAAGCGCCGGTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAACA
1 ATAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-AACTAAGCGCCGCTAAAGAACA
*
23454527 TTA-CTTTTAGCGGCGTTTTCTTC
63 TGATC-TTTAGCGGCGTTTT-TTC
**
23454550 -TAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATG
1 AT-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAAAGAACATG
23454614 ATCTTTAGCGGCGTTTTTTC
65 ATCTTTAGCGGCGTTTTTTC
**
23454634 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAA-CGCCGCTAAAGAACAT
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTAAC-TAAGCGCCGCTAAAGAACAT
23454698 GATCTTTAGCGGCGTTTTTT
64 GATCTTTAGCGGCGTTTTTT
23454718 TCTGTAAGCA
Statistics
Matches: 155, Mismatches: 5, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
84 42 0.27
85 107 0.69
86 6 0.04
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTAACTAAGCGCCGCTAAAGAACATGA
TCTTTAGCGGCGTTTTTTC
Found at i:23454652 original size:127 final size:127
Alignment explanation
Indices: 23454466--23454717 Score: 361
Period size: 127 Copynumber: 2.0 Consensus size: 127
23454456 GTTTGTGAAA
* * *
23454466 TAAGCGCCGGTAAAGAACACTACTGTTAGCGGCGTTTTTGAACAAGCGCCGCTATAGAACATTA-
1 TAAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGAACAAGCGCCGCTAAAGAACATGAT
23454530 CTTTTAGCGGCGTTT-TCTT-CTAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
66 C-TTTAGCGGCGTTTAT-TTCCTAAA-CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
** *
23454593 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATG
1 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGAACAAGCGCCGCTAAAGAACATG
*
23454656 ATCTTTAGCGGCGTTTATTTCCTTAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
64 ATCTTTAGCGGCGTTTATTTCCTAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
23454718 TCTGTAAGCA
Statistics
Matches: 113, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
126 1 0.01
127 104 0.92
128 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (127 bp):
TAAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGAACAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTATTTCCTAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:23454700 original size:43 final size:43
Alignment explanation
Indices: 23454466--23454736 Score: 326
Period size: 42 Copynumber: 6.3 Consensus size: 43
23454456 GTTTGTGAAA
* **
23454466 TAAGCGCCGGTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGAAC-
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCCT
* *
23454509 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTT-CT
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCT
*
23454551 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC-
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
*
23454593 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
23454635 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCT
*
23454679 TAA-CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
* *
23454721 GTAAGCACCGCAAAAG
1 -TAAGCGCCGCTAAAG
23454737 TTAGCGACGT
Statistics
Matches: 206, Mismatches: 10, Indels: 23
0.86 0.04 0.10
Matches are distributed among these distances:
41 3 0.01
42 114 0.55
43 75 0.36
44 14 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
Found at i:23458884 original size:11 final size:11
Alignment explanation
Indices: 23458868--23458898 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
23458858 TTTAAGGTGA
23458868 GTAATGTAATT
1 GTAATGTAATT
23458879 GTAATGTAATT
1 GTAATGTAATT
*
23458890 GAAATGTAA
1 GTAATGTAA
23458899 AATGTTACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (11 bp):
GTAATGTAATT
Found at i:23462262 original size:16 final size:16
Alignment explanation
Indices: 23462241--23462273 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23462231 AGTCCTTGTA
23462241 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
23462257 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
23462273 A
1 A
23462274 ACAAAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:23468923 original size:42 final size:43
Alignment explanation
Indices: 23468800--23468933 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
23468790 TATTACATGT
* * **
23468800 AATCTCGTATCGATGCCAATAGCCCAGCCATGGTCTTACACGA
1 AATCTCATATCGATGCCAATATCCCAAACATGGTCTTACACGA
* *
23468843 AATCACATATCGATGCCAATGTCCCAAACATGGTCTTACACGA
1 AATCTCATATCGATGCCAATATCCCAAACATGGTCTTACACGA
* * *
23468886 ATTCTCATATCGATGCC-ATATCCCAAATATGGTCTTACACGT
1 AATCTCATATCGATGCCAATATCCCAAACATGGTCTTACACGA
23468928 AATCTC
1 AATCTC
23468934 GGTAACCCTA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 27 0.34
43 52 0.66
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (43 bp):
AATCTCATATCGATGCCAATATCCCAAACATGGTCTTACACGA
Found at i:23470297 original size:20 final size:20
Alignment explanation
Indices: 23470272--23470311 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23470262 TTATGTAATT
23470272 TATAATACTATAATATTAAA
1 TATAATACTATAATATTAAA
23470292 TATAATACTATAATATTAAA
1 TATAATACTATAATATTAAA
23470312 GTACTTGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TATAATACTATAATATTAAA
Found at i:23475148 original size:22 final size:23
Alignment explanation
Indices: 23475112--23475157 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
23475102 ATAATACATG
*
23475112 AAAATAGAATTAATCA-TAATTTA
1 AAAATAGAATAAATCAGT-ATTTA
23475135 AAAATA-AATAAATCAGTATTTA
1 AAAATAGAATAAATCAGTATTTA
23475157 A
1 A
23475158 TTAAAACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATAGAATAAATCAGTATTTA
Found at i:23480694 original size:43 final size:43
Alignment explanation
Indices: 23480638--23480925 Score: 429
Period size: 43 Copynumber: 6.7 Consensus size: 43
23480628 AGAAATAAAT
* **
23480638 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
* *
23480681 ACCGCTATAGATCAGGACCTTTAGCGGCGCTT-TTCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
23480723 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
23480766 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
23480809 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
* * * **
23480852 GCCGCTATAGCTCAAGACC-TTAGCGGCGCTTTTTTCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
* * *
23480894 GCCGCTATAGCTCAATG-CCTTTAGCGACGCTT
1 GCCGCTATAGATC-AGGACCTTTAGCGGCGCTT
23480926 TGGTTACAAA
Statistics
Matches: 229, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
42 74 0.32
43 155 0.68
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
Found at i:23480935 original size:128 final size:128
Alignment explanation
Indices: 23480638--23480943 Score: 438
Period size: 128 Copynumber: 2.4 Consensus size: 128
23480628 AGAAATAAAT
*
23480638 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACACCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACGCCGCTATAGATCAGGACCTTT
* *
23480703 AGCGGCGCTTTTCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAAC
66 AGCGGCGCTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
* **
23480766 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACGCCGCTATAGATCAGGACCTTT
* * **
23480831 AGCGGCGCTTCTCCCACAAACGCCGCTATAGCTCAAGACC-TTAGCGGCGCTTTTTTCACAAAC
66 AGCGGCGCTT-TCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
* * * *
23480894 GCCGCTATAGCTCAATG-CCTTTAGCGACGCTT-TGGTTACAAACGCCGCTA
1 GCCGCTATAGATC-ATGACCTTTAGCGGCGCTTCT-ATCACAAACGCCGCTA
23480944 AAAGTACCAT
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
127 1 0.01
128 130 0.82
129 28 0.18
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (128 bp):
GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACGCCGCTATAGATCAGGACCTTT
AGCGGCGCTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
Found at i:23480943 original size:85 final size:86
Alignment explanation
Indices: 23480638--23480925 Score: 438
Period size: 85 Copynumber: 3.4 Consensus size: 86
23480628 AGAAATAAAT
* ** *
23480638 GCCGCTATAGATCATGACCTTTAGCGGCGCTTCTATCACAAACACCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
23480703 AGCGGCGC-TTTTCCACAAAC
66 AGCGGCGCTTTTTCCACAAAC
23480723 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
* *
23480788 AGCGGCGCTTCTCCCACAAAC
66 AGCGGCGCTTTTTCCACAAAC
* *
23480809 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGCTCAAGACC-TT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
*
23480873 AGCGGCGCTTTTTTCACAAAC
66 AGCGGCGCTTTTTCCACAAAC
* * *
23480894 GCCGCTATAGCTCAATG-CCTTTAGCGACGCTT
1 GCCGCTATAGATC-AGGACCTTTAGCGGCGCTT
23480926 TGGTTACAAA
Statistics
Matches: 187, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
85 115 0.61
86 72 0.39
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (86 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTT
AGCGGCGCTTTTTCCACAAAC
Found at i:23487141 original size:15 final size:15
Alignment explanation
Indices: 23487117--23487153 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
23487107 AACACTCACA
*
23487117 AAAATTCCAAGAATG
1 AAAATCCCAAGAATG
23487132 AAAATCCCAAGAATG
1 AAAATCCCAAGAATG
23487147 AAAATCC
1 AAAATCC
23487154 AAGTTCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.19, G:0.11, T:0.16
Consensus pattern (15 bp):
AAAATCCCAAGAATG
Found at i:23488243 original size:14 final size:15
Alignment explanation
Indices: 23488226--23488258 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23488216 ACACTTAAAA
23488226 CATAATCCCT-AATC
1 CATAATCCCTAAATC
*
23488240 CATAATTCCTAAATC
1 CATAATCCCTAAATC
23488255 CATA
1 CATA
23488259 TATAATCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
CATAATCCCTAAATC
Found at i:23489157 original size:41 final size:41
Alignment explanation
Indices: 23488904--23489166 Score: 343
Period size: 41 Copynumber: 6.4 Consensus size: 41
23488894 TGGCGATATC
* * *
23488904 CCAAAAACGCCGCTAAAGACC-GAGCAATAGTGGCGCTTCT
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
*
23488944 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTC
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
23488985 CCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
23489026 CCAAAAACGCCGCTAAAAACCAGAGCATTAGTGGCG-TTTT
1 CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
23489066 CGCAAAAGCGTCGCTAAAGACCAGAGCATTAGCGGCGC-TTT
1 C-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
* *
23489107 CGTAAAAACGCCGCTAAAGACCAGAGCTTTAGCGGCGCTTTT
1 C-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
** * *
23489149 TGAGAAACGCCACTAAAG
1 CCAAAAACGCCGCTAAAG
23489167 CCCCAAAAAC
Statistics
Matches: 196, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
40 26 0.13
41 167 0.85
42 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (41 bp):
CCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTT
Found at i:23489165 original size:123 final size:122
Alignment explanation
Indices: 23488904--23489148 Score: 384
Period size: 123 Copynumber: 2.0 Consensus size: 122
23488894 TGGCGATATC
*
23488904 CCAAAAACGCCGCTAAAGACCGAGCAATAGTGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAG
1 CCAAAAACGCCGCTAAAAACCGAGCAATAGTGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAG
23488969 CATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
66 CATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
* * * *
23489026 CCAAAAACGCCGCTAAAAACCAGAGCATTAGTGGCG-TTTTCGCAAAAGCGTCGCTAAAGACCAG
1 CCAAAAACGCCGCTAAAAACC-GAGCAATAGTGGCGCTTCTC-CAAAAACGCCGCTAAAGACCAG
** * *
23489090 AGCATTAGCGGCGCTTTCGTAAAAACGCCGCTAAAGACCAGAGCTTTAGCGGCGCTTTT
64 AGCATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
23489149 TGAGAAACGC
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
122 24 0.21
123 88 0.79
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (122 bp):
CCAAAAACGCCGCTAAAAACCGAGCAATAGTGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAG
CATTAGCGGCGCTTTCCCAAAAACGCCACTAAAGACCAGAGCGTTAGCGGCGCTTTT
Found at i:23489740 original size:15 final size:14
Alignment explanation
Indices: 23489720--23489750 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
23489710 TTCGAAATTT
23489720 ATTTGCTTAAAACTA
1 ATTTGCTTAAAA-TA
23489735 ATTTGCTTAAAATA
1 ATTTGCTTAAAATA
23489749 AT
1 AT
23489751 ACTTAGGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (14 bp):
ATTTGCTTAAAATA
Found at i:23490679 original size:20 final size:20
Alignment explanation
Indices: 23490654--23490693 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23490644 TTACTTATAA
*
23490654 TATTTATTATTTTATAAAAT
1 TATTTATTATCTTATAAAAT
*
23490674 TATTTATTATCTTGTAAAAT
1 TATTTATTATCTTATAAAAT
23490694 AATATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTATTATCTTATAAAAT
Found at i:23491405 original size:52 final size:52
Alignment explanation
Indices: 23491302--23491405 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
23491292 GTAATATTTT
* * * * * *
23491302 TGTAACACCCCTAATCCACATTCATCGCTAGAATAGGGTTTTGGAGTATTAC
1 TGTAACACCCCTAACCCACATCCATCGCCAGAATAGGGTTATAGAGCATTAC
** *
23491354 TGTAACACCCCTAACCCGTATCCATCGCCATAATAGGGTTATAGAGCATTAC
1 TGTAACACCCCTAACCCACATCCATCGCCAGAATAGGGTTATAGAGCATTAC
23491406 CAGAGTTTAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTAACACCCCTAACCCACATCCATCGCCAGAATAGGGTTATAGAGCATTAC
Found at i:23493482 original size:14 final size:13
Alignment explanation
Indices: 23493463--23493492 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
23493453 ATATATATAC
23493463 TAAAATAATAATAA
1 TAAAATAATAA-AA
23493477 TAAAATAATAAAA
1 TAAAATAATAAAA
23493490 TAA
1 TAA
23493493 TATTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:23493485 original size:8 final size:8
Alignment explanation
Indices: 23493463--23493494 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
23493453 ATATATATAC
23493463 TAAAATAA
1 TAAAATAA
23493471 T--AATAA
1 TAAAATAA
23493477 TAAAATAA
1 TAAAATAA
23493485 TAAAATAA
1 TAAAATAA
23493493 TA
1 TA
23493495 TTTAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
TAAAATAA
Found at i:23494363 original size:27 final size:26
Alignment explanation
Indices: 23494333--23494383 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
23494323 ATGAAATTCT
*
23494333 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
23494360 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
23494384 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:23497543 original size:40 final size:40
Alignment explanation
Indices: 23497494--23497633 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 40
23497484 AACACACCAG
* **
23497494 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAAAAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAAAAA
* * *
23497534 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT--AAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAAAAA
* *
23497572 TTAG-CACCCAGTGCCTCATCGAATATATCCGAAGTAATAAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAA-AAA
*
23497613 -TTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
23497634 ACTCGAAGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 18 0.22
38 14 0.17
40 31 0.38
41 19 0.23
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAAAAA
Found at i:23499685 original size:16 final size:17
Alignment explanation
Indices: 23499648--23499689 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
23499638 AGTTCCATCC
23499648 AATTTTTAATTCGATTAT
1 AATTTTT-ATTCGATTAT
23499666 -ATTTTTATT-GATTAT
1 AATTTTTATTCGATTAT
23499681 AATTTTTAT
1 AATTTTTAT
23499690 AAGTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (17 bp):
AATTTTTATTCGATTAT
Found at i:23500213 original size:5 final size:5
Alignment explanation
Indices: 23500203--23500233 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
23500193 ATAATACATA
23500203 AATAT AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT A
23500234 TTAAATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:23503340 original size:87 final size:87
Alignment explanation
Indices: 23503194--23503367 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
23503184 AATGATATCT
*
23503194 TTGCTTACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
1 TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
*
23503259 TTTATGGACATCAAGTTTTTGG
66 TTCATGGACATCAAGTTTTTGG
23503281 TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
1 TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
23503346 TTCATGGACATCAAGTTTTTGG
66 TTCATGGACATCAAGTTTTTGG
23503368 CGTTGTTGTT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (87 bp):
TTGCTCACCATATCTATACTATCAATTGATAGGTGCACTTGTCTTAGTCAAAATTTTTAGTTAGT
TTCATGGACATCAAGTTTTTGG
Found at i:23504905 original size:32 final size:33
Alignment explanation
Indices: 23504868--23504934 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
23504858 CTTTAGGGAT
* *
23504868 TTAAGTTTTTGTTACATG-ATTTTAGGAATAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
* * *
23504900 TTAAGTGTTTGTGGCATGTTTTTTAGGAGTAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
23504933 TT
1 TT
23504935 TTGCAGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (33 bp):
TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
Found at i:23505121 original size:411 final size:410
Alignment explanation
Indices: 23504360--23505184 Score: 1463
Period size: 411 Copynumber: 2.0 Consensus size: 410
23504350 TATGATAACA
* * *
23504360 AAGCCTATTAAGACAGCCAGTGTTTTTAGTATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
1 AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
* * *
23504425 AATAATATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTATATGATTTTATGAATAAG
66 AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
23504490 TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTCTATA
131 TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTCTATA
* *
23504555 TAATATGAACAATACAACAAATTATAGTGTTTTTTCAATATATCTTTCTTTAATATTTTTTGTGT
196 TAATATGAACAATACAACAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGTGT
*
23504620 TTTCTATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
261 TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
*
23504685 GAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTGTTCCACCAAT
326 GAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTATTCCACCAAT
23504750 TTTTGATGGTGGTAACTATC
391 TTTTGATGGTGGTAACTATC
23504770 AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
1 AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
23504835 AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
66 AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
23504900 TTAAGTGTTTGTGGCATG-TTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTCTTCCTA
131 TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTT-TT-CTA
* *
23504964 TATAATATGAACAATTCAGCAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGT
194 TATAATATGAACAATACAACAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGT
23505029 GTTTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAG
259 GTTTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAG
* ** * *
23505094 TTGAGAGAAACACATAAGCTTTAGACATGGAAGTTGACACAATGTTTTCTCATATTATTCCACTA
324 TTGAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTATTCCACCA
*
23505159 ATTTTTGATGGTGGTAACTGTC
389 ATTTTTGATGGTGGTAACTATC
23505181 AAGC
1 AAGC
23505185 TTGGGTTGTT
Statistics
Matches: 395, Mismatches: 18, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
409 39 0.10
410 144 0.36
411 212 0.54
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (410 bp):
AAGCCTATTAAGACAACCAATGTTTTTAATATAGATGTTGTTGAGGATGTGCCTTAGACTTGCTT
AATAATATGTCTATAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAG
TTAAGTGTTTGTGGCATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTCTATA
TAATATGAACAATACAACAAATTATAGTGTTCTTTCAATATATATTTCTTTAATATTTTTTGTGT
TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
GAGAGAAACACATAAGCTTTAGACATGAAAGTTGACACAACATTTTCTAATATTATTCCACCAAT
TTTTGATGGTGGTAACTATC
Found at i:23506353 original size:23 final size:23
Alignment explanation
Indices: 23506327--23506377 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
23506317 ACTCAAAAGG
23506327 TAGAAATGTATTCAAAGTAAAAA
1 TAGAAATGTATTCAAAGTAAAAA
23506350 TAGAAATGTATTCAAAGTAAAAA
1 TAGAAATGTATTCAAAGTAAAAA
23506373 T-GAAA
1 TAGAAA
23506378 GCGAAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.57, C:0.04, G:0.14, T:0.25
Consensus pattern (23 bp):
TAGAAATGTATTCAAAGTAAAAA
Found at i:23509092 original size:9 final size:9
Alignment explanation
Indices: 23509056--23509093 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
23509046 CTTAATTTTT
23509056 TTAAAAAAA
1 TTAAAAAAA
*
23509065 TTTAAAAAA
1 TTAAAAAAA
23509074 -T-AAAAAA
1 TTAAAAAAA
23509081 TTAAAAAAA
1 TTAAAAAAA
23509090 TTAA
1 TTAA
23509094 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
7 6 0.23
8 2 0.08
9 18 0.69
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:23509095 original size:13 final size:13
Alignment explanation
Indices: 23509079--23509103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23509069 AAAAATAAAA
23509079 AATTAAAAAAATT
1 AATTAAAAAAATT
23509092 AATTAAAAAAAT
1 AATTAAAAAAAT
23509104 AAAAAATGGT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAAAAAATT
Found at i:23510498 original size:18 final size:17
Alignment explanation
Indices: 23510475--23510520 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
23510465 CTTTGTTCTC
*
23510475 AAAAAACAAAAAGATATA
1 AAAAAACAAAAAAAT-TA
* *
23510493 AAAAAAGAAAAAAATTG
1 AAAAAACAAAAAAATTA
23510510 AAAAAACAAAA
1 AAAAAACAAAA
23510521 TGAAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAAACAAAAAAATTA
Found at i:23513350 original size:32 final size:32
Alignment explanation
Indices: 23513314--23513387 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
23513304 AAAATTTCAT
*
23513314 CATATCTTATAATAAAGACAAATATTCAGATC
1 CATATCTTACAATAAAGACAAATATTCAGATC
23513346 CATATCTTACAATAAAGACAAATATTCAGATC
1 CATATCTTACAATAAAGACAAATATTCAGATC
23513378 CATATCTTAC
1 CATATCTTAC
23513388 CAGACATTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (32 bp):
CATATCTTACAATAAAGACAAATATTCAGATC
Done.